RetrogeneDB ID: | retro_chof_384 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_102299:3346..3884(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | C1orf52 | ||
| Ensembl ID: | ENSCHOG00000012863 | ||
| Aliases: | None | ||
| Description: | chromosome 1 open reading frame 52 [Source:HGNC Symbol;Acc:24871] |
Retrocopy-Parental alignment summary:
>retro_chof_384
ATGGCAGCAGACGAAAAGGACCCTCTGAGCTATCTTGCAGTTTACAGGAGTAGCAGCTCAGGCTCCTCGGACGAGAAACA
CAACAGCAAGCAGGAAGAGATGAGTCGCAGGGCCTCAGATCCGGTGAAGCCAACGGGCAGCAGTGGAAATGATGGAAAAG
CAGCTGCCGGGACCCAACGAGCTGTTCCAGAGCGTGACTCGCCTGGCCTTTCTCTACAATCCCTTGAACAAGCAGACAAA
CAGGGAGAGGCATGTCATCAAGGCGCCCAAGGCACCTCCAAAGGAATTCAAAATATGGAAGTCAAACTATGAACCACCTC
CTGAGACCTACACTACCGAGAAGAAACCATGGCCCCCAGAGCTGGATATGGCAATAAAGTGGTCAAACATATATGAGGAC
AATGGTGATCATGCCCCATAGAATGCTAAGAAAGCTAGGTTTCTACCGGAAGGGGAGGAGACAGTGAAATCAGATGATGA
AAAAGATGAACATACTTCTAAAAAGTTGAAAGTGGAACCAGGAGAACCAGCAAAGAAG
ORF - retro_chof_384 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 78.89 % |
| Parental protein coverage: | 98.89 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MAADEKDPLSYFAAYGSSSSGSSDEEDNSEPEEMGRRTSDPVKPTGSSVN-MAKRLPGPDELFRSVTRPA |
| MAADEKDPLSY.A.Y.SSSSGSSDE..NS..EEM.RR.SDPVKPTGSS.N.M.K.LPGP.ELF.SVTR.A | |
| Retrocopy | MAADEKDPLSYLAVYRSSSSGSSDEKHNSKQEEMSRRASDPVKPTGSSGN>MEKQLPGPNELFQSVTRLA |
| Parental | YLY-PLNKQXXXXXXXXXXXXXPPKEFKIWKSNYVPPPETYTTEKKPPPPELDMAIKWSNIYEDNGDDAP |
| .LY.PLNKQ.............PPKEFKIWKSNY.PPPETYTTEKKP.PPELDMAIKWSNIYEDNGD.AP | |
| Retrocopy | FLYNPLNKQTNRERHVIKAPKAPPKEFKIWKSNYEPPPETYTTEKKPWPPELDMAIKWSNIYEDNGDHAP |
| Parental | QNAKKARLLPEGEETVESDDEKDEHTSKKRKVEPGEPAKK |
| .NAKKAR.LPEGEETV.SDDEKDEHTSKK.KVEPGEPAKK | |
| Retrocopy | *NAKKARFLPEGEETVKSDDEKDEHTSKKLKVEPGEPAKK |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Choloepus hoffmanni was not studied using RNA-Seq expression data.
Choloepus hoffmanni was not studied using ChIP-Seq data.
Choloepus hoffmanni was not studied using EST data.
Choloepus hoffmanni was not studied using FANTOM5 data.
retro_chof_384 was not experimentally validated.
Retrocopy orthology:
Choloepus hoffmanni 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 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000012863 | 1 retrocopy |
retro_chof_384 ,
|
| Oryctolagus cuniculus | ENSOCUG00000002803 | 2 retrocopies |