RetrogeneDB ID: retro_chof_1087

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_196627:3324..3721(+)
• 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_1087
CCCCAAAGGAAACGGCAGTTTCTTTTCTGTACAAGGACACTAAACTGGAAGAAACTGAGACTCTATCTTGAAAGCAGAGA
CTGTCTTGGATGACCCTGGAACACTGCATAATTTTAGAAATCATTTCTTGCCAAATGCACGGAGAGAAGTTTTTGTCATA
TCCATGTCCCCAAAGAGCGTGAGGAATATCTTGAAACTCTCATAACGGAGTTCTCACACAGGTTCTGCGCTTGTAACCCT
GATTTAATGCAAGAACTGGGCCTCAGTCCTGCTGCAGTCTTTGTCCTGTGCTACTCTTGATTCTACTTTCCACCCACCTC
ACGAGCCTTCGTGTAAGAATAAAATGTCAAAAAGAGAATTGATTCGAAATACCCGTCATGCTACTCAAAACATGACA

Alignment

ORF - retro_chof_1087 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.64 %
• Parental protein coverage: 64.11 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  PKEIAKFIFCTRTLNWKKLRIYLDERRD-VLDDLVTLHNFRNQFLPNALREFFR-HIHAPEERGEYLETL
          P.....F.FCTRTLNWKKLR.YL.E.RD.VLDD..TLHNFRN.FLPNA.RE.F..HIH.P.ER.EYLETL
Retrocopy PQRKRQFLFCTRTLNWKKLRLYL-ESRD>VLDDPGTLHNFRNHFLPNARREVFV<HIHVPKEREEYLETL

Parental  ITKFSHRFCACNPDLMRELGLSPDAVYVLCYS-LILLSIDLTS-PHVKNKMSKREFIRNTRRAAQNIS
          IT.FSHRFCACNPDLM.ELGLSP.AV.VLCYS.LILLS..LTS.P..KNKMSKRE.IRNTR.A.QN..
Retrocopy ITEFSHRFCACNPDLMQELGLSPAAVFVLCYS<LILLSTHLTS<PSCKNKMSKRELIRNTRHATQNMT

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_1087 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,