RetrogeneDB ID:

retro_pvam_458

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_3247:166741..167078(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:KIAA1143
Ensembl ID:ENSPVAG00000012438
Aliases:None
Description:KIAA1143 [Source:HGNC Symbol;Acc:29198]


Retrocopy-Parental alignment summary:






>retro_pvam_458
ATGAGCAAATGGAACTAGGTGTCGAACGTGTGGCTAGCTGAGCCGGCATTCCTGGCCGGCTTCGAGGAACTGCGGGTTAC
GAGAAGAGCCCGTAACCAAGAGAATCTAGCCTCAGCTCTCAGATGGAAATTGCGATCACAGTGACAAAGAAGATAAACAG
CCCCAAATGGTAATTTTAAAAAAGGGAGACCTATAAGTTGAAGAAGTCATGAAAATTAAAGCAGAAATAAAAACTGCCAA
AGCAGATGAAGAACCAGCATCAGTTGATGGAAGAGCCATGTGCAGAAAACCAGTCAAGCATTCCCAAGATAAAAAATATT
CAGGTTTAACAGTAAGC

ORF - retro_pvam_458 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 70.09 %
Parental protein coverage: 74.19 %
Number of stop codons detected: 3
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMSKRNQVSYVRPAEPAFLA-RFKERVGY-REGPTVETKRIQPQLPDEDGDHSDKEDEQPQVVVLKKGDLS
MSK.N.VS.V..AEPAFLA.R.....GY.RE.P...TKRI.PQL.D...DHSDKED.QPQ.V.LKKGDL.
RetrocopyMSKWN*VSNVWLAEPAFLA<RLRGTAGY<REEPV--TKRI*PQLSDGNCDHSDKEDKQPQMVILKKGDL*
ParentalAEEAMKIKAEIKAAKADEEPASADGRIMYRKPVKRSSDEKYSGLTAS
.EE.MKIKAEIK.AKADEEPAS.DGR.M.RKPVK.S.D.KYSGLT.S
RetrocopyVEEVMKIKAEIKTAKADEEPASVDGRAMCRKPVKHSQDKKYSGLTVS

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_458 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 9 parental genes, and 13 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000141321 retrocopy
Homo sapiens ENSG000001638072 retrocopies
Nomascus leucogenys ENSNLEG000000059871 retrocopy
Oryctolagus cuniculus ENSOCUG000000009292 retrocopies
Pongo abelii ENSPPYG000000139541 retrocopy
Pan troglodytes ENSPTRG000000148241 retrocopy
Pteropus vampyrus ENSPVAG00000012438 2 retrocopies
retro_pvam_367, retro_pvam_458 ,
Sus scrofa ENSSSCG000000113082 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000108171 retrocopy



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