RetrogeneDB ID: | retro_ecab_631 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 24:45036376..45036681(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TSTD1 | ||
| Ensembl ID: | ENSECAG00000000506 | ||
| Aliases: | None | ||
| Description: | thiosulfate sulfurtransferase (rhodanese)-like domain containing 1 [Source:HGNC Symbol;Acc:35410] |
Retrocopy-Parental alignment summary:
>retro_ecab_631
CCTGGGCTCTGTCTGCTCCCAGCTTCCAACTGGGCTAGCTCAGTATATGTGAGGTCTGGGACGCGGAGGCAGCTGGGACC
TTGCCCTGGGTGCTCAACATCCCGGTGTCTAAGTTAGAAAGCACCCTGCAGATGGAGGCAGCTGCTTCCCAGGCTTCGTA
CTCCACTGAGAAGCCAAAGCTGGAAGATGAGAATCTCGTTTTGTCAGACAGGGGCTTGCAGGCCACTCAGTGGGCCCAGG
GACCTGGATTCACAGGTGCTCGCAGCCACGCAGGGGCCTACAGAGAATGGTTCCAGTAGGAAGGT
ORF - retro_ecab_631 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 61.68 % |
| Parental protein coverage: | 92.17 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | PELRSLLALGRARLIDVRSR-EEAAAGTIPGALNIPVSELESALQMEPAAFQALYSTQKPKLEDENLIFF |
| P.L..L.A...A....VRS.....AAGT.P..LNIPVS.LES.LQME.AA.QA.YST.KPKLEDENL... | |
| Retrocopy | PGLCLLPASNWASSVYVRSG<DAEAAGTLPWVLNIPVSKLESTLQMEAAASQASYSTEKPKLEDENLV-- |
| Parental | CQMGKRGLQATQLAQGLGYTGARNYTGAYREWLQQEG |
| .....RGLQATQ.AQG.G.TGAR...GAYREW.Q.EG | |
| Retrocopy | --LSDRGLQATQWAQGPGFTGARSHAGAYREWFQ*EG |
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 |
|---|---|---|
| SRP021940_articular_cartilage | 0 .00 RPM | 0 .00 RPM |
| SRP021940_cerebellum | 0 .00 RPM | 0 .57 RPM |
| SRP021940_embryo | 0 .00 RPM | 1 .41 RPM |
| SRP021940_placental_villous | 0 .00 RPM | 3 .90 RPM |
| SRP021940_synovial_membrane | 0 .00 RPM | 1 .76 RPM |
| SRP021940_testis | 0 .00 RPM | 3 .13 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_631 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_631 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_631 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Equus caballus | ENSECAG00000000506 | 1 retrocopy |
retro_ecab_631 ,
|
| Equus caballus | ENSECAG00000024361 | 1 retrocopy | |
| Sarcophilus harrisii | ENSSHAG00000016118 | 1 retrocopy |