Gene_locus Report for: drogr-b4jf76 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH18315
Comment
only central part Pfam A COesterase 175 710 Relationship
(Below N is a link to NCBI taxonomic web page and E link to ESTHER at designed phylum.) cellular organisms: N E > Eukaryota: N E > Opisthokonta: N E > Metazoa: N E > Eumetazoa: N E > Bilateria: N E > Protostomia: N E > Ecdysozoa: N E > Panarthropoda: N E > Arthropoda: N E > Mandibulata: N E > Pancrustacea: N E > Hexapoda: N E > Insecta: N E > Dicondylia: N E > Pterygota: N E > Neoptera: N E > Holometabola: N E > Diptera: N E > Brachycera: N E > Muscomorpha: N E > Eremoneura: N E > Cyclorrhapha: N E > Schizophora: N E > Acalyptratae: N E > Ephydroidea: N E > Drosophilidae: N E > Drosophilinae: N E > Drosophilini: N E > Drosophila [fruit fly, genus]: N E > Hawaiian Drosophila: N E > picture wing clade: N E > grimshawi clade: N E > grimshawi group: N E > grimshawi subgroup: N E > Drosophila grimshawi: N E A85-EsteraseD-FGH :
drogr-b4jti1 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH23926 .
ABHD12-PHARC :
drogr-b4jvm7 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi). GH22637 .
ABHD18 :
drogr-b4iwy3 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH14725 .
abh_upf0017 :
drogr-b4j3v3 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH20397 ,
drogr-b4jdh6 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH11186 .
ACHE :
drogr-ACHE Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH19184 .
Acidic_Lipase :
drogr-b4iyz5 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) Lipase ,
drogr-b4j605 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) Lipase ,
drogr-b4jdg6 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) Lipase ,
drogr-b4jdg7 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) Lipase ,
drogr-b4je66 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) Lipase ,
drogr-b4je79 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH10420 ,
drogr-b4je82 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) Lipase ,
drogr-b4je88 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) Lipase ,
drogr-b4je89 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) Lipase ,
drogr-b4je90 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH10412 ,
drogr-b4je91 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH10411 ,
drogr-b4jgh0 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) Lipase ,
drogr-b4jgh1 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) Lipase ,
drogr-b4jgr9 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) Lipase ,
drogr-b4ji67 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) Lipase ,
drogr-b4jzh2 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) Lipase ,
drogr-b4k0u2 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) Lipase ,
drogr-b4k234 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH23215 ,
drogr-b4k235 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) Lipase .
Carboxypeptidase_S10 :
drogr-b4j2s2 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH16039 .
Carb_B_Arthropoda :
drogr-b4iww3 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH14737 ,
drogr-b4j4g7 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH21558 ,
drogr-b4j9c9 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH20471 ,
drogr-b4jcf1 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH10674 ,
drogr-b4jf79 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH18314 ,
drogr-b4jf80 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH19265 ,
drogr-b4jf81 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH19266 ,
drogr-b4jf82 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH19267 ,
drogr-b4jf83 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH18313 ,
drogr-b4jf84 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH19268 ,
drogr-b4jf85 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH19269 ,
drogr-b4jf87 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH19271 ,
drogr-b4jf91 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH19275 ,
drogr-b4jf92 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH19276 ,
drogr-b4jg66 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH18170 ,
drogr-b4jnh9 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH24822 ,
drogr-b4jrh5 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH20757 ,
drogr-b4jul5 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH15533 .
CGI-58_ABHD5_ABHD4 :
drogr-b4j4x9 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH20321 .
DPP4N_Peptidase_S9 :
drogr-b4j3u1 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH14757 ,
drogr-b4jay5 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH10923 ,
drogr-b4jls2 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH24508 ,
drogr-b4jpq3 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH13562 ,
drogr-b4jpx9 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH13603 ,
drogr-b4jur4 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH15202 .
Gliotactin :
drogr-b4jpc6 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH13495 .
Glutactin :
drogr-b4jdz1 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH11275 ,
drogr-b4jdz2 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH11276 ,
drogr-b4jdz4 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH10463 .
Juvenile_hormone_esterase :
drogr-b4j9y4 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH22069 .
Kynurenine-formamidase :
drogr-b4jq77 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH13248 .
LIDHydrolase :
drogr-b4ixh4 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH16231 .
Neuroligin :
drogr-b4jql2 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH13719 ,
drogr-b4jth3 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH23353 .
Neurotactin :
drogr-b4ixf7 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH16222 .
NLS3-Tex30 :
drogr-b4jvh3 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH23124 .
OtherNon-catalytic_C :
drogr-b4j6e6 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH21718 ,
drogr-b4j685 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH20788 ,
drogr-b4ja76 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH11406 ,
drogr-b4jcf0 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH11055 .
Pectinacetylesterase-Notum :
drogr-b4j2u8 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH16057 .
PPase_methylesterase_euk :
drogr-b4j156 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) Protein phosphatase methylesterase 1 .
Prolylcarboxypeptidase :
drogr-b4j384 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH15372 ,
drogr-b4jz00 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH22390 ,
drogr-b4jz03 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH22293 ,
drogr-b4jz04 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH22292 ,
drogr-b4jz05 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) Pro-X carboxypeptidase ,
drogr-b4k2r1 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH13951 .
SERHL :
drogr-b4iwp3 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH16159 ,
drogr-b4jdu1 Drosophila grimshawi (Hawaiian fruit fly) (Idiomyia grimshawi). GH11247 .
Valacyclovir-hydrolase :
drogr-b4jsb2 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi) GH18465 Molecular evidence
Database
No mutation No structure No kinetic No Substrate No inhibitor
Sequence
Graphical view for this peptide sequence: drogr-b4jf76 Colored MSA for Neuroligin (raw)
PERRHVVPDKLQYTKELQIKQGRLMGITRRFQVTSGLRDVDQYLGLPYAE
APIGSRRFMPPGAPLPWQGLKIARHLPPVCPQKLPDMSGQNSKSISRARY
KHLLRLMPYLKTESEDCLYLNLYVPHEEPLTTSKPHAVLVYLHGESFEWN
SGNAYDGSVLASYGEVIVVTVNYRLGVLGFMRPGINAHNIANYALLDQIA
ALHWIKENIGSFGGDNTRVTLMGHSTGAACVNYLMVSPVASGLFHRAILM
SGSAMSDWAASNQSLQLTMQIAQALGCPLSDHKDEDALLDCLRQHRYQDI
LHIPTSLQPFSTSLGPIVDGHVIPNQPYKVMGHYTEHFSRYDLLFGITES
ESYHTLAALALEEGLRENERDNLLHFYMQSRFDVRPDLALAATLKKYQDM
YNNPIKATNLEHCDVVLDILSDASVVGPLLQTGMFHADVNRRNYMYVFGH
NSAMGPYANLPHSIMGEELPFVFGAPLAPVGPYPSHNYSVQEKLLSEAVM
AYWTNFVKTGNPKAPWKGTFLNSHLLEWDRYDLDWPEFNKRAQAYLNIGI
PPTVGYKYRQIYMNFWNKELPDELNQIAAIQQKGQQQQQQQQQQFPGNGV
ITGHMSKYGARDKGAEDPVRTLKLLLQKPLPSKGSEQAETAAENMYNAPP
TFGHVHRQQQQQQPAVEGVAISGEDPTQTSQHVSDYGEYGATVAPTEPIA
KSETTLQFLIALIAIFIVLNVVIYATFLFRQRRKQNTSL
Legend
This sequence has been compared to family alignement (MSA) red => minority aminoacid blue => majority aminoacid color intensity => conservation rate title => sequence position(MSA position)aminoacid rate Catalytic site Catalytic site in the MSA
P E R R H V V P D K L Q Y T K E L Q I K Q G R L M G I T R R F Q V T S G L R D V D Q Y L G L P Y A E A P I G S R R F M P P G A P L P W Q G L K I A R H L P P V C P Q K L P D M S G Q N S K S I S R A R Y K H L L R L M P Y L K T E S E D C L Y L N L Y V P H E E P L T T S K P H A V L V Y L H G E S F E W N S G N A Y D G S V L A S Y G E V I V V T V N Y R L G V L G F M R P G I N A H N I A N Y A L L D Q I A A L H W I K E N I G S F G G D N T R V T L M G H S T G A A C V N Y L M V S P V A S G L F H R A I L M S G S A M S D W A A S N Q S L Q L T M Q I A Q A L G C P L S D H K D E D A L L D C L R Q H R Y Q D I L H I P T S L Q P F S T S L G P I V D G H V I P N Q P Y K V M G H Y T E H F S R Y D L L F G I T E S E S Y H T L A A L A L E E G L R E N E R D N L L H F Y M Q S R F D V R P D L A L A A T L K K Y Q D M Y N N P I K A T N L E H C D V V L D I L S D A S V V G P L L Q T G M F H A D V N R R N Y M Y V F G H N S A M G P Y A N L P H S I M G E E L P F V F G A P L A P V G P Y P S H N Y S V Q E K L L S E A V M A Y W T N F V K T G N P K A P W K G T F L N S H L L E W D R Y D L D W P E F N K R A Q A Y L N I G I P P T V G Y K Y R Q I Y M N F W N K E L P D E L N Q I A A I Q Q K G Q Q Q Q Q Q Q Q Q Q F P G N G V I T G H M S K Y G A R D K G A E D P V R T L K L L L Q K P L P S K G S E Q A E T A A E N M Y N A P P T F G H V H R Q Q Q Q Q Q P A V E G V A I S G E D P T Q T S Q H V S D Y G E Y G A T V A P T E P I A K S E T T L Q F L I A L I A I F I V L N V V I Y A T F L F R Q R R K Q N T S L
References
Title: Assembly reconciliationZimin AV , Smith DR , Sutton G , Yorke JA Ref: Bioinformatics, 24 :42, 2008 : PubMed Abstract ESTHER: Zimin_2008_Bioinformatics_24_42 PubMedSearch: Zimin 2008 Bioinformatics 24 42 PubMedID: 18057021 Gene_locus related to this paper: droan-ACHE ,
droan-b3lxv7 ,
droan-b3ly87 ,
droan-b3lyh4 ,
droan-b3lyh5 ,
droan-b3lyh7 ,
droan-b3lyh9 ,
droan-b3lyi0 ,
droan-b3lyi2 ,
droan-b3lyi3 ,
droan-b3lyi4 ,
droan-b3lyx4 ,
droan-b3lyx5 ,
droan-b3lyx6 ,
droan-b3lyx7 ,
droan-b3lyx9 ,
droan-b3lz72 ,
droan-b3m4e3 ,
droan-b3m5w1 ,
droan-b3m6i7 ,
droan-b3m7v2 ,
droan-b3m9p3 ,
droan-b3m524 ,
droan-b3m635 ,
droan-b3mdh7 ,
droan-b3mdw8 ,
droan-b3mee1 ,
droan-b3mf47 ,
droan-b3mf48 ,
droan-b3mg94 ,
droan-b3mgn6 ,
droan-b3mii3 ,
droan-b3mkr0 ,
droan-b3ml20 ,
droan-b3mly4 ,
droan-b3mly5 ,
droan-b3mly6 ,
droan-b3mnb5 ,
droan-b3muw4 ,
droan-b3muw8 ,
droan-b3n2j7 ,
droan-c5idb2 ,
droer-ACHE ,
droer-b3n5y4 ,
droer-b3n7d2 ,
droer-b3n7d3 ,
droer-b3n7d4 ,
droer-b3n7k8 ,
droer-b3n8e4 ,
droer-b3n8f7 ,
droer-b3n8f8 ,
droer-b3n9e1 ,
droer-b3n612 ,
droer-b3nar5 ,
droer-b3nb91 ,
droer-b3nct9 ,
droer-b3ndh9 ,
droer-b3ndq8 ,
droer-b3ne97 ,
droer-b3nfq9 ,
droer-b3nmh4 ,
droer-b3nmy2 ,
droer-b3npx2 ,
droer-b3npx3 ,
droer-b3nq76 ,
droer-b3nr28 ,
droer-b3nst4 ,
droer-b3nyp5.1 ,
droer-b3nyp5.2 ,
droer-b3nyp6 ,
droer-b3nyp7 ,
droer-b3nyp8 ,
droer-b3nyp9 ,
droer-b3nyq3 ,
droer-b3nz06 ,
droer-b3nz14 ,
droer-b3nzj0 ,
droer-b3p2x6 ,
droer-b3p2x7 ,
droer-b3p2x9 ,
droer-b3p2y1 ,
droer-b3p2y2 ,
droer-b3p7b4 ,
droer-EST6 ,
droer-q670j5 ,
drogr-ACHE ,
drogr-b4iww3 ,
drogr-b4iwy3 ,
drogr-b4ixf7 ,
drogr-b4ixh4 ,
drogr-b4j2u8 ,
drogr-b4j3v3 ,
drogr-b4j4g7 ,
drogr-b4j4x9 ,
drogr-b4j6e6 ,
drogr-b4j9c9 ,
drogr-b4j9y4 ,
drogr-b4j156 ,
drogr-b4j685 ,
drogr-b4ja76 ,
drogr-b4jcf0 ,
drogr-b4jcf1 ,
drogr-b4jdh6 ,
drogr-b4jdz1 ,
drogr-b4jdz2 ,
drogr-b4jdz4 ,
drogr-b4jf76 ,
drogr-b4jf79 ,
drogr-b4jf80 ,
drogr-b4jf81 ,
drogr-b4jf82 ,
drogr-b4jf83 ,
drogr-b4jf84 ,
drogr-b4jf85 ,
drogr-b4jf87 ,
drogr-b4jf91 ,
drogr-b4jf92 ,
drogr-b4jg66 ,
drogr-b4jnh9 ,
drogr-b4jpc6 ,
drogr-b4jql2 ,
drogr-b4jrh5 ,
drogr-b4jth3 ,
drogr-b4jti1 ,
drogr-b4jul5 ,
dromo-ACHE ,
dromo-b4k6q8 ,
dromo-b4k6q9 ,
dromo-b4k6r1 ,
dromo-b4k6r3 ,
dromo-b4k6r4 ,
dromo-b4k6r5 ,
dromo-b4k6r6 ,
dromo-b4k6r7 ,
dromo-b4k6r8 ,
dromo-b4k6r9 ,
dromo-b4k6s0 ,
dromo-b4k6s1 ,
dromo-b4k6s2 ,
dromo-b4k9c7 ,
dromo-b4k9d3 ,
dromo-b4ka74 ,
dromo-b4kaj4 ,
dromo-b4kdg2 ,
dromo-b4kdh4 ,
dromo-b4kdh5 ,
dromo-b4kdh6 ,
dromo-A0A0Q9XDF2 ,
dromo-b4kdh8.1 ,
dromo-b4kdh8.2 ,
dromo-b4kg04 ,
dromo-b4kg05 ,
dromo-b4kg06 ,
dromo-b4kg16 ,
dromo-b4kh20 ,
dromo-b4kh21 ,
dromo-b4kik0 ,
dromo-b4kjx0 ,
dromo-b4kki1 ,
dromo-b4klv8 ,
dromo-b4kp08 ,
dromo-b4kqa6 ,
dromo-b4kqa7 ,
dromo-b4kqa8 ,
dromo-b4kqh1 ,
dromo-b4kst4 ,
dromo-b4ksy6 ,
dromo-b4ktf5 ,
dromo-b4ktf6 ,
dromo-b4kvw2 ,
dromo-b4kxz6 ,
dromo-b4ky12 ,
dromo-b4ky36 ,
dromo-b4l0n8 ,
dromo-b4l6l9 ,
dromo-b4l084 ,
drovi-ACHE ,
drovi-b4lev2 ,
drovi-b4lg54 ,
drovi-b4lg72 ,
drovi-b4lgd5 ,
drovi-b4lgg0 ,
drovi-b4lgn2 ,
drovi-b4lk43 ,
drovi-b4ll59 ,
drovi-b4ll60 ,
drovi-b4lln3 ,
drovi-b4lmk4 ,
drovi-b4lmp0 ,
drovi-b4lpd0 ,
drovi-b4lps0 ,
drovi-b4lrp6 ,
drovi-b4lse7 ,
drovi-b4lse9 ,
drovi-b4lsf0 ,
drovi-b4lsn0 ,
drovi-b4lt32 ,
drovi-b4lxi9 ,
drovi-b4lxj8 ,
drovi-b4lyf3 ,
drovi-b4m0s0 ,
drovi-b4m4h7 ,
drovi-b4m4h8 ,
drovi-b4m4i0 ,
drovi-b4m4i2 ,
drovi-b4m4i3.A ,
drovi-b4m4i3.B ,
drovi-b4m4i4 ,
drovi-b4m4i5 ,
drovi-b4m4i6 ,
drovi-b4m4i7 ,
drovi-b4m4i8 ,
drovi-b4m4i9 ,
drovi-b4m4j2 ,
drovi-b4m5a0 ,
drovi-b4m5a1 ,
drovi-b4m5a2 ,
drovi-b4m7k9 ,
drovi-b4m9g9 ,
drovi-b4m9h0 ,
drovi-b4m599 ,
drovi-b4m918 ,
drovi-b4mfa4 ,
drovi-estes ,
drowi-ACHE ,
drowi-b4mjb9 ,
drowi-b4mqe9 ,
drowi-b4mqf0.2 ,
drowi-b4mqf1 ,
drowi-b4mqf3 ,
drowi-b4mqf4 ,
drowi-b4mqf5 ,
drowi-b4mqq6 ,
drowi-b4mrk3 ,
drowi-b4mtl5 ,
drowi-b4mug2 ,
drowi-b4mw32 ,
drowi-b4mw85 ,
drowi-b4mwz7 ,
drowi-b4mxn5 ,
drowi-b4my54 ,
drowi-b4myh5 ,
drowi-b4n1a7 ,
drowi-b4n3s9 ,
drowi-b4n3x7 ,
drowi-b4n6n0 ,
drowi-b4n6n7 ,
drowi-b4n6u6 ,
drowi-b4n7s6 ,
drowi-b4n7s7 ,
drowi-b4n7s8 ,
drowi-b4n899.1 ,
drowi-b4n8a1 ,
drowi-b4n8a2 ,
drowi-b4n8a3 ,
drowi-b4n8a4 ,
drowi-b4n8a9 ,
drowi-b4n023 ,
drowi-b4n075 ,
drowi-b4n543 ,
drowi-b4n888 ,
drowi-b4n889 ,
drowi-b4n891 ,
drowi-b4n893 ,
drowi-b4n895 ,
drowi-b4n897 ,
drowi-b4n898 ,
drowi-b4n899.2 ,
drowi-b4ng76 ,
drowi-b4nga7 ,
drowi-b4ngb5 ,
drowi-b4njk8 ,
drowi-b4nky0 ,
drowi-b4nn59 ,
drowi-b4nnc1 ,
drowi-b4nng1 ,
drowi-b4nng2 ,
droya-q71d76 ,
drowi-a0a0q9x0t3 ,
drovi-b4mcn9 Abstract
MOTIVATION: Many genomes are sequenced by a collaboration of several centers, and then each center produces an assembly using their own assembly software. The collaborators then pick the draft assembly that they judge to be the best and the information contained in the other assemblies is usually not used. METHODS: We have developed a technique that we call assembly reconciliation that can merge draft genome assemblies. It takes one draft assembly, detects apparent errors, and, when possible, patches the problem areas using pieces from alternative draft assemblies. It also closes gaps in places where one of the alternative assemblies has spanned the gap correctly. RESULTS: Using the Assembly Reconciliation technique, we produced reconciled assemblies of six Drosophila species in collaboration with Agencourt Bioscience and The J. Craig Venter Institute. These assemblies are now the official (CAF1) assemblies used for analysis. We also produced a reconciled assembly of Rhesus Macaque genome, and this assembly is available from our website http://www.genome.umd.edu. AVAILABILITY: The reconciliation software is available for download from http://www.genome.umd.edu/software.htm
Title: Evolution of genes and genomes on the Drosophila phylogenyClark AG , Eisen MB , Smith DR , Bergman CM , Oliver B , Markow TA , Kaufman TC , Kellis M , Gelbart W and MacCallum I <405 more author(s)> Clark AG , Eisen MB , Smith DR , Bergman CM , Oliver B , Markow TA , Kaufman TC , Kellis M , Gelbart W , Iyer VN , Pollard DA , Sackton TB , Larracuente AM , Singh ND , Abad JP , Abt DN , Adryan B , Aguade M , Akashi H , Anderson WW , Aquadro CF , Ardell DH , Arguello R , Artieri CG , Barbash DA , Barker D , Barsanti P , Batterham P , Batzoglou S , Begun D , Bhutkar A , Blanco E , Bosak SA , Bradley RK , Brand AD , Brent MR , Brooks AN , Brown RH , Butlin RK , Caggese C , Calvi BR , Bernardo de Carvalho A , Caspi A , Castrezana S , Celniker SE , Chang JL , Chapple C , Chatterji S , Chinwalla A , Civetta A , Clifton SW , Comeron JM , Costello JC , Coyne JA , Daub J , David RG , Delcher AL , Delehaunty K , Do CB , Ebling H , Edwards K , Eickbush T , Evans JD , Filipski A , Findeiss S , Freyhult E , Fulton L , Fulton R , Garcia AC , Gardiner A , Garfield DA , Garvin BE , Gibson G , Gilbert D , Gnerre S , Godfrey J , Good R , Gotea V , Gravely B , Greenberg AJ , Griffiths-Jones S , Gross S , Guigo R , Gustafson EA , Haerty W , Hahn MW , Halligan DL , Halpern AL , Halter GM , Han MV , Heger A , Hillier L , Hinrichs AS , Holmes I , Hoskins RA , Hubisz MJ , Hultmark D , Huntley MA , Jaffe DB , Jagadeeshan S , Jeck WR , Johnson J , Jones CD , Jordan WC , Karpen GH , Kataoka E , Keightley PD , Kheradpour P , Kirkness EF , Koerich LB , Kristiansen K , Kudrna D , Kulathinal RJ , Kumar S , Kwok R , Lander E , Langley CH , Lapoint R , Lazzaro BP , Lee SJ , Levesque L , Li R , Lin CF , Lin MF , Lindblad-Toh K , Llopart A , Long M , Low L , Lozovsky E , Lu J , Luo M , Machado CA , Makalowski W , Marzo M , Matsuda M , Matzkin L , McAllister B , McBride CS , McKernan B , McKernan K , Mendez-Lago M , Minx P , Mollenhauer MU , Montooth K , Mount SM , Mu X , Myers E , Negre B , Newfeld S , Nielsen R , Noor MA , O'Grady P , Pachter L , Papaceit M , Parisi MJ , Parisi M , Parts L , Pedersen JS , Pesole G , Phillippy AM , Ponting CP , Pop M , Porcelli D , Powell JR , Prohaska S , Pruitt K , Puig M , Quesneville H , Ram KR , Rand D , Rasmussen MD , Reed LK , Reenan R , Reily A , Remington KA , Rieger TT , Ritchie MG , Robin C , Rogers YH , Rohde C , Rozas J , Rubenfield MJ , Ruiz A , Russo S , Salzberg SL , Sanchez-Gracia A , Saranga DJ , Sato H , Schaeffer SW , Schatz MC , Schlenke T , Schwartz R , Segarra C , Singh RS , Sirot L , Sirota M , Sisneros NB , Smith CD , Smith TF , Spieth J , Stage DE , Stark A , Stephan W , Strausberg RL , Strempel S , Sturgill D , Sutton G , Sutton GG , Tao W , Teichmann S , Tobari YN , Tomimura Y , Tsolas JM , Valente VL , Venter E , Venter JC , Vicario S , Vieira FG , Vilella AJ , Villasante A , Walenz B , Wang J , Wasserman M , Watts T , Wilson D , Wilson RK , Wing RA , Wolfner MF , Wong A , Wong GK , Wu CI , Wu G , Yamamoto D , Yang HP , Yang SP , Yorke JA , Yoshida K , Zdobnov E , Zhang P , Zhang Y , Zimin AV , Baldwin J , Abdouelleil A , Abdulkadir J , Abebe A , Abera B , Abreu J , Acer SC , Aftuck L , Alexander A , An P , Anderson E , Anderson S , Arachi H , Azer M , Bachantsang P , Barry A , Bayul T , Berlin A , Bessette D , Bloom T , Blye J , Boguslavskiy L , Bonnet C , Boukhgalter B , Bourzgui I , Brown A , Cahill P , Channer S , Cheshatsang Y , Chuda L , Citroen M , Collymore A , Cooke P , Costello M , D'Aco K , Daza R , De Haan G , DeGray S , DeMaso C , Dhargay N , Dooley K , Dooley E , Doricent M , Dorje P , Dorjee K , Dupes A , Elong R , Falk J , Farina A , Faro S , Ferguson D , Fisher S , Foley CD , Franke A , Friedrich D , Gadbois L , Gearin G , Gearin CR , Giannoukos G , Goode T , Graham J , Grandbois E , Grewal S , Gyaltsen K , Hafez N , Hagos B , Hall J , Henson C , Hollinger A , Honan T , Huard MD , Hughes L , Hurhula B , Husby ME , Kamat A , Kanga B , Kashin S , Khazanovich D , Kisner P , Lance K , Lara M , Lee W , Lennon N , Letendre F , LeVine R , Lipovsky A , Liu X , Liu J , Liu S , Lokyitsang T , Lokyitsang Y , Lubonja R , Lui A , Macdonald P , Magnisalis V , Maru K , Matthews C , McCusker W , McDonough S , Mehta T , Meldrim J , Meneus L , Mihai O , Mihalev A , Mihova T , Mittelman R , Mlenga V , Montmayeur A , Mulrain L , Navidi A , Naylor J , Negash T , Nguyen T , Nguyen N , Nicol R , Norbu C , Norbu N , Novod N , O'Neill B , Osman S , Markiewicz E , Oyono OL , Patti C , Phunkhang P , Pierre F , Priest M , Raghuraman S , Rege F , Reyes R , Rise C , Rogov P , Ross K , Ryan E , Settipalli S , Shea T , Sherpa N , Shi L , Shih D , Sparrow T , Spaulding J , Stalker J , Stange-Thomann N , Stavropoulos S , Stone C , Strader C , Tesfaye S , Thomson T , Thoulutsang Y , Thoulutsang D , Topham K , Topping I , Tsamla T , Vassiliev H , Vo A , Wangchuk T , Wangdi T , Weiand M , Wilkinson J , Wilson A , Yadav S , Young G , Yu Q , Zembek L , Zhong D , Zimmer A , Zwirko Z , Alvarez P , Brockman W , Butler J , Chin C , Grabherr M , Kleber M , Mauceli E , MacCallum I (- 405) Ref: Nature, 450 :203, 2007 : PubMed Abstract ESTHER: Clark_2007_Nature_450_203 PubMedSearch: Clark 2007 Nature 450 203 PubMedID: 17994087 Gene_locus related to this paper: droan-ACHE ,
droan-b3lx10 ,
droan-b3lx75 ,
droan-b3lxv7 ,
droan-b3ly87 ,
droan-b3lyh4 ,
droan-b3lyh5 ,
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drogr-b4k2r1 ,
drogr-b4k234 ,
drogr-b4k235 ,
drome-BEM46 ,
drome-CG3734 ,
drome-CG9953 ,
drome-CG11626 ,
drome-GH02439 ,
dromo-ACHE ,
dromo-b4k6a7 ,
dromo-b4k6a8 ,
dromo-b4k6q8 ,
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drosi-b4qzn7 ,
drosi-b4qzn8 ,
drosi-b4qzp2 ,
drosi-b4qzp3 ,
drosi-b4qzp4 ,
drosi-b4qzp5 ,
drosi-b4qzp6 ,
drosi-b4qzp7 ,
drosi-b4r1a4 ,
drosi-b4r025 ,
drosi-b4r207 ,
drosi-b4r662 ,
drosi-este6 ,
drosi-q670k8 ,
drovi-ACHE ,
drovi-b4lev2 ,
drovi-b4lf33 ,
drovi-b4lf51 ,
drovi-b4lg54 ,
drovi-b4lg72 ,
drovi-b4lgc6 ,
drovi-b4lgd5 ,
drovi-b4lgg0 ,
drovi-b4lgk5 ,
drovi-b4lgn2 ,
drovi-b4lh17 ,
drovi-b4lh18 ,
drovi-b4lk43 ,
drovi-b4ll59 ,
drovi-b4ll60 ,
drovi-b4llm5 ,
drovi-b4lln3 ,
drovi-b4lmk4 ,
drovi-b4lmp0 ,
drovi-b4lnr4 ,
drovi-b4lp47 ,
drovi-b4lpd0 ,
drovi-b4lps0 ,
drovi-b4lqc6 ,
drovi-b4lr00 ,
drovi-b4lrp6 ,
drovi-b4lrw2 ,
drovi-b4lse7 ,
drovi-b4lse9 ,
drovi-b4lsf0 ,
drovi-b4lsn0 ,
drovi-b4lsq5 ,
drovi-b4lt32 ,
drovi-b4ltr1 ,
drovi-b4lui7 ,
drovi-b4lui9 ,
drovi-b4luj8 ,
drovi-b4luk0 ,
drovi-b4luk3 ,
drovi-b4luk8 ,
drovi-b4luk9 ,
drovi-b4lul0 ,
drovi-b4lve2 ,
drovi-b4lxi9 ,
drovi-b4lxj8 ,
drovi-b4lyf3 ,
drovi-b4lyq2 ,
drovi-b4lyq3 ,
drovi-b4lz07 ,
drovi-b4lz13 ,
drovi-b4lz14 ,
drovi-b4lz15 ,
drovi-b4m0j7 ,
drovi-b4m0s0 ,
drovi-b4m2b6 ,
drovi-b4m4h7 ,
drovi-b4m4h8 ,
drovi-b4m4i0 ,
drovi-b4m4i2 ,
drovi-b4m4i3.A ,
drovi-b4m4i3.B ,
drovi-b4m4i4 ,
drovi-b4m4i5 ,
drovi-b4m4i6 ,
drovi-b4m4i7 ,
drovi-b4m4i8 ,
drovi-b4m4i9 ,
drovi-b4m4j2 ,
drovi-b4m5a0 ,
drovi-b4m5a1 ,
drovi-b4m5a2 ,
drovi-b4m6b9 ,
drovi-b4m7k9 ,
drovi-b4m9g9 ,
drovi-b4m9h0 ,
drovi-b4m564 ,
drovi-b4m599 ,
drovi-b4m918 ,
drovi-b4mb87 ,
drovi-b4mc71 ,
drovi-b4mfa4 ,
drowi-ACHE ,
drowi-b4mjb9 ,
drowi-b4mkt7 ,
drowi-b4mlc1 ,
drowi-b4mp68 ,
drowi-b4mqe9 ,
drowi-b4mqf0.2 ,
drowi-b4mqf1 ,
drowi-b4mqf3 ,
drowi-b4mqf4 ,
drowi-b4mqf5 ,
drowi-b4mqq6 ,
drowi-b4mrd1 ,
drowi-b4mrk3 ,
drowi-b4mtl5 ,
drowi-b4mug2 ,
drowi-b4muj8 ,
drowi-b4mv18 ,
drowi-b4mw32 ,
drowi-b4mw85 ,
drowi-b4mwp2 ,
drowi-b4mwp6 ,
drowi-b4mwq5 ,
drowi-b4mwr0 ,
drowi-b4mwr8 ,
drowi-b4mwr9 ,
drowi-b4mwt1 ,
drowi-b4mwz7 ,
drowi-b4mxn5 ,
drowi-b4my54 ,
drowi-b4myg1 ,
drowi-b4myh5 ,
drowi-b4n0d4 ,
drowi-b4n1a7 ,
drowi-b4n1c8 ,
drowi-b4n3s9 ,
drowi-b4n3x7 ,
drowi-b4n4x9 ,
drowi-b4n4y0 ,
drowi-b4n6m1 ,
drowi-b4n6n0 ,
drowi-b4n6n7 ,
drowi-b4n6u6 ,
drowi-b4n7s6 ,
drowi-b4n7s7 ,
drowi-b4n7s8 ,
drowi-b4n899.1 ,
drowi-b4n8a1 ,
drowi-b4n8a2 ,
drowi-b4n8a3 ,
drowi-b4n8a4 ,
drowi-b4n8a9 ,
drowi-b4n023 ,
drowi-b4n075 ,
drowi-b4n543 ,
drowi-b4n888 ,
drowi-b4n889 ,
drowi-b4n891 ,
drowi-b4n893 ,
drowi-b4n895 ,
drowi-b4n897 ,
drowi-b4n898 ,
drowi-b4n899.2 ,
drowi-b4nae3 ,
drowi-b4ner8 ,
drowi-b4ng76 ,
drowi-b4nga7 ,
drowi-b4ngb5 ,
drowi-b4nhz9 ,
drowi-b4nj18 ,
drowi-b4nj19 ,
drowi-b4nja7 ,
drowi-b4nja8 ,
drowi-b4nja9 ,
drowi-b4njk8 ,
drowi-b4nkc8 ,
drowi-b4nky0 ,
drowi-b4nl36 ,
drowi-b4nm27 ,
drowi-b4nn59 ,
drowi-b4nnc1 ,
drowi-b4nng1 ,
drowi-b4nng2 ,
droya-ACHE ,
droya-aes04 ,
droya-b4itg2 ,
droya-b4itg6 ,
droya-b4itu9 ,
droya-b4iuv4 ,
droya-b4iuv5 ,
droya-b4nxe6 ,
droya-b4nxg5 ,
droya-b4nxg6 ,
droya-b4nxg8 ,
droya-b4nxw4 ,
droya-b4ny57 ,
droya-b4ny58 ,
droya-b4ny86 ,
droya-b4nzz8 ,
droya-b4p0b5 ,
droya-b4p0q9 ,
droya-b4p0r0 ,
droya-b4p0r7 ,
droya-b4p0r8 ,
droya-b4p0r9 ,
droya-b4p0s0 ,
droya-b4p0s2 ,
droya-b4p0t0 ,
droya-b4p0t1 ,
droya-b4p3h4 ,
droya-b4p3x8 ,
droya-b4p5g8 ,
droya-b4p6c9 ,
droya-b4p6l9 ,
droya-b4p6r1 ,
droya-b4p6r2 ,
droya-b4p7u4 ,
droya-b4p8w7 ,
droya-b4p023 ,
droya-b4p241 ,
droya-b4p774 ,
droya-b4pat9 ,
droya-b4pbl1 ,
droya-b4pd22 ,
droya-b4pd70 ,
droya-b4pdm8 ,
droya-b4pet9 ,
droya-b4pff9 ,
droya-b4pga7 ,
droya-b4pgu0 ,
droya-b4pig3 ,
droya-b4pjt8 ,
droya-b4pka2 ,
droya-b4plh2 ,
droya-b4pma3 ,
droya-b4pmv3 ,
droya-b4pmv4 ,
droya-b4pmv5 ,
droya-b4pn92 ,
droya-b4pp65 ,
droya-b4ppc5 ,
droya-b4ppc6 ,
droya-b4ppc7 ,
droya-b4ppc8 ,
droya-b4pq03 ,
droya-b4prg6B ,
droya-b4prg9 ,
droya-b4prh3 ,
droya-b4prh4 ,
droya-b4prh6 ,
droya-b4prh7 ,
droya-b4psz8 ,
droya-b4psz9 ,
droya-b4pv22 ,
droya-b4q0g5 ,
droya-b4q246 ,
droya-EST6 ,
droya-q71d76 ,
drowi-b4n7m9 ,
drope-b4gkk1 ,
droer-b3n5s3 ,
drose-b4i1w5 ,
drowi-a0a0q9x0t3 ,
drogr-b4jvm7 ,
dromo-b4ku70 ,
drovi-b4mcn9 ,
drovi-b4lty2 ,
drogr-b4jdu1 ,
drovi-a0a0q9wiq8 ,
dromo-b4kf70 ,
drosi-b2zi86 ,
droya-b4p2y4 ,
drose-b2zic5 ,
droer-b3n895 Abstract
Comparative analysis of multiple genomes in a phylogenetic framework dramatically improves the precision and sensitivity of evolutionary inference, producing more robust results than single-genome analyses can provide. The genomes of 12 Drosophila species, ten of which are presented here for the first time (sechellia, simulans, yakuba, erecta, ananassae, persimilis, willistoni, mojavensis, virilis and grimshawi), illustrate how rates and patterns of sequence divergence across taxa can illuminate evolutionary processes on a genomic scale. These genome sequences augment the formidable genetic tools that have made Drosophila melanogaster a pre-eminent model for animal genetics, and will further catalyse fundamental research on mechanisms of development, cell biology, genetics, disease, neurobiology, behaviour, physiology and evolution. Despite remarkable similarities among these Drosophila species, we identified many putatively non-neutral changes in protein-coding genes, non-coding RNA genes, and cis-regulatory regions. These may prove to underlie differences in the ecology and behaviour of these diverse species.
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