RetrogeneDB ID: | retro_mmus_3464 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | X:70770866..70771290(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMUSG00000083406 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | 2610301B20Rik | ||
| Ensembl ID: | ENSMUSG00000059482 | ||
| Aliases: | 2610301B20Rik, AI428449 | ||
| Description: | RIKEN cDNA 2610301B20 gene [Source:MGI Symbol;Acc:MGI:1914407] |
Retrocopy-Parental alignment summary:
>retro_mmus_3464
ATGGCGAAGGACCTGGACGAACTTCTGGACGAAGTCGAAACCAAGATCTGCAGACTAGACCCCCTGAGGCTGGACCTGGG
TCAGCGGCCCAAAGGAGGTGGCAGTGGCAGCTTACACAGCGGCGGCCAGAACGGAGCCCTGGAGAAAGAGACTCTCAGAT
CAACAGAAACACTTGAAAAAGAAGATGATCTTCAGTCTTATTAATGAAATATTCGAGGAGCCTGACTCTGACAAAAAATC
TTTTCAAACATTTAAATCTAAATTTTCAAGTGACACATCTGTCAGAGCTCCCATACAAGGCGGCAGTAAAAGTTGCAGTC
CAGTGCATCTCAGCGGAAGTACCATTCCATGTGGGATTGGAACAAATACTTCACAGAGAGCATGTGACAGACTGCGTTGT
GTAGCCTGTGAGCTACAATATGTG
ORF - retro_mmus_3464 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 78.32 % |
| Parental protein coverage: | 67.94 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MAKDLDELLDEVETKFCRLDPLRLDLGERPKGDGGGGSHSGDRNGAQEKETLRSTETFKKEDD-LDSLIN |
| MAKDLDELLDEVETK.CRLDPLRLDLG.RPKG.G.G..HSG..NGA.EKETLRSTET.....D...SLIN | |
| Retrocopy | MAKDLDELLDEVETKICRLDPLRLDLGQRPKGGGSGSLHSGGQNGALEKETLRSTETLE-KED>IFSLIN |
| Parental | EIFEEPDFDRKSFQKFKSKSSSNTCVRAPMQGVSKSCSPVYLSGSAIPCGIGTNTSQRACDRLRCVACDF |
| EIFEEPD.D.KSFQ.FKSK.SS.T.VRAP.QG.SKSCSPV.LSGS.IPCGIGTNTSQRACDRLRCVAC.. | |
| Retrocopy | EIFEEPDSDKKSFQTFKSKFSSDTSVRAPIQGGSKSCSPVHLSGSTIPCGIGTNTSQRACDRLRCVACEL |
| Parental | RIV |
| ..V | |
| Retrocopy | QYV |
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 | 30 .58 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 17 .72 RPM |
| SRP007412_heart | 0 .00 RPM | 4 .64 RPM |
| SRP007412_kidney | 0 .00 RPM | 7 .93 RPM |
| SRP007412_liver | 0 .00 RPM | 2 .65 RPM |
| SRP007412_testis | 0 .00 RPM | 34 .08 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_3464 was not detected
No EST(s) were mapped for retro_mmus_3464 retrocopy.
No TSS is located nearby retro_mmus_3464 retrocopy 5' end.
retro_mmus_3464 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_3464 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Mus musculus | ENSMUSG00000059482 | 1 retrocopy |
retro_mmus_3464 ,
|