RetrogeneDB ID: retro_chof_62

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: GeneScaffold_1000:19228..19551(+)
• Located in intron of: ENSCHOG00000003694

Retrocopy information

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

Parental gene information

• Parental gene symbol: FBXO8
• Ensembl ID: ENSCHOG00000004278
• Aliases: None
• Description: F-box protein 8 [Source:HGNC Symbol;Acc:13587]

Sequence

>retro_chof_62
CTATGCAAATCCACTTGGGGTCACCGATCCATCTACAATAAGAACCCACCTCTAGGATTTCCTTTTAGAAAACTGTATAT
GCAGCTGGATGAAGGAAGCCTGACTTTCAATGCCAACCCAGATGAGGGAGCGAGCTACCGTATATCCAAGGGTATCATAG
ATGATTCGCTAAAGGAAATAGCAAAGTTTATCTTCTGTACAAGAACAGTAATTTGGAAGAAACCGAGAAACTTCTTAATG
AAAGAAGAGATGTCTTGGATGACCATGTAACATAGCATAATTTTAGAAATCAGTTCTTGCCAAATACACTGAGAGTATTT
TTT

Alignment

ORF - retro_chof_62 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.49 %
• Parental protein coverage: 51.67 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LCKSTWGHCSIYNKNPPLGFSFRKLYMQLDEGSLTFNANPDEGVSYFMSKGILDDSPKEIAKFIFCTRTL
          LCKSTWGH.SIYNKNPPLGF.FRKLYMQLDEGSLTFNANPDEG.SY..SKGI.DDS.KEIAKFIFCTRT.
Retrocopy LCKSTWGHRSIYNKNPPLGFPFRKLYMQLDEGSLTFNANPDEGASYRISKGIIDDSLKEIAKFIFCTRTV

Parental  NWKKLRIY-LDERRDVLDDLVTLHNFRNQFLPNALREFF
          .WKK.R...L.ERRDVLDD.VT.HNFRNQFLPN.LR.FF
Retrocopy IWKKPRNF<LNERRDVLDDHVT*HNFRNQFLPNTLRVFF

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_62 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000004278	3 retrocopies	retro_chof_1087, retro_chof_381, retro_chof_62 ,