RetrogeneDB ID:

retro_ptro_877

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:13:89103978..89104411(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:GRPEL2
Ensembl ID:ENSPTRG00000017396
Aliases:None
Description:GrpE protein homolog [Source:UniProtKB/TrEMBL;Acc:H2QRR7]


Retrocopy-Parental alignment summary:






>retro_ptro_877
TTGGCCGTGCAGTTGCTGTGGCAGATGCAGCCCCTACTGGCCTCGAGTGCTGAGTGGGAGGGCAAGGGATGGCTACTTCT
ATTCAGCACTGCCATGCAGAGAACTACTGGTGAGGACTGCAGTTCTGAGGACCCTCCTGATGAGCTTGGGTGCTCTCTTG
CTGAATGGGCCTTAAGGGTGAAAGCTGTTAAACTGGAGAAGGAAGTCCAGGATTTAACGATGAGATACCAGAGAGCTGTA
GCTGACTGTGAAAACATAAGGAGGGGAACCAGAGATGTGTGGAAAACTCCAAGATATTTAGAATCCAGAGTTTCTGTAAG
ATCTTGGTGGAGGTGTCCACATTTTGGAGAAGACTACAGAGTGCATTTCTGAAGAATCAGACCCTGTGGACCAGAAGCTC
ACTCTGGAGAAGGTCTTCCAAGGGTTGTCACTT

ORF - retro_ptro_877 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.5 %
Parental protein coverage: 66.22 %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMAVRSLWAGRLRVHRLLAWSAAWESKGWPLPFSTATQRTAGEDCRSEDPPDELGPPLAERALRVKAVKLE
.AV..LW........LLA.SA.WE.KGW.L.FSTA.QRT.GEDC.SEDPPDELG..LAE.ALRVKAVKLE
RetrocopyLAVQLLW----QMQPLLASSAEWEGKGWLLLFSTAMQRTTGEDCSSEDPPDELGCSLAEWALRVKAVKLE
ParentalKEVQDLTVRYQRAIADCENIRRRT-QRCVEDAKIFGIQSFCKDLVEVA-DILEKTTECISEESEPEDQKL
KEVQDLT.RYQRA.ADCENIRR.T.QRCVE..KIF.IQSFCK.LVEV...ILEKTTECISEES.P.DQKL
RetrocopyKEVQDLTMRYQRAVADCENIRRGT<QRCVENSKIFRIQSFCKILVEVS<HILEKTTECISEESDPVDQKL
ParentalTLEKVFRGLLL
TLEKVF.GL.L
RetrocopyTLEKVFQGLSL

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 11 .46 RPM
SRP007412_cerebellum 0 .00 RPM 17 .28 RPM
SRP007412_heart 0 .00 RPM 9 .56 RPM
SRP007412_kidney 0 .03 RPM 10 .93 RPM
SRP007412_liver 0 .00 RPM 4 .62 RPM
SRP007412_testis 0 .00 RPM 13 .81 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_877 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_877 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_877 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_1284
Pongo abelii retro_pabe_1063
Macaca mulatta retro_mmul_1317

Parental genes homology:
Parental genes homology involve 13 parental genes, and 22 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000040701 retrocopy
Dipodomys ordii ENSDORG000000111421 retrocopy
Felis catus ENSFCAG000000036241 retrocopy
Homo sapiens ENSG000001642842 retrocopies
Gorilla gorilla ENSGGOG000000054102 retrocopies
Macaca mulatta ENSMMUG000000216621 retrocopy
Nomascus leucogenys ENSNLEG000000101601 retrocopy
Oryctolagus cuniculus ENSOCUG000000161383 retrocopies
Otolemur garnettii ENSOGAG000000143261 retrocopy
Pongo abelii ENSPPYG000000159332 retrocopies
Pan troglodytes ENSPTRG000000158943 retrocopies
Pan troglodytes ENSPTRG00000017396 2 retrocopies
retro_ptro_3226, retro_ptro_877 ,
Sorex araneus ENSSARG000000054672 retrocopies



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