RetrogeneDB ID: retro_chof_2671

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_95831:793..1154(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCHOG00000007736
• Aliases: None
• Description: None

Sequence

>retro_chof_2671
AGTTATCTTTTTTCCTACAAATTATGTCACATCTGCAAATCAGATATGCTTTTTCATTTGGCACAGGAAAAGGAAGTGTG
GAGAGAAGGAGTGGGATTTCTCCAAAACCAGAGTCCAGGCAGGAAAAGTGCTTGTAAAAAGCAAGAAATGATATTCACAC
AACTTATCTACAAGAAGGACAATTAGGACTCATGTCATTGCAGAAAGCTCACATTCAAAAGAATTCTTTTGATGTAATTA
TTTGCAAGAATATTCCATTCTCAGATCTACAGTGACTTGACATGCATTAATTCCCATAAAAAAGAAATCATATTTAAGCA
AACAACTTGGCAAAGTCCTCAGTGACCAGTCATCTTTTAAC

Alignment

ORF - retro_chof_2671 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.16 %
• Parental protein coverage: 66.67 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  NHLFSVG-CEVCKSNMFSQLAQGEVVWREGKECLQNQSPDMKIACEKQEMMLMQLIYRNEHSEE-VSLQI
          ..LFS...C..CKS.M...LAQ...VWREG...LQNQSP..K.AC.KQEM...QLIY.........SLQ.
Retrocopy SYLFSYKLCHICKSDMLFHLAQEKEVWREGVGFLQNQSPGRKSACKKQEMIFTQLIYKKDN*DS<MSLQK

Parental  SHTQKNTFQ-CNYLQEDSTCRSKVTQHALIPIRKKPYLRKPLGKFLSDQSSFN
          .H.QKN.F..CNYLQE.S..RS.VT.HALIPI.KK.YL.K.LGK.LSDQSSFN
Retrocopy AHIQKNSFD<CNYLQEYSILRSTVT*HALIPIKKKSYLSKQLGKVLSDQSSFN

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_2671 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000007736	2 retrocopies	retro_chof_154, retro_chof_2671 ,
Choloepus hoffmanni	ENSCHOG00000011097	2 retrocopies	retro_chof_1923, retro_chof_228,
Choloepus hoffmanni	ENSCHOG00000011899	1 retrocopy	retro_chof_379,
Homo sapiens	ENSG00000196946	1 retrocopy	retro_hsap_2965,