RetrogeneDB ID: | retro_btau_1270 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 3:40377693..40378125(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RSPH9 | ||
| Ensembl ID: | ENSBTAG00000009549 | ||
| Aliases: | RSPH9, C23H6orf206, C6orf206 | ||
| Description: | Radial spoke head protein 9 homolog [Source:UniProtKB/Swiss-Prot;Acc:Q2KIU7] |
Retrocopy-Parental alignment summary:
>retro_btau_1270
AAGATCAAGGAAGAGACGCGCTTGGTGTCCGTTATTGACCAGATCGACAAGGCTGTGGCTGTCATCCCCCGAGGTGCCCT
CTTTAAGACCCCTTTTGGACCTATCAATGTCAATCGGACCTTTGAAGGACTGTCCTTGTCTGAAGCCAAGAAGCTGAGTT
CTTACTTCCACTTCAGGGAGCCTGTTGAGCTGAAGAACAAGACCTTGCTGGAGAAGGCTGAGCTCGACCCGTCCCTAGAC
TTCATGGACTGTTTGGAGCACGACATCCCCAAAGGGTCTTGGAGTGTCCAGATGGAGAGAGGCAATGCCCTGGTGGTGCT
GCGCAGCCTGCTCTGGCCCGGCCTCACCTTCTACCATGCTCCTCGCACCAAAAACTATGGCTACATCTACGTGGGCACTG
GCGAGAAGAACCTAGACCTGCCCTTCATGCTG
ORF - retro_btau_1270 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 98.61 % |
| Parental protein coverage: | 52.17 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | QIKEETRLVSVIDQIDKAVAVIPRGALFKTPFGPINVNRTFEGLSLSEAKKLSSYFHFREPVELKNKTLL |
| .IKEETRLVSVIDQIDKAVAVIPRGALFKTPFGPINVNRTFEGLSLSEAKKLSSYFHFREPVELKNKTLL | |
| Retrocopy | KIKEETRLVSVIDQIDKAVAVIPRGALFKTPFGPINVNRTFEGLSLSEAKKLSSYFHFREPVELKNKTLL |
| Parental | EKAELDPSLDFMDSLEHDIPKGSWSVQMERGNALVVLRSLLWPGLTFYHAPRTKNYGYIYVGTGEKNLDL |
| EKAELDPSLDFMD.LEHDIPKGSWSVQMERGNALVVLRSLLWPGLTFYHAPRTKNYGYIYVGTGEKNLDL | |
| Retrocopy | EKAELDPSLDFMDCLEHDIPKGSWSVQMERGNALVVLRSLLWPGLTFYHAPRTKNYGYIYVGTGEKNLDL |
| Parental | PFML |
| PFML | |
| Retrocopy | PFML |
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 | 0 .22 RPM |
| ERP005899_muscle | 0 .00 RPM | 1 .85 RPM |
| SRP017611_brain | 0 .00 RPM | 9 .64 RPM |
| SRP017611_kidney | 0 .00 RPM | 2 .79 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .76 RPM |
| SRP030211_testis | 0 .28 RPM | 59 .08 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_1270 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_1270 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_1270 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 | ENSBTAG00000009549 | 1 retrocopy |
retro_btau_1270 ,
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