RetrogeneDB ID: | retro_btau_700 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 18:46800767..46801151(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MNF1 | ||
| Ensembl ID: | ENSBTAG00000033603 | ||
| Aliases: | MNF1, C23H6orf125 | ||
| Description: | Mitochondrial nucleoid factor 1 [Source:UniProtKB/Swiss-Prot;Acc:Q3SZ13] |
Retrocopy-Parental alignment summary:
>retro_btau_700
GCAGCCAGCCACTAAGGGCGCTTTCTTAAGCTCTGTGAGGAATGGCTGGGACGAGACCAAACAGACAGGAAGTTGGGCAC
TTACTTGTGGCAGTGCATAGCACAAGCCTTTCAGGAGGGAGAGAACACCCAGACTGCAGAGCCTGAGGCCTGCAGTCAGG
TGTACAAGAGCTTAGCCTGGCTCCATTCAAACTACTGCAAACACAAGTACCCTCACCTCAGACACACAAGCTTCAGTGGC
CTGTCCTTGGAAGAGTACAAACTGATCCTGTCCACAGATATGTTGGACGAGTTTAAGGAGATGAATAAAGGCATGTGGAA
GAAACGGCAGAAGTTTGTCCCCAAGAAGCCCAATGAGAAGCACAAAGCCTAGGCTCAGGCCTTA
ORF - retro_btau_700 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 69.23 % |
| Parental protein coverage: | 95.59 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | AASRYRRFLKLCEEWPVDETKRGRDLGAYLRQRVAQAFREGENTQVAEPEACDEMYESLARLHSNYYKHK |
| AAS...RFLKLCEEW........R.LG.YL.Q..AQAF.EGENTQ.AEPEAC...Y.SLA.LHSNY.KHK | |
| Retrocopy | AASH*GRFLKLCEEW-LGRDQTDRKLGTYLWQCIAQAFQEGENTQTAEPEACSQVYKSLAWLHSNYCKHK |
| Parental | YPRPRETSFSGLSLEEYKLILSTDTLDEFKEMNKGTWKKLQEKFAPGSPEGKHTAWARAL |
| YP..R.TSFSGLSLEEYKLILSTD.LDEFKEMNKG.WKK...KF.P..P..KH.A.A.AL | |
| Retrocopy | YPHLRHTSFSGLSLEEYKLILSTDMLDEFKEMNKGMWKK-RQKFVPKKPNEKHKA*AQAL |
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 |
|---|---|---|
| ERP005899_liver | 0 .00 RPM | 3 .32 RPM |
| ERP005899_muscle | 0 .00 RPM | 12 .19 RPM |
| SRP017611_brain | 0 .00 RPM | 12 .15 RPM |
| SRP017611_kidney | 0 .00 RPM | 10 .19 RPM |
| SRP017611_liver | 0 .00 RPM | 15 .10 RPM |
| SRP030211_testis | 0 .00 RPM | 95 .72 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_700 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_700 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_700 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 | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000033603 | 1 retrocopy |
retro_btau_700 ,
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