RetrogeneDB ID: | retro_ecab_531 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 2:119501113..119501773(-) | ||
| 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: | ENSECAG00000019846 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ecab_531
AAATCATAAATCTGAAGAACTAAAAAATTCAATAGAGGGGTCAAGAGCAGACTAGATGAAGCAGAAAAAAGGATCAGCAA
ATGCAAAGATAGGGCAGTGGAATTCATCTACTCAAAGCAGCAAAGACAGTGAAAAGGAGTGAAGACAGCTGACAAGATTA
AACGGACACTATCAAGTGGACTTATAGTCACATATGGGGTCCCACAAGGAGAAGAGAGAGAGAAAAGAGCAAAAAACTTA
TCTGAAGGAATAACGGCTGAAAATTTCCCTACCCTGGAGGAGGAAACAGACATCCAGATCCAGGAAGCCCAGAGAGTTCC
AAATAAGATGAACCCAAAGAGATCACACCAAGACACATTATAATCAAATTATCAAAAGTTAAAGACAAGGAGAGAATCTT
AAAAGCAGCAAGAGAAAAACAACTTATTATGTACAAGGGAACCCCCATAAAACTGTCAGCAGATTTTTCAGCAGAAACTT
TGCAGGACAAAAGGGAGTGGCACAATATATTCAAAGTGCTGAAAGAAAAAAAAACTACCAACCAAGAATACTCCAGCAAA
GTTGTCCTTTAGAAATGAAGGAGAGATAAAGAGTTTTCCAGACAAACAAAAGCTGAAGGAGTTCATAACCACAAGACTGA
CTCTATAAGAAGTGTTAAAG
ORF - retro_ecab_531 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 52.21 % |
| Parental protein coverage: | 98.21 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | KSAITEKKSSLNGFNSRFKQVEERINLLDD-ILEEITRAEQKEEKRIRQNENSLRELWDNIKCANIHVIG |
| KS.I...K....G..SR....E.RI....D...E.I....Q...K.........R.L........I...G | |
| Retrocopy | KS*I*RTKKFNRGVKSRLDEAEKRISKCKDRAVEFIYSKQQRQ*KGVKTADKIKRTLSSGL----IVTYG |
| Parental | VP---EERQRGRKLFEEIIAEIFPNLRKETDTQVQEAQRVPNKTSPKRP-TSRHIIIKMSKIKDKERILK |
| VP...E...R...L.E.I.AE.FP.L..ETD.Q.QEAQRVPNK..PKR..T.RHIIIK.SK.KDKERILK | |
| Retrocopy | VPQGEEREKRAKNLSEGITAENFPTLEEETDIQIQEAQRVPNKMNPKRS<TPRHIIIKLSKVKDKERILK |
| Parental | AARERQQVTYKGKPIRLSVDFSAKTLQVRREWHDIFKVKEKNLQPRILY-PARLSFTMEGEIKSFQDKQK |
| AARE.Q...YKG.PI.LS.DFSA.TLQ..REWH.IFKV..........Y.PA.LSF..EGEIKSF.DKQK | |
| Retrocopy | AAREKQLIMYKGTPIKLSADFSAETLQDKREWHNIFKVLKXXXXTNQEY>PAKLSFRNEGEIKSFPDKQK |
| Parental | LKEFITKKPILQEMLK |
| LKEFIT....L.E.LK | |
| Retrocopy | LKEFITTRLTL*EVLK |
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 | 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 .00 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_531 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_531 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_531 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 8 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Equus caballus | ENSECAG00000019846 | 8 retrocopies |
retro_ecab_1033, retro_ecab_391, retro_ecab_528, retro_ecab_531 , retro_ecab_540, retro_ecab_574, retro_ecab_615, retro_ecab_918,
|