RetrogeneDB ID: | retro_mmus_2265 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 3:72049996..72050610(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | H2-M9 | ||
| Ensembl ID: | ENSMUSG00000067201 | ||
| Aliases: | H2-M9, M9 | ||
| Description: | histocompatibility 2, M region locus 9 [Source:MGI Symbol;Acc:MGI:1276570] |
Retrocopy-Parental alignment summary:
>retro_mmus_2265
TATTTAAGTCACGGATTCTTTGAAGCAGCCTTCAATGACCACGATTACATCAGGCTAAATGAGGAACTGACGACTTGGAC
CCCAATTAACAAGTTTGCCGAGATTCTCAGGGAAGAGTGGGCTTTGTCAGGTTTAACAGAGGGTATGAAGACTTACCTGA
AGCTTAGATGTGTGGACTTACTCCGCACAGAGCTGGAGTGTTTGAAGGAGATTTTGCTGAGAACAAATACCTCCAAAATA
CGTGACTGCTAAGGTCAGACCAGAGAAGAAAAATCACTCTGAGGAGTTTTGCCTTGAACTTCTTCCATACTGTAGTTACA
CTAACCTGGGAAAGGTATGAGAGCAACCAAACCACGGACAGGGAGATCACAGAGTCCAAGCCTTCAGTGGATGGAACATT
CCAGAAGTAGACAGCTGTTGCGGTATACTCTGGAGAGGAGCACAGGTATAAGTGTTATGTGAATCATGAGGGGCTATCTG
AGTCCATCACCCTGAGATGGGAAAGCCTCTTGAGCCCAACGCCCCCTTTATGTCTACTGTATTTGCAGTGGTTCTTGGAA
TGTTGCTTTATGGGAGCAGTGGTGAATTTTCTGATATGGAAGAGGAGGACTAGA
ORF - retro_mmus_2265 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 55.5 % |
| Parental protein coverage: | 59.65 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | YFSHAFMELLFDTHDYITLNEDLQTWRAVGKAAEIVKEEWEKINLVKSSKSFLLGACVEGLLQYLNFGKK |
| Y.SH.F.E..F..HDYI.LNE.L.TW....K.AEI..EEW....L....K..L...CV..L...L...K. | |
| Retrocopy | YLSHGFFEAAFNDHDYIRLNEELTTWTPINKFAEILREEWALSGLTEGMKTYLKLRCVDLLRTELECLKE |
| Parental | YLLRTDT-PKIHMTYKIRPD-RKITLRCWAFNFYPPEITLTWQRDGSNQTQDMEVIEIRPSGDGTFQKWA |
| .LLRT.T.PK...T.K.RP..RKITLR..A.NF.....TLTW.R..SNQT.D.E..E..PS.DGTFQK.. | |
| Retrocopy | ILLRTNT>PK-YVTAKVRPE>RKITLRSFALNFFHTVVTLTWERYESNQTTDREITESKPSVDGTFQK*T |
| Parental | AVVVSSGEEHRYTCHVNHEGLSEPVTLRWDP-PEPTIP-FLPMIIALVLGALL-MGSVMTFLIWKRRTR |
| AV.V.SGEEHRY.C.VNHEGLSE..TLRW.....PT.P.F.....A.VLG.LL.MG.V..FLIWKRRTR | |
| Retrocopy | AVAVYSGEEHRYKCYVNHEGLSESITLRWESLLSPTPP<FMSTVFAVVLGMLL>MGAVVNFLIWKRRTR |
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 | 0 .00 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .00 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .00 RPM |
| SRP007412_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .00 RPM |
| SRP007412_testis | 0 .00 RPM | 0 .00 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_2265 was not detected
No EST(s) were mapped for retro_mmus_2265 retrocopy.
No TSS is located nearby retro_mmus_2265 retrocopy 5' end.
retro_mmus_2265 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_2265 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 4 parental genes, and 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Loxodonta africana | ENSLAFG00000029181 | 1 retrocopy | |
| Macropus eugenii | ENSMEUG00000003479 | 2 retrocopies | |
| Mus musculus | ENSMUSG00000067201 | 1 retrocopy |
retro_mmus_2265 ,
|
| Ornithorhynchus anatinus | ENSOANG00000003398 | 1 retrocopy |