RetrogeneDB ID: | retro_cjac_1592 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 17:34406802..34408378(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | BMPR1B | ||
| Ensembl ID: | ENSCJAG00000006930 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cjac_1592
ATTTACATCAGATTATCAGGAGCCTATCTGTTTATCATTTCTCCTGTTCGAGGACAGTATCTAGATGGTATGCTTCATGG
CACTGGGATGAAACCAGACTCCAACTGGAAAAAATCAGAAAATGGAGTAACCTTAGCACCAAAGGATACCTTGCCTTTTT
AAAAGTGCGATTGCTCAGGGCACTGCCCGAATGATGCTATTAATAACACATGTGTAACTAATGGACATTGCTTTGCCATC
ATAGAACAAGATGACCAGGGAGAAACCACTTTAGCTTTAGGGTGTATGAAATATGAAGGATTTGATTTTCAGTGCAAAGA
TTCTCCAAAAGCCCAGTACATCAGATAATAGAACATTGTCTGATCAATTTATGTAACCAGTATTTGCAACCCACACTGCC
CCCTGTTGTCATTGGCCCATTTTCTGATGGCAGCATTCGAAGGCTGGTTTTGCTCATTCCAATGGCTGTCTGCATAATTG
CTATGATCATCTTCACCAGCTGCTTTTGTTACAAACATTATTGCGAGAGCATCTCAAACATTGTTACAATCGTGATTTTG
AACAGGATGAAGCATTTGTTCCAATTGGAGAATCACCAAAAAACCTTAGTGACCAGTTACAAAGTTCTGGTAGTGAGTCT
GGACTACCTTTATTGTTTCAGTGAACTATTGCCAGACAGACTCAGATGGTCCGACAAGTTGGTAAAGGCGGATATGGAGA
AGTATGGATGGGTAAATGGCGGGGTGAAAAGGTGGCGATCAAAGTATTTTTTTTAACCACTGAAGAAGCCAGCTGGTTTC
AAGAAACAGAAATCTACCAAACTGTGCTAATGCCCCATGAAAAGATACTTGGTTTCAGAGTGGCAGACACTGAAAGTACG
GGTTCCTGGATTCAGCTCTATTTGATTACTGATTGCCATGAAAATGGATCTCTCCATGACTTCCTCAAATGTGCTACACT
GGACACCAGAGCCCTGCTCTAACTGGCTTATTCAGCTGCTTGTGGTCTGTGCCACCTGCACACAGAAGTGTATGGTACCC
AGGATAGCCCACAATTGCTCACTGAGACCTAAAGAGCAAAAACATCCTCATCAAGACAAATGGGAGTTGCTGTATTGCTG
ACCTGGGCCTTGCTGTTAAATTAAACAGTGACACAAATGAAGTTAATGTGCCCTTGATACCAAGGTGGGCACCAAATGCT
ACATGGCTCCAGAAGTTCTGAACAAAAGCCTGAACAAAAACCACTTCCAGCCCTACATCATGGCTGACATCTACAGCTTT
GGCCTGATCATTTGAGAGATGCTTTCCATTGGATCACAGGAGGGCTTGTGGAAGAGTAACAATTGCCATATTACAACATG
GTACCGAGTGATCTGTCATGCGAAGATATGCATGCGGTTGTGTATGTCAAACGCTTGTGGCCAAATGTGTCTAATTGGCG
GGATGGTGGTGAATGTCTATGAGCAGTTTTGAAGCTGATGTCAGAATGCTGGGCCCACAATCCAGCCTCCAGACTCATAG
CATTGACAATCAAGAAGACACTTGCCAAGATGGTTCAGTCCCAAGATGTAAAAATC
ORF - retro_cjac_1592 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 57.52 % |
| Parental protein coverage: | 99.05 % |
| Number of stop codons detected: | 8 |
| Number of frameshifts detected: | 5 |
Retrocopy - Parental Gene Alignment:
| Parental | IYLKIMGLSLFSMRHILSNFLDNMLLRSAGKINVGTKK-EDGESTAPTPRPKILRCKCHHHCPEDSVNNI |
| IY....G..LF.........LD.ML.....K.....KK.E.G...AP........C.C..HCP.D..NN. | |
| Retrocopy | IYIRLSGAYLFIISPVRGQYLDGMLHGTGMKPDSNWKKSENGVTLAPKDTLPF*KCDCSGHCPNDAINNT |
| Parental | CSTDGYCFTMIEEDDSGMPVVTSGCLGLEGSDFQCRDTPIPHQRR-SIECCKRNECNKDLHPTLPPLKNR |
| C.T.G.CF..IE.DD.G......GC...EG.DFQC.D.P.....R..IE.C..N.CN..L.PTLPP.... | |
| Retrocopy | CVTNGHCFAIIEQDDQGETTLALGCMKYEGFDFQCKDSPKAQYIR<IIEHCLINLCNQYLQPTLPPVVIG |
| Parental | DFVDGPIHHKALLISVTVCSLLLVLII-LFCYFRY-KRQETRPRYSIGLEQDETYIPPGESLRDLIEQSQ |
| .F.DG.I....LLI...VC..........FCY..Y..R......Y....EQDE...P.GES...L..Q.Q | |
| Retrocopy | PFSDGSIRRLVLLIPMAVCIIAMIIFTSCFCYKHY<LREHLKHCYNRDFEQDEAFVPIGESPKNLSDQLQ |
| Parental | SSGSGSGLPLLVQRTIAKQIQMVKQIGKGRYGEVWMGKWRGEKVAVKVFF-TTEEASWFRETEIYQTVLM |
| SSGS.SGLPLL.Q.TIA.Q.QMV.Q.GKG.YGEVWMGKWRGEKVA.KVFF.TTEEASWF.ETEIYQTVLM | |
| Retrocopy | SSGSESGLPLLFQ*TIARQTQMVRQVGKGGYGEVWMGKWRGEKVAIKVFFLTTEEASWFQETEIYQTVLM |
| Parental | RHENILGFIAADIKGTGSWTQLYLITDYHENGSLYDYLKSTTLDTKSMLKLAYSSVSGLCHLHTEIFSTQ |
| .HE.ILGF..AD...TGSW.QLYLITD.HENGSL.D.LK..TLDT...L.LAYS...GLCHLHTE...TQ | |
| Retrocopy | PHEKILGFRVADTESTGSWIQLYLITDCHENGSLHDFLKCATLDTRALL*LAYSAACGLCHLHTEVYGTQ |
| Parental | -GKPAIAHRDLKSKNILVKKNGTCCIADLGLAVKFISDTNEVDIP-PNTRVGTKRYMPPEVLDESLNRNH |
| .G.P.IAH.DLKSKNIL.K.NG.CCIADLGLAVK..SDTNEV..P...T.VGTK.YM.PEVL..SLN.NH | |
| Retrocopy | <G*PTIAH*DLKSKNILIKTNGSCCIADLGLAVKLNSDTNEVNVP<LDTKVGTKCYMAPEVLNKSLNKNH |
| Parental | FQSYIMADMYSFGLILWEV-ARRCVSGGIVEEYQLPYHDLVPSDPSYEDMREIVCIKKLRPSFPNRWSSD |
| FQ.YIMAD.YSFGLI..E..A.....GG.VEE.QLPY...VPSD.S.EDM...V..K.L.P...N..... | |
| Retrocopy | FQPYIMADIYSFGLII*EM<AFHWITGGLVEE*QLPYYNMVPSDLSCEDMHAVVYVKRLWPNVSNWRDGG |
| Parental | ECLRQMGKLMTECWAHNPASRLTALRVKKTLAKMSESQDIKL |
| ECL....KLM.ECWAHNPASRL.AL..KKTLAKM..SQD.K. | |
| Retrocopy | ECL*AVLKLMSECWAHNPASRLIALTIKKTLAKMVQSQDVKI |
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 |
|---|---|---|
| SRP051959_colon | 0 .00 RPM | 0 .22 RPM |
| SRP051959_heart | 0 .00 RPM | 5 .10 RPM |
| SRP051959_kidney | 0 .00 RPM | 16 .04 RPM |
| SRP051959_liver | 0 .02 RPM | 4 .74 RPM |
| SRP051959_lung | 0 .00 RPM | 2 .55 RPM |
| SRP051959_lymph_node | 0 .00 RPM | 0 .11 RPM |
| SRP051959_skeletal_muscle | 0 .00 RPM | 10 .98 RPM |
| SRP051959_spleen | 0 .00 RPM | 0 .69 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_1592 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_1592 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_1592 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000006930 | 1 retrocopy |
retro_cjac_1592 ,
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