RetrogeneDB ID:

retro_pvam_703

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_848:15248..16418(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:PRIM1
Ensembl ID:ENSPVAG00000008017
Aliases:None
Description:primase, DNA, polypeptide 1 (49kDa) [Source:HGNC Symbol;Acc:9369]


Retrocopy-Parental alignment summary:






>retro_pvam_703
AAGCTTTATTACCAGAGGCTCCTATCCTACACCCAGTACTATCACTGGCTCAATTATGGTGGAATGATAAAGGATTACTT
TCAACACCATGCATTTTCATTCACAGTGAAAGATGATATTTACATTCACTACCAATTCTTCATCAACCAGAGCGATCTGG
AAAAGGGGATGCAGAAAATGAATCCATATAAGGTTGATATAGGCATGGTATATTCCCACAGACTCAATCAACACGATACA
GTGAAGCTGGGAGCTTTTCGGACTCAGAAAAAACTGATGTTTGATATTGACATGACAGACTGTGATGACGTGAGAAGAGG
TAGCAGTTCTGCAGACATGTGTTCTAAGTGCTAGACCTTCATGACAATGGCTGTACATATCATCGACCAAGCACTGAAGG
AAGCCTTGAGATTTAAGTGTCATGTCTGAATATATTCTGAAAGAAGAGGTGTTTGTTGTTGGGTCTGTGATGAATCAATT
AGAAAATAGTGCTCTGCAGCACATTCTGGGATAATTGAATATTTGAGTCTTGTAAAGCGTGGTTAAGGCATTAAAAAGAA
AGTTCACCTAAGTGAAAAAATCCACCCTTTTGTCAGAAAAATCTATAAACATAATAAATACTTTGAAGAATATGCCTTGG
TTGATCAAGATATTCTTGGAAATAAAGAAAGCTACAATAAGATTTTGGCCCTTGCTCCTGAAACAATTCATGATGACCTT
GAACAAGCCTTCCAAAAACATCACAGTTCACTTCAGCATTGAGAACATTTAAAGAAGGTAGCCAGATGTCTGAATAACAT
CGAAAGTGACAAATGTGGACCCTGGCTTGAGTGGAAGATTATGCTCCAGTACTGTTTTCCATGGCTAGATATTAATGTTA
GCAAAAGAATCAATGATTTGCTGAAGAGCCCTTTTAGTGTTCATCCTAAAATGGGTTGAATTTCGGTTTCTATTAATTAA
CAGAAAGTGGATCTGTTTGATCCATTTACTGTTCCAACTATAAGCTCCATCTGCCGTGAATTAGATGCCATTTCCACTAA
TGGAGAGGAAAAACAGAACAAAGCTGAGTCTATTATCAAACATAGAACTTGAGATTATAAAAAGACCAGTCTAGCTCCTG
ATGTAAAAGTTTTTGAAGTTTTTGGAAAACATGGAGAAATCTCGAAAAGG

ORF - retro_pvam_703 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 72.52 %
Parental protein coverage: 93.79 %
Number of stop codons detected: 8
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalKLYYRRLFPYAQYYRWLNYGGVIKNYFQHREFSFTLKDDIYIRYQSFNNQSDLEKEMQKMNPYKIDIGAV
KLYY.RL..Y.QYY.WLNYGG.IK.YFQH..FSFT.KDDIYI.YQ.F.NQSDLEK.MQKMNPYK.DIG.V
RetrocopyKLYYQRLLSYTQYYHWLNYGGMIKDYFQHHAFSFTVKDDIYIHYQFFINQSDLEKGMQKMNPYKVDIGMV
ParentalYSHRPNQHNTVKLGAFQAQEKELVFDIDMTDYDDVRRCCSSADICSKCWTLMTMAIRIIDRALKEDFGFK
YSHR.NQH.TVKLGAF..Q.K.L.FDIDMTD.DDVRR..SSAD.CSKC.T.MTMA..IID.ALKE...FK
RetrocopyYSHRLNQHDTVKLGAFRTQKK-LMFDIDMTDCDDVRRGSSSADMCSKC*TFMTMAVHIIDQALKEALRFK
ParentalHRLWVYSGRRGVHCWVCDESVRKLSSAVRSGIVEYLSLVKGGPDVKKKVHLSEKIHPFVRKSINIINKYF
.....YS.RRGV.CWVCDES.RK..SA..SGI.EYLSLVK.G...KKKVHLSEKIHPFVRK.I...NKYF
RetrocopyCHV*IYSERRGVCCWVCDESIRK*CSAAHSGIIEYLSLVKRG*GIKKKVHLSEKIHPFVRK-IYKHNKYF
ParentalEEYALVDQDIXXXXXXXXXXXXXXXXXIHDELQQSFQNHHSSLQRWEHLKKVARCLSNIKSDKYGPWLEW
EEYALVDQDI.................IHD.L.Q.FQ.HHSSLQ..EHLKKVARCL.NI.SDK.GPWLEW
RetrocopyEEYALVDQDILGNKESYNKILALAPETIHDDLEQAFQKHHSSLQH*EHLKKVARCLNNIESDKCGPWLEW
ParentalEIMLQYCFPRLDINVSKGINHLLKSPFSVHPKTGRISVPIDLQKVDQFDPFTVPTISSICHELDAISTIE
.IMLQYCFP.LDINVSK.IN.LLKSPFSVHPK.G.ISV.I..QKVD.FDPFTVPTISSIC.ELDAIST..
RetrocopyKIMLQYCFPWLDINVSKRINDLLKSPFSVHPKMG*ISVSIN*QKVDLFDPFTVPTISSICRELDAISTNG
ParentalEEKGENKAESIIKHRTRDYKKTSLAPYVKVFEQFLENLDKSRK
EEK..NKAESIIKHRT.DYKKTSLAP.VKVFE.F......S..
RetrocopyEEK-QNKAESIIKHRT*DYKKTSLAPDVKVFEVFGKHGEISKR

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_703 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 12 parental genes, and 13 retrocopies.

Species Parental gene accession Retrocopies number
Equus caballus ENSECAG000000152971 retrocopy
Homo sapiens ENSG000001980561 retrocopy
Mustela putorius furoENSMPUG000000016031 retrocopy
Nomascus leucogenys ENSNLEG000000174431 retrocopy
Oryctolagus cuniculus ENSOCUG000000034581 retrocopy
Procavia capensis ENSPCAG000000071031 retrocopy
Pongo abelii ENSPPYG000000046721 retrocopy
Pan troglodytes ENSPTRG000000229871 retrocopy
Pteropus vampyrus ENSPVAG00000008017 2 retrocopies
retro_pvam_153, retro_pvam_703 ,
Sus scrofa ENSSSCG000000004081 retrocopy
Tupaia belangeri ENSTBEG000000129981 retrocopy
Tursiops truncatus ENSTTRG000000021531 retrocopy



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