RetrogeneDB ID: | retro_mmul_2292 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 8:65417015..65418154(+) | ||
| Located in intron of: | ENSMMUG00000009144 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SRPK2 | ||
| Ensembl ID: | ENSMMUG00000022732 | ||
| Aliases: | SRPK2, SRPK3, STK23 | ||
| Description: | SRSF protein kinase 2 [Source:RefSeq peptide;Acc:NP_001244401] |
Retrocopy-Parental alignment summary:
>retro_mmul_2292
GCCGCCGCCGCCGCCGCTCTGGCAGACCTCGAATACTGCCCAGAGGTGAAACTAAAAACAACAGGATTAGAGGCAGCGGC
CGAGGCAGAAACCGCAAAGGGAAATGGTGAAGCTGAGGACCAGGAAGAGAAAGAAGACCCTGAGAAAGAAAACATTGAAA
AAGAAGATGATGTAGATCAGCAACTTGCGAACATAGACCCGAGGTGGATAGAATCACCTAAAACCAATGGCCATCTTGAA
AATGGCCCATTCTCACTGGAGCAGCAACTGGACGATGAAGAGGATAATGAAGAAGACTGCCCAAATCCTTAGGAATATAA
TCTTGATGAGCCAAATGCAGAAAGTGATTACACATACAGCAGCTCCTATGAACAATTCAACAGTGAATTGCCAAATGGAC
GGCATAAAATTCCCGAGTCACAGTTTCCAGAGTTTTCCACCCAGTTGTTCTCTGGATCCTTAGAACCTGTGGCCTGCGGC
TCTGTGCTTTCTGAGGGATCACCACTTACTGAGCAAAGGGAAAGCAGTCCGTCCCATGACAAAAGCAGGACGGTTTCAGC
CTGCAGTACTGGGGATTTGCCAAAAGCCAAAACCCAGGAGGCTGACTTGTTGGTGAACCCCCTGGATCCACGAAATGCTG
ATAAAATTAGAGTAGAAATTGTTGACCTGGGAAATGCTTGTTGGGTGCATAAACACTTCACGGAAAACATCCAGATGCGT
CAGCACCGTTCCGTAGAGGTTTTAATAGGAACGGGATACAGCACCCCTGCGGACATCTGGAGCATGGCATGTATGGCATT
TGAGCTGGCAACGGGCGATTATTTGTTTGAACCACATTCTGGGGAAGACTGTTCCAGAGACGAAGATCACATAGCATTGA
TCATTGAACTGCGGGGGAAAGTCCCTCGAAAATACGCTATGTTGGGGAAATGTTTCAAGGAGTTTTTCACCAGAAAAGGA
GAACTGCGACATGACCATGCCGAAGCCCTGATGCCCTTTTGATGTACTTGTGGAGAAGTATGGCTGGCCCCATGAAGATA
CTGCACAGTTTACAGATTTCCTGATCCCGATGTTAGAGATGGTTCCCGAAAAAACGAGCCTCAGCTGGCTAATGCCTTCG
GCATCCTTGGTTGAATTCT
ORF - retro_mmul_2292 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 84.07 % |
| Parental protein coverage: | 55.46 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | SAAPSNDQDGEYCPEVKLKTTGLEEAAETETAKDNGEAEDQEEKEDAEKENIEKDEDDVDQELANIDPTW |
| .AA.....D.EYCPEVKLKTTGLE.AAE.ETAK.NGEAEDQEEKED.EKENIEK.EDDVDQ.LANIDP.W | |
| Retrocopy | AAAAAALADLEYCPEVKLKTTGLEAAAEAETAKGNGEAEDQEEKEDPEKENIEK-EDDVDQQLANIDPRW |
| Parental | IESPKTNGHIENGPFSLEQQLDDEEDDEEDCPNPEEYNLDEPNAESDYTYSSSYEQFNGELPNGRHKIPE |
| IESPKTNGH.ENGPFSLEQQLDDEED.EEDCPNP.EYNLDEPNAESDYTYSSSYEQFN.ELPNGRHKIPE | |
| Retrocopy | IESPKTNGHLENGPFSLEQQLDDEEDNEEDCPNP*EYNLDEPNAESDYTYSSSYEQFNSELPNGRHKIPE |
| Parental | SQFPEFSTSLFSGSLEPVACGSVLSEGSPLTEQEESSPSHDRSRTVSASSTGDLPKAKTRAADLLVNPLD |
| SQFPEFST.LFSGSLEPVACGSVLSEGSPLTEQ.ESSPSHD.SRTVSA.STGDLPKAKT..ADLLVNPLD | |
| Retrocopy | SQFPEFSTQLFSGSLEPVACGSVLSEGSPLTEQRESSPSHDKSRTVSACSTGDLPKAKTQEADLLVNPLD |
| Parental | PRNADKIRVKIADLGNACWVHKHFTEDIQTRQYRSIEVLIGAGYSTPADIWSTACMAFELATGDYLFEPH |
| PRNADKIRV.I.DLGNACWVHKHFTE.IQ.RQ.RS.EVLIG.GYSTPADIWS.ACMAFELATGDYLFEPH | |
| Retrocopy | PRNADKIRVEIVDLGNACWVHKHFTENIQMRQHRSVEVLIGTGYSTPADIWSMACMAFELATGDYLFEPH |
| Parental | SGEDYSRDEDHIAHIIELLGSIPRHFALSGK-YSREFFNRRGELRHITKLKPWSLFDVLVEKYGWPHEDA |
| SGED.SRDEDHIA.IIEL.G..PR..A..GK..SR.F.....E....T..KP...FDVLVEKYGWPHED. | |
| Retrocopy | SGEDCSRDEDHIALIIELRGKVPRKYAMLGK>VSRSFSPEK-ENCDMTMPKP*CPFDVLVEKYGWPHEDT |
| Parental | AQFTDFLIPMLEMVPEK-RASAGECLRHPWLNS |
| AQFTDFLIPMLEMVPEK.RASAG.CLRHPWLNS | |
| Retrocopy | AQFTDFLIPMLEMVPEK>RASAG*CLRHPWLNS |
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 |
|---|---|---|
| SRP007412_brain | 0 .00 RPM | 172 .33 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 148 .35 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 117 .72 RPM |
| SRP007412_heart | 0 .00 RPM | 18 .31 RPM |
| SRP007412_kidney | 0 .00 RPM | 19 .25 RPM |
| SRP007412_liver | 0 .00 RPM | 4 .79 RPM |
| SRP007412_testis | 20 .77 RPM | 527 .52 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_2292 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_2292 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_2292 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000000641 | 2 retrocopies | |
| Macaca mulatta | ENSMMUG00000022732 | 1 retrocopy |
retro_mmul_2292 ,
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