RetrogeneDB ID:

retro_pvam_1331

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:scaffold_62410:902..1175(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:COX6B1
Ensembl ID:ENSPVAG00000012821
Aliases:None
Description:cytochrome c oxidase subunit VIb polypeptide 1 (ubiquitous) [Source:HGNC Symbol;Acc:2280]


Retrocopy-Parental alignment summary:






>retro_pvam_1331
TCACGAGTCAGCAATATGGCAGGAGACATCAAGACCCAAATCAAGAACTATCAGGCTGTGCCTTTTGACAGCCACTTCCC
CATCCAGAACCAGACCAGGAACTGGTGGAGAACTACCTGGACTTCCACCACTGTGAGAAGGCAATGACCACTTTAGGGGG
TGATGTCTCCATGTGCAAATGGTACCAACGTGTGTACAAGTCCCTCTGCCCCACATCCTGGATATCGGCCCTGGGACGAC
CACTAGACAGAAGATATGTTTCCTGGGAAAATC

ORF - retro_pvam_1331 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.19 %
Parental protein coverage: 88.35 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalSRVSNMAEDIKTKIKNYQTAPFDSRFPNQNQTRNCW-QNYLDFHRCEKAMTAKGGDVSVCEWYRRVYKSL
SRVSNMA.DIKT.IKNYQ..PFDS.FP.QNQTRN.W..NYLDFH.CEKAMT..GGDVS.C.WY.RVYKSL
RetrocopySRVSNMAGDIKTQIKNYQAVPFDSHFPIQNQTRNWW<ENYLDFHHCEKAMTTLGGDVSMCKWYQRVYKSL
ParentalCPISWVST-WDDRRAEGTFPGKI
CP.SW.S..WDD...E..FPGKI
RetrocopyCPTSWISA>WDDH*TEDMFPGKI

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_1331 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 23 parental genes, and 83 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000005633 retrocopies
Canis familiaris ENSCAFG000000069137 retrocopies
Callithrix jacchus ENSCJAG000000102115 retrocopies
Equus caballus ENSECAG000000123173 retrocopies
Felis catus ENSFCAG000000063785 retrocopies
Homo sapiens ENSG000001262675 retrocopies
Microcebus murinus ENSMICG000000099025 retrocopies
Myotis lucifugus ENSMLUG000000113654 retrocopies
Macaca mulatta ENSMMUG000000167655 retrocopies
Monodelphis domestica ENSMODG000000139621 retrocopy
Mustela putorius furoENSMPUG000000062581 retrocopy
Mus musculus ENSMUSG000000367511 retrocopy
Nomascus leucogenys ENSNLEG000000112835 retrocopies
Oryctolagus cuniculus ENSOCUG000000096062 retrocopies
Otolemur garnettii ENSOGAG000000041484 retrocopies
Oryzias latipes ENSORLG000000060701 retrocopy
Pan troglodytes ENSPTRG000000108544 retrocopies
Pteropus vampyrus ENSPVAG00000012821 8 retrocopies
Rattus norvegicus ENSRNOG000000243091 retrocopy
Sorex araneus ENSSARG000000107711 retrocopy
Sus scrofa ENSSSCG000000029072 retrocopies
Tarsius syrichta ENSTSYG000000145638 retrocopies
Tursiops truncatus ENSTTRG000000022412 retrocopies



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