RetrogeneDB ID: | retro_ecab_1005 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 9:9798820..9799174(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | TESC | ||
| Ensembl ID: | ENSECAG00000011177 | ||
| Aliases: | None | ||
| Description: | tescalcin [Source:HGNC Symbol;Acc:26065] |
Retrocopy-Parental alignment summary:
>retro_ecab_1005
CAGCCCATGAACCCCACTGTGAAGGAGGAGCAGGTGCAGCTGTGCCTGAAGGAGAAGCTGAGATTTCTGCTCCACATGTA
TGACTCAGACGGCGATGGAGCTATCACTCTAGAAGAATACAGAAATGTGGTCGAGGAGCTGCTCTTGGGAAACCCCGACA
TGGACAAGGATTCCAGTGGCTTCATTGCAGATGAGGCCATGATGGAGGCAGCCAGCATCCGGATGAGGCAGATGAAGTCT
GATCAGGTGTAAGAGAGCATCACCTTTGACGACTTCCTGAAGGTCTGCCATGGGAGAGACATCAAGACCAAGATGCACGT
CTGCTTCCTTTACATGGAAACCATCGCCCTTTGC
ORF - retro_ecab_1005 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 68.64 % |
| Parental protein coverage: | 60.82 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | RPIDITMDEEQVQLCRKEKLRFLFHMYDSDSDGRITLEEYRNVVEELLSGNPHIEKESARSIADGAMMEA |
| .P...T..EEQVQLC.KEKLRFL.HMYDSD.DG.ITLEEYRNVVEELL.GNP...K.S...IAD.AMMEA | |
| Retrocopy | QPMNPTVKEEQVQLCLKEKLRFLLHMYDSDGDGAITLEEYRNVVEELLLGNPDMDKDSSGFIADEAMMEA |
| Parental | ASVCVGQMEPDQVYEGITFDDFLKIWQGIDIETKMHVRFLNVEAMALC |
| AS....QM..DQV.E.ITFDDFLK...G.DI.TKMHV.FL..E..ALC | |
| Retrocopy | ASIRMRQMKSDQV*ESITFDDFLKVCHGRDIKTKMHVCFLYMETIALC |
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 | 7 .61 RPM |
| SRP021940_cerebellum | 0 .00 RPM | 17 .81 RPM |
| SRP021940_embryo | 0 .00 RPM | 2 .81 RPM |
| SRP021940_placental_villous | 0 .00 RPM | 2 .12 RPM |
| SRP021940_synovial_membrane | 0 .00 RPM | 5 .13 RPM |
| SRP021940_testis | 0 .00 RPM | 4 .67 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_1005 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_1005 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_1005 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 7 parental genes, and 7 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ailuropoda melanoleuca | ENSAMEG00000012517 | 1 retrocopy | |
| Canis familiaris | ENSCAFG00000009300 | 1 retrocopy | |
| Equus caballus | ENSECAG00000011177 | 1 retrocopy |
retro_ecab_1005 ,
|
| Felis catus | ENSFCAG00000002633 | 1 retrocopy | |
| Myotis lucifugus | ENSMLUG00000001775 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000029359 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000001128 | 1 retrocopy |