RetrogeneDB ID:

retro_pvam_901

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:scaffold_15817:26397..27086(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:CLIC5
Ensembl ID:ENSPVAG00000006075
Aliases:None
Description:chloride intracellular channel 5 [Source:HGNC Symbol;Acc:13517]


Retrocopy-Parental alignment summary:






>retro_pvam_901
CTCTTCGTCAAGGCTGGCAGTGATGGTAAAAGCCTAGGAAACTGCCCCTTTTCCCAGGCACTCTTCATGATTCTTTAGCT
CAAAGAAGTTGTATTTAGTGTTGCTACCATGGACCTGAAAAGAAAGCCTGTAGATCTGCAGAGCTTGACTACTGGGACCC
ACCCATCATTTATAACTTACAACGATGAAGTCAAAACGGATGTAAATAAGACTGAAGAATTTCTTGAAGGAGGCATATGC
CCTCCCAAGTACTTAAAAGCTTTCATCGAAATACTCAGAATTGAATAATGCTGGAATGGACATCTTTGCCAAATTTTCTG
CATATATTAAGAATTCAAGACCAGAGGCTAATGAAGCATTGGAGAGGGACCTCTTGAAAACACTACAGAAACTGGATAAA
TATCTGATTTCTCCCCTCCCTGATGAAATTGCTGAGAATAGTATGGGAAATGCTACAAGTTTTCCACACGTAAATTTCTG
GATGGTAATGAAATGACATGGCTAATTGCAACCTGCTGCCCAAACTGCACATTGTCAAGGTGGTGGCCAAAAAATATCAC
AACTTTGATATTCCAAAAGCATGACTGGCCATCTGTAGATACTTAACTAATGCTTATAGTAGGGATGAGTTCACAAATAC
CTGTCCCAGTGATAAGGAGGTTGAAATAGCGTATAGTGATGTAACCAAG

ORF - retro_pvam_901 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 60.52 %
Parental protein coverage: 56.37 %
Number of stop codons detected: 2
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalLFVKAGIDGESIGNCPFSQRLFMILWLKGVVFNVTTVDLKRKPADLHNLAPGTHPPFLTFNGDVKTDVNK
LFVKAG.DG.S.GNCPFSQ.LFMIL.LK.VVF.V.T.DLKRKP.DL..L..GTHP.F.T.N..VKTDVNK
RetrocopyLFVKAGSDGKSLGNCPFSQALFMIL*LKEVVFSVATMDLKRKPVDLQSLTTGTHPSFITYNDEVKTDVNK
ParentalIEEFLEETLTPEKYP-RLAAKHRGSNTAGIDIFSKFSAYIKNTKQQNNAALERGLTKALKELDDYLNTPL
.EEFLE....P.KY...L..K....N.AG.DIF.KFSAYIKN.....N.ALER.L.K.L..LD.YL..PL
RetrocopyTEEFLEGGICPPKYL>KLSSKYSELNNAGMDIFAKFSAYIKNSRPEANEALERDLLKTLQKLDKYLISPL
ParentalPEEIDANTHGDDD-KRSRRKFLDGDELT-LADCNLLPKLHVVQIVSRKYRNYNFPAEMTGLWRYLKNAYA
P.EI..N..G....K.S.RKFLDG.E.T..A.CNLLPKLH.V..V..KY.N...P.......RYL.NAY.
RetrocopyPDEIAENSMGNAT<KFSTRKFLDGNEMT<MANCNLLPKLHIVKVVAKKYHNFDIPKA*LAICRYLTNAYS
ParentalRDEFTNTCAADSEIELAYADVAK
RDEFTNTC..D.E.E.AY.DV.K
RetrocopyRDEFTNTCPSDKEVEIAYSDVTK

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_901 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 3 retrocopies.

Species Parental gene accession Retrocopies number
Pteropus vampyrus ENSPVAG000000058381 retrocopy
Pteropus vampyrus ENSPVAG00000006075 1 retrocopy
retro_pvam_901 ,
Tupaia belangeri ENSTBEG000000073441 retrocopy



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