RetrogeneDB ID: | retro_mmus_859 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 12:49499007..49499365(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Pea15a | ||
| Ensembl ID: | ENSMUSG00000013698 | ||
| Aliases: | Pea15a, Mat1, PEA-15, Pea15, Pkcs15 | ||
| Description: | phosphoprotein enriched in astrocytes 15A [Source:MGI Symbol;Acc:MGI:104799] |
Retrocopy-Parental alignment summary:
>retro_mmus_859
ATCACCACAAACATCACCCTTGAAGACCTGGAACAGCTCAAGTCAGCCTGCAAGGAGGATATTCCCAGCAAAAACAGTGA
GGCAATCACTACAGAGAGTGCCCAATTTAACTTCCCGCAGAGTCAAAGCAAGCTAGACAAAGACAACATCTCTTACATTG
AGCACATCTTCAGATGTCTCCCCGTTCTGACCTACTCAGATAGTGGTTGACTACTGAGTCCGGGTGCTGAAGATCCCTAA
GGAGAATAAACTGCACACCAAGCTAACCAGAATCTTCAGAGCTAAGGAGTACGAAGACAGTATCTGTCAGCCCTCTGAGG
AAGAAATCATCAAATTGGCTCCTCCACCAAAGAAGTCC
ORF - retro_mmus_859 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 71.31 % |
| Parental protein coverage: | 92.31 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | LTNNITLEDLEQLKSACKEDIPSEKSEEITTGSAWFSFLESHNKLDKDNLSYIEHIF-EISRRPDLL-TM |
| .T.NITLEDLEQLKSACKEDIPS..SE.ITT.SA.F.F..S..KLDKDN.SYIEHIF...S.R.DLL... | |
| Retrocopy | ITTNITLEDLEQLKSACKEDIPSKNSEAITTESAQFNFPQSQSKLDKDNISYIEHIF<QMSPRSDLL<QI |
| Parental | VVDYRTRVLKISEEEELDTKLTRIPSAKKYKDIIRQPSEEEIIKLAPPPKKA |
| VVDY..RVLKI..E..L.TKLTRI..AK.Y.D.I.QPSEEEIIKLAPPPKK. | |
| Retrocopy | VVDY*VRVLKIPKENKLHTKLTRIFRAKEYEDSICQPSEEEIIKLAPPPKKS |
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 | 403 .22 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 418 .93 RPM |
| SRP007412_heart | 0 .00 RPM | 82 .65 RPM |
| SRP007412_kidney | 0 .00 RPM | 78 .42 RPM |
| SRP007412_liver | 0 .00 RPM | 17 .53 RPM |
| SRP007412_testis | 0 .00 RPM | 23 .05 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_859 was not detected
No EST(s) were mapped for retro_mmus_859 retrocopy.
No TSS is located nearby retro_mmus_859 retrocopy 5' end.
retro_mmus_859 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_859 has 1 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Rattus norvegicus | retro_rnor_2300 |
Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Myotis lucifugus | ENSMLUG00000001275 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000013698 | 1 retrocopy |
retro_mmus_859 ,
|
| Rattus norvegicus | ENSRNOG00000046996 | 1 retrocopy |