RetrogeneDB ID:

retro_ptro_3141

Retrocopy
location
Organism:Chimpanzee (Pan troglodytes)
Coordinates:X:84920284..84920503(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:UBE2D2
Ensembl ID:ENSPTRG00000017303
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_ptro_3141
ATGGCCCTAAAGCTCATCCACAAGGAGTTCCTCGAACTGGCCCGCGACCCCCAGCCCCACTGCTCAGCAGGGCCAGTGTG
GGACGATATGCTCCACTGGCAGGCCACCATAACGAGGCCCAACGACAGCTCCTACCTGGGAGGGGTCTTCTTCCTAAAGT
TTCCCTCCGACTACCTATTCAAACCACCCAAGATCAAATTTACCAACGGAATTTGCCAT

ORF - retro_ptro_3141 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69.33 %
Parental protein coverage: 51.02 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYPFKPPKVAFT
MALK.IHKE...LARDP...CSAGPV.DDM.HWQATI..PNDS.Y.GGVFFL...FP.DY.FKPPK..FT
RetrocopyMALKLIHKEFLELARDPQPHCSAGPVWDDMLHWQATITRPNDSSYLGGVFFL--KFPSDYLFKPPKIKFT
ParentalTRIYH
..I.H
RetrocopyNGICH

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 60 .20 RPM
SRP007412_cerebellum 0 .00 RPM 56 .00 RPM
SRP007412_heart 0 .00 RPM 46 .87 RPM
SRP007412_kidney 0 .00 RPM 52 .33 RPM
SRP007412_liver 0 .00 RPM 48 .87 RPM
SRP007412_testis 3 .79 RPM 226 .89 RPM
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_3141 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_3141 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_ptro_3141 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 24 parental genes, and 79 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000021831 retrocopy
Ailuropoda melanoleuca ENSAMEG000000112166 retrocopies
Bos taurus ENSBTAG000000041616 retrocopies
Canis familiaris ENSCAFG000000310415 retrocopies
Ciona intestinalis ENSCING000000187112 retrocopies
Ciona savignyi ENSCSAVG000000061361 retrocopy
Erinaceus europaeus ENSEEUG000000146583 retrocopies
Echinops telfairi ENSETEG000000012913 retrocopies
Gorilla gorilla ENSGGOG000000013682 retrocopies
Loxodonta africana ENSLAFG000000068782 retrocopies
Macaca mulatta ENSMMUG000000206663 retrocopies
Monodelphis domestica ENSMODG000000117832 retrocopies
Mustela putorius furoENSMPUG000000091105 retrocopies
Mus musculus ENSMUSG000000918963 retrocopies
Ornithorhynchus anatinus ENSOANG000000054151 retrocopy
Oryctolagus cuniculus ENSOCUG0000002944810 retrocopies
Pongo abelii ENSPPYG000000158446 retrocopies
Pan troglodytes ENSPTRG000000141141 retrocopy
Pan troglodytes ENSPTRG000000146931 retrocopy
Pan troglodytes ENSPTRG00000017303 3 retrocopies
retro_ptro_26, retro_ptro_3141 , retro_ptro_341,
Pteropus vampyrus ENSPVAG000000154381 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000134816 retrocopies
Tupaia belangeri ENSTBEG000000002705 retrocopies
Tarsius syrichta ENSTSYG000000054591 retrocopy



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