RetrogeneDB ID: | retro_ecab_55 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 16:26120170..26121430(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSECAG00000004415 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSECAG00000017166 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_ecab_55
ATGAACGTTCACTGTGGCAGTGAGAGTGACAGGTTCCTGCGGCCAGAGGCCAGCTGCCTGATGGATGAAACCTCAGCTGC
AGCCCAAGAAAAAGAAACAAATAATCTGACTTCTTCTGGTCTTCAAACCCTTGCTTATCCTCTAGGTCCCAGGAATGATG
ACCTTTCACTCGACCCTGCATCTCAGCCAGCAAATCTTCAGTTCCCGCACGTAATGCCACTTCCCGAAGACATCAAAGGC
TCTTGCTTACAGAGTGGGAATAAGCGTAACCATGACCCCTTTCTTGCTCCAGAACGATTTGGAAACAGCACTGTGGGCTT
TGGCAGTAATGTTCATTCCCAGGCACCAGAGAAAGTGACTCTTCTCGTAGATGGCACACGTTTTGTTGTGAATCCACAAA
TTTTCACTGCTCATCCAGATACCATGTTGGGAAGGATGTTTGGACCAGGAAGAGAGTACAACTTCACGCGGCCCAACGAG
AAGGGGGAGTATGAGATTGCTGAAGGAATCAGTGCAGCTGTGTTTCAAACGGTGCTGGATTATTACAAAACTGGTATCAT
CAATTGTCCTGATGGCATCTCTATCCCAGACCTTAGAGACACGTGCGATTATCTCTGCATTAACTTTGACTTCAACACTA
TCCGATGTCAGGATCTGAGTGCTTTACTGCATGAACTGTCTAACGACGGTGCTCACAAGCAGTTTGATCACTACCTCGAA
GAGCTGATCCTGCCCATCATGGTGGGCTGTGCCAAGAAGGGTGAGCGCGAGTGCCATATCGTTGTGCTGACAGATGAGGA
TTCTGTGGACTGGGATGAAGACCACCCCCCACCCATGGGGGAGGAATATTCCCAAATTCTTTACAGCTCTAAGCTCTACA
GATTCTTCAAGTACATTGAGAATCGGGATGTCGCCAAAACAGTGTTAAAGGAGCGGGGCCTGAAAAACATTCGCATTGGA
ATTGAAGGTTACCCTACCTGTAAAGAAAAAATTAAGAGAAGACCTGGTGGCCGATCTGAAGTAATCTATAATTATGTGCA
GCGCCCCTTTATCCAGATGTCGTGGGAAAAGGAAGAAGGAAAGAGTCGCCATGTGGATTTCCAGTGTGTTCGAAGCAAAT
CCCTCACTAATCTGGTAGCTGCTGGAGAAGACGTCTTAGAGGACCAGGAGATACTAATGTACCACCCACCCCAAGTGGAT
GAACTTGACCGGCTAAATGCCCCACTTTCTCAGATGGCCTCTAATGACTTTCAGGATTAG
ORF - retro_ecab_55 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 99.28 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MNVHCGSESDRFLRPEASCLMDETSAAAQEKETNNLTSSGLQTLAYPLGPRNDDLSLDPASQPANLQFPH |
| MNVHCGSESDRFLRPEASCLMDETSAAAQEKETNNLTSSGLQTLAYPLGPRNDDLSLDPASQPANLQFPH | |
| Retrocopy | MNVHCGSESDRFLRPEASCLMDETSAAAQEKETNNLTSSGLQTLAYPLGPRNDDLSLDPASQPANLQFPH |
| Parental | VMPLPEDIKGSCFQSGNKRNHDPFLAPERFGNSTVGFGSNVHSQAPEKVTLLVDGTRFVVNPQIFTAHPD |
| VMPLPEDIKGSC.QSGNKRNHDPFLAPERFGNSTVGFGSNVHSQAPEKVTLLVDGTRFVVNPQIFTAHPD | |
| Retrocopy | VMPLPEDIKGSCLQSGNKRNHDPFLAPERFGNSTVGFGSNVHSQAPEKVTLLVDGTRFVVNPQIFTAHPD |
| Parental | TMLGRMFGPGREYNFTRPNEKGEYEIAEGISAAVFRTVLDYYKTGIINCPDGISIPDLRDTCDYLCINFD |
| TMLGRMFGPGREYNFTRPNEKGEYEIAEGISAAVF.TVLDYYKTGIINCPDGISIPDLRDTCDYLCINFD | |
| Retrocopy | TMLGRMFGPGREYNFTRPNEKGEYEIAEGISAAVFQTVLDYYKTGIINCPDGISIPDLRDTCDYLCINFD |
| Parental | FNTIRCQDLSALLHELSNDGAHKQFDHYLEELILPIMVGCAKKGERECHIVVLTDEDSVDWDEDHPPPMG |
| FNTIRCQDLSALLHELSNDGAHKQFDHYLEELILPIMVGCAKKGERECHIVVLTDEDSVDWDEDHPPPMG | |
| Retrocopy | FNTIRCQDLSALLHELSNDGAHKQFDHYLEELILPIMVGCAKKGERECHIVVLTDEDSVDWDEDHPPPMG |
| Parental | EEYSQILYSSKLYRFFKYIENRDVAKTVLKERGLKNIRIGIEGYPTCKEKIKRRPGGRSEVIYNYVQRPF |
| EEYSQILYSSKLYRFFKYIENRDVAKTVLKERGLKNIRIGIEGYPTCKEKIKRRPGGRSEVIYNYVQRPF | |
| Retrocopy | EEYSQILYSSKLYRFFKYIENRDVAKTVLKERGLKNIRIGIEGYPTCKEKIKRRPGGRSEVIYNYVQRPF |
| Parental | IQMSWEKEEGKSRHVDFQCVRSKSLTNLVAAGEDVLEDQEVLMYHPPQVDELDRLNAPLSQMASNDFQD |
| IQMSWEKEEGKSRHVDFQCVRSKSLTNLVAAGEDVLEDQE.LMYHPPQVDELDRLNAPLSQMASNDFQD | |
| Retrocopy | IQMSWEKEEGKSRHVDFQCVRSKSLTNLVAAGEDVLEDQEILMYHPPQVDELDRLNAPLSQMASNDFQD |
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 | 1 .89 RPM |
| SRP021940_cerebellum | 0 .05 RPM | 7 .01 RPM |
| SRP021940_embryo | 0 .15 RPM | 13 .50 RPM |
| SRP021940_placental_villous | 0 .05 RPM | 6 .40 RPM |
| SRP021940_synovial_membrane | 0 .27 RPM | 9 .11 RPM |
| SRP021940_testis | 0 .06 RPM | 4 .22 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_55 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_55 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_55 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Equus caballus | ENSECAG00000017166 | 1 retrocopy |
retro_ecab_55 ,
|
| Myotis lucifugus | ENSMLUG00000007139 | 1 retrocopy | |
| Tarsius syrichta | ENSTSYG00000012406 | 1 retrocopy |