RetrogeneDB ID:

retro_ptro_3051

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:GL392428.1:7389..7658(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSPTRG00000018063
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_3051
GCCTGGAGACATTTCTACTGCTACCTTACCGATCAGGGTATCCAGTATCTCCGTGATTACCTTCATCTGTCCCTGGAAAC
TGTGCCTGCCACCCTACGCTGCAGCCGTCCAGGGACTGGCAGGCCTCAGCCTAAAGGTCTGGAGGGTGGGCGACCTGCAA
GACTCACAAGAGGGGAAGCCGACAGACATACCTACAGACGGAGTGCTGTGCCCCTGGTGCCAACAAGAAAGCCGAGGCTC
GGGCTGGGTCAGCAACTGAATTCCAGTTT

ORF - retro_ptro_3051 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.62 %
Parental protein coverage: 52.33 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalAWRHFYWYLTNEGIQYLRDYLHLPPEIVPATLRRSRPETGRPRPKGLEGERPARLTRGEADRDTYRRSAV
AWRHFY.YLT..GIQYLRDYLHL..E.VPATLR.SRP.TGRP.PKGLEG.RPARLTRGEADR.TYRRSAV
RetrocopyAWRHFYCYLTDQGIQYLRDYLHLSLETVPATLRCSRPGTGRPQPKGLEGGRPARLTRGEADRHTYRRSAV
ParentalP-PGADKKAEAGAGSATEFQF
P.PGA.KKAEA.AGSATEFQF
RetrocopyP<PGANKKAEARAGSATEFQF

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain_prefrontal_cortex 0 .00 RPM 119 .62 RPM
SRP007412_cerebellum 0 .00 RPM 39 .25 RPM
SRP007412_heart 0 .00 RPM 22 .44 RPM
SRP007412_kidney 0 .00 RPM 89 .67 RPM
SRP007412_liver 0 .00 RPM 35 .75 RPM
SRP007412_testis 0 .00 RPM 17 .18 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_3051 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_3051 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_3051 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 22 parental genes, and 140 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000012142 retrocopies
Callithrix jacchus ENSCJAG000000152504 retrocopies
Cavia porcellus ENSCPOG000000086132 retrocopies
Dasypus novemcinctus ENSDNOG000000116702 retrocopies
Dipodomys ordii ENSDORG000000120606 retrocopies
Homo sapiens ENSG0000012461424 retrocopies
Latimeria chalumnae ENSLACG000000172191 retrocopy
Loxodonta africana ENSLAFG000000085391 retrocopy
Macaca mulatta ENSMMUG000000002672 retrocopies
Monodelphis domestica ENSMODG000000139292 retrocopies
Mustela putorius furoENSMPUG000000031173 retrocopies
Mus musculus ENSMUSG000000521469 retrocopies
Nomascus leucogenys ENSNLEG0000000833624 retrocopies
Oryctolagus cuniculus ENSOCUG000000113732 retrocopies
Ochotona princeps ENSOPRG000000026932 retrocopies
Procavia capensis ENSPCAG000000127951 retrocopy
Pongo abelii ENSPPYG000000165162 retrocopies
Pan troglodytes ENSPTRG00000018063 26 retrocopies
Rattus norvegicus ENSRNOG000000004904 retrocopies
Sarcophilus harrisii ENSSHAG000000007313 retrocopies
Tupaia belangeri ENSTBEG0000000149216 retrocopies
Tursiops truncatus ENSTTRG000000150642 retrocopies



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