RetrogeneDB ID:

retro_ptro_960

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:14:30203561..30203969(-)
Located in intron of:ENSPTRG00000006241
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ATP5G1
Ensembl ID:ENSPTRG00000009364
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_960
ATGCAGACCACCGGGGTATTACTCATTTCTCCAGCTCTGATCTGCTGTTGTACCAGGGGTCTAATCAGGCCTGTGTCTGC
CTTCTCCTTGAATAGCCCAGAGAATTCATCTAAACAGCCTTCCTACAGCAGCTCCCCACTCCAGGTGGCCAGACGGGAGT
TCTAGACCAGTGTTGTCTCCCGGGACACTGACACAGCCGCCAAGTTTATTGGTGCTGGGTCAGCCACAGTTGGTGTGGCT
GATTCAGGGGCTGGCATTGGAGCGGTGTTTGGCAGCTTGATTATTGTCTATGCCAGGAACCTGTCTCTCAAGCAGCAACT
CCTCTTCTATGCCATTCTGGGCTTTGCCCTGTCTGAGGCCATGGGGCTCTTCTGTTTGATGATCTCCTTCTTCATCCTGT
TCGCCATG

ORF - retro_ptro_960 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.56 %
Parental protein coverage: 100. %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMQTAGALFISPALIRCCTRGLIRPVSASFLNSPVNSSKQPSYSNFPLQVARREFQTSVVSRDIDTAAKFI
MQT.G.L.ISPALI.CCTRGLIRPVSA..LNSP.NSSKQPSYS..PLQVARREF.TSVVSRD.DTAAKFI
RetrocopyMQTTGVLLISPALICCCTRGLIRPVSAFSLNSPENSSKQPSYSSSPLQVARREF*TSVVSRDTDTAAKFI
ParentalGAGAATVGVAGSGAGIGTVFGSLIIGYARNPSLKQQLFSYAILGFALSEAMGLFCLMVAFLILFAM
GAG.ATVGVA.SGAGIG.VFGSLII.YARN.SLKQQL..YAILGFALSEAMGLFCLM..F.ILFAM
RetrocopyGAGSATVGVADSGAGIGAVFGSLIIVYARNLSLKQQLLFYAILGFALSEAMGLFCLMISFFILFAM

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 .16 RPM 59 .86 RPM
SRP007412_cerebellum 0 .04 RPM 33 .02 RPM
SRP007412_heart 0 .20 RPM 180 .82 RPM
SRP007412_kidney 0 .18 RPM 93 .05 RPM
SRP007412_liver 0 .10 RPM 46 .74 RPM
SRP007412_testis 0 .21 RPM 14 .33 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_960 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_960 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_960 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_1397
Gorilla gorilla retro_ggor_1083
Pongo abelii retro_pabe_1156

Parental genes homology:
Parental genes homology involve 20 parental genes, and 87 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000063411 retrocopy
Canis familiaris ENSCAFG000000168805 retrocopies
Callithrix jacchus ENSCJAG000000073527 retrocopies
Cavia porcellus ENSCPOG000000090172 retrocopies
Equus caballus ENSECAG000000199081 retrocopy
Felis catus ENSFCAG000000023442 retrocopies
Homo sapiens ENSG000001591998 retrocopies
Gorilla gorilla ENSGGOG000000016268 retrocopies
Loxodonta africana ENSLAFG000000045372 retrocopies
Macropus eugenii ENSMEUG000000057442 retrocopies
Myotis lucifugus ENSMLUG000000117384 retrocopies
Macaca mulatta ENSMMUG000000133951 retrocopy
Mustela putorius furoENSMPUG000000153413 retrocopies
Nomascus leucogenys ENSNLEG000000027186 retrocopies
Pongo abelii ENSPPYG000000089099 retrocopies
Pan troglodytes ENSPTRG000000050236 retrocopies
Pan troglodytes ENSPTRG00000009364 8 retrocopies
Rattus norvegicus ENSRNOG000000072355 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000134042 retrocopies
Tupaia belangeri ENSTBEG000000035755 retrocopies



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