RetrogeneDB ID: | retro_mmul_100 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 1099214737715:1315..2101(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMMUG00000013784 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SRSF12 | ||
| Ensembl ID: | ENSMMUG00000014941 | ||
| Aliases: | None | ||
| Description: | splicing factor, arginine/serine-rich 13B [Source:RefSeq peptide;Acc:NP_001182514] |
Retrocopy-Parental alignment summary:
>retro_mmul_100
ATGTCCCGCTACCTGCGTCCCCCCAACACGTCTCTGTTCGTCAGGAACGTGGCCGACGACACCAGGTCTGAAGACTTGCG
GCGTGAATTTGGTCGTTATGGTCCTATAGTTGATGTGTATGTTCCACTTGATTTCTACACTCGCCGTCCAAGAGGATTTG
CTTATGTTCAATTTGAGGATGTTCGTGATGCTGAAGATGCTTTACATAATTTGGACAGAAAGTGGATTTGTGGACGGCAG
ATTGAAATCCAGTTTGCCCAGGGGGATCGAAAGACACCAAATCAGATGAAAGCCAAGGAAGGGAGGAATGTGTACAGTTC
TTCACGCTATGATGATTATGACAGATACAGACGTTCTAGAAGCCGAAGTTATGAAAGGAGGAGATCAAGAAGTCGGTCTT
TTGATTACAACTATAGAAGATCGTATAGTCCTAGAAATAGACCGACTGGAAGACCACGGCGTAGCAGAAGCCATTCCGAC
AATGATAGATTCAAACACCGAAATCGATCTTTTTCAAGATCTAAATCCAATTCAAGATCACGGTCCAAGTCCCAGCCCAA
GAAAGAAATGAAGGCTAAATCACGTTCTAGGTCTGCATCTCACACCAAAACTAGAGGCACCTCTAAAACAGATTCCAAAA
CACATTATAAGTCTGGCTCAAGATATGAAAAGGAATCAAGGAAAAAAGAACCACCTAGATCCAAATCTCAGTCAAGATCA
CAGTCTAGGTCTAGGTCAAAATCTAGATCAAGGTCTTGGACTAGTCCTAAGTCCAGTGGCCACTGA
ORF - retro_mmul_100 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 51.15 % |
| Parental protein coverage: | 99.62 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MSRYTRPPNTSLFIRNVADATRPEDLRREFGRYGPIVDVYIPLDFYTRRPRGFAYLVIFEDVRDAEDALY |
| MSRY.RPPNTSLF.RNVAD.TR.EDLRREFGRYGPIVDVY.PLDFYTRRPRGFAY.V.FEDVRDAEDAL. | |
| Retrocopy | MSRYLRPPNTSLFVRNVADDTRSEDLRREFGRYGPIVDVYVPLDFYTRRPRGFAY-VQFEDVRDAEDALH |
| Parental | NLNRKWVCGRQIEIQFAQGDRKTPGQMKSKE-RHPCSPSDHRRSRSPSQRRTRSRSSSWGRNRRRSDSLK |
| NL.RKW.CGRQIEIQFAQGDRKTP.QMK.KE.R...S.S...........R.RS......R.R....... | |
| Retrocopy | NLDRKWICGRQIEIQFAQGDRKTPNQMKAKEGRNVYSSSRYDDYDRYRRSRSRSYERRRSRSRSFDYNYR |
| Parental | ESRHRRFSYSQSKSRSKSLPRRSTSARQSRTPRRNFGSRGRSRSKSLQKRSKSIGKSQSSSPQKQTSSGT |
| .S...R........RS.S...........R...R...S..RSRSKS.Q.......KS.S.S.......GT | |
| Retrocopy | RSYSPRNRPTGRPRRSRSHSDNDRFKHRNRSFSRS-KSNSRSRSKS-QPKKEMKAKSRSRSASHTKTRGT |
| Parental | KSRSHGRHSDSIARSPCKSPKGYTNSETKVQTAKHSHFRSHSRSRSYRHKNS |
| .......H..S..R....S.K.......K.Q....S..RS.SRSRS.....S | |
| Retrocopy | SKTDSKTHYKSGSRYEKESRK-KEPPRSKSQSRSQSRSRSKSRSRSWTSPKS |
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 | 5 .71 RPM | 2 .58 RPM |
| SRP007412_brain_prefrontal_cortex | 13 .80 RPM | 3 .41 RPM |
| SRP007412_cerebellum | 7 .56 RPM | 3 .42 RPM |
| SRP007412_heart | 6 .54 RPM | 0 .29 RPM |
| SRP007412_kidney | 6 .46 RPM | 0 .82 RPM |
| SRP007412_liver | 5 .34 RPM | 0 .51 RPM |
| SRP007412_testis | 14 .78 RPM | 49 .72 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_100 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_100 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_100 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Macaca mulatta | ENSMMUG00000014941 | 1 retrocopy |
retro_mmul_100 ,
|
| Monodelphis domestica | ENSMODG00000018282 | 1 retrocopy | |
| Tupaia belangeri | ENSTBEG00000015120 | 1 retrocopy |