RetrogeneDB ID:

retro_pabe_2314

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:3:75524803..75525070(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:UQCRH
Ensembl ID:ENSPPYG00000025831
Aliases:None
Description:ubiquinol-cytochrome c reductase hinge protein [Source:HGNC Symbol;Acc:12590]


Retrocopy-Parental alignment summary:






>retro_pabe_2314
ATGGGACTGGAAGATGAGTGAAAGATGCTGACCAGGTCCAAAGATTTCATGGAGGAGGAAGAGCAAGAGGAGGAACTGGA
TCCCCTAACAACAGAAAGAGAGCAATGCAAGCAGCTGGAGAAATGTGTAAAGGCCAGGAGTGGCTAGAGCTCTGTGATGA
GTGTATATCCTTCCAGCCACAAAGAAGAGGATGGCATGAATGAGCTCTTGGACTTTTTGCATGCAAGGGACCACTGAGTG
ACCCACAAACTCTTTAACAGCTTGAAA

ORF - retro_pabe_2314 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 70.97 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMGLEDEQKMLTESGDPEEEEEEEEELVDPLTTVREQCEQLEKCVKAR-ERLELCDERVS-SRSHTEEDCT
MGLEDE.KMLT.S.D..EEEE.EEEL.DPLTT.REQC.QLEKCVKAR.E.LELCDE..S.S....E....
RetrocopyMGLEDE*KMLTRSKDFMEEEEQEEEL-DPLTTEREQCKQLEKCVKAR<EWLELCDECIS>SSHKEEDGMN
ParentalEELFDFLHARDHCVAHKLFNNLK
E.L.DFLHARDH.V.HKLFN.LK
RetrocopyE-LLDFLHARDH*VTHKLFNSLK

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 95 .93 RPM
SRP007412_cerebellum 0 .00 RPM 79 .28 RPM
SRP007412_heart 0 .00 RPM 135 .59 RPM
SRP007412_kidney 0 .03 RPM 114 .39 RPM
SRP007412_liver 0 .00 RPM 37 .49 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_2314 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_2314 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_2314 has 4 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_2659
Pan troglodytes retro_ptro_1792
Gorilla gorilla retro_ggor_1855
Callithrix jacchus retro_cjac_1337

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 ENSPPYG00000025831 4 retrocopies
Pan troglodytes ENSPTRG000000006914 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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