RetrogeneDB ID: | retro_chof_2196 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_57631:6933..7567(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | C1orf51 | ||
| Ensembl ID: | ENSCHOG00000008999 | ||
| Aliases: | None | ||
| Description: | chromosome 1 open reading frame 51 [Source:HGNC Symbol;Acc:25200] |
Retrocopy-Parental alignment summary:
>retro_chof_2196
CCAACACCTACTTCTGGACCTATGGGTTCTCCATATAGTGTTTCATCCTATTCCTCCTTACCCCCTCTTCTGAACAGTGA
CTTTGGCTTCAACTCTGATAGTGAAGGGAGGACAAGGGGGCCCATGGGCCCAGGCCAGGCACTGTTGGGCAGAGAGGAGG
ATCCTGGCCCAGCCCGGGTCCTATCTGCTACAGGCATAGACCCAGGGTTTCCAGCAAGCAACATACAACATCTCACCTGG
AACAGCCGGGCTTGGCTTCTCCTGTGGCAGGATCTGGGGTCCAAAGGCCAAGAGATGGTGGATTGGAAACCCCTCTGAAC
ACCCAGAGCTGTAGCACAGAGGGAGACAGGCCCTCTGTGTAAAGATGTGTAAAGATCTCCAAGGATTCACTCACCCCCTC
ACAGATCTTCTTAATGGGCTGAAGATGGGTCGTTCTGAGAGAGGACTGAGCAGTTTCCAGCAGAGTGTGGCAATGGATAG
GATCCAGTGTATTGCAGGTGTTTTGCAGAAACCACAGATGGGGGAGCATTATCTAGGAAAACTGCTACAGGTAGAAGGGA
TGTTAAAGACTTGGTTTCCTCATATAGCTGCCCAGAGATCATCATTGGGACACAGCAGGCACCACCTGACCAAG
ORF - retro_chof_2196 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 68.69 % |
| Parental protein coverage: | 54.17 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | PSSISSYSSFPLS-SSFATFP--VNSDFGFPSDSEG-ENKGAHGPRPDTVGQRGGSRPSPGPVRYRHRTK |
| P...S.....P.S.SS....P...NSDFGF.SDSEG.E.KGAHGPRP.TVGQRGGS.PSPGP..YRHR.. | |
| Retrocopy | PTPTSGPMGSPYSVSSYSSLPPLLNSDFGFNSDSEG<EDKGAHGPRPGTVGQRGGSWPSPGPICYRHRPR |
| Parental | VSSKQHTASHLEQQSLASLVAGSRIKRSRDDKLETRLNIQSCTTEGDMLFAQKCKEL-QGFIRPLTDLLN |
| VSSKQHT.SHLEQ..LAS.VAGS...R.RD..LET.LN.QSC.TEGD......C.........P....L. | |
| Retrocopy | VSSKQHTTSHLEQPGLASPVAGSGVQRPRDGGLETPLNTQSCSTEGDRPSV*RCVKISKDSLTPSQIFLM |
| Parental | G-LKMGRFERGLSSFQQSVAMDRIQRIVGVLQKPQMGERYLGTLLQVEGMLKTWFPHIAAQRSSLGDSRH |
| G.LKMGR.ERGLSSFQQSVAMDRIQ.I.GVLQKPQMGE.YLG.LLQVEGMLKTWFPHIAAQRSSLG.SRH | |
| Retrocopy | G<LKMGRSERGLSSFQQSVAMDRIQCIAGVLQKPQMGEHYLGKLLQVEGMLKTWFPHIAAQRSSLGHSRH |
| Parental | QLTK |
| .LTK | |
| Retrocopy | HLTK |
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_2196 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 | ENSCHOG00000008999 | 1 retrocopy |
retro_chof_2196 ,
|
| Monodelphis domestica | ENSMODG00000018781 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000038550 | 1 retrocopy |