RetrogeneDB ID:

retro_pvam_579

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_3874:1272708..1273091(-)
Located in intron of:ENSPVAG00000012277
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CMTM3
Ensembl ID:ENSPVAG00000013762
Aliases:None
Description:CKLF-like MARVEL transmembrane domain containing 3 [Source:HGNC Symbol;Acc:19174]


Retrocopy-Parental alignment summary:






>retro_pvam_579
GTCTCGCTCATCTTCTTCATCACCTACCTGATGTCCTTGCCAGCTACCTTCCTCCCCGGACCAGGCCGGAGTTTCTGCTG
GCCTTCTACTTCCTCTTTATTGATGCCATGCATCTGAAAGACACATGCCAGAGCTTGTGCTAGGCCATGAGGGACGTCTT
GCCTTGTGTCATGGCAGCCCTCATCTGCTTCACCATCTCCACCACCGCGATTGCCAAATCCTCAGACGGAGCTTCTAAAG
CAACAGGAGTATTGGATTTCTTTGCTGCCATCATGTTTGCAACTGACTTCTACCTGACTTTGAAGAATAAGGCCAAATTC
CTCCAATGAGGGGTCTCTGCAGGCGACACCATAGCAGACAAGGTAGAAGGAAAGAATTCTGAC

ORF - retro_pvam_579 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 55.81 %
Parental protein coverage: 96.24 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalLSFITFVCYVASSASAFLTAP-LLEFLLALFFLFADAMQLNDKWQGLCWPMMDFLRCVTAALIYFAISIT
.S.I.F..Y..S....FL..P...EFLLA..FLF.DAM.L.D..Q.LC..M.D.L.CV.AALI.F.IS.T
RetrocopyVSLIFFITYLMSLPATFLPGP<RPEFLLAFYFLFIDAMHLKDTCQSLC*AMRDVLPCVMAALICFTISTT
ParentalAVAKYSDGASKAAGVFGFFATIVFAIDFYLIFNDVAKFLKQGDSTDETTANKAEEENSD
A.AK.SDGASKA.GV..FFA.I.FA.DFYL.....AKFL..G.S...T.A.K.E..NSD
RetrocopyAIAKSSDGASKATGVLDFFAAIMFATDFYLTLKNKAKFLQ*GVSAGDTIADKVEGKNSD

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_579 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 3 parental genes, and 4 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000476541 retrocopy
Pteropus vampyrus ENSPVAG000000117702 retrocopies
Pteropus vampyrus ENSPVAG00000013762 1 retrocopy
retro_pvam_579 ,



Copyright © RetrogeneDB 2014-2017