RetrogeneDB ID:

retro_pvam_141

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_1592:85440..85712(-)
Located in intron of:ENSPVAG00000000930
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:UBE2B
Ensembl ID:ENSPVAG00000012430
Aliases:None
Description:ubiquitin-conjugating enzyme E2B [Source:HGNC Symbol;Acc:12473]


Retrocopy-Parental alignment summary:






>retro_pvam_141
ACTCCCACCCAGAGGAGGCTCATGCGGGATTTCAAGTGGTTGCAACAGGACTCACCTATGGTGTCAGTGGCACATCATCT
GAAAATAACATGCAGTAGAATGCAGTTATATTTTGATCAGAAGGGACACTCTTTGAAGATAGTGCTTTAAAACAAGTAAT
AAAATTTTCTGAAGAATATCCAAATAAACCACCAACTGTTAGGTGCTTATCCAAAATATTTTATCCAAATATGTATGCTG
GTGATAGCATATGTTTAGATATCCTTCAGAAT

ORF - retro_pvam_141 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 73.12 %
Parental protein coverage: 60.53 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalTPARRRLMRDFKRLQEDPPV-GVSGAPSENNIMQWNAVIFGPEGTPFEDGTFKLVIEFSEEYPNKPPTVR
TP..RRLMRDFK.LQ.D.P..GVSG..SENN.MQ.NAVIF..EGT.FED...K.VI.FSEEYPNKPPTVR
RetrocopyTPTQRRLMRDFKWLQQDSPM<GVSGTSSENN-MQ*NAVIF*SEGTLFEDSALKQVIKFSEEYPNKPPTVR
ParentalFLSKMFHPNVYADGSICLDILQN
.LSK.F.PN.YA..SICLDILQN
RetrocopyCLSKIFYPNMYAGDSICLDILQN

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Pteropus vampyrus was not studied using RNA-Seq expression data.
Pteropus vampyrus was not studied using ChIP-Seq data.
Pteropus vampyrus was not studied using EST data.
Pteropus vampyrus was not studied using FANTOM5 data.
retro_pvam_141 was not experimentally validated.

Retrocopy orthology:
Pteropus vampyrus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 13 parental genes, and 45 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000010192 retrocopies
Dipodomys ordii ENSDORG000000025251 retrocopy
Echinops telfairi ENSETEG000000065222 retrocopies
Macropus eugenii ENSMEUG000000047401 retrocopy
Myotis lucifugus ENSMLUG000000129104 retrocopies
Monodelphis domestica ENSMODG000000142091 retrocopy
Mus musculus ENSMUSG000000203901 retrocopy
Ochotona princeps ENSOPRG000000066681 retrocopy
Pteropus vampyrus ENSPVAG00000012430 1 retrocopy
retro_pvam_141 ,
Sarcophilus harrisii ENSSHAG000000161432 retrocopies
Tupaia belangeri ENSTBEG0000001029426 retrocopies
Tarsius syrichta ENSTSYG000000111482 retrocopies
Tursiops truncatus ENSTTRG000000168611 retrocopy



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