RetrogeneDB ID: | retro_pvam_679 | ||
Retrocopy location | Organism: | Megabat (Pteropus vampyrus) | |
| Coordinates: | GeneScaffold_657:21085..21990(-) | ||
| Located in intron of: | ENSPVAG00000006815 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RIPK2 | ||
| Ensembl ID: | ENSPVAG00000003017 | ||
| Aliases: | None | ||
| Description: | receptor-interacting serine-threonine kinase 2 [Source:HGNC Symbol;Acc:10020] |
Retrocopy-Parental alignment summary:
>retro_pvam_679
GAATATATGCCAAATGGATCATTAAATAAACTCCTATATAGGAAAACTGAATATCCTGATGTTGCCTTCCATTGAGATTC
TGCATGCTTCATGAAATTGCACTGGGTATAAATTATCTGCACAATATGACTTCTCCTCTACTTCATCATGACTTGAAGAC
TCAAAATATCTTATTGGATAATGAATTTCATGTTAAGATTGCAGATTTTGGTTTATCAAAATGGCACATGATGTCCCTGT
CGAAATCATGAAGTTGTAAATCTCCACCAGAAGGAGGGACAATTATCTATATGCCATCTGAAAACTATGAATGTTGACAA
ATATCAAGAGTCAGTGTTAAGCATGGTATATATAGCTATGCAGTTATCGCATAGGAAGTCTCATCCAGAAAACAGCCTTT
TGAGGAAGTCACCAATCTTTTGCAGATTATGTACAGTGTGTCACAAGGCCATCGACATGACATTAGTGAAGAAAGATTGT
CATTTGATATACCTCAGTGAGCACTGATCTCTCTCACAGAAGGCAGATGGACACAAAATCTAGATAAAAAGCTGTCCTTC
TTAAAACGTTTAATAAAACTTGAACCAGTCCCGAGAACACTTGAAGAGATAACTTTACTTGATGTTATACAACTAAAAAA
AACAAAGTTACAGAGCACTTCAAGCACTATTTATATATGTGACAAGAAGAAAACAGAGCAATCTCTGGATGTGTCTCTAA
ATCATGGTCCACAGAAGGAATTATGTGGATCCTCTCAGCTCCAAAAAAGTAGTGGTTCTCCTGGAACCTCAAGGTCCCTG
TCAGCTCCTCAAGACAATGATTTTTTTATCCAGAAAACTCAGGACTTCTCTATGCTGCACCACCATCCAGTAAATCACAG
TTGGGATGGCAACGTGTCTGGCTCA
ORF - retro_pvam_679 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 68.75 % |
| Parental protein coverage: | 56.26 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | EYMPNGSLNELLHRKTEYPEVAW-PLRFRILHEIALGVNYLHNMNPPLLHHDLKTQNILLDNEFHVKIAD |
| EYMPNGSLN.LL.RKTEYP.VA..PLRF..LHEIALG.NYLHNM..PLLHHDLKTQNILLDNEFHVKIAD | |
| Retrocopy | EYMPNGSLNKLLYRKTEYPDVAF<PLRFCMLHEIALGINYLHNMTSPLLHHDLKTQNILLDNEFHVKIAD |
| Parental | FGLSKWRLMSLSQSRSSKSAPEGGTIIYMPPENYEPGQKSRASVKHDIYSYAVIMWEVLSRKQPFEEVTN |
| FGLSKW..MSLS.S.S.KS.PEGGTIIYMP.ENYE..Q.SR.SVKH.IYSYAVI..EV.SRKQPFEEVTN | |
| Retrocopy | FGLSKWHMMSLSKS*SCKSPPEGGTIIYMPSENYEC*QISRVSVKHGIYSYAVIA*EVSSRKQPFEEVTN |
| Parental | PLQIMYSVSQGHRPDTSEESLPFDIPHRAVMLDLIKAGWAQNPDERPSFLKCLIELEPVLRTFEEITFFE |
| .LQIMYSVSQGHR.D.SEE.L.FDIP..A....L....W.QN.D...SFLK.LI.LEPV.RT.EEIT... | |
| Retrocopy | LLQIMYSVSQGHRHDISEERLSFDIPQ*A-LISLTEGRWTQNLDKKLSFLKRLIKLEPVPRTLEEITLLD |
| Parental | AVMQLKKTKXXXXXXXXXXHDKKTELSLSVSLNHG-QEESCGSLQPPKSGGSPGTSRSLSAPQDNEPSSR |
| .....................KKTE.SL.VSLNHG.Q.E.CGS.Q..KS.GSPGTSRSLSAPQDN..... | |
| Retrocopy | VIQXXXXKLQSTSSTIYICDKKKTEQSLDVSLNHGPQKELCGSSQLQKSSGSPGTSRSLSAPQDNDFFIQ |
| Parental | KSQDF-MQHHHPANHSWDSNMSAA |
| K.QDF.M.HHHP.NHSWD.N.S.. | |
| Retrocopy | KTQDFSMLHHHPVNHSWDGNVSGS |
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_679 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Mustela putorius furo | ENSMPUG00000010960 | 1 retrocopy | |
| Pteropus vampyrus | ENSPVAG00000003017 | 1 retrocopy |
retro_pvam_679 ,
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