RetrogeneDB ID: | retro_mmus_3251 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 9:19691063..19691548(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Bnip2 | ||
| Ensembl ID: | ENSMUSG00000011958 | ||
| Aliases: | None | ||
| Description: | BCL2/adenovirus E1B interacting protein 2 [Source:MGI Symbol;Acc:MGI:109327] |
Retrocopy-Parental alignment summary:
>retro_mmus_3251
GTTGTTAGCCATGGAGGCTATGATGGGGATGGCTTAAATGCCATTGTTGTATTTGCTGTCTGTTTCATGCCTGAGAGTGG
TCAGCCTAATTATAGATATTTGATGGACAGTCTCTTTAATTATTGCATTGTCACTTTAGAGCTGTTGGTAGCAGAGACCT
ACATGATCATTTACTTAAATGGTGAGACAACTCAAAGAAAAATGCCCAGTCTGGGATGGCTCGGGAGATGCTACCAGCAA
ACTGATAGACGATTAAGGGAAAACCTAAAGTCTCTAATCATTATGCACCCTTCTTGGTTTATGCGAACACTTCTGGCTGT
TACAAGACCATTTATCAGTTCAAAATTCGGTCAGAAAATTATATACTTCTTTAAGTTAGCAGAACTGGTGGAGCTGTTCC
CAAGGAGTATGTTGGCATACCAGAGTGCATCAAATAATTTGATCAAGAGCTTAATAGAAAACAAGAACCACCAAAAAGTG
AGCAG
ORF - retro_mmus_3251 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 85.28 % |
| Parental protein coverage: | 51.59 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | VISHGGYYGDGLNAIVVFAVCFMPESGQPNYRYLMDNLFKYVIGTLELLVAENYMIIYLNGATTRRKMPS |
| V.SHGGY.GDGLNAIVVFAVCFMPESGQPNYRYLMD.LF.Y.I.TLELLVAE.YMIIYLNG.TT.RKMPS | |
| Retrocopy | VVSHGGYDGDGLNAIVVFAVCFMPESGQPNYRYLMDSLFNYCIVTLELLVAETYMIIYLNGETTQRKMPS |
| Parental | LGWLRRCYQQIDRRLRKNLKSLIIVHPSWFIRTLLAVTRPFISSKFSQKIRYVFNLAELAEL-VPMEYVG |
| LGWL.RCYQQ.DRRLR.NLKSLII.HPSWF.RTLLAVTRPFISSKF.QKI.Y.F.LAEL.EL.VP.EYVG | |
| Retrocopy | LGWLGRCYQQTDRRLRENLKSLIIMHPSWFMRTLLAVTRPFISSKFGQKIIYFFKLAELVEL<VPKEYVG |
| Parental | IPECIKQVDQELNGKQEPPKSEQ |
| IPECIK..DQELN.KQEPPKSEQ | |
| Retrocopy | IPECIK*FDQELNRKQEPPKSEQ |
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 .02 RPM | 25 .56 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 34 .82 RPM |
| SRP007412_heart | 0 .00 RPM | 93 .67 RPM |
| SRP007412_kidney | 0 .00 RPM | 56 .69 RPM |
| SRP007412_liver | 0 .03 RPM | 58 .96 RPM |
| SRP007412_testis | 0 .05 RPM | 40 .30 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_3251 was not detected
No EST(s) were mapped for retro_mmus_3251 retrocopy.
No TSS is located nearby retro_mmus_3251 retrocopy 5' end.
retro_mmus_3251 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_3251 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Cavia porcellus | ENSCPOG00000004962 | 2 retrocopies | |
| Mus musculus | ENSMUSG00000011958 | 1 retrocopy |
retro_mmus_3251 ,
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