RetrogeneDB ID: retro_chof_2573

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_86925:792..1417(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: AQP10
• Ensembl ID: ENSCHOG00000012951
• Aliases: None
• Description: aquaporin 10 [Source:HGNC Symbol;Acc:16029]

Sequence

>retro_chof_2573
CTGGGATGCCTCCCCTGGGCCAAGCTCCCCATTTATATGTTGGTGCAGCTGCCATCTGCTTTCTGTGCCTTAGGAGCTAC
CTATCCCTTTACTGCAATGCCCTATAGAACTATACAGGTGGGAACCTGACAGTTTCTGGCCCCAAGGAGACAGCTTTCTT
TGCTACCTACTCTACCCTCTATCTGTCCCTTAATAATGGCTTCATAGATCAGGTTCTGGGCACCAGGATCCTGATTATGG
GGATCTTGGACATCCTAGATCTACAGAACAAAGGAGTGTCTGTGGGTCTGGAGCCTGTGGCAGTGGGGCTGCTGATCCAG
TCATTGGGCTATCCATGGGTGTCAACTGTAGATTCTCACTCAACCCTGCCCAGGACTTGGACTCCTGGCTTTTCACCTAT
GTAGCTGGCAGGGGCTCTGATATCTTCAGTGCTGGTAATGGCTGGTAATGGATGCCTGTGGTAGCCCCTCTGATGGGTCC
CATGCTTGGCTCAGCCCCATAGCAACTGCTGGTAACTCTGCACCACCCTGAGGACTTGGAGCCAGCTCACAGTCTGGAGT
TGGCCCTAGACAAAGCCTCAGACTTGAAAACTCCTTCCTGCATTCAGATGCCAGAATGTAAGCTA

Alignment

ORF - retro_chof_2573 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.34 %
• Parental protein coverage: 69.67 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LGRLPWVKLPIYILVQLLSAFCASGATY-ALYYDAIQNYTGGNLTVSGPKETASIFATYPAPYLSLNNGI
          LG.LPW.KLPIY.LVQL.SAFCA.GATY..LY..A..NYTGGNLTVSGPKETA..FATY...YLSLNNG.
Retrocopy LGCLPWAKLPIYMLVQLPSAFCALGATY<SLYCNAL*NYTGGNLTVSGPKETA-FFATYSTLYLSLNNGF

Parental  LDQXXXXXXXIVGILAILDTRNKGVPAGLEPVAVGLLIL-VIGLSMGANCGFPINPARDLGPRLFTYIAG
          .DQ.......I.GIL.ILD..NKGV..GLEPVAVGLLI..VIGLSMG.NC.F..NPA.DL...LFTY.AG
Retrocopy IDQVLGTRILIMGILDILDLQNKGVSVGLEPVAVGLLIQ<VIGLSMGVNCRFSLNPAQDLDSWLFTYVAG

Parental  WGSEVFSAGNGWWWVPVVAPLVGAMLGTAVYQLMVALHHPEDLEPAQDLGLGLHKAWDLKTASA-QVPES
          .GS..FSAGNGW.W.PVVAPL.G.MLG.A..QL.V.LHHPEDLEPA..L.L.L.KA.DLKT.S..Q.PE.
Retrocopy RGSDIFSAGNGW*WMPVVAPLMGPMLGSAP*QLLVTLHHPEDLEPAHSLELALDKASDLKTPSCIQMPEC

Parental  KL
          KL
Retrocopy KL

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Choloepus hoffmanni was not studied using RNA-Seq expression data.

ChIP-Seq

Choloepus hoffmanni was not studied using ChIP-Seq data.

EST

Choloepus hoffmanni was not studied using EST data.

TSS

Choloepus hoffmanni was not studied using FANTOM5 data.

Lab

retro_chof_2573 was not experimentally validated.

Homology

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 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012951	2 retrocopies	retro_chof_2573 , retro_chof_490,