RetrogeneDB ID: | retro_chof_2688 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_9720:14413..14961(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | UBAC2 | ||
| Ensembl ID: | ENSCHOG00000000639 | ||
| Aliases: | None | ||
| Description: | UBA domain containing 2 [Source:HGNC Symbol;Acc:20486] |
Retrocopy-Parental alignment summary:
>retro_chof_2688
ACATTGATTTATATATTGGGACTACAGCTTTTCACCTCTGGTTCCTACCCCTAGATTGAGGCCATAAGTGGACTTATTTC
TGGTATCTGCTACAATAGCAATGTGTTAAAAGTTAATAAGTACTCTGAATCCCCTGCTGGATTGCGAAGTTATTTTCTTG
GACACTCAAGCCCATATTTTCATCTTCAGAACCCACCAACAAAGCCCGAATGGGGATGGGGGCAACAGTGGGCATCCAGA
GACAGCAGAGGATGGAGCTCCTTGATCGTCGGCTGATGCTTTCTCAGTTTACAAAAGAGAGGCGACAAAGACACCAGCAG
GGAGGAATGATCCATTGGAATCAACTTTTCCCTCCTTTATGTCAGTGACAAAATATAAACTATCCTGATGGTCAGCAGTC
TGAACGACAAGCATCTCCTTCTCTAGAGTTTTCTGAAGAACAGGTCGCCCAACTCATGGAGATGGGGTTTTCCAGAGATG
CTGCTTTGGAAGCCCTGAGAGCTTCAAATAATGACCTTAATGTGGCCACCAACTTCCCGCTGCAGCAC
ORF - retro_chof_2688 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 83.15 % |
| Parental protein coverage: | 56.31 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | TLIYILGLQLFTSGSYIWIVAISGLISGICYNSNVLKVHQ-VLCIPHWLAKLFSWTLEPIFSSSEPTNEA |
| TLIYILGLQLFTSGSY..I.AISGLISGICYNSNVLKV...VL.IP.W.AKLFSWTL.PIFSSSEPTN.A | |
| Retrocopy | TLIYILGLQLFTSGSYP*IEAISGLISGICYNSNVLKVNK<VL*IPCWIAKLFSWTLKPIFSSSEPTNKA |
| Parental | RIGMGATVDIQRQQRMELLDRQLMLSQFVQVRRQRQQQGGMINWNRLFPPLRQRRNINYPDGRQSEQQAS |
| R.GMGATV.IQRQQRMELLDR.LMLSQF...RRQR.QQGGMI.WN.LFPPL.Q..NINYPDG.QSE.QAS | |
| Retrocopy | RMGMGATVGIQRQQRMELLDRRLMLSQFTKERRQRHQQGGMIHWNQLFPPLCQ*QNINYPDGQQSERQAS |
| Parental | PPLEVSEEQVARLMEMGFSRGDALEALRASNNDLNVATNFLLQH |
| P.LE.SEEQVA.LMEMGFSR..ALEALRASNNDLNVATNF.LQH | |
| Retrocopy | PSLEFSEEQVAQLMEMGFSRDAALEALRASNNDLNVATNFPLQH |
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_2688 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 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000000639 | 1 retrocopy |
retro_chof_2688 ,
|
| Dasypus novemcinctus | ENSDNOG00000005108 | 1 retrocopy | |
| Macropus eugenii | ENSMEUG00000014722 | 1 retrocopy |