RetrogeneDB ID:

retro_ptro_1534

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:2A:26347623..26347908(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:UQCRHL
Ensembl ID:ENSPTRG00000000691
Aliases:None
Description:Cytochrome b-c1 complex subunit 6 [Source:UniProtKB/TrEMBL;Acc:H2PYY7]


Retrocopy-Parental alignment summary:






>retro_ptro_1534
ATAGGACTGGAGGACGAGCGAAAGATGCTGACCGAGTCCGGAGATCCTAAGGAGGAGGAAGAAGAAGAGGGGGAATTAGT
GTTTCTACATCAGGATCCCCTAACAACAGTGAGAGAGCAATGCCAGCAGTTGGAGAAATGTGTAAAGGCCCAGGAGTGGC
TGGAGTTCTGTGATGAGCGTGTATCCTCTCAATCACATACAGAAGAGGATTGCACGGAGGAGCTCTTTGACTTTTTGCAT
GCAACGGACCATTGCGTGGCCCACAAACTCTTTAACAACTTGAAA

ORF - retro_ptro_1534 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.21 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMGLEDEQKMLTESGDPEEEEEEEEELV----DPLTTVREQCEQLEKCVKARERLELCDKRVSSRSHTEED
.GLEDE.KMLTESGDP.EEEEEE.ELV....DPLTTVREQC.QLEKCVKA.E.LE.CD.RVSS.SHTEED
RetrocopyIGLEDERKMLTESGDPKEEEEEEGELVFLHQDPLTTVREQCQQLEKCVKAQEWLEFCDERVSSQSHTEED
ParentalCTEELFDFLHARDHCVAHKLFNNLK
CTEELFDFLHA.DHCVAHKLFNNLK
RetrocopyCTEELFDFLHATDHCVAHKLFNNLK

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 .02 RPM 119 .33 RPM
SRP007412_cerebellum 0 .07 RPM 133 .54 RPM
SRP007412_heart 0 .00 RPM 312 .53 RPM
SRP007412_kidney 0 .03 RPM 151 .50 RPM
SRP007412_liver 0 .00 RPM 59 .22 RPM
SRP007412_testis 0 .00 RPM 37 .52 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_1534 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_1534 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_1534 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_2085
Callithrix jacchus retro_cjac_1303

Parental genes homology:
Parental genes homology involve 17 parental genes, and 42 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000096033 retrocopies
Callithrix jacchus ENSCJAG000000211265 retrocopies
Homo sapiens ENSG000001736605 retrocopies
Gorilla gorilla ENSGGOG000000106311 retrocopy
Macropus eugenii ENSMEUG000000068501 retrocopy
Mus musculus ENSMUSG000000638824 retrocopies
Nomascus leucogenys ENSNLEG000000165234 retrocopies
Oryctolagus cuniculus ENSOCUG000000076001 retrocopy
Otolemur garnettii ENSOGAG000000011342 retrocopies
Ochotona princeps ENSOPRG000000160591 retrocopy
Pongo abelii ENSPPYG000000258314 retrocopies
Pan troglodytes ENSPTRG00000000691 4 retrocopies
Rattus norvegicus ENSRNOG000000125501 retrocopy
Sorex araneus ENSSARG000000067631 retrocopy
Tupaia belangeri ENSTBEG000000116082 retrocopies
Tarsius syrichta ENSTSYG000000065722 retrocopies
Tursiops truncatus ENSTTRG000000063261 retrocopy



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