RetrogeneDB ID: retro_chof_1206

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_224921:2634..2980(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCHOG00000012094
• Aliases: None
• Description: None

Sequence

>retro_chof_1206
CTGCCTCCTTCTGTGGAACCAAGCACAATAGAACTTTGCTGTTTTGCCTTCTCCACTCCGGGGAAAGAAGCAGACAATGA
GAAGAAAAAAATGAATGTCAAAGGAAAAGTAATTCTTTCTAAGCTGGCTGTCTCAACTGTAGTTGTGGTGTTTTGGGAAT
ATATCAACAGCCCAGAAGGCTCTTTGTTGTGGATACATCACTCAAAAAACTCAGAAGTTGGTGGCGGCAGCACTCAGAAG
AGCTGGTGGTTTCTGAGCTGGTTTAGCAATGGAACCCACAATTATCAAGAAGAAGAAGACATAGACAATACAAAATGAAA
GGAAGATGAAGAAGAAGGGTTACAGC

Alignment

ORF - retro_chof_1206 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.17 %
• Parental protein coverage: 87.12 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LVPSVVLEEDKVLLSLAADLEAGCSLSDFTKKMNV-GKVILM-LIVTVVVXXXXXXXXXPEGSLLWIYHS
          L.PSV..E.....L...A....G.......KKMNV.GKVIL..L.V..VV.........PEGSLLWI.HS
Retrocopy LPPSV--EPSTIELCCFAFSTPGKEADNEKKKMNVKGKVILSKLAVSTVVVVFWEYINSPEGSLLWIHHS

Parental  KKPEVGGGSAQKSWWFPSWFSNGTHNYQEEEDIDKEK-GRKMKKKSYS
          K..EVGGGS.QKSWWF.SWFSNGTHNYQEEEDID..K..RKMKKK.YS
Retrocopy KNSEVGGGSTQKSWWFLSWFSNGTHNYQEEEDIDNTK>ERKMKKKGYS

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_1206 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012094	2 retrocopies	retro_chof_1206 , retro_chof_642,
Gorilla gorilla	ENSGGOG00000009067	1 retrocopy	retro_ggor_883,
Pongo abelii	ENSPPYG00000019565	1 retrocopy	retro_pabe_936,