RetrogeneDB ID: | retro_mmus_1778 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 18:57588007..57588811(-) | ||
| Located in intron of: | ENSMUSG00000058925 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Rnh1 | ||
| Ensembl ID: | ENSMUSG00000038650 | ||
| Aliases: | Rnh1, AW546468, C80305, RNH | ||
| Description: | ribonuclease/angiogenin inhibitor 1 [Source:MGI Symbol;Acc:MGI:1195456] |
Retrocopy-Parental alignment summary:
>retro_mmus_1778
CTGAAGGACTCTGCCTGTCAACTGGAGTCACTCAAGCTGGAGAACTGTGGTATCACATCAGCCAGCTGCAAGGATCTGTG
TGATGTTGTGGCCTCCAACGCCTCACTGCAGGAACTGGACTTGGGCAGCAACAAGCTGGGTAATGCAGGCATTGCAGCAC
TGTGCCCAGGACTGCTGCTTCCCAGCTGTAAGCTCAGGACTCTGTTGCTCTGGGAGTGTGATGTCACTGCAGAGGGCTTC
GAGGACCTGTGCTGTGTCCTCAGGGCCAAGCAGAGCCTGAAGGAACTCAGCCTAGCTGCCAATGAGCTGAAGGATGAGGG
GGCCCGGCTGCTGTGTGAGAGCCTATTAGAGCCTGGCTATCAGCTAGAGTCACTGTGGGTAAAGACCTGTAGCCTCACAG
CTGCCTCTTGTCCCCACTTCTGCTCCGTGTTGACCAAAGACCGTTCTCTGCTGGAGCTGCAAATGAGCAGCAATCCACTG
GGAGACTTGGGAGTCCAGGAGCTTTGCACGGCCCTGGGCCAGCCAGACCCAGTGCCGCGTGTGCTTTGGCTGGGAGACTG
GGATGTGACAGATAGTGGTTGCAGTAGCCTTGCCACTGTCCTGCTGGCCAACCGCAGCCTGATTAATCTGGACCTCAGTA
GCAACTCTGTGGGGGGCTCAGGTGTCCTGCAACTGCTGGAGAGCCTCAAACAGCCCAGCTGTGCCCATCAGCAGCATGTC
CTGTGTGACATTTACTGGGCAGATGAGGTGGAAGACTATCTTTGGGCCCTGGAGGAGGAAAGGCCTTCCTGGAGGGTCAT
TTCC
ORF - retro_mmus_1778 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 85.07 % |
| Parental protein coverage: | 58.77 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LKDSACQLESLKLENCGITAANCKDLCDVVASKASLQELDLSSNKLGNAGIAALCPGLLLPSCKLRTLWL |
| LKDSACQLESLKLENCGIT.A.CKDLCDVVAS.ASLQELDL.SNKLGNAGIAALCPGLLLPSCKLRTL.L | |
| Retrocopy | LKDSACQLESLKLENCGITSASCKDLCDVVASNASLQELDLGSNKLGNAGIAALCPGLLLPSCKLRTLLL |
| Parental | WECDITAEGCKDLCRVLRAKQSLKELSLASNELKDEGARLLCESLLEPGCQLESLWIKTCSLTAASCPYF |
| WECD.TAEG..DLC.VLRAKQSLKELSLA.NELKDEGARLLCESLLEPG.QLESLW.KTCSLTAASCP.F | |
| Retrocopy | WECDVTAEGFEDLCCVLRAKQSLKELSLAANELKDEGARLLCESLLEPGYQLESLWVKTCSLTAASCPHF |
| Parental | CSVLTKSRSLLELQMSSNPLGDEGVQELCKALSQPDTVLRELWLGDCDVTNSGCSSLANVLLANRSLREL |
| CSVLTK.RSLLELQMSSNPLGD.GVQELC.AL.QPD.V.R.LWLGD.DVT.SGCSSLA.VLLANRSL..L | |
| Retrocopy | CSVLTKDRSLLELQMSSNPLGDLGVQELCTALGQPDPVPRVLWLGDWDVTDSGCSSLATVLLANRSLINL |
| Parental | DLSNNCMGGPGVLQLLESLKQPSCTLQQLVLYDIYWTNEVEEQLRALEEERPSLRIIS |
| DLS.N..GG.GVLQLLESLKQPSC..QQ.VL.DIYW..EVE..L.ALEEERPS.R.IS | |
| Retrocopy | DLSSNSVGGSGVLQLLESLKQPSCAHQQHVLCDIYWADEVEDYLWALEEERPSWRVIS |
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 .02 RPM | 27 .12 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 33 .48 RPM |
| SRP007412_heart | 0 .00 RPM | 38 .91 RPM |
| SRP007412_kidney | 0 .02 RPM | 62 .72 RPM |
| SRP007412_liver | 0 .00 RPM | 81 .98 RPM |
| SRP007412_testis | 0 .09 RPM | 10 .34 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_1778 was not detected
No EST(s) were mapped for retro_mmus_1778 retrocopy.
No TSS is located nearby retro_mmus_1778 retrocopy 5' end.
retro_mmus_1778 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_1778 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 | |
|---|---|---|---|
| Ailuropoda melanoleuca | ENSAMEG00000010466 | 1 retrocopy | |
| Felis catus | ENSFCAG00000007585 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000038650 | 2 retrocopies |
retro_mmus_1727, retro_mmus_1778 ,
|