RetrogeneDB ID: | retro_ecab_612 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 23:7444249..7444893(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DUSP5 | ||
| Ensembl ID: | ENSECAG00000013514 | ||
| Aliases: | None | ||
| Description: | dual specificity phosphatase 5 [Source:HGNC Symbol;Acc:3071] |
Retrocopy-Parental alignment summary:
>retro_ecab_612
CTGTGTCAGCCAGCAGCAGCCCTGTGGGTCTACTTGCTCCAAGGGGGGTATGAGACCTTTTACTCAGAAGCTCCTGAGTG
TTGTGTGAATTTAAAACCCATTTCACAAGAGGAGGTTGAAATGAAAAAGCCCTCATTAACCAGTGTGGGAAACCAGCACT
TGACACCAGCTACAAGCTGACTTCTGAGCAGGGTGGCCCAGTTGCAATCCTTCTATGCCTCAACTTTGGAAGTGCCCACT
GTGCATCCAAGTGCAAAATCCACACCAGCCTGAACATCATGGTCCTGCTGAATGTCTCTCAGCAGCCCTCCAAGGTCTGT
GTGGCCCACCTGCAATACTAATGGACCCCTGTGGAAGACAGCCACGTGATTGACGTTAACTCCCACTTTCGAGAAGCAAT
AGACTTCATTGACTGTTTAGGGGGAAGGGAGCAAAATCCTGGTCCTCTGTGAGACTTGGATCTCCTGTTTACACTCCATC
TGCAAGGATTATCTCATGAAGACCAAGCAGGTGGCCTGAAGGACGCCTTGGACTGCATCGAGCAGAAGAATATGATCTCA
CCCAACTTTGGCTTCATGGACCAACTTCTGCAGTATGAATCTGACATGTTCCACATCCACCCCAAGGCTCCCTTCTGCCA
AGGG
ORF - retro_ecab_612 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 58.74 % |
| Parental protein coverage: | 80.22 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | LCLPARRPAVYFLKGGYETFYSEYPECCVDVKPISQEKIE-TERALISQCGKPVLNISYRPVYDQGGPVE |
| LC.PA....VY.L.GGYETFYSE.PECCV..KPISQE..E..E.ALI.QCGKP.L..SY.....QGGPV. | |
| Retrocopy | LCQPAAALWVYLLQGGYETFYSEAPECCVNLKPISQEEVE<NEKALINQCGKPALDTSYKLTSEQGGPVA |
| Parental | ILPFLYLGSAYHASECEFLANLHITALLNVSRRASEACTTRLHYKWIPVEDSHTADISSHFQEAIDFIDC |
| IL..L..GSA..AS.C.....L.I..LLNVS...S..C...L.Y.W.PVEDSH..D..SHF.EAIDFIDC | |
| Retrocopy | ILLCLNFGSAHCASKCKIHTSLNIMVLLNVSQQPSKVCVAHLQY*WTPVEDSHVIDVNSHFREAIDFIDC |
| Parental | V-REKG-GKVLVHCEAGISRSPTICMAYLMKTKQFR-LKDAFDYIKQRRSVISPNFGFMGQLLQYESEIL |
| ..R.KG..K.LV.CE..IS....IC..YLMKTKQ...LKDA.D.I.Q....ISPNFGFM.QLLQYES... | |
| Retrocopy | L<RGKG<SKILVLCETWISCLHSICKDYLMKTKQVA<LKDALDCIEQ-KNMISPNFGFMDQLLQYESDMF |
| Parental | PSTPTPQAPSCQG |
| ...P...AP.CQG | |
| Retrocopy | HIHP--KAPFCQG |
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 .59 RPM |
| SRP021940_cerebellum | 0 .00 RPM | 27 .37 RPM |
| SRP021940_embryo | 0 .00 RPM | 2 .40 RPM |
| SRP021940_placental_villous | 0 .00 RPM | 11 .21 RPM |
| SRP021940_synovial_membrane | 0 .00 RPM | 1 .78 RPM |
| SRP021940_testis | 0 .00 RPM | 22 .32 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_612 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_612 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_612 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ailuropoda melanoleuca | ENSAMEG00000015745 | 1 retrocopy | |
| Dasypus novemcinctus | ENSDNOG00000001858 | 1 retrocopy | |
| Equus caballus | ENSECAG00000013514 | 2 retrocopies |
retro_ecab_188, retro_ecab_612 ,
|