RetrogeneDB ID:

retro_pvam_1455

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:scaffold_91108:40..318(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:AP4S1
Ensembl ID:ENSPVAG00000017161
Aliases:None
Description:adaptor-related protein complex 4, sigma 1 subunit [Source:HGNC Symbol;Acc:575]


Retrocopy-Parental alignment summary:






>retro_pvam_1455
AAAGTCATGAAGAGCAATCTCCCTTGATCCAATGATCGACGCTCTTTCACTGAATGTAGGGACTTTAAGCTGATGTGTCG
GAAATACGCCAGCTCCCTTCACTGTGGCCGGAGTTGATGACACTGAGAATGAGATGGTGATTTATGAATTCGTCCATAAC
TCTTGTCAAGTTGTAGACAACAACTTCAGCCAGGTGAGTGAATTAAATGGTTAATTTAGGTAAAGTACACATATTTTGGA
TGAGATGGTGTTATATGGCTGCACTGTGGCAACGACCT

ORF - retro_pvam_1455 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 51.58 %
Parental protein coverage: 58.86 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalEVIKSCLSRSNEQCSFIEYKDFKLVYRQYA-ALFIVVGVNDTENEMAIYEFIHNFVEVLDEYFSRVSELD
.V.KS.L..SN...SF.E..DFKL..R.YA.A.F.V.GV.DTENEM.IYEF.HN...V.D..FS.VSEL.
RetrocopyKVMKSNLP*SNDRRSFTECRDFKLMCRKYA>APFTVAGVDDTENEMVIYEFVHNSCQVVDNNFSQVSELN
Parental-VSFNAVSQVFRSTWQTQASLDQEP
.V....V...F...W...A.L.Q.P
Retrocopy>VNLGKV-HIFWMRWCYMAALWQRP

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_1455 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 17 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000133014 retrocopies
Dipodomys ordii ENSDORG000000094681 retrocopy
Erinaceus europaeus ENSEEUG000000130091 retrocopy
Homo sapiens ENSG000001004781 retrocopy
Gorilla gorilla ENSGGOG000000031981 retrocopy
Macaca mulatta ENSMMUG000000031231 retrocopy
Monodelphis domestica ENSMODG000000175791 retrocopy
Nomascus leucogenys ENSNLEG000000159011 retrocopy
Ornithorhynchus anatinus ENSOANG000000140311 retrocopy
Pongo abelii ENSPPYG000000057231 retrocopy
Pan troglodytes ENSPTRG000000062391 retrocopy
Pteropus vampyrus ENSPVAG000000102181 retrocopy
Pteropus vampyrus ENSPVAG00000017161 1 retrocopy
retro_pvam_1455 ,
Ictidomys tridecemlineatus ENSSTOG000000107591 retrocopy



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