RetrogeneDB ID: retro_chof_381

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_101883:24..603(+)
• Located in intron of: None

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_381
CCCCCAGGATTTCCTTTTACAAAACTGTATATGCAGCTGGATGAAGGAAGCCTGACTTTCCTGCCAACCCAGATGAGGGA
GCGAAGCTACCGTATATCCCAGGGTATCATAGATGATTCGCTAAAGGAAATAAGCAAAGTTTATCTTCTGTACAAGAACA
GTAATTTGGAAGAAACCGAGAAACTTCTTAATGAAAGAAGAGATGTCTTGGATGACCATGTAACATAGCATAATTTTAGA
AATCAGTTCTTGCCAAATACACTGAGAGTATTTTTTCATCATATCCATGCCCCTGAAGTGCGTGGGGGAATATCTTGAAA
CTCTTCTAACAAAGTTCTCACATAGGTTATGTGCTTGTGACCCTGCTTTAATGAGAGAACTTGGCCTTAGTCCTGATGTG
GTCTATGTGCTGTGCTACTCTTTGATTCTATTTTCTGTTGGCCTCACTAGCTCTCACATGAGGAATAAAATGTCAAAAAG
AGAATTTATTCGAAATACCCATTGTGCTGCTCAAAACCTTGTGCAGATTTTGTAGGGCACTTTTATGATAACATCTACCT
TATTGGCCATGTGGCTGCA

Alignment

ORF - retro_chof_381 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.39 %
• Parental protein coverage: 92.34 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  PLGFSFRKLYMQLDEGSLTF-NANPDEGV-SYFMSKGILDDSPKEI-AKFIFCTRTLNWKKLRIYL-DER
          P.GF.F.KLYMQLDEGSLTF..ANPDEG..SY..S.GI.DDS.KEI.AKFIFCTRT..WKK.R..L..ER
Retrocopy PPGFPFTKLYMQLDEGSLTF<PANPDEGA>SYRISQGIIDDSLKEI>AKFIFCTRTVIWKKPRNFL<NER

Parental  RDVLDDLVTLHNFRNQFLPNALREFFRHIHAPEERG-EYLETLITKFSHRFCACNPDLMRELGLSPDAVY
          RDVLDD.VT.HNFRNQFLPN.LR.FF.HIHAPE.RG.EYLETL.TKFSHR.CAC.P.LMRELGLSPD.VY
Retrocopy RDVLDDHVT*HNFRNQFLPNTLRVFFHHIHAPEVRG>EYLETLLTKFSHRLCACDPALMRELGLSPDVVY

Parental  VLCYSLILLSIDLTSPHVKNKMSKREFIRNTRRAAQNISE-DFVGHLYDNIYLIGHVAA
          VLCYSLIL.S..LTS.H..NKMSKREFIRNT..AAQN....DFVGH.YDNIYLIGHVAA
Retrocopy VLCYSLILFSVGLTSSHMRNKMSKREFIRNTHCAAQNLVQ<DFVGHFYDNIYLIGHVAA

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_381 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.

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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,