RetrogeneDB ID: | retro_mmus_3597 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | X:36212671..36213004(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMUSG00000083130 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Cd79a | ||
| Ensembl ID: | ENSMUSG00000003379 | ||
| Aliases: | Cd79a, Ig-alpha, Iga, Igalpha, Ly-54, Ly54, mb-1 | ||
| Description: | CD79A antigen (immunoglobulin-associated alpha) [Source:MGI Symbol;Acc:MGI:101774] |
Retrocopy-Parental alignment summary:
>retro_mmus_3597
CTTAGCATCTCCAAAGTAAACAAGAGCCATAGGGACATGTGCAGGTGCCAAGTGAAAGAAAACAACATATCAAAATACTC
CTGTAGCACTTACCTCCAAGTGCATGAGCCAGTCCTTAGACCCTTCCTGGACACGAGGGAAGGCACCAAGAGTCTCATCA
TCACAGCTGAGGGGATCATCTTGCTATTCTGTGCAATGGTACCAGCGACACTGCTGCTATTCAGGAAGTGATGGCCAAAT
GAGAACGGAGAAGACATACCAGATGAGGGCTTGAATCTTGATGATTGCTCTATGAATAAGGATATCTGTAGCGGACTCCA
GGACGTGGACAGG
ORF - retro_mmus_3597 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 60.53 % |
| Parental protein coverage: | 51.36 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LFFPEVNKNHRGLYWCQVIENNILKRSCGTYLRVRNPVPRPFLDMGEGTKNRIITAEGIILLFCAVVPGT |
| L....VNK.HR....CQV.ENNI.K.SC.TYL.V..PV.RPFLD..EGTK..IITAEGIILLFCA.VP.T | |
| Retrocopy | LSISKVNKSHRDMCRCQVKENNISKYSCSTYLQVHEPVLRPFLDTREGTKSLIITAEGIILLFCAMVPAT |
| Parental | LLLFRKRWQNEKFGVDMPDDYEDENLYE-GLNLDDCSMYEDISR |
| LLLFRK.W.NE..G.D.PD..E..NL.....N.D.CS...D..R | |
| Retrocopy | LLLFRK*WPNEN-GEDIPD--EGLNLDDCSMNKDICSGLQDVDR |
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 .23 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .69 RPM |
| SRP007412_heart | 0 .00 RPM | 2 .02 RPM |
| SRP007412_kidney | 0 .00 RPM | 0 .79 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .30 RPM |
| SRP007412_testis | 0 .05 RPM | 0 .09 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_3597 was not detected
No EST(s) were mapped for retro_mmus_3597 retrocopy.
No TSS is located nearby retro_mmus_3597 retrocopy 5' end.
retro_mmus_3597 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_3597 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 | ENSMUSG00000003379 | 1 retrocopy |
retro_mmus_3597 ,
|