RetrogeneDB ID: | retro_ecab_226 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 10:4078645..4079438(-) | ||
| Located in intron of: | ENSECAG00000009914 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ADCK4 | ||
| Ensembl ID: | ENSECAG00000022458 | ||
| Aliases: | None | ||
| Description: | aarF domain containing kinase 4 [Source:HGNC Symbol;Acc:19041] |
Retrocopy-Parental alignment summary:
>retro_ecab_226
ATGTGGCTGGAGGTAGGGGGCCTCCTGCGGGGGACCTGTGGACAGCTGGGTCGGACTGGTGGTCTGCCTTGTGGGGCCCC
GAGGCCTGGGCCCCACTGGTGGGGGCCATGTGGGGGTTCTTGGGCCCAAAAGCTTCATCAGGATGGGCCCGGCAGAGGTG
TGGGTGAGGAAGACATCCGCCGGGCACGGGAGGCCCAGATCAGGAAGACACCCCGGCCCCAGCTGAGTGACCGCTCTGGA
GAACGCAAGGTGCCCGCCTCCCGCATCAGCCGCTTGGCCAACTTTGGGGGACTGGGCTGTGGGCTTGGGACTGGGAGCGC
TGGCTGAGGTGGCTAAGAAGTCCCTGCCAGGAGGACATCGACAATCAGAAGGCAGCTCCCGGCCAGGCTCCAGCCCGTTG
CTGTCGGAGGCCAACGCCGAGCGGGTTGTGCAGACCTTGTGTACAGTTCGAGGGGCCGCCCTCAAGGTTGGCCAAATGCT
CAGCATCCAGGACAACAGCTTCATCAGCCCCCAGCTGCAGCGCATCTCCGAGCGGGTCTGCCAGAGCGCCGACTTCATGC
CCCGCTGGCAGATGCTGAGAGTTCTCGAGGAGGAGCTCGGCACAGACTGGCAGGCCAAGGTGGCCTTTTTGGAGGAGGTG
CCCTTTGCTGCTGTCTCAATTGGGCAGGTGCACCAGGGCCTGCTGAGGGACGGGACAGAGGTTGCCATGAAGATCCAGTA
CCCAGGCGTTGCCCAGAGCATTCAGAGCAATGTGCAGAACCTGCTGGCGGTGCTCAAGATGGGCGTGGCCCTG
ORF - retro_ecab_226 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 94.72 % |
| Parental protein coverage: | 50.38 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MWLEVGGLLRGTCGQLGRTVGLPCGAPRPGPHWWGPCGGSWAQKLHQDGPGRGLGEEDIRRAREARIRKT |
| MWLEVGGLLRGTCGQLGRT.GLPCGAPRPGPHWWGPCGGSWAQKLHQDGPGRG.GEEDIRRAREA.IRKT | |
| Retrocopy | MWLEVGGLLRGTCGQLGRTGGLPCGAPRPGPHWWGPCGGSWAQKLHQDGPGRGVGEEDIRRAREAQIRKT |
| Parental | PRPQLSDRSRERKVPASRISRLANFGGL-AVGLGLGALAEVAKKSLPGGHRQSEGSSRPGSSPLLTEANA |
| PRPQLSDRS.ERKVPASRISRLANFGGL.AVGLGLGALAEVAKKSLPGGHRQSEGSSRPGSSPLL.EANA | |
| Retrocopy | PRPQLSDRSGERKVPASRISRLANFGGL>AVGLGLGALAEVAKKSLPGGHRQSEGSSRPGSSPLLSEANA |
| Parental | ERVVQTLCTVRGAALKIGQMLSIQDNSFISPQLQRIFERVRQSADFMPRWQMLRVLEEELGTDWQAKVAS |
| ERVVQTLCTVRGAALK.GQMLSIQDNSFISPQLQRI.ERV.QSADFMPRWQMLRVLEEELGTDWQAKVA. | |
| Retrocopy | ERVVQTLCTVRGAALKVGQMLSIQDNSFISPQLQRISERVCQSADFMPRWQMLRVLEEELGTDWQAKVAF |
| Parental | LEEVPFAAASIGQVHQGLLRDGTEVAVKIQYPGVAQSIQSDVQNLLAVLKMSVAL |
| LEEVPFAA.SIGQVHQGLLRDGTEVA.KIQYPGVAQSIQS.VQNLLAVLKM.VAL | |
| Retrocopy | LEEVPFAAVSIGQVHQGLLRDGTEVAMKIQYPGVAQSIQSNVQNLLAVLKMGVAL |
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 | 5 .61 RPM |
| SRP021940_cerebellum | 0 .05 RPM | 16 .25 RPM |
| SRP021940_embryo | 0 .08 RPM | 16 .57 RPM |
| SRP021940_placental_villous | 0 .05 RPM | 16 .26 RPM |
| SRP021940_synovial_membrane | 0 .05 RPM | 14 .91 RPM |
| SRP021940_testis | 0 .19 RPM | 16 .82 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_226 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_226 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_226 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Equus caballus | ENSECAG00000022458 | 1 retrocopy |
retro_ecab_226 ,
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