RetrogeneDB ID: | retro_ecab_15 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 29:28396396..28396846(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSECAG00000006407 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CALM2 | ||
| Ensembl ID: | ENSECAG00000008396 | ||
| Aliases: | CALM2, CALM | ||
| Description: | calmodulin 2 (phosphorylase kinase, delta) [Source:HGNC Symbol;Acc:1445] |
Retrocopy-Parental alignment summary:
>retro_ecab_15
ATGGCTGAGAAGCTGTCTGAAGAGCAGGTGGCCGAGTTCAAGGAGGCCTTCTCCAGTGTTGACAAGAATGGGGATGGCAC
CATCAACACCCAGGAGCTGGGCGCCGTGATGCAGGCCTTGGGCCACAGTCTGTCGGAGGCCGAGTTGAACGAGCTCATCG
CCAGGGTGGACTCTGATGGCGATGGCGTCATCAACTTCCAAGAGTTCCTGGCGGAGATGGTCAAGAGGAGGAAGGCCTGG
GGCAGTGAGCAGGACCTGCAGGGGGTCTTCCGTGCCTTTGACCTGGACGGTGACGGCCACATCAACGTGGATGAGCTCAA
GCAGGCCATAGCCAAGCTAGGGGATGAGGTTTCCGAGGAGGCGCTGGAAGTCATGATCCGCCAGGCTGACTTGGACCAGG
ACGGGAAGGTGAGCTACGAGGAGTTCGTGCGCATCCTCACCCAGAAGTGA
ORF - retro_ecab_15 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 51.68 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MADQLTEEQIAEFKEAFSLFDKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFL |
| MA..L.EEQ.AEFKEAFS..DK.GDGTI.T.ELG.VM..LG....EAEL...I..VD.DG.G.I.F.EFL | |
| Retrocopy | MAEKLSEEQVAEFKEAFSSVDKNGDGTINTQELGAVMQALGHSLSEAELNELIARVDSDGDGVINFQEFL |
| Parental | TMMARKMKDTDSEEEIREAFRVFDKDGNGYISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYE |
| ..M....K...SE......FR.FD.DG.G.I...EL......LG.....E....MIR.AD.D.DG.V.YE | |
| Retrocopy | AEMVKRRKAWGSEQDLQGVFRAFDLDGDGHINVDELKQAIAKLGDEVSEEALEVMIRQADLDQDGKVSYE |
| Parental | EFVQMMTAK |
| EFV...T.K | |
| Retrocopy | EFVRILTQK |
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 | 58 .97 RPM |
| SRP021940_cerebellum | 0 .36 RPM | 119 .86 RPM |
| SRP021940_embryo | 0 .00 RPM | 121 .88 RPM |
| SRP021940_placental_villous | 3 .61 RPM | 113 .40 RPM |
| SRP021940_synovial_membrane | 0 .66 RPM | 53 .48 RPM |
| SRP021940_testis | 0 .45 RPM | 92 .72 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_15 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_15 was not experimentally validated.