RetrogeneDB ID: | retro_mmul_1708 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 3:106038370..106039825(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TRIM68 | ||
| Ensembl ID: | ENSMMUG00000022682 | ||
| Aliases: | None | ||
| Description: | E3 ubiquitin-protein ligase TRIM68 [Source:RefSeq peptide;Acc:NP_001247661] |
Retrocopy-Parental alignment summary:
>retro_mmul_1708
ATGGATCCCACAGCCTTGGTGGAAGCCATTGTGGAAGAAGTGGCCTGTCCCATCTGTATGGCCTTCCTGAGAGAGCCAGT
GAGCATTGACTGTGGCCACAGCGTCTGCCACAGCTCCCTCTCCGGACTGTGGGAGATCCCAGGAGAATCCCAGAACTGGG
GTTACACCTGTCCCCTCTGTCGAGCTCCTGTCCAGCCAAGGAACCTACGGCCTAATTGGCAGCTGGCCAATGTTGTAGAA
AAAGTCCGTCTGCTAAGGCTACATCCAGGAATGGGGCTGAAGGGTGATCTGTGTGAGCGCCATGGGGAGAAACTGAAGAT
GTTCTGCAAAGAGGATGTCCTGATAATGTGTGAAGCCTGCAGCCGGTCCCCATAGCATGAGGGCCACAGTGTTGTGCCAA
TGGAGGATGTTGCTTGGGAGGACAAGTGGGAACTTCATGAGGCCCTCGAACATCTGAAGAAAGAGCAAGAAGAGGCCTGG
AAGCTGGAAGTTGGTGAAAGGAAACGAACTGCCACCTGGAAGATACAGGTGGAAACCCGAAAACAGAGTATTATATGGGA
GTTTGAGAAATACCAGCGATTACTAGAGAAAAAGCAGCCACCACATCGGCAGCTGGAGGCAGAGGTAGCAGCAGCTCTGG
CCAGCCTACAATGGGAGGCGGCGGAGACCATGCAGAAACTGGAGTTGAACCATAGTGAGCTCATCCAGCAGAGCCGGGTC
CTGGGGAGGATGATTGCAGAGTTGAAACAGCGGTCGCAGAGGCCTGTCGGCTGAATGTTGCAGGATATTCAGGAAGTGTT
AAACAGGAGCAAATCTTGGAGCTTGCAGCGGCCAGAACCAATCTCCCTGGAGTTGAAGACAGATTGCCGTGCGCTGGGGC
TAAGAGAGATCCTGAAGACCTATGTAGTTGACGTGCGCCTGGATCCAGATATTGCTTACTCCCGTCTCATCGTGTCTGAG
GACAGAAAACGTGTGCACTATGGAGACACCAACGAGAAACTGCCAGACAATCCTGAGAGATTTTACCGCTATAATATTGT
CCTGGGAAGCCAGTGCATCTCCTCAGGCCGGCACTACTGGGAGGTGGAGATGGGAGATAGGTCTGAGTGGGGCCTGGGAA
TATGTAAGCCAAATGTAGACTGGAAGGAGGTGGTCTACTTGTCCCTCCGCTATGGATTTTGGGTGATAAGGCTGAGGAAG
AGAAATGAGTACAGAGCAGGCACCGATGAGTACCCCCTCCTGTCCTTGCCAGTCCCTCCTCGCCGGGTGGGAATTTTCGT
GGATTATGAGGCCCATGACATTTCCTTCTACAATGTGACTGACTATGGCTCCCACATCTTCGCTTTCCCCCGCTATCCCT
TCACTGGGCGCCTCCTACCCTATTTTAGTCCTTGCTACAGCATTGGACCCAACAACACTGCTCCTCTGGCCATCTGCTCC
CTGGATGGGGAAGAC
ORF - retro_mmul_1708 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 93.61 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MDPTALVEAIVEEVACPICMTFLREPVSIDCGHSFCHSCLSGLWEIPGESQNWGYTCPLCRAPVQPRNLR |
| MDPTALVEAIVEEVACPICM.FLREPVSIDCGHS.CHS.LSGLWEIPGESQNWGYTCPLCRAPVQPRNLR | |
| Retrocopy | MDPTALVEAIVEEVACPICMAFLREPVSIDCGHSVCHSSLSGLWEIPGESQNWGYTCPLCRAPVQPRNLR |
| Parental | PNWQLANVVEKVRLLRLHPGMGLKGDLCECHGEKLKMFCKEDVLIMCEACSQSPEHEAHSVVPMEDVAWE |
| PNWQLANVVEKVRLLRLHPGMGLKGDLCE.HGEKLKMFCKEDVLIMCEACS.SP.HE.HSVVPMEDVAWE | |
| Retrocopy | PNWQLANVVEKVRLLRLHPGMGLKGDLCERHGEKLKMFCKEDVLIMCEACSRSP*HEGHSVVPMEDVAWE |
| Parental | YKWELHEALEHLKKEQEEAWKLEVGERKRTATWKIQVETRKQSIVWEFEKYQRLLEKKQPPHRQLEAEVT |
| .KWELHEALEHLKKEQEEAWKLEVGERKRTATWKIQVETRKQSI.WEFEKYQRLLEKKQPPHRQLEAEV. | |
| Retrocopy | DKWELHEALEHLKKEQEEAWKLEVGERKRTATWKIQVETRKQSIIWEFEKYQRLLEKKQPPHRQLEAEVA |
| Parental | AALASLQQEAAETMQKLELNHSELIQQSRVLWRMIAELKERSQRPVRWMLQDIQEVLNRSKSWSLQRPEP |
| AALASLQ.EAAETMQKLELNHSELIQQSRVL.RMIAELK.RSQRPV..MLQDIQEVLNRSKSWSLQRPEP | |
| Retrocopy | AALASLQWEAAETMQKLELNHSELIQQSRVLGRMIAELKQRSQRPVG*MLQDIQEVLNRSKSWSLQRPEP |
| Parental | ISLELKTDCRVLGLREILKTYAADVHLDPDTAYSRLIVSEDRKRVHYGDTNQKLPDNPERFYRYNIVLGS |
| ISLELKTDCR.LGLREILKTY..DV.LDPD.AYSRLIVSEDRKRVHYGDTN.KLPDNPERFYRYNIVLGS | |
| Retrocopy | ISLELKTDCRALGLREILKTYVVDVRLDPDIAYSRLIVSEDRKRVHYGDTNEKLPDNPERFYRYNIVLGS |
| Parental | QCISSGRHYWEVEVGDRSEWGLGVCKQNVDRKEVVYLSPHYGFWVIRLRKGNEYRAGTDEYPLLSLPVPP |
| QCISSGRHYWEVE.GDRSEWGLG.CK.NVD.KEVVYLS..YGFWVIRLRK.NEYRAGTDEYPLLSLPVPP | |
| Retrocopy | QCISSGRHYWEVEMGDRSEWGLGICKPNVDWKEVVYLSLRYGFWVIRLRKRNEYRAGTDEYPLLSLPVPP |
| Parental | RRVGIFVDYEAHDISFYNVTDYGSHIFTFPRYPFPGRLLPYFSPCYSIGTNNTAPLAICSLDGED |
| RRVGIFVDYEAHDISFYNVTDYGSHIF.FPRYPF.GRLLPYFSPCYSIG.NNTAPLAICSLDGED | |
| Retrocopy | RRVGIFVDYEAHDISFYNVTDYGSHIFAFPRYPFTGRLLPYFSPCYSIGPNNTAPLAICSLDGED |
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 | 4 .48 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .08 RPM | 6 .90 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 3 .75 RPM |
| SRP007412_heart | 0 .00 RPM | 5 .59 RPM |
| SRP007412_kidney | 0 .23 RPM | 5 .75 RPM |
| SRP007412_liver | 0 .04 RPM | 1 .03 RPM |
| SRP007412_testis | 0 .00 RPM | 12 .25 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1708 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1708 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_1708 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Macaca mulatta | ENSMMUG00000022682 | 1 retrocopy |
retro_mmul_1708 ,
|
| Tupaia belangeri | ENSTBEG00000012986 | 1 retrocopy |