RetrogeneDB ID: retro_ptro_2026

Retrocopy location

• Organism: Chimpanzee (Pan troglodytes)
• Coordinates: 4:157601914..157602538(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: WDR77
• Ensembl ID: ENSPTRG00000001098
• Aliases: WDR77, OVGP1
• Description: Pan troglodytes WD repeat domain 77 (WDR77), mRNA. [Source:RefSeq mRNA;Acc:NM_001246481]

Sequence

>retro_ptro_2026
CTACCCTCAGTGTTCTCGGCTGTCAGCGGAAGCAAAGACTTCAGCATCAAGGATTGGGACCTTGCTCTGCAGGTGGCACT
GAATTCATACCGATCTCATGCTGGGCAGGTCACCTGTGCTGCTGCCTCTCCCCGCAAGGACTCTGTGTTTCTTTCCTGCA
GTGAGGACAGTAGAATTTTATTCTGGGATACTCTCTGACCAAGCCGACGTCACAGGTGGGCTGCATTGCCTCTGGCTGCC
TTCCCACCTCACTGGCTTGGCATCCTCAGCAAAGTGAAGTCTTCATCTTTGTGATGGGAATGGGACAGTCTCCCTTGTGG
ACACCAAGAGAGGGAGAGGTGCCCTTGGCTCAGCTGTACAAGACCAGTGTGTCATTGGGCTGGTGTTTTCCTCACACCGT
GTTCCCTTCCCGGCCTTTTACAGCGAAGATGGCTCACTGGCTGTGCTGGACTCCAGCCTTTCTGAGGTGTTTAGAAGCCG
AGGCCACTGTGACCTTGCGAGAGATGCTGCTTGATCCCCACTCAATCACTTTCTGCTTACCACAGTGGGCTGGGACCATC
AGGTCGTCTGCCACAAGTGCCCACAGAACCTCTCCCAGCCCCTGGACCTGAAAGCGTTGCTGAG

Alignment

ORF - retro_ptro_2026 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.11 %
• Parental protein coverage: 61.11 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  LSSGTQAVSGSKDICIKVWDLAQQVVLSSYRAHAAQVTCVAASPHKDSVFLSCSEDNRILLWDTRCP-KP
          L.S...AVSGSKD..IK.WDLA.QV.L.SYR.HA.QVTC.AASP.KDSVFLSCSED.RIL.WDT..P.KP
Retrocopy LPSVFSAVSGSKDFSIKDWDLALQVALNSYRSHAGQVTCAAASPRKDSVFLSCSEDSRILFWDTL*P<KP

Parental  ASQIGCSAPGYLPTSLAWHPQQSEVFAFG-DENGTVSLVDTKSTSCVLSSAVHSQCVTGLVFSPHSVPFL
          .SQ.GC.A.G.LPTSLAWHPQQSEVF.F..D.NGTVSLVDTK.....L.SAV..QCV.GLVFS.H.VPF.
Retrocopy TSQVGCIASGCLPTSLAWHPQQSEVFIFV<DGNGTVSLVDTKRGRGALGSAVQDQCVIGLVFSSHRVPFP

Parental  ASLSEDCSLAVLDSSLSELFRSQAHRDFVRDATWSPLNHSLLTTVGWDHQVVHH-IVPTEPLPAPGPASV
          A..SED.SLAVLDSSLSE.FRS..H.D..RDA..SPLNH.LLTTVGWDHQVV.H..VPTEPLPAPGP.SV
Retrocopy AFYSEDGSLAVLDSSLSEVFRSRGHCDLARDAA*SPLNHFLLTTVGWDHQVVCH<QVPTEPLPAPGPESV

Parental  TE
          .E
Retrocopy AE

Legend:

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

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain_prefrontal_cortex	0.00 RPM	18.21 RPM
SRP007412_cerebellum	0.00 RPM	15.27 RPM
SRP007412_heart	0.00 RPM	22.56 RPM
SRP007412_kidney	0.00 RPM	36.04 RPM
SRP007412_liver	0.00 RPM	15.42 RPM
SRP007412_testis	0.11 RPM	24.34 RPM

ChIP-Seq

Pan troglodytes was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ptro_2026 retrocopy.

TSS

Pan troglodytes was not studied using FANTOM5 data.

Lab

retro_ptro_2026 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ptro_2026 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2995
Pongo abelii	retro_pabe_2482
Macaca mulatta	retro_mmul_1917

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Parental genes homology:

Parental genes homology involve 13 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000014102	1 retrocopy	retro_btau_1342,
Choloepus hoffmanni	ENSCHOG00000013829	1 retrocopy	retro_chof_2618,
Callithrix jacchus	ENSCJAG00000013344	2 retrocopies	retro_cjac_1166, retro_cjac_3063,
Dasypus novemcinctus	ENSDNOG00000006521	1 retrocopy	retro_dnov_695,
Homo sapiens	ENSG00000116455	1 retrocopy	retro_hsap_2995,
Gorilla gorilla	ENSGGOG00000005208	1 retrocopy	retro_ggor_2076,
Macaca mulatta	ENSMMUG00000003311	1 retrocopy	retro_mmul_1917,
Mus musculus	ENSMUSG00000000561	1 retrocopy	retro_mmus_1120,
Nomascus leucogenys	ENSNLEG00000003918	1 retrocopy	retro_nleu_746,
Oryctolagus cuniculus	ENSOCUG00000007801	1 retrocopy	retro_ocun_535,
Pongo abelii	ENSPPYG00000001033	1 retrocopy	retro_pabe_2482,
Pan troglodytes	ENSPTRG00000001098	1 retrocopy	retro_ptro_2026 ,
Tupaia belangeri	ENSTBEG00000010325	1 retrocopy	retro_tbel_2253,