RetrogeneDB ID: | retro_btau_710 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 18:63167291..63168364(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SENP3 | ||
| Ensembl ID: | ENSBTAG00000000131 | ||
| Aliases: | None | ||
| Description: | sentrin-specific protease 3 [Source:RefSeq peptide;Acc:NP_001178303] |
Retrocopy-Parental alignment summary:
>retro_btau_710
CCCAAACCCCGACTCAAATCAGGTGGAGGGTTTGGGCCGGATGCTGGGTCAGGGACCACAGTGCCCCCCGGATGCCTCCC
TGTCCCTCGGGCCGCTTTTGACGCCTCAGCTCGTGAAGAGGAGGAGGAAAACCCGACGATGAAGGTGAAGGTGAGGAGGG
GGAAGCGGCAGCTTGGAGGCCACCCCCCAGATGGGCTCAGCTGGGGGCGTCCCAGGGGCCTCGCCCTCCCCGCCCTACTT
ATCGGAAAACCTGTTTGCAGCGCCGACCTCACAGAGCTGTGAGTCTTCCGGATGCTGCTGTACTCAGAGAAGCACCTCGA
TGCCACTCCACTGCAAGCTTTGGGGTGCCACCGGGGCCGGCGGGGGAACCTCACACACCCCAAGGGCCACCTTTCACCCC
GGGAAGGGGCTGCGACGCCACAGGTGCCCTCCCCCTGCTGTCGTTTTGACTTCCCCGCGGGGACCACCTCCTCCCCCGCC
CGGTCTGCTAGGTGCTCTCATGGCTGAGGAGGGGGTGACAGGGTCTCCACCAGAGCCCTCTCGGGCCCCCGTGGAGGAAG
GTGGATTAAGCTGGACTCCAGTGTCTCCTCTGGGCCCTGACCTGGGTCTCGTCTCCTGGACTCTGCCCAGCGGCTTTGGG
GGAACCACCTGGGCCGCAAGGAGAGTGAAGTCTGGCACCCTGTGAGGCCAGCATCCTCATCAGCAGTGCGTGAAGGGCTG
GGGACTGCGTGGCCCAGGAGCTCTTCCAGGCCCGGACATGGGCGCTGTAGGAGAGGCCGAGCAGCCTGGGGGAAGCTGGG
CAGGACAGCACCCCAAGGGAGAAGCTTGTCTGCTGTGTGCAGAGCATCTCGGATGAATTCCTTCAGACAGATGGCAGCCT
CGTCCTCCTCAGCACAGGTGAGGGCATGGAGCAACCGGAGGACATTTCCTGCCAGAATTGTCTGTACCGTCCAGGAAGGG
CTTGGGGCGGCGATGGAGCCAGCCATACCCGCGGATGCCAGGCAATGCCCAGCTGAGGGGCCTCCCGTCACCCATAAGGG
CATGTGCCCACCACAGGTGGCTCGGGGACTCTG
ORF - retro_btau_710 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 68.92 % |
| Parental protein coverage: | 62.54 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 11 |
Retrocopy - Parental Gene Alignment:
| Parental | PKPRLKSGGGFGPDPGSGTTVPTRRLPVPRPSFDASASEEEEE-EEDDEDEDEEEEVAAWRLPPRWGQLG |
| PKPRLKSGGGFGPD.GSGTTVP...LPVPR..FDASA.EEEEE...DDE.E.EE.E.AAWR.PPRW.QLG | |
| Retrocopy | PKPRLKSGGGFGPDAGSGTTVPPGCLPVPRAAFDASAREEEEE<KPDDEGEGEEGEAAAWRPPPRWAQLG |
| Parental | ASQRPRPPRPTHRKTCSQRRRRA-MRAFRMLLYS-KSTSLTFHWKLWGR-HRGRRRNLAHPKNHLSPREG |
| ASQ.PRPPRPT.RKTC.QRR.......FRMLLYS..STS...H.KLWG..HRGRR.NL.HPK.HLSPREG | |
| Retrocopy | ASQGPRPPRPTYRKTCLQRRPHR>L*VFRMLLYS>RSTSMPLHCKLWGA<HRGRRGNLTHPKGHLSPREG |
| Parental | AVTPQVPSPCCRFD-SPRGPPPPRLSLLGALMAEDGVRGSPPVPSGAPMEEDGLRWTPKSPLGPDSGLLS |
| A.TPQVPSPCCRFD.SPRGPPPP...LLGALMAE.GV.GSPP.PS.AP.EE.GL.WTP.SPLGPD.GL.S | |
| Retrocopy | AATPQVPSPCCRFD>SPRGPPPPPPGLLGALMAEEGVTGSPPEPSRAPVEEGGLSWTPVSPLGPDLGLVS |
| Parental | CTLPNGFGG-PLGPEGERSLAPPDASILISNVCSIGDHVAQELFQ-GSDVGTAEEAERP-GEKAGQHSPL |
| .TLP.GFGG.P.GP.GE.SLAP..ASILIS.....GD.VAQELFQ.G.D.G...EAE.P.GE.AGQ.S.. | |
| Retrocopy | WTLPSGFGG>PPGPQGE*SLAPCEASILISSA*RAGDCVAQELFQ<GPDMGAVGEAEQP>GE-AGQDSTP |
| Parental | REEHVTCVQSILDEFLQTYGSLIPLSTDEVVEKLEDI-FQQEFSAPSRKGLVLQLIQSYQRMPGNAMVRG |
| RE..V.CVQSI.DEFLQT.GSL..LST.E..E..EDI.F..E.S.PSRKGL.....Q.Y.RMPGNA..RG | |
| Retrocopy | REKLVCCVQSISDEFLQTDGSLVLLSTGEGMEQPEDI<FLPELSVPSRKGLGRRWSQPYPRMPGNAQLRG |
| Parental | F-RVTYK-RHVLTMDDLGTL |
| ...VT.K..HV.T....GTL | |
| Retrocopy | L<PVTHK<GHVPTTGGSGTL |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| ERP005899_liver | 0 .00 RPM | 4 .97 RPM |
| ERP005899_muscle | 0 .00 RPM | 20 .27 RPM |
| SRP017611_brain | 0 .14 RPM | 25 .35 RPM |
| SRP017611_kidney | 0 .06 RPM | 29 .70 RPM |
| SRP017611_liver | 0 .00 RPM | 16 .99 RPM |
| SRP030211_testis | 0 .02 RPM | 50 .10 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_710 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_710 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_710 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000000131 | 1 retrocopy |
retro_btau_710 ,
|
| Echinops telfairi | ENSETEG00000006699 | 2 retrocopies | |
| Mus musculus | ENSMUSG00000005204 | 1 retrocopy |