RetrogeneDB ID:

retro_pvam_406

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_2980:59740..60067(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CHURC1
Ensembl ID:ENSPVAG00000011384
Aliases:None
Description:churchill domain containing 1 [Source:HGNC Symbol;Acc:20099]


Retrocopy-Parental alignment summary:






>retro_pvam_406
ATGTGTGGGGACTGCGTGGAGAAGAAATATCCAAACTAGGGTAACAACAGCCTGGAAGATGGATATTTCCTGCTGAACTT
TACAGAATGTACAGTGTGTAGTATGTGAGATTTTATGCTGATCACAAACAAATTTTTGAAAGTGGAAGATGAAGAAATAG
TTACTTATGATCATCTGTGTAAGAATTGTTATCACAGGAGGCATGAGTATACATTCAGTATCATGAATGAGTTTCAGGAG
TATACCATGCTGTGTCTGTTATGTGGCAAAGCTGATGATACCGTCAGTATTCTCCTTGATGACCCCTGACAAATGACTCT
GTTATTT

ORF - retro_pvam_406 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.88 %
Parental protein coverage: 100. %
Number of stop codons detected: 3
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMCGDCVEKEYPNRGNICLENGSFLLNFTGCAVCNKRDFMLITNKSLKEEDGEEIVTYDPDLCKNCHHVVA
MCGDCVEK.YPN.GN..LE.G.FLLNFT.C.VC...DFMLITNK.LK.ED.EEIVTYD..LCKNC.H...
RetrocopyMCGDCVEKKYPN*GNNSLEDGYFLLNFTECTVCSM*DFMLITNKFLKVED-EEIVTYD-HLCKNCYH--R
ParentalRHEYTFSIMDEFQEYTMLCLLCGKAEDTISILPDDPRQMTLLF
RHEYTFSIM.EFQEYTMLCLLCGKA.DT.SIL.DDP.QMTLLF
RetrocopyRHEYTFSIMNEFQEYTMLCLLCGKADDTVSILLDDP*QMTLLF

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_406 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 5 parental genes, and 5 retrocopies.

Species Parental gene accession Retrocopies number
Myotis lucifugus ENSMLUG000000043001 retrocopy
Monodelphis domestica ENSMODG000000096641 retrocopy
Mustela putorius furoENSMPUG000000067921 retrocopy
Oryctolagus cuniculus ENSOCUG000000018381 retrocopy
Pteropus vampyrus ENSPVAG00000011384 1 retrocopy
retro_pvam_406 ,



Copyright © RetrogeneDB 2014-2017