RetrogeneDB ID:

retro_pvam_1176

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:scaffold_36912:2216..2584(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS25
Ensembl ID:ENSPVAG00000012492
Aliases:None
Description:ribosomal protein S25 [Source:HGNC Symbol;Acc:10413]


Retrocopy-Parental alignment summary:






>retro_pvam_1176
ATGCTGCCCAAGGATGACAAGAAGAAGAAAGATGCCAGAAAGTCAGCCAAAAAAGACAAAGACCCAGTGAACTAATCTGG
GGGCAAGGCCAAAAAGAAGAAGTGGTCCAAAGGCAAATTTCAAGATAAGCTTAATAACCTAGTCTTGTTTGATAAAACGA
CATATGACAATCCCTGTAAAGGAGTTCCCAACTATAAGCTTATAACCCCAGATGTTGTCTCTGAGAGATTGAAGATGCAA
GGTTCCTTGGCCAGGGCAGCTCTTCAGGAGCTCCTTAGTAAAGGCTTTATTAAACCAGTTCAAAGCACAGAGCTTATGTA
GTTTACACTGGAAACACCAACAGTGGGGATGCCCCAGCTGCTGATGAG

ORF - retro_pvam_1176 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 83.06 %
Parental protein coverage: 98.4 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMPPKDDKKKKDAGKSAKKDKDPVNKSGGKAKKKKWSKGKVRDKLNNLVLFDKATYDKLCKEVPNYKLITP
M.PKDDKKKKDA.KSAKKDKDPVN.SGGKAKKKKWSKGK..DKLNNLVLFDK.TYD..CK.VPNYKLITP
RetrocopyMLPKDDKKKKDARKSAKKDKDPVN*SGGKAKKKKWSKGKFQDKLNNLVLFDKTTYDNPCKGVPNYKLITP
ParentalAVVSERLKIRGSLARAALQELLSKGLIKLV-SKHRAQVIYTRNTKGGDAPAAGE
.VVSERLK..GSLARAALQELLSKG.IK.V.SKHRA.V.YT.NT..GDAPAA.E
RetrocopyDVVSERLKMQGSLARAALQELLSKGFIKPV<SKHRAYVVYTGNTNSGDAPAADE

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_1176 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 6 parental genes, and 40 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000277722 retrocopies
Callithrix jacchus ENSCJAG000000136911 retrocopy
Dasypus novemcinctus ENSDNOG000000078807 retrocopies
Mus musculus ENSMUSG0000000992715 retrocopies
Otolemur garnettii ENSOGAG000000072653 retrocopies
Pteropus vampyrus ENSPVAG00000012492 12 retrocopies



Copyright © RetrogeneDB 2014-2017