RetrogeneDB ID: | retro_ecab_187 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 1:128380515..128380773(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSECAG00000022138 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | INIP | ||
| Ensembl ID: | ENSECAG00000008524 | ||
| Aliases: | None | ||
| Description: | INTS3 and NABP interacting protein [Source:HGNC Symbol;Acc:24994] |
Retrocopy-Parental alignment summary:
>retro_ecab_187
ATGGCAGCAAACCCTTCAGGACAAGGCTTTCAAAACAAAAACAGAGTTGCAATCTTGGCAGAACTGGACAAAGAGAAAGG
AAAATTACTAAAGCAGAAGCAATCTTCAACAAATCATCCTGGAGCTAGCATTATGCTCTGGAGACCCTCACTTAATAAGG
ACTTCCAGGATCATGCTGAGCAGCAGACTGCAGCCCAACACAAGGTAGCTTCGCAGCATGCAAATGCACATTCATCTGGA
TACTTCACAATTCAAGAC
ORF - retro_ecab_187 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.76 % |
| Parental protein coverage: | 83.65 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MAANSSGQGFQNKNRVAILAELDKEKRKLLMQNQSSTNHPGASIALSRPSLNKDFRDHAEQQHIAAQQKA |
| MAAN.SGQGFQNKNRVAILAELDKEK.KLL.Q.QSSTNHPGASI.L.RPSLNKDF.DHAEQQ..AAQ.K. | |
| Retrocopy | MAANPSGQGFQNKNRVAILAELDKEKGKLLKQKQSSTNHPGASIMLWRPSLNKDFQDHAEQQ-TAAQHKV |
| Parental | ALQHAHAHSSGYFITQD |
| A.QHA.AHSSGYF..QD | |
| Retrocopy | ASQHANAHSSGYFTIQD |
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 | 2 .77 RPM |
| SRP021940_cerebellum | 0 .10 RPM | 3 .64 RPM |
| SRP021940_embryo | 0 .00 RPM | 3 .30 RPM |
| SRP021940_placental_villous | 0 .00 RPM | 2 .84 RPM |
| SRP021940_synovial_membrane | 0 .00 RPM | 1 .67 RPM |
| SRP021940_testis | 0 .00 RPM | 2 .62 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_187 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_187 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_187 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 10 parental genes, and 10 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ailuropoda melanoleuca | ENSAMEG00000006841 | 1 retrocopy | |
| Equus caballus | ENSECAG00000008524 | 1 retrocopy |
retro_ecab_187 ,
|
| Homo sapiens | ENSG00000148153 | 1 retrocopy | |
| Microcebus murinus | ENSMICG00000001130 | 1 retrocopy | |
| Nomascus leucogenys | ENSNLEG00000016554 | 1 retrocopy | |
| Oryctolagus cuniculus | ENSOCUG00000016717 | 1 retrocopy | |
| Oryzias latipes | ENSORLG00000011577 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000023472 | 1 retrocopy | |
| Sorex araneus | ENSSARG00000003661 | 1 retrocopy | |
| Xiphophorus maculatus | ENSXMAG00000002259 | 1 retrocopy |