RetrogeneDB ID: | retro_chof_615 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_126888:853..1236(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSCHOG00000006784 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | POLR1C | ||
| Ensembl ID: | ENSCHOG00000006601 | ||
| Aliases: | None | ||
| Description: | polymerase (RNA) I polypeptide C, 30kDa [Source:HGNC Symbol;Acc:20194] |
Retrocopy-Parental alignment summary:
>retro_chof_615
GGCAAAGATCATGCCAAGTTTTCACCTGTGGCCACCACCAGTTACAGGTTCCTGCCTGACATCACCCTCCTTCAACCCAC
GGAAGAGGAGGCAGCAGGGAGCTCAAGCAGTGCTTCTCACCTGGTGTCATTGAGGTGCAGGAAGTTCAAGCTAAAGAGGT
GGCTAGAGTTACCAATCCCCAGTTGGATACCTTCAGAAGGGAAGTCTTCCAGAATGAGAAGCTGAAGAAGGTTGTATGGT
TGGCCCATGTTCGGGATCATTATATTTTCTCTGTAGAGTCAACAGGGGTGTTGCCACCAGATGTGCTGGTAAGTGAAGCC
ATCAAAGTATTGATGGGAAAGTGCTGGCGGTTCTTGGATGAAGTAGATGCAGTTCAGATGGAC
ORF - retro_chof_615 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 85.27 % |
| Parental protein coverage: | 60.38 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | GKDHAKFSPVATASYRLLPDITLLQPVEGEAA-EELRQCFSPGVIEVHEVQGKKVARVANPRLDTFSREV |
| GKDHAKFSPVAT.SYR.LPDITLLQP.E.EAA..EL.QCFSPGVIEV.EVQ.K.VARV.NP.LDTF.REV | |
| Retrocopy | GKDHAKFSPVATTSYRFLPDITLLQPTEEEAA<RELKQCFSPGVIEVQEVQAKEVARVTNPQLDTFRREV |
| Parental | FRNEKLKKVVRLARVRDHYIFSVESTGVLPPDVLVSEAIRVLMGKCRRFLDELDAVQMD |
| F.NEKLKKVV.LA.VRDHYIFSVESTGVLPPDVLVSEAI.VLMGKC.RFLDE.DAVQMD | |
| Retrocopy | FQNEKLKKVVWLAHVRDHYIFSVESTGVLPPDVLVSEAIKVLMGKCWRFLDEVDAVQMD |
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_615 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 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000006601 | 1 retrocopy |
retro_chof_615 ,
|
| Tarsius syrichta | ENSTSYG00000011921 | 1 retrocopy |