RetrogeneDB ID:

retro_pvam_1405

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:scaffold_80095:1..496(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MSMO1
Ensembl ID:ENSPVAG00000013707
Aliases:None
Description:methylsterol monooxygenase 1 [Source:HGNC Symbol;Acc:10545]


Retrocopy-Parental alignment summary:






>retro_pvam_1405
ATTGCAACATGGGGATCTCTAGTAGTTCATGAAGCCCTTTATTTCTTGTTCTGTTTACCTGGATTTTTGTTTCAATTTAT
ACCTTACATGAAAAAGGTACAAAATTCAAAAGGATAAACTAGAAACATGGGAAAAACAATGGCAATACCTTAAAGTACTT
CTCTTTAATCACTTTTGTATCCAGCTTCCTTTGATTTGTGGAACTTATTATTTTACAGAGTATTTCAATTCCTTATGATT
GGGAAAGAATGCCAACATGGTATATGCTCTGGACAGGATGGTTTGGTTATGAGATAATTAAGGATACCTGGCACTATTTC
CTAAATAGGCTCTTCTTACACAACAAAAATATATAAGTGTATTCATAAAACTCATCATGAGTTTCAGGCTACATTTGGAA
CGGAAGCTGAATATACACGTCTCTTGGAAACACTAATTCTTGGTACTGGGTTTTTCATTGGAATCATGCTTTTATGTGAT
TACATAGTCTTTTTG

ORF - retro_pvam_1405 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 70.24 %
Parental protein coverage: 56.16 %
Number of stop codons detected: 0
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalIATWGSLIIHEVIYFLFSLPGFLFQFIPYMKK-YKIQKDKPETWEGQWKCFKVLLFNHFCIQFPLICGTY
IATWGSL..HE..YFLF.LPGFLFQFIPYMKK.YKIQKDK.ETWE.QW...KVLLFNHFCIQ.PLICGT.
RetrocopyIATWGSLVVHEALYFLFCLPGFLFQFIPYMKK>YKIQKDKLETWEKQWQYLKVLLFNHFCIQLPLICGT-
ParentalYF-TEYFNIPYDWETMPRWYLLLARCFGCAVIEDTWHYFLHRLLHHK-RIYKYIHKIHHEFQAP-GMEAE
Y.......IPYDWE.MP.WY.L....FG...I.DTWHYFL.RL..H...IYK.IHK.HHEFQA..G.EAE
RetrocopyYY>LQSISIPYDWERMPTWYMLWTGWFGYEIIKDTWHYFLNRLFLHN>KIYKCIHKTHHEFQATFGTEAE
ParentalYAHPLETLILGTGFFMGIILLCDHVVLL
Y...LETLILGTGFF.GI.LLCD..V.L
RetrocopyYTRLLETLILGTGFFIGIMLLCDYIVFL

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_1405 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 16 parental genes, and 22 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000055961 retrocopy
Choloepus hoffmanni ENSCHOG000000075502 retrocopies
Callithrix jacchus ENSCJAG000000093011 retrocopy
Felis catus ENSFCAG000000230041 retrocopy
Homo sapiens ENSG000000528021 retrocopy
Gorilla gorilla ENSGGOG000000157301 retrocopy
Loxodonta africana ENSLAFG000000070611 retrocopy
Macaca mulatta ENSMMUG000000129941 retrocopy
Nomascus leucogenys ENSNLEG000000065011 retrocopy
Oryctolagus cuniculus ENSOCUG000000037691 retrocopy
Otolemur garnettii ENSOGAG000000092812 retrocopies
Pan troglodytes ENSPTRG000000165741 retrocopy
Pteropus vampyrus ENSPVAG00000013707 4 retrocopies
Sorex araneus ENSSARG000000135461 retrocopy
Sarcophilus harrisii ENSSHAG000000001351 retrocopy
Tursiops truncatus ENSTTRG000000128972 retrocopies



Copyright © RetrogeneDB 2014-2017