RetrogeneDB ID: | retro_ecab_795 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 4:88945278..88945957(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SLC10A7 | ||
| Ensembl ID: | ENSECAG00000026901 | ||
| Aliases: | None | ||
| Description: | solute carrier family 10 (sodium/bile acid cotransporter family), member 7 [Source:HGNC Symbol;Acc:23088] |
Retrocopy-Parental alignment summary:
>retro_ecab_795
GCAGCTGCACTATTTAATTCAGCCTTTGGAAGTTTTTTGGGCATCGTTATAACACCCTTACTATTGCTGCTTTTTCTTGG
CTCATCCTCTTCTGTGCCTTTTACATCTATTTTTTCTCAGCTTTTTATAACTGTTGTGGTTCCTCTCATTATTGGACAGA
TTGTCCGAAGATACATCAAGGATTGGCTTGAAAGAAAGAAACTGCCTTTTGGTGCTATCAGCAGCAGTAGGCTCCTCATG
ATCATCTACACGACATTCTGTGACACGTTCTCTAACCCAAATATTGACCTGGATAAATTCAGCCTTATTCTCATACTGTT
CATAATATTTTCTATTCAGCTGAGTTTTATGCTTTTAACCTTCATCTTTTCAACCAGGAATAATTCGGGTTTCACACCAG
CAGACACCGTGGCTATCATTTTCTGTTCTACACACAAATCCCTCACGTTAGGGATTCCAATGCTGAAGATAGTGTTTGCA
GGCCAAGAGCACCTCCCGTTGATATCTGTCCCCCTGCTCATCTACCATCCGGTTCAGATCCTGCTGGGCAGTGTGCTGGT
GCCAACAATAAAGTCTTGGATGGTGTCAAGGCAGAAGAAACTGCTCCAAACCAGGGGACCACTGGCTAACTTAGAATAAT
CCAGAAGACTTGGAATATTTATCTATCCCACTTGACCAC
ORF - retro_ecab_795 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 92.51 % |
| Parental protein coverage: | 63.03 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | AAAIFNSAFGSFLGIVITPLLLLLFLGSSSSVPFTSIFSQLFMTVVVPLIIGQIVRRYIKDWLERKKPPF |
| AAA.FNSAFGSFLGIVITPLLLLLFLGSSSSVPFTSIFSQLF.TVVVPLIIGQIVRRYIKDWLERKK.PF | |
| Retrocopy | AAALFNSAFGSFLGIVITPLLLLLFLGSSSSVPFTSIFSQLFITVVVPLIIGQIVRRYIKDWLERKKLPF |
| Parental | GAISSSVLLMIIYTTFCDTFSNPNIDLDKFSLILILFIIFSIKICPMYY-FIVRSRNNSGFTPADTVAII |
| GAISSS.LLMIIYTTFCDTFSNPNIDLDKFSLILILFIIFSI....M...FI...RNNSGFTPADTVAII | |
| Retrocopy | GAISSSRLLMIIYTTFCDTFSNPNIDLDKFSLILILFIIFSIQLSFMLLTFIFSTRNNSGFTPADTVAII |
| Parental | FCSTHKSLTLGIPMLKIVFAGHEHLSLISVPLLIYHPVQILLGSVLVPTIKSWMVSRQKKLLQTRGPLAN |
| FCSTHKSLTLGIPMLKIVFAG.EHL.LISVPLLIYHPVQILLGSVLVPTIKSWMVSRQKKLLQTRGPLAN | |
| Retrocopy | FCSTHKSLTLGIPMLKIVFAGQEHLPLISVPLLIYHPVQILLGSVLVPTIKSWMVSRQKKLLQTRGPLAN |
| Parental | L-NNPEDLEYLSIPLDH |
| L.NNPEDLEYLSIPLDH | |
| Retrocopy | L>NNPEDLEYLSIPLDH |
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 .06 RPM | 1 .36 RPM |
| SRP021940_cerebellum | 0 .05 RPM | 0 .83 RPM |
| SRP021940_embryo | 0 .03 RPM | 1 .66 RPM |
| SRP021940_placental_villous | 0 .00 RPM | 1 .64 RPM |
| SRP021940_synovial_membrane | 0 .03 RPM | 1 .37 RPM |
| SRP021940_testis | 0 .00 RPM | 2 .75 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_795 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_795 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_795 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 | |
|---|---|---|---|
| Equus caballus | ENSECAG00000026901 | 1 retrocopy |
retro_ecab_795 ,
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