RetrogeneDB ID: | retro_ecab_925 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 7:28900680..28901348(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSECAG00000009821 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ecab_925
GATATGAAGAACACAATTAATGAGATAAAAAATAATCTAGAATCCATAAAAAATAGATTTGACATTATGAAGGACAGAAT
TAGTGATTGAGAGGATAGAAATATAGAAATGCTTCAGGTGGAGGAGAAGAGAGAACTAAGATTTTAACAAAATGAAGAAA
TTCTTTGAGAAATATCTGATTCAATCAGGAAAAGCAACATGAGAATTATAGGTATTCAAGAGGGAGAAAGGAGCAGGGAG
CTTGTTCAAAGAAATAATAGCTGAGAACTTTGCCAAACCTGGGGAAGTAACTGGACTTACAAGTACATAAAACAATAGAA
CTCCTAAGTATATCAATGTAAAAACACCTTCTCTAAGGCATATACTATTAAAACTGGCAAAAGCCAATGACAAAGAAAAA
ATATTAAGGGCAGCAAGGCAGAAGAAAATAACCTACAATGGGACTCCTATCAGGCTTTCAGTGGATTCCTTGGCAGAAAC
CTTACAGGCTAGGAGAGAATGGAATGGTATATTCAAAATACTGAAAGCCAAAAACTTTCAGCCCAGAATGCTTTATCCAG
TGAAACTAACCCTCAGATACAGTGGAGAAATAAAAACTTCCCAGATAAACAAAAGCTGAGGGAGTTCATTGCCACTAGAC
CTCCTTACAAGAAAAAATGAAAGAAGCC
ORF - retro_ecab_925 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 52.19 % |
| Parental protein coverage: | 92.53 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 5 |
Retrocopy - Parental Gene Alignment:
| Parental | EMKNTTLEMKSSLERLNSRVSDTHEQMSEIDERLEEISQAEQKKEKRIRQNENSLRELWDNIKCTNIRFI |
| .MKNT..E.K..LE....R........S....R..E..Q.E.K.E.R..QNE..L.E..D.I...N.R.I | |
| Retrocopy | DMKNTINEIKNNLESIKNRFDIMKDRISD*EDRNIEMLQVEEKRELRF*QNEEIL*EISDSIRKSNMRII |
| Parental | GVPEGEERDKEAENR-VAENF-PNLKKETDIHIQEA-QRTPKKISPKRATPRHIIIKISKMNDKERIPRA |
| G..EGE...........AENF.PNL.K..D........RTPK.I..K....RHI..K..K.NDKE.I.RA | |
| Retrocopy | GIQEGERSRELVQRN>IAENF>PNLGK*LDLQVHKT<NRTPKYINVKTPSLRHILLKLAKANDKEKILRA |
| Parental | ARQKKISYKGTPIRLSVHFSTETLQARRDWNDIFKTLKDKNLQPRILYPAKIFFRYEGEI-KSFPDNQKL |
| ARQKKI.Y.GTPIRLSV....ETLQARR.WN.IFK.LK.KN.QPR.LYP.K...RY.GEI.K.FPD.QKL | |
| Retrocopy | ARQKKITYNGTPIRLSVDSLAETLQARREWNGIFKILKAKNFQPRMLYPVKLTLRYSGEI<KNFPDKQKL |
| Parental | RDFVATSPP-LQEILKKA |
| R.F.AT.PP.LQE..K.A | |
| Retrocopy | REFIATRPP<LQEKMKEA |
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 .00 RPM |
| SRP021940_embryo | 0 .00 RPM | 0 .00 RPM |
| SRP021940_placental_villous | 0 .00 RPM | 0 .00 RPM |
| SRP021940_synovial_membrane | 0 .00 RPM | 0 .00 RPM |
| SRP021940_testis | 0 .00 RPM | 0 .06 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_925 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_925 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_925 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 7 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Equus caballus | ENSECAG00000009821 | 7 retrocopies |
retro_ecab_137, retro_ecab_142, retro_ecab_237, retro_ecab_394, retro_ecab_643, retro_ecab_731, retro_ecab_925 ,
|