RetrogeneDB ID: | retro_ecab_920 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 7:18826166..18826459(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | IMMP1L | ||
| Ensembl ID: | ENSECAG00000020512 | ||
| Aliases: | None | ||
| Description: | IMP1 inner mitochondrial membrane peptidase-like (S. cerevisiae) [Source:HGNC Symbol;Acc:26317] |
Retrocopy-Parental alignment summary:
>retro_ecab_920
CTGGGAAAAACCTTTCACCTGTTGGCTGTCCTGTTCAGTGTTGCTGTATAGCTCCTTGTGCTTTTGAATATGTTGGTGGT
GTTGTCGTGTATTCTGGACATTCAATGGGCTCTACAATTCAAAATTCAGATATTATCTTTGCAGAAAATCTTACTCAACA
TTTTTATGGTATCCAAAGAGGTGACACTGTGATAACAAAAAGCCCAAGTGATCCAGAATCAAATATTTGTAAAAGAGTAG
TTTATATGGAGACAAAAATCCTCACCAATTGTCCACCAGATTTCTTTAAAAGC
ORF - retro_ecab_920 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.0 % |
| Parental protein coverage: | 59.64 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | LGKTFRL-VGYTIQYACIAHCAFEYVGGVVMCSGPSMEPTIQNSDIVCAENLSRHFYGIQRGDIVIAKSP |
| LGKTF.L.VG...Q..CIA.CAFEYVGGVV..SG.SM..TIQNSDI..AENL..HFYGIQRGD.VI.KSP | |
| Retrocopy | LGKTFHL<VGCPVQCCCIAPCAFEYVGGVVVYSGHSMGSTIQNSDIIFAENLTQHFYGIQRGDTVITKSP |
| Parental | SDPKSNICKRVIGLEGDKILTSRPSDFFKS |
| SDP.SNICKRV...E..KILT..P.DFFKS | |
| Retrocopy | SDPESNICKRVVYME-TKILTNCPPDFFKS |
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 | 3 .36 RPM |
| SRP021940_cerebellum | 0 .00 RPM | 9 .56 RPM |
| SRP021940_embryo | 0 .00 RPM | 5 .88 RPM |
| SRP021940_placental_villous | 0 .00 RPM | 6 .64 RPM |
| SRP021940_synovial_membrane | 0 .00 RPM | 3 .18 RPM |
| SRP021940_testis | 0 .00 RPM | 7 .93 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_920 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_920 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_920 has 1 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Canis familiaris | retro_cfam_1757 |