RetrogeneDB ID:

retro_nleu_2550

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397370.1:4902005..4902666(-)
Located in intron of:ENSNLEG00000011400
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:DNAJA1
Ensembl ID:ENSNLEG00000005268
Aliases:None
Description:Chaperone protein DnaJ A [Source:UniProtKB/TrEMBL;Acc:G1QZM9]


Retrocopy-Parental alignment summary:






>retro_nleu_2550
TGCCTGGAGTGCCACGGTCATGGAGAATGAATCAGTCCTAAAGATAGATGTAAACACTCAAATGGAAGAAAGATAGTTTG
AGGGAAAAAGATTCTAGAAGTTCATGTTGACAAAGACATGAAATGTGGCCAGAAGATAACATTTCATGGTGAAGGAGACA
AAGAACCAGGATTGGAGCCAGGAGATATTATCATTGAGTTAGATGAAAAGGACCATGCTGTTTTTACTTGACAAGAAGAC
TAGTTTATGTCTATGGACAGACAGCTGGTTAAAATATTGTGTGGTTTCCAAAACCCAATATCCACTCTTGACTACTGAAC
TATAGTCATCACCTCTGACCCAGGTCAGACTGTCAAATATGGAGATATCAAATGTGTGCTAAATGAAGTCACGCCAATTT
TTCATAGACCATATGAAAAGCATCACTTAATCATCAAATTCAAGGTAAACTTTCCTGAGAATGGTTTTCTCTCTCATGAT
AAGCTCTCTTAGTTGGGTAAACTCCTACCTGACAGGAAGAAAATAGAAGAGATGGATGAAACGGATCAAGTTAGAACTGG
TGTACTTTGATTCAAATCAGGAAAAACAGCACTATTACAATGGAGAAACATGTGAGGATGATAAATATCATCCCAGAGGT
GGTGTTCACTGCCAAACTTCA

ORF - retro_nleu_2550 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.68 %
Parental protein coverage: 55.67 %
Number of stop codons detected: 6
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalCMECQGHGERISPKDRCKSCNGRKIVREKKILEVHIDKGMKDGQKITFHGEGDQEPGLEPGDIIIVLDQK
C.EC.GHGE.ISPKDRCK..NGRKIV..KKILEVH.DK.MK.GQKITFHGEGD.EPGLEPGDIII.LD.K
RetrocopyCLECHGHGE*ISPKDRCKHSNGRKIV*GKKILEVHVDKDMKCGQKITFHGEGDKEPGLEPGDIIIELDEK
ParentalDHAVFTRRGEDLFMCMDIQLVEALCGFQKPISTLDNRTIVITSHPGQIVKHGDIKCVLNEGMPIYRRPYE
DHAVFT...ED.FM.MD.QLV..LCGFQ.PISTLD..TIVITS.PGQ.VK.GDIKCVLNE..PI..RPYE
RetrocopyDHAVFT*Q-ED*FMSMDRQLVKILCGFQNPISTLDY*TIVITSDPGQTVKYGDIKCVLNEVTPIFHRPYE
ParentalKGRLIIEFKVNFPENGFLSPDKLSLLEKLLPERKEVEETDEMDQV-ELVDFDPNQERRRHYNGEAYEDDE
K..LII.FKVNFPENGFLS.DKLS.L.KLLP.RK..EE.DE.DQV.ELV.FD.NQE....YNGE..EDD.
RetrocopyKHHLIIKFKVNFPENGFLSHDKLS*LGKLLPDRKKIEEMDETDQV>ELVYFDSNQEKQHYYNGETCEDDK
ParentalHHPRGGVQCQTS
.HPRGGV.CQTS
RetrocopyYHPRGGVHCQTS

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Nomascus leucogenys was not studied using RNA-Seq expression data.
Nomascus leucogenys was not studied using ChIP-Seq data.
Nomascus leucogenys was not studied using EST data.
Nomascus leucogenys was not studied using FANTOM5 data.
retro_nleu_2550 was not experimentally validated.

Retrocopy orthology:
Nomascus leucogenys does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 18 parental genes, and 114 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000075894 retrocopies
Bos taurus ENSBTAG000000162656 retrocopies
Canis familiaris ENSCAFG0000000181823 retrocopies
Choloepus hoffmanni ENSCHOG000000006319 retrocopies
Dasypus novemcinctus ENSDNOG000000183423 retrocopies
Felis catus ENSFCAG000000087295 retrocopies
Homo sapiens ENSG000000860614 retrocopies
Gorilla gorilla ENSGGOG000000070303 retrocopies
Macaca mulatta ENSMMUG000000077406 retrocopies
Monodelphis domestica ENSMODG000000033847 retrocopies
Nomascus leucogenys ENSNLEG00000005268 4 retrocopies
Oryctolagus cuniculus ENSOCUG000000048332 retrocopies
Pongo abelii ENSPPYG000000191414 retrocopies
Pan troglodytes ENSPTRG000000208524 retrocopies
Sarcophilus harrisii ENSSHAG000000123661 retrocopy
Sus scrofa ENSSSCG000000110002 retrocopies
Tupaia belangeri ENSTBEG0000000059623 retrocopies
Tursiops truncatus ENSTTRG000000073874 retrocopies



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