RetrogeneDB ID: | retro_mmus_3147 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 8:75401979..75402308(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Dynlt3 | ||
| Ensembl ID: | ENSMUSG00000031176 | ||
| Aliases: | Dynlt3, 2310075M16Rik, AU042796, Tcte1l | ||
| Description: | dynein light chain Tctex-type 3 [Source:MGI Symbol;Acc:MGI:1914367] |
Retrocopy-Parental alignment summary:
>retro_mmus_3147
CAGCCCTGTGACGAGGTTGGCTTCAATGCTGATGAAATACATGATAAAGTTAAAAAGTATGTTGATGAAGTCTTAGGTGA
AGGCTATAGTCAGAACAATATCAAGCAGAGGACCACAAACAGAGTGGAGCAATCTTTAAAACATTTTGTTAAAATGGGAA
AAGCCTATTGCCCATTGTGACCTATGCAGTGGCCTAGCAGAATACATGCGCATTTCATAAAGCCATCTTATGTTTTGTAG
ATACTACATCTGATGGAATCTGTACTGTAAGATGGGGGAACTATACCATGAATTGCATCAGTAATGTTTTTGACATTACA
ATTGTCCTG
ORF - retro_mmus_3147 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 60.71 % |
| Parental protein coverage: | 95.69 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | RPCDEVGFNADEAHNIVKECVDGVLGGNDYNENNINQWTASIVEQSITHLVKLGKAY-KYIVTCAVVQRS |
| .PCDEVGFNADE.H..VK..VD.VLG...Y..NNI.Q.T...VEQS..H.VK.GKAY...IVT.AV.... | |
| Retrocopy | QPCDEVGFNADEIHDKVKKYVDEVLG-EGYSQNNIKQRTTNRVEQSLKHFVKMGKAY<LPIVTYAVA*QN |
| Parental | PYGFHTASSCFWDTTSDGTCTIRWENRTMNCIVNVFAVAIVL |
| ...FH.A..CF.DTTSDG.CT.RW.N.TMNCI.NVF...IVL | |
| Retrocopy | TCAFHKAILCFVDTTSDGICTVRWGNYTMNCISNVFDITIVL |
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 | 101 .58 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 73 .08 RPM |
| SRP007412_heart | 0 .00 RPM | 33 .93 RPM |
| SRP007412_kidney | 0 .00 RPM | 62 .48 RPM |
| SRP007412_liver | 0 .00 RPM | 44 .38 RPM |
| SRP007412_testis | 0 .00 RPM | 14 .13 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_3147 was not detected
No EST(s) were mapped for retro_mmus_3147 retrocopy.
No TSS is located nearby retro_mmus_3147 retrocopy 5' end.
retro_mmus_3147 was not experimentally validated.