RetrogeneDB ID:

retro_pabe_1446

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:17:30100473..30100805(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RNF7
Ensembl ID:ENSPPYG00000014167
Aliases:None
Description:ring finger protein 7 [Source:HGNC Symbol;Acc:10070]


Retrocopy-Parental alignment summary:






>retro_pabe_1446
GCTAACGTGGAAGATGGCAAGGAGCCCTGTGCCTTGTCCTCTCACTCTGGGAGCACAGGCTGCAAGTTGGAAGGGCAACA
AAAATGTTCTCTTTCCAGGTGTGAAACACAGTGGGCATGTAGAGGTGGGACATGGAGTGCCATACAACTGCCATCTGCAG
GGTCCAGGTGATGGATGCCTTTCTTGGGTGTCAAGCTGAAAACAAACAAGAGAACTGTGTTGTCATCTGAGGAGAATGTA
ATCACTCCTTCCACAACTGTTGCATGTCCCTGTGGGTACAACAGAGCAATCACTGACCTCTCTGCCAGCAAGACTGGATG
GTCTAAAGAATC

ORF - retro_pabe_1446 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 67.86 %
Parental protein coverage: 97.35 %
Number of stop codons detected: 5
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalADVEDGEETCALASHS-GSSGSKSGGDK-MFSLKKWNAVAMWSWDVECDTCAICRVQVMDACLRCQAENK
A.VEDG.E.CAL.SHS.G.......G.K.MFS....N.V.M..WD.EC.T.AICRVQVMDA.L.CQAENK
RetrocopyANVEDGKEPCALSSHS>GAQAASWKGNK>MFSFQV*NTVGM*RWDMECHTTAICRVQVMDAFLGCQAENK
ParentalQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVVQRI
QE.CVV..GECNHSFHNCCMSLWV.Q.N..PLCQQDW.V.RI
RetrocopyQENCVVI*GECNHSFHNCCMSLWVQQSNH*PLCQQDWMV*RI

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 43 .85 RPM
SRP007412_cerebellum 0 .00 RPM 31 .01 RPM
SRP007412_heart 0 .00 RPM 20 .86 RPM
SRP007412_kidney 0 .03 RPM 34 .04 RPM
SRP007412_liver 0 .00 RPM 25 .31 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_1446 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_1446 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_1446 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Macaca mulatta retro_mmul_1223

Parental genes homology:
Parental genes homology involve 19 parental genes, and 42 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000076941 retrocopy
Choloepus hoffmanni ENSCHOG000000107423 retrocopies
Callithrix jacchus ENSCJAG000000019912 retrocopies
Dasypus novemcinctus ENSDNOG000000059613 retrocopies
Homo sapiens ENSG000001141251 retrocopy
Gorilla gorilla ENSGGOG000000018291 retrocopy
Microcebus murinus ENSMICG000000013531 retrocopy
Macaca mulatta ENSMMUG000000066482 retrocopies
Monodelphis domestica ENSMODG000000212321 retrocopy
Mus musculus ENSMUSG000000512343 retrocopies
Nomascus leucogenys ENSNLEG000000046463 retrocopies
Otolemur garnettii ENSOGAG000000086591 retrocopy
Pongo abelii ENSPPYG000000118612 retrocopies
Pongo abelii ENSPPYG00000014167 2 retrocopies
retro_pabe_1446 , retro_pabe_2228,
Pan troglodytes ENSPTRG000000392481 retrocopy
Rattus norvegicus ENSRNOG000000116635 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000149643 retrocopies
Tupaia belangeri ENSTBEG000000029172 retrocopies
Tarsius syrichta ENSTSYG000000077785 retrocopies



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