RetrogeneDB ID: | retro_ecab_918 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 7:15001342..15001935(+) | ||
| 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_918
TTAGAAATGAAGAATACAATATTGGAAATTAAAAATACACTAGAGGGACTCAGTAGCAGAGTAGCTGATACATAAGAACA
GATCAGTAAGCTGGATGAAAGACTAGAGGCAATCACCCAAGCTGAACAGATAAAAGAAAAAAGAATTAAAAAGAATAGGA
ACAGTCTAAGGGACCTCTGGGACAACACCAAACACATTAACATCCATATTATAGGTGTCCTGAAGGAGAAAAGAGAGACA
TTTGAAGAAATAATAACTGAAAACTTTCTTAACTTAAGGAAGGAAACAAACACCCAGGTACAGGAAGCACAGAGAACACC
AAACAAGATAAACATAAGAAGCCCATGGCACACACCAAGACATGTTTTAATTAAAACATCAAGAATTAAAGATAAAGAGA
CAATCCTAAAAGCCACAAGAGAAAGGCAACAAGTTACATACAAAGGAACCCCATAAGGCTATTAGCTGAATTCTCAGCAG
AAATCTTACAGGCTAGAAGGGAGTGAAATGGTATATTTAAAGTACTGAAAGAAAAAAATCTGCAGCCAAGAATACTCTAC
CAAGCAAGGTTAACATTGAGAATGGAGGGAGAG
ORF - retro_ecab_918 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 62.87 % |
| Parental protein coverage: | 88.39 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | LEVKSAITEKKSSLNGFNSRFKQVEERINLLDDILEEITRAEQKEEKRIRQNENSLRELWDNIKCANIHV |
| LE.K..I.E.K..L.G..SR.....E.I..LD..LE.IT.AEQ..EKRI..N.NSLR.LWDN.K..NIH. | |
| Retrocopy | LEMKNTILEIKNTLEGLSSRVADT*EQISKLDERLEAITQAEQIKEKRIKKNRNSLRDLWDNTKHINIHI |
| Parental | IGVPEERQRGRKLFEEIIAEIFPNLRKETDTQVQEAQRVPNKTSPKRP--TSRHIIIKMSKIKDKERILK |
| IGV..E....R..FEEII.E.F.NLRKET.TQVQEAQR.PNK.....P..T.RH..IK.S.IKDKE.ILK | |
| Retrocopy | IGVLKEK---RETFEEIITENFLNLRKETNTQVQEAQRTPNKINIRSPWHTPRHVLIKTSRIKDKETILK |
| Parental | AARERQQVTYKG-KPIRLSVDFSAKTLQVRREWHDIFKV-KEKNLQPRILYPARLSFTMEGE |
| A.RERQQVTYKG..PIRL...FSA..LQ.RRE...IFKV.KEKNLQPRILY.ARL...MEGE | |
| Retrocopy | ATRERQQVTYKG<NPIRLLAEFSAEILQARRE*NGIFKVLKEKNLQPRILYQARLTLRMEGE |
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 .00 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_918 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_918 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_918 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 ,
|