RetrogeneDB ID: | retro_ogar_1778 | ||
Retrocopy location | Organism: | Bushbaby (Otolemur garnettii) | |
| Coordinates: | GL873565.1:8548449..8549267(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | FRA10AC1 | ||
| Ensembl ID: | ENSOGAG00000013362 | ||
| Aliases: | None | ||
| Description: | fragile site, folic acid type, rare, fra(10)(q23.3) or fra(10)(q24.2) candidate 1 [Source:HGNC Symbol;Acc:1162] |
Retrocopy-Parental alignment summary:
>retro_ogar_1778
CATGGAAAGGTGGCCCATAAACAAGTTGCAGCAGAATTGCTGGACAGGGAAGAAGCAAGAAATAGGTTTCATCTCATAGC
TATGGATGCTTATCAAAGACATACAAAGTTTATAAATGACTACATTTTATACTATGGTGGCAAAAAAGAAGACGTTCAGG
CGTTTGGGGGGAAATGACAAAACAGATTTGGATGTTATACGAGAAAATCATAGATTCCTGTAGAATGAGGAGGACGAAAT
GGACATGACTTGGGAAAAGAGACTTGCTAAGAAATACTATGACAAGCTATTCAAGGAATACTGCATAGCAGATCTCAGTA
GATACAAAGAAAATAAGTTTGGATTTAGGTGGCAAATAGAAAAAGAAGTAATTTCAGGAAAACGTCAGTTTTTCTGTGGA
AATAAATGTTGTGATGAAAAAGAGGGCTTAAAGAGTTGGGAAGTTAATTTTGGTTATACTGAGCATGGTGAAAAGAGAAA
TGCACTTGTTAAATTAAGATTATGCCAGGAATGTTCCTTTAAATTGAATTTTCATCACAGGAGAAAAGAAATCAAGTCAA
AAAAAAGAAAGGACAAAAGCAAAAGAGATTGTGAAGAGTCATCACATAAAAAAATCCAGATTATCTTCAGCAGAAGAGGC
CACCAAGAAAAAGGATAAAGGACATTCATCCTCAAAGAAATCAGAAGATTATGTAAATAGAAATTCTGATGAGGAAGAAA
GTGCTTCAGAATCTGAACTTTGGAAGGGTCCACTGCCAGAGACAGATGAAAAATCACAGGAAGAAGAATTTGATGAGTAT
TTTCAAGATTTGTTCCTG
ORF - retro_ogar_1778 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 93.45 % |
| Parental protein coverage: | 86.67 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | HGKVAHKQVAAELLDREEARNRRFHLIAMDAYQRHTKFINDYILYYGGKKED-FRRLGENDKTDLDVIRE |
| HGKVAHKQVAAELLDREEARNR.FHLIAMDAYQRHTKFINDYILYYGGKKED.FRRLG.NDKTDLDVIRE | |
| Retrocopy | HGKVAHKQVAAELLDREEARNR-FHLIAMDAYQRHTKFINDYILYYGGKKED>FRRLGGNDKTDLDVIRE |
| Parental | NHRFLWNEEDEMDMTWEKRLAKKYYDKLFKEYCIADLSRYKENKFGFRWRIEKEVISGKGQFFCGNKCCD |
| NHRFL.NEEDEMDMTWEKRLAKKYYDKLFKEYCIADLSRYKENKFGFRW.IEKEVISGK.QFFCGNKCCD | |
| Retrocopy | NHRFL*NEEDEMDMTWEKRLAKKYYDKLFKEYCIADLSRYKENKFGFRWQIEKEVISGKRQFFCGNKCCD |
| Parental | EKEGLKSWEVNFGYIEHGEKRNALVKLRLCQECSFKLNFHHRRKEIKSKKRKDKSKRDCEESSH-KKSRL |
| EKEGLKSWEVNFGY.EHGEKRNALVKLRLCQECSFKLNFHHRRKEIK..........DCEESSH.KKSRL | |
| Retrocopy | EKEGLKSWEVNFGYTEHGEKRNALVKLRLCQECSFKLNFHHRRKEIKXXXXXXXXXXDCEESSH>KKSRL |
| Parental | SSAEEATKKKDKGHSSSKKSEDYVNRNSDEEESASESELWKGPLPETDEKSQEEEFDEYFQDLFL |
| SSAEEATKKKDKGHSSSKKSEDYVNRNSDEEESASESELWKGPLPETDEKSQEEEFDEYFQDLFL | |
| Retrocopy | SSAEEATKKKDKGHSSSKKSEDYVNRNSDEEESASESELWKGPLPETDEKSQEEEFDEYFQDLFL |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Otolemur garnettii was not studied using RNA-Seq expression data.
Otolemur garnettii was not studied using ChIP-Seq data.
Otolemur garnettii was not studied using EST data.
Otolemur garnettii was not studied using FANTOM5 data.
retro_ogar_1778 was not experimentally validated.
Retrocopy orthology:
Otolemur garnettii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 1 parental gene, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Otolemur garnettii | ENSOGAG00000013362 | 2 retrocopies |
retro_ogar_1778 , retro_ogar_860,
|