RetrogeneDB ID:

retro_ptro_1204

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:17:4877102..4877507(-)
Located in intron of:ENSPTRG00000008611
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ATP6V0C
Ensembl ID:ENSPTRG00000007653
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_1204
TCCAACAACAGCCCCGAGTATGCTTTGGTTTTCACCATCTCGGGTGCTATGGCCACCATGGTCTCCAGTGGCCTGGGTGC
TGCCTGTGGCATGGCCAAGAATGGCACCGGCATCGTGGCCATGTCTGTCATGTGGCCAGAGCTGATCCACATGAAGTCCA
TCATCCCAGTGGTCATGGCTGGTATCATCACCATCTATGGCCTAGTGGCGGCTGTCCCCCCTGCCAACTCCCTGAATGAT
GACAACAGTCTCTATAGCAGTTTCCTCCAGCTGGGCGCTGGCCTGAGTGGCCTGGCAGCCGGCTTCGCCATCGTCATCGT
GGGGGACACTGGCAAGTGTGGCACTGCCCAGCAGCCCTGACTATTTGTAGGCATGATACTGATCCTCATCTTTGCCAAGG
TGCTT

ORF - retro_ptro_1204 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.54 %
Parental protein coverage: 89.03 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalSKSGPEYASFFAVMGASAAMVFSALGAAYGTAKSGTGIAAMSVMRPELI-MKSIIPVVMAGIIAIYGLVV
S...PEYA..F...GA.A.MV.S.LGAA.G.AK.GTGI.AMSVM.PELI.MKSIIPVVMAGII.IYGLV.
RetrocopySNNSPEYALVFTISGAMATMVSSGLGAACGMAKNGTGIVAMSVMWPELIHMKSIIPVVMAGIITIYGLVA
ParentalAVLIANSLNDDISLYKSFLQLGAGLSVGLSGLAAGFAIGIVGDAGVRGTAQQPRLFVGMILILIFAEVL
AV..ANSLNDD.SLY.SFLQLGAGLS....GLAAGFAI.IVGD.G..GTAQQP.LFVGMILILIFA.VL
RetrocopyAVPPANSLNDDNSLYSSFLQLGAGLS----GLAAGFAIVIVGDTGKCGTAQQP*LFVGMILILIFAKVL

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 .27 RPM 326 .23 RPM
SRP007412_cerebellum 0 .07 RPM 229 .43 RPM
SRP007412_heart 0 .09 RPM 41 .88 RPM
SRP007412_kidney 0 .05 RPM 231 .78 RPM
SRP007412_liver 0 .16 RPM 107 .89 RPM
SRP007412_testis 0 .00 RPM 34 .04 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_1204 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_1204 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_1204 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 15 parental genes, and 31 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000264281 retrocopy
Homo sapiens ENSG000001858832 retrocopies
Gorilla gorilla ENSGGOG000000286002 retrocopies
Macropus eugenii ENSMEUG000000045972 retrocopies
Myotis lucifugus ENSMLUG000000267152 retrocopies
Monodelphis domestica ENSMODG000000154395 retrocopies
Mus musculus ENSMUSG000000241212 retrocopies
Nomascus leucogenys ENSNLEG000000094162 retrocopies
Procavia capensis ENSPCAG000000150601 retrocopy
Pan troglodytes ENSPTRG00000007653 2 retrocopies
retro_ptro_1204 , retro_ptro_2346,
Rattus norvegicus ENSRNOG000000065421 retrocopy
Sarcophilus harrisii ENSSHAG000000142511 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000134203 retrocopies
Drosophila melanogaster FBgn02627363 retrocopies
Caenorhabditis elegans R10E11.22 retrocopies



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