RetrogeneDB ID: | retro_ecab_768 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 31:12419761..12420130(-) | ||
| Located in intron of: | ENSECAG00000020997 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSECAG00000012904 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ecab_768
AAGAGTTTAGGAAATAGGGCAGATGCAATAAAAGAAAGAACTAGTAACTTGGAGGACAGGAATTTAGAAATGACTCAGAA
AAGGGGAGAGAACTAAGATTTTAAAAAAGTGAAGAAACTATGAGAGCTATCAGGTATGATGAGAAAAACAAATATAAGAA
TAACTGTTCTACCAAAAGGAGAAGGGAGGGAGAAGAGAGCAGGGAGTGTATACAGATAAATAATAGCCAAGAACTTCCTA
AACCTGGGGAGGGAATTAGACACACAAGACAAAGAAGCTAACAGAACTCCCTCTTATCTCAAAACAAAAAGACCTTCTCC
AAGACACATTATAATGAAACTGTCAAAAATCAATGATAAAGAAAGAATC
ORF - retro_ecab_768 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 50.4 % |
| Parental protein coverage: | 70.06 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | ESINNRMDQAEE-TCELEDRTFEIIQSEENKEKRMKKIKDSLLEKYLTIRKSNIRIIGIPEGEEKQKDTE |
| .S..NR.D...E.T..LEDR..E..Q.........KK.K..L.E.....RK.NIRI...P.GE...K... | |
| Retrocopy | KSLGNRADAIKERTSNLEDRNLEMTQ-KRGEN*DFKKVK-KL*ELSGMMRKTNIRITVLPKGEGREKRAG |
| Parental | SLFKEIIAENFPNLGKKLDLQVHEANRTPNYIKAKRPSPRHIVLKLVKVNDKEKI |
| S....IIA.NF.NLG..LD.Q..EANRTP.Y.K.KRPSPRHI..KL.K.NDKE.I | |
| Retrocopy | SVYR*IIAKNFLNLGRELDTQDKEANRTPSYLKTKRPSPRHIIMKLSKINDKERI |
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 .03 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_768 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_768 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_768 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 11 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Equus caballus | ENSECAG00000012904 | 11 retrocopies |
retro_ecab_1003, retro_ecab_1068, retro_ecab_1117, retro_ecab_155, retro_ecab_407, retro_ecab_695, retro_ecab_702, retro_ecab_768 , retro_ecab_856, retro_ecab_877, retro_ecab_906,
|