RetrogeneDB ID:

retro_pabe_30

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:X:83301813..83302047(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSPPYG00000020515
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:UBE2D2
Ensembl ID:ENSPPYG00000015844
Aliases:None
Description:ubiquitin-conjugating enzyme E2D 2 [Source:HGNC Symbol;Acc:12475]


Retrocopy-Parental alignment summary:






>retro_pabe_30
ATGGCCCTAAAGCTCATCCACAAGGAGTTCCTCGACCTGGCCCGCGACCCCCAGCCCCACTGCTCAGCAGGGCCAGTGTG
GGACGATACGCTCCACTGTCAGGCCACCATAACGAGGCCCAACTACAGCTCCTACCTGGGAGGGGTCTTCTTCCTAAATA
TCCAGTTTCCCTCCGACTACCTATTCAAACCACCCAAGATCAAATTTACCAACGGAATTTACCATCAACATTAA

ORF - retro_pabe_30 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..DLARDP...CSAGPV.DD..H.QATI..PN.S.Y.GGVFFL.I.FP.DY.FKPPK..FT
RetrocopyMALKLIHKEFLDLARDPQPHCSAGPVWDDTLHCQATITRPNYSSYLGGVFFLNIQFPSDYLFKPPKIKFT
ParentalTRIYH
..IYH
RetrocopyNGIYH

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 23 .00 RPM
SRP007412_cerebellum 0 .00 RPM 17 .27 RPM
SRP007412_heart 0 .00 RPM 13 .00 RPM
SRP007412_kidney 0 .03 RPM 16 .57 RPM
SRP007412_liver 0 .00 RPM 11 .93 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_30 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_30 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_30 has 3 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_4723
Macaca mulatta retro_mmul_2514
Rattus norvegicus retro_rnor_345

Parental genes homology:
Parental genes homology involve 26 parental genes, and 81 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 ENSPPYG000000116021 retrocopy
Pongo abelii ENSPPYG000000129871 retrocopy
Pongo abelii ENSPPYG000000149671 retrocopy
Pongo abelii ENSPPYG00000015844 6 retrocopies
Pongo abelii ENSPPYG000000297271 retrocopy
Pan troglodytes ENSPTRG000000173033 retrocopies
Pteropus vampyrus ENSPVAG000000154381 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000134816 retrocopies
Tupaia belangeri ENSTBEG000000002705 retrocopies
Tarsius syrichta ENSTSYG000000054591 retrocopy



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