RetrogeneDB ID:

retro_pvam_1039

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:scaffold_24245:58..766(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RNF115
Ensembl ID:ENSPVAG00000014487
Aliases:None
Description:ring finger protein 115 [Source:HGNC Symbol;Acc:18154]


Retrocopy-Parental alignment summary:






>retro_pvam_1039
ACACATTTTGCAGAGTTCTGGTGCAATTCGAACCTCAGTATGATTATACAGGATTTTAGGCAATTTCTAAGTAGCAATCT
ACTGGACTAAAATAATAGAGCCAATGAGAGAGGTCACCAAACTCACACTGACTCTGGGGACCAAGTTGGCCTTCAAGTTG
CCAGTGACTGGGAGATAAAGATCAGAAGGAAGTACTCATCCCAGTAGATCTCCAGCTATTGAAAGAATAATACAACAGTT
CTTTGCTGGAGTCTTTGCAAATTCTGCAGTTCCTGGGTCCCCACACCCTTTTTCCTGGAGGAGGATGCTGCACTCCAGCC
CTGGGGACTATGCCTGGGGTTACACAGAGCTTGATGCCCTCGTAACCCAGTTTTTAAGACAACTGGAAAACACAGGGCCT
CCACAACCTGACAAGGGGAAGATCACAGCTCTTCCAACAGTGACAGTAACTCAGGAGCAAGTCGATATGTGTTTAGAGTG
TTCGGTATGCAAAGAAGATTACACAGTTGAAGAGGAAGTCGGCAGTTACCCTGCAGCCACATCTTTCAGAGCAGTTGTAT
TGTGCCATGGTTAGAACTGCATGATACATGTTCTATATGCGGGCAGAGCTGAAATGGTGAGCACACTACTTGGCAAAGCC
GGAGCTCTGAGTGTTCTGCAGGCAACAGATTTAGCAGTGACAGCCAACTACAGGAGTGATGGACTTTC

ORF - retro_pvam_1039 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.83 %
Parental protein coverage: 77.7 %
Number of stop codons detected: 4
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalTHFAEFWRNLDHTMIIQDFRPFLSSNPLDQDNRASERGHQTHTD-FWGPSRPP-RLPMTRRYRSQGSTRP
THFAEFW.N....MIIQDFR.FLSSN.LD..NRA.ERGHQTHTD..WGPS.P...LP.T.R.RS.GST.P
RetrocopyTHFAEFWCNSNLSMIIQDFRQFLSSNLLD*NNRANERGHQTHTD<LWGPSWPS<KLPVTGR*RSEGSTHP
ParentalDRSPAIEGIIQQFFAGFFANSAVPGSPHPLSWSGLLHSNPGDYAWGQTGLDAIVTQLLGQLENTGPPPAD
.RSPAIE.IIQQFFAG.FANSAVPGSPHP.SW...LHS.PGDYAWG.T.LDA.VTQ.L.QLENTGPP..D
RetrocopySRSPAIERIIQQFFAGVFANSAVPGSPHPFSWRRMLHSSPGDYAWGYTELDALVTQFLRQLENTGPPQPD
ParentalKEKITSLPTVTVTQEQVDTGLECSVCKEDYTVGEEV-RQLPCNHFFHSSCIVPWLELHDTCPICRKSLNG
K.KIT.LPTVTVTQEQVD..LECSVCKEDYTV.EEV.RQLPC.H.F.SSCIVPWLELHDTC.IC..S.NG
RetrocopyKGKITALPTVTVTQEQVDMCLECSVCKEDYTVEEEV<RQLPCSHIFQSSCIVPWLELHDTCSICGQS*NG
ParentalEDSTWQTQSSEASASNRFSSDSQLHDRWTF
E..TWQ..SSE.SA.NRFSSDSQL...WTF
RetrocopyEHTTWQSRSSECSAGNRFSSDSQLQE*WTF

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_1039 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 18 retrocopies.

Species Parental gene accession Retrocopies number
Equus caballus ENSECAG000000090301 retrocopy
Macropus eugenii ENSMEUG000000025001 retrocopy
Oryctolagus cuniculus ENSOCUG000000030551 retrocopy
Pteropus vampyrus ENSPVAG00000014487 13 retrocopies
Tarsius syrichta ENSTSYG000000048672 retrocopies



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