RetrogeneDB ID: | retro_mmus_1858 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 19:16490524..16490857(-) | ||
| Located in intron of: | ENSMUSG00000024697 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Nip7 | ||
| Ensembl ID: | ENSMUSG00000031917 | ||
| Aliases: | Nip7, 1110017C15Rik, 6330509M23Rik, AA408773, AA410017, PEachy | ||
| Description: | nuclear import 7 homolog (S. cerevisiae) [Source:MGI Symbol;Acc:MGI:1913414] |
Retrocopy-Parental alignment summary:
>retro_mmus_1858
CTGGGGACGCGTTTTGGAAAGTTTACTAAGACCCCCAAGTTCCATTTGCACATTACAGCTCTGGATTACCCTGCACCCTA
TGCCAAATATAAAGTGTGGATAAAGCCGGGAGCAGAGCAGTCCTTCTTATATGGAAACCATGTGTTGAAATCCAGTCTGG
TTAGAATTACTGAAAACACGTGTCAGTACCAGGGAGAAGTGGTTTATTCCATGGCGGATATTCCTCTGGGTTTTGGGGTG
GCAGCAAAGGGCAGAAAAGTGGACCTTGTGGCAATTGTGGTGTTCCAACAAGCAGACATTGTGGATTATGTTCGCCATGA
AGAGACACTGACT
ORF - retro_mmus_1858 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.61 % |
| Parental protein coverage: | 63.89 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LGTCFGKFTKTHKFRLHVTALDYLAPYAKYKVWVKPGAEQSFLYGNHVLKSGLGRITENTSQYQGVVVYS |
| LGT.FGKFTKT.KF.LH.TALDY.APYAKYKVW.KPGAEQSFLYGNHVLKS.L.RITENT.QYQG.VVYS | |
| Retrocopy | LGTRFGKFTKTPKFHLHITALDYPAPYAKYKVWIKPGAEQSFLYGNHVLKSSLVRITENTCQYQGEVVYS |
| Parental | MADIPLGFGVAAKSTQDCRKVDPMAIVVFHQADIGEYVRHEETLT |
| MADIPLGFGVAAK.....RKVD..AIVVF.QADI..YVRHEETLT | |
| Retrocopy | MADIPLGFGVAAKG----RKVDLVAIVVFQQADIVDYVRHEETLT |
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 | 20 .61 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 15 .24 RPM |
| SRP007412_heart | 0 .00 RPM | 9 .81 RPM |
| SRP007412_kidney | 0 .04 RPM | 13 .74 RPM |
| SRP007412_liver | 0 .00 RPM | 11 .96 RPM |
| SRP007412_testis | 0 .05 RPM | 9 .70 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_1858 was not detected
No EST(s) were mapped for retro_mmus_1858 retrocopy.
No TSS is located nearby retro_mmus_1858 retrocopy 5' end.
retro_mmus_1858 was not experimentally validated.