RetrogeneDB ID: | retro_mmus_2573 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 5:62004383..62004833(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Mad2l1 | ||
| Ensembl ID: | ENSMUSG00000029910 | ||
| Aliases: | Mad2l1, AA673185, MAD2 | ||
| Description: | MAD2 mitotic arrest deficient-like 1 [Source:MGI Symbol;Acc:MGI:1860374] |
Retrocopy-Parental alignment summary:
>retro_mmus_2573
ACTACTGACCCCGTGCTCATAAAGTATCTCAATAATGTGGTGGAACAGCTAAAAGAGTGGCTGTACAAGTGCTCAGTTCA
GAAACTGTTGGTGGTCATCTCAAATATTGAAAGTGGTGAAGTCCTTGAAAGATAGCAGTTTGATATTAAGTGTGACAAAA
CTGCAAGAGAGGAAGGTGTTCGTAGAGAAAACTCCCAGAAAGCCATACAGGATGAAATCTGTTCAGTGATTAGACAGATT
ACAGCTACTGTGACATTTCTGCTACTGTTGGAAGTTTCTTGTTCATTTGATCTGCTGATTTACACTGACAAAGTTTTGGT
GGTACCTGAAAAGTGGGAAGAATCGGGACCCCAAATTATTATCAATTGTGAAGAAGTCTGTCTACGCTCATTTACAAACA
CAATCTACAAAGTGAATAGTATGGTGGCCTACAAAACCTCTGTCAATGAC
ORF - retro_mmus_2573 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 90.0 % |
| Parental protein coverage: | 73.17 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | TTDPELIKYLNNVVEQLKEWLYKCSVQKLVVVISNIESGEVLERWQFDIECDKTAKEEGVRREKSQKAIQ |
| TTDP.LIKYLNNVVEQLKEWLYKCSVQKL.VVISNIESGEVLER.QFDI.CDKTA.EEGVRRE.SQKAIQ | |
| Retrocopy | TTDPVLIKYLNNVVEQLKEWLYKCSVQKLLVVISNIESGEVLER*QFDIKCDKTAREEGVRRENSQKAIQ |
| Parental | DEIRSVIRQITATVTFLPLLEVSCSFDLLIYTDKDLVVPEKWEESGPQFITNCEEVRLRSFTTTIHKVNS |
| DEI.SVIRQITATVTFL.LLEVSCSFDLLIYTDK.LVVPEKWEESGPQ.I.NCEEV.LRSFT.TI.KVNS | |
| Retrocopy | DEICSVIRQITATVTFLLLLEVSCSFDLLIYTDKVLVVPEKWEESGPQIIINCEEVCLRSFTNTIYKVNS |
| Parental | MVAYKTPVND |
| MVAYKT.VND | |
| Retrocopy | MVAYKTSVND |
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 .58 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 2 .95 RPM |
| SRP007412_heart | 0 .00 RPM | 2 .74 RPM |
| SRP007412_kidney | 0 .00 RPM | 3 .08 RPM |
| SRP007412_liver | 0 .00 RPM | 1 .67 RPM |
| SRP007412_testis | 0 .00 RPM | 6 .91 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_2573 was not detected
No EST(s) were mapped for retro_mmus_2573 retrocopy.
No TSS is located nearby retro_mmus_2573 retrocopy 5' end.
retro_mmus_2573 was not experimentally validated.