RetrogeneDB ID: | retro_ecab_731 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 3:94406127..94406764(+) | ||
| 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_731
TCACTAGAGGGACTCAATAGCAGAGTAGATGATACAGAAGAATGGATCAGTAAACTGAAGGACAGACTATAGGAAATCAC
CCAAGTTGAACAAGCAAAAGAGAAAATTACAAAGAATGAGAAGAGTTGAAGGGAACTCTGGGACATTATCAAGCCTACTA
ACATTCATATTATAGGTGTCCCAGAAGGAGAAGAGAGAGACAAAGGGGCAGAGAATCTATTTGAAGAAATAATAGCTGAA
AACTTTCCTAACCTAAGGAAGGAAATAGACATTCAAGTACAGTAAGCACAGAGAGCACCAAACAAGATAAACCCAAAGAG
GCCCACACCAAGACACATTATAATTAAAATCTCCAAAATTAAAGATATAGAATCCTAAAGGCAGCAAGAGAAGTAAAACA
CGTGACATACAAAGGAAAGCCCATAAGGCTATCAGCAGACATCTCAGCCAAAACCCTACGGCTGGAAGAGAGTGGCATGA
CTTATGTAAAGTGCTGACAGGAAAAAACCTACAGCCAAGAATACTCTATCCAGCAAGGTTATCATTCAGATCGGAAGGAG
AGATAAAGAGTTTCCCAGACAAGCAAAAATTAAACGAGTTTGTCACCAAGAATTCAGTTCTAAAAGAAATGTTGAAG
ORF - retro_ecab_731 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 61.57 % |
| Parental protein coverage: | 87.14 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | SLERLNSRVSDTHEQMSEIDERLEEISQAEQKKEKRIRQNENSLRELWDNIKCTNIRFIGVPEGEERDKE |
| SLE.LNSRV.DT.E..S....RL.EI.Q.EQ.KEK.I..NE.S.RELWD.IK.TNI..IGVPEGEERDK. | |
| Retrocopy | SLEGLNSRVDDTEEWISKLKDRL*EITQVEQAKEK-ITKNEKS*RELWDIIKPTNIHIIGVPEGEERDKG |
| Parental | A----ENRVAENFPNLKKETDIHIQEAQRTPKKISPKRATPRHIIIKISKMNDKER-IPRAARQKKISYK |
| A....E...AENFPNL.KE.DI..Q.AQR.P.KI.PKR.TPRHIIIKISK..D.E.....A...K...YK | |
| Retrocopy | AENLFEEIIAENFPNLRKEIDIQVQ*AQRAPNKINPKRPTPRHIIIKISKIKDIES<LKAAREVKHVTYK |
| Parental | GTPIRLSVHFSTETLQ-ARRDWNDIFKTLKDKNLQPRILYPAKIFFRYEGEIKSFPDNQKLRDFVATSPP |
| G.PIRLS...S..TL..A.R.W.D..K.L..KNLQPRILYPA...FR.EGEIKSFPD.QKL..FV..... | |
| Retrocopy | GKPIRLSADISAKTLR<AGREWHDLCKVLTGKNLQPRILYPARLSFRSEGEIKSFPDKQKLNEFVTKNSV |
| Parental | LQEILK |
| L.E.LK | |
| Retrocopy | LKEMLK |
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_731 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_731 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_731 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,
|