RetrogeneDB ID: | retro_chof_446 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_10982:3056..3615(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PPP2CB | ||
| Ensembl ID: | ENSCHOG00000003467 | ||
| Aliases: | None | ||
| Description: | protein phosphatase 2, catalytic subunit, beta isozyme [Source:HGNC Symbol;Acc:9300] |
Retrocopy-Parental alignment summary:
>retro_chof_446
CTGGATGAGAAGGTGCTCACCAAGGAGCTGGACCAGTGGATTAAGCAGCTAAACAAGTGCAAACAGCTGTCTGAGTCCCA
GGTCAAGAGCCTCTGCAAGAAAGTTAAAGAAATCCTGACAAAAGAATCCAACGTCCAAGAGGCTTAATGTCCAGTCACTA
TCTGAGAAGATGTGCGTGGGAAATTTCATAATCTCATGGAACTGTTTAGAATTGGTGGCAATCAACAGATACAAATTACT
TGTTTATGGGAGATTATGTTCACAGAGGCTATCATTCAGTTGAAACAGTTACACTGCTTATAGCTCTTAAGGTTTCTTAC
CATGAATGCATCACCATTCTATGAGGGAATCATGAGAGTAGACATATTACAAAAGTATATGGTTTCTATGATGAGTGTTT
AAGGAAATATGGAAACCCAATGGTTGGAAATATTTTACAGATCTTTTTTACTATCTTCCTCTCACTGTCTTGGTGAATGG
GCATATTTTTCTATCTACACAGTGGCTCTCACCATCCATAGATACACTGGATCACATCAGAGCACTCGGTCACCTACAA
ORF - retro_chof_446 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.49 % |
| Parental protein coverage: | 60.26 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | MDYKEFSKELD-WV-ELKECKQFKENQVQTLCEKAKEILTKESNVQEVRCPVTVCGDVHGQFHDLMELFR |
| .D.K...KELD.W...L..CKQ..E.QV..LC.K.KEILTKESNVQE..CPVT...DV.G.FH.LMELFR | |
| Retrocopy | LDEKVLTKELDQWIKQLNKCKQLSESQVKSLCKKVKEILTKESNVQEA*CPVTI*EDVRGKFHNLMELFR |
| Parental | IGG-KSPDTNYLFMGDYVDRGYYSVETVTLLVALKVRYPERITILRGNHESRQITQVYGFYDECLRKYGN |
| IGG..S.DTNYLFMGDYV.RGY.SVETVTLL.ALKV.Y.E.ITIL.GNHESR.IT.VYGFYDECLRKYGN | |
| Retrocopy | IGG<QSTDTNYLFMGDYVHRGYHSVETVTLLIALKVSYHECITIL*GNHESRHITKVYGFYDECLRKYGN |
| Parental | -ANVWKYFTDLFDYLPLTALVDGQIFCLHGGLSPSIDTLDHIRALDRLQ |
| ..N.WKYFTDLF.YLPLT.LV.G.IF.....LSPSIDTLDHIRAL..LQ | |
| Retrocopy | <PNGWKYFTDLFYYLPLTVLVNGHIFLSTQWLSPSIDTLDHIRALGHLQ |
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_446 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 11 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000003467 | 9 retrocopies |
retro_chof_1247, retro_chof_1521, retro_chof_1556, retro_chof_2112, retro_chof_2267, retro_chof_2502, retro_chof_251, retro_chof_273, retro_chof_446 ,
|
| Monodelphis domestica | ENSMODG00000019001 | 2 retrocopies |