RetrogeneDB ID: | retro_chof_1721 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_366401:27..485(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | LYPLAL1 | ||
| Ensembl ID: | ENSCHOG00000002210 | ||
| Aliases: | None | ||
| Description: | lysophospholipase-like 1 [Source:HGNC Symbol;Acc:20440] |
Retrocopy-Parental alignment summary:
>retro_chof_1721
GTGGGTAGTCACTGCCCAGAACACCTTGAATCAATTGATGGAGGCGGCGGGTGCTTACAGATTTAATTAATGAGGAAGTA
AAAAGTGGAATTAAGAAGAACAGGATATTAATAGGAGGATTTTCTATGGGAGGATGCATGGCAATGCATTTAGCATATAG
AAATCATCAAGATGTGGCAGGAGTATTTGCTCTTTCTAGTTTTCTGAATAAAACATCTGCTGTTTACCAGGCTCTTCAGA
AAACTGATGGTGTAATTCCTGAACTATTTCAGTGTCATGGAACTGCAGATGAGTTAGTTCTTCATTCTTGGGGTGAAGAG
ACAAACTTAATGCTGAAATCTTTAGGAGTGAGCACAAACTTTTATAGTCTCCCAAATGTTTATCATGACCTAAGCAAAAC
TGAACTAGAAAAACTGAAGTCATGGATCCTTAAAAAGCTACCAGGAGAAGTGGAAAAG
ORF - retro_chof_1721 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 94.16 % |
| Parental protein coverage: | 64.29 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | ISDDCPEHLESIDA-MCQVLTDLINEEVKSGIKKNRILIGGFSMGGCMAMHLAYRNHQDVAGVFALSSFL |
| ....CPEHLESID.....VLTDLINEEVKSGIKKNRILIGGFSMGGCMAMHLAYRNHQDVAGVFALSSFL | |
| Retrocopy | VGSHCPEHLESIDG<RRRVLTDLINEEVKSGIKKNRILIGGFSMGGCMAMHLAYRNHQDVAGVFALSSFL |
| Parental | NKTSAVYQALQKTDGVIPELFQCHGTADELVLHSWGEETNLMLKSLGVSTNFYSLPNVYHDLSKTELEKL |
| NKTSAVYQALQKTDGVIPELFQCHGTADELVLHSWGEETNLMLKSLGVSTNFYSLPNVYHDLSKTELEKL | |
| Retrocopy | NKTSAVYQALQKTDGVIPELFQCHGTADELVLHSWGEETNLMLKSLGVSTNFYSLPNVYHDLSKTELEKL |
| Parental | KSWILKKLPGEVEK |
| KSWILKKLPGEVEK | |
| Retrocopy | KSWILKKLPGEVEK |
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_1721 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 | ENSCHOG00000002210 | 1 retrocopy |
retro_chof_1721 ,
|
| Dasypus novemcinctus | ENSDNOG00000001461 | 1 retrocopy | |
| Tursiops truncatus | ENSTTRG00000004004 | 1 retrocopy |