RetrogeneDB ID:

retro_pvam_870

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:scaffold_14196:27460..27822(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:DUXA
Ensembl ID:ENSPVAG00000003020
Aliases:None
Description:double homeobox A [Source:HGNC Symbol;Acc:32179]


Retrocopy-Parental alignment summary:






>retro_pvam_870
GATCAGTTGAAAAGCCTCATCAAAGCATTCAACCAAAAACCTCACACAGATTATGCTACCAAACAAAAGCTTGCCTTAGA
AATCAACACTGTAGAGTCTAGAGTCCAGATTTAATTTCAGAATTGAAGAGCTAGGCACTGAGTTCAGGAAAAAGCAGAAC
TTGAGGAGACTTAGAAGCAAGCAAAGACCAAGATCACCCTGAAGAGAAGATTTATAGTAGAGAAGACAGATGATGATGTA
ACAGCTACTCTTCCTCCCAATTACACATCCTCATCACTACATTTACAAACAACCCTTATCCTGGGATTGATTCCAGAGAG
TAACTTGCTGAGGAAATTGGGGTTCCAGAGTCAAACGTTCAA

ORF - retro_pvam_870 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 70.49 %
Parental protein coverage: 83.45 %
Number of stop codons detected: 6
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalDQLKILIKAFNQKPYPGYATKQKLALEINTEESRIQVWFQNRRARHRVQKGSEPEK-DSEASQNQDFSED
DQLK.LIKAFNQKP...YATKQKLALEINT.ESR.Q..FQN.RARH.VQ...E.E..D.EAS..QD..E.
RetrocopyDQLKSLIKAFNQKPHTDYATKQKLALEINTVESRVQI*FQN*RARH*VQEKAELEE<DLEASKDQDHPEE
ParentalKIHSRGDRRCRTSYTSFQLYTLITAFTNNPYPGIDSREQLAKEIGVPESRVQ
KI.SR.DR....SY.S.QL..LIT.FTNNPYPGIDSRE.LA.EIGVPES.VQ
RetrocopyKIYSREDR**CNSYSSSQLHILITTFTNNPYPGIDSRE*LAEEIGVPESNVQ

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_870 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 14 parental genes, and 42 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG000000255051 retrocopy
Felis catus ENSFCAG000000075451 retrocopy
Homo sapiens ENSG000002588735 retrocopies
Gorilla gorilla ENSGGOG000000056507 retrocopies
Loxodonta africana ENSLAFG000000301671 retrocopy
Macaca mulatta ENSMMUG000000077885 retrocopies
Nomascus leucogenys ENSNLEG000000108863 retrocopies
Oryctolagus cuniculus ENSOCUG000000113311 retrocopy
Pongo abelii ENSPPYG000000104578 retrocopies
Pan troglodytes ENSPTRG000000288715 retrocopies
Pteropus vampyrus ENSPVAG00000003020 1 retrocopy
retro_pvam_870 ,
Tupaia belangeri ENSTBEG000000053211 retrocopy
Tarsius syrichta ENSTSYG000000142231 retrocopy
Tursiops truncatus ENSTTRG000000142002 retrocopies



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