RetrogeneDB ID:

retro_ptro_2776

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:8:94159295..94159756(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:SRSF3
Ensembl ID:ENSPTRG00000018106
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_2776
ATGCATCATGATTTCTGTTCAGTGGATGGTAAAGTTTATCTAGGTTATCTTGGAAAAATGGCAACAAAACTTAATTGGAA
TGGGCTTTCGCTACTAAGGACCACTCTGAAGTGTGTAGGTTGCTAGAAATCCTCCCGACTTAGCTTTTTTTGAATTTGAA
CCCAAGATGTGGCTGAAGCTGTATGAGAGCTAGATGGAAGATCACTGTGTAGCTGCCCTGTGAGAGCAGAACTGTCAAAT
GGTGAAAAAAGAAGTAGAAATGATGGCCCACCTATCTCTTGGGACTGTCACCCTCGAGATGATCATTGTAGGAGTCCTCC
ACCTCTCCGCAGATGTCCAAGAAGGAAAAGCTTCTCTCACAGGGGGAGTATCTTCTTTTCTAGAGATAGGAGAAAACACA
GAGATCACTGTCTTGGGAGAGAAATCACAAGCCGTCCCGATCCTTCTCTAGGTCTCAGTCA

ORF - retro_ptro_2776 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 61.25 %
Parental protein coverage: 95.12 %
Number of stop codons detected: 7
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalMHRDSCPLDCKVYVGNLGN-NGNKTELERAFG-YYGPLRSVWVARNPPGFAFVEFEDPR-DAADAVRELD
MH.D.C..D.KVY.G.LG..NGNKT.LE.AF..Y.GPL.SV.VARNPP..AF.EFE.P..D.A.AV.ELD
RetrocopyMHHDFCSVDGKVYLGYLGK<NGNKT*LEWAFA<Y*GPL*SV*VARNPPDLAFFEFE-PK<DVAEAV*ELD
ParentalGRTLCGCRVRVELSNGEKRSRNRGPPPSWGRRPRDDYRRRSPPPRR-RSPRRRSFSRSRSRSLSRDRRRE
GR.LC.C.VR.ELSNGEKRSRN.GPP.SW...PRDD..R..PP.RR..S......S........R.....
RetrocopyGRSLCSCPVRAELSNGEKRSRNDGPPISWDCHPRDDHCRSPPPLRR<MSKKEKLLSQGEYLLF*R*EKTQ
ParentalRSLSRERNHKPSRSFSRSRS
RSLS.ERNHKPSRSFSRS.S
RetrocopyRSLSWERNHKPSRSFSRSQS

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 29 .10 RPM
SRP007412_cerebellum 0 .00 RPM 100 .77 RPM
SRP007412_heart 0 .00 RPM 63 .28 RPM
SRP007412_kidney 0 .05 RPM 62 .35 RPM
SRP007412_liver 0 .00 RPM 71 .98 RPM
SRP007412_testis 0 .00 RPM 147 .22 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_2776 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_2776 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_2776 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Gorilla gorilla retro_ggor_2746
Macaca mulatta retro_mmul_2359

Parental genes homology:
Parental genes homology involve 13 parental genes, and 58 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000160625 retrocopies
Dasypus novemcinctus ENSDNOG000000004219 retrocopies
Equus caballus ENSECAG000000187412 retrocopies
Gorilla gorilla ENSGGOG000000171865 retrocopies
Loxodonta africana ENSLAFG000000181932 retrocopies
Myotis lucifugus ENSMLUG000000106716 retrocopies
Mus musculus ENSMUSG000000711729 retrocopies
Oryctolagus cuniculus ENSOCUG000000066843 retrocopies
Otolemur garnettii ENSOGAG000000005026 retrocopies
Pan troglodytes ENSPTRG000000135061 retrocopy
Pan troglodytes ENSPTRG00000018106 4 retrocopies
Sus scrofa ENSSSCG000000015641 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000142805 retrocopies



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