RetrogeneDB ID:

retro_pvam_177

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_1755:102806..103322(-)
Located in intron of:ENSPVAG00000013370
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS4X
Ensembl ID:ENSPVAG00000012882
Aliases:None
Description:ribosomal protein S4, X-linked [Source:HGNC Symbol;Acc:10424]


Retrocopy-Parental alignment summary:






>retro_pvam_177
ATTGACAAGACCAGAGAGAATTTCCATTTGGTCTATAACACTAAAGGTTGCTTTGCTGTTCATCGGATTACACTTGAGGA
GGCAAAGTACAAGTTATGCAAAGTGAGAAAGACTTTTGTGAGCACAAAAGGAATCTCTCATCTGGTGATTCATGATGCTG
GCACCATCCGCTACCCCAATCCCCTCATCAAAGTGAACAACACCATTCAAATTGATTTGGAGACTGGCAAAATTACTGAT
TTCACAAAGTTTGACACTGGTAACCTGTATTTGGTGACTGGAGATGCTAACTTGGGAAGAACTGGTGTGATTACCAACAG
AGAGAGACACCCTGGCTCTTGTGATGTAGTTCATGTGAAAAATGCCAATGGCAACAGCTTTGCTACCCAGCTCTCCAACA
TTTTCATTATTGGCAAAGGCAACAAACCATGGATTTCTCTTCCCCATGGCAAGGGTATCCATCTCACCATTGCCAAAGAG
AGAGACAAGAGACTGGCAGCCAAACAGAGCAATGGG

ORF - retro_pvam_177 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.47 %
Parental protein coverage: 65.4 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalIDKTGENFRLVYDTKGRFAVHRITTEEAKYKLCKVRKIFVGTKGIPHLVTHDARTIRYPDPLIKVNDTIQ
IDKT.ENF.LVY.TKG.FAVHRIT.EEAKYKLCKVRK.FV.TKGI.HLV.HDA.TIRYP.PLIKVN.TIQ
RetrocopyIDKTRENFHLVYNTKGCFAVHRITLEEAKYKLCKVRKTFVSTKGISHLVIHDAGTIRYPNPLIKVNNTIQ
ParentalIDLETGKITDFIKFDTGNLCMVTGGANLGRIGVITNRERHPGSFDVVHVKDANGNSFATRLSNIFVIGKG
IDLETGKITDF.KFDTGNL..VTG.ANLGR.GVITNRERHPGS.DVVHVK.ANGNSFAT.LSNIF.IGKG
RetrocopyIDLETGKITDFTKFDTGNLYLVTGDANLGRTGVITNRERHPGSCDVVHVKNANGNSFATQLSNIFIIGKG
ParentalNKPWISLPRGKGIRLTIAEERDKRLAAKQSSG
NKPWISLP.GKGI.LTIA.ERDKRLAAKQS.G
RetrocopyNKPWISLPHGKGIHLTIAKERDKRLAAKQSNG

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_177 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 22 parental genes, and 159 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000146011 retrocopy
Ailuropoda melanoleuca ENSAMEG0000000580514 retrocopies
Bos taurus ENSBTAG000000188005 retrocopies
Canis familiaris ENSCAFG000000171512 retrocopies
Callithrix jacchus ENSCJAG000000041922 retrocopies
Cavia porcellus ENSCPOG000000063373 retrocopies
Equus caballus ENSECAG000000108526 retrocopies
Felis catus ENSFCAG0000001204111 retrocopies
Homo sapiens ENSG000001298241 retrocopy
Gorilla gorilla ENSGGOG0000002307918 retrocopies
Meleagris gallopavo ENSMGAG000000096711 retrocopy
Myotis lucifugus ENSMLUG000000116855 retrocopies
Macaca mulatta ENSMMUG000000032957 retrocopies
Monodelphis domestica ENSMODG000000110701 retrocopy
Mustela putorius furoENSMPUG0000000529411 retrocopies
Mus musculus ENSMUSG0000003132013 retrocopies
Otolemur garnettii ENSOGAG000000118082 retrocopies
Pongo abelii ENSPPYG0000002046224 retrocopies
Pan troglodytes ENSPTRG000000220259 retrocopies
Pan troglodytes ENSPTRG000000224701 retrocopy
Pteropus vampyrus ENSPVAG00000012882 21 retrocopies
Rattus norvegicus ENSRNOG000000032011 retrocopy



Copyright © RetrogeneDB 2014-2017