RetrogeneDB ID:

retro_nleu_1575

Retrocopy
location
Organism:Gibbon (Nomascus leucogenys)
Coordinates:GL397300.1:3670469..3671184(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PDCL3
Ensembl ID:ENSNLEG00000014393
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_nleu_1575
ATGCAGGACCCCAACGCAGACACTGAGTGGAATGACATCTTACCAAAAAGGGTATCTTGCCCCCCAAGGAAAGTCTGAAA
GAATTGGAAAAGGAGGTGGAAGAGGAGCAACGCATCCTCCAGCAGTCAGTGGTGATAACATATAAAGATAGAACTTTGAA
AGAGCTGGAGGATCATGAAGATGAGTTTAATGAGGAGGATGAATGTGCTATTGAAATGTACACATGGCAGAGACTGGTTG
AGTGGAAGCATCTAAACGGAAGAATACATTTGGAGAAGTTTTGGAGATCTCAGGGAAGGATCATATTCAAGAAGTTGCCA
AAGCTGATGAGGGCTCGTGGGTCATCTTGCACCTTTACAAACGAGGAATTCCTCTCAGTGCCCTGATAAACCAGCACCTC
AGTGGACTTGCCAGGAAGTTTCCTGATGTCAAATTTATCAAAGCCATTTCAACAACCTGCATACCCAATTATCCTGACAG
GAATCTGCCCACGATATTTGTTTTCCTGGAAGGAGATATTAAGGCTCAGTTTTATCGTCCTCTGGTGTTTGGCGGCACAC
ACCTGACAAGAGATGAGTTGGAGCGGAAACTGTCTGAATCTGGAGCAATTAAGATGGACCTGGAGGAAAACCTTAAGAAG
CCGATTGAAGACATGTTGCTGTCCTCACTGCGGCGCTCTGTCCCCATGAGGAGGGACAGCGATTCCAAGGGTGAC

ORF - retro_nleu_1575 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.65 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMQDPNADTEWNDIL-RKKGILPPKESLKELEEEAEEEQRILQQSVVKTYEDMTLEELEDHEDEFNEEDER
MQDPNADTEWNDIL..KKGILPPKESLKELE.E.EEEQRILQQSVV.TY.D.TL.ELEDHEDEFNEEDE.
RetrocopyMQDPNADTEWNDIL<TKKGILPPKESLKELEKEVEEEQRILQQSVVITYKDRTLKELEDHEDEFNEEDEC
ParentalAIEMYRRQRLAEWK-ATKLKNKFGEVLEISGKDYVQEVTKAGEGLWVILHLYKQGIPLCALINQHLSGLA
AIEMY..QRL.EWK.A.K.KN.FGEVLEISGKD..QEV.KA.EG.WVILHLYK.GIPL.ALINQHLSGLA
RetrocopyAIEMYTWQRLVEWK<ASKRKNTFGEVLEISGKDHIQEVAKADEGSWVILHLYKRGIPLSALINQHLSGLA
ParentalRKFPDVKFIKAISTTCIPNYPDRNLPTIFVYLEGDIKAQFIGPLVFGGMNLTRDELEWKLSESGAIMTDL
RKFPDVKFIKAISTTCIPNYPDRNLPTIFV.LEGDIKAQF..PLVFGG..LTRDELE.KLSESGAI..DL
RetrocopyRKFPDVKFIKAISTTCIPNYPDRNLPTIFVFLEGDIKAQFYRPLVFGGTHLTRDELERKLSESGAIKMDL
ParentalEENPKKPIEDVLLSSVRRSVLMRRHSDSEGD
EEN.KKPIED.LLSS.RRSV.MRR.SDS.GD
RetrocopyEENLKKPIEDMLLSSLRRSVPMRRDSDSKGD

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_1575 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 13 parental genes, and 31 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000022261 retrocopy
Callithrix jacchus ENSCJAG000000101603 retrocopies
Dipodomys ordii ENSDORG000000123971 retrocopy
Erinaceus europaeus ENSEEUG000000002241 retrocopy
Homo sapiens ENSG000001155397 retrocopies
Myotis lucifugus ENSMLUG000000164461 retrocopy
Monodelphis domestica ENSMODG000000014891 retrocopy
Mus musculus ENSMUSG000000260781 retrocopy
Nomascus leucogenys ENSNLEG00000014393 8 retrocopies
Oryctolagus cuniculus ENSOCUG000000014692 retrocopies
Otolemur garnettii ENSOGAG000000151382 retrocopies
Ochotona princeps ENSOPRG000000116002 retrocopies
Tursiops truncatus ENSTTRG000000062421 retrocopy



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