RetrogeneDB ID: retro_chof_2634

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_92761:4323..4589(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCHOG00000006577
• Aliases: None
• Description: None

Sequence

>retro_chof_2634
TTGGCAGACCAGGTGGTTAAGAAGTTTTTCAAAAAGTTGCATGTGGGGTATGAATGTGAAAAGTGGACTGAAAGTCTACT
TTTGCTACTGTTTTCCCTCTCCTTTAGAGTACTTTCCCAAGGAAGCCCCTTGGAAGCAGACATTCATCAACAGATCCCAA
ACGTGCATCCTGGCTGGGGCCTTTGAGCAGAATTGATACCATGGTTTTTCCAGTCAAAAAAGAACTGGCCAAGCAAACTG
GACTTATGGAAGAAACAATTCAAGTA

Alignment

ORF - retro_chof_2634 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.11 %
• Parental protein coverage: 61.43 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LADEIGVKE-SRIQIWFQNQRNGKSPLLLLC--SPLEYFPKEAPRKRTFINRSQTCILVGAFEQNQYPGF
          LAD....K..S....W..N...G.......C..SPLEYFPKEAP.K.TFINRSQTCIL.GAFEQN.Y.GF
Retrocopy LADQVVKKF>SKSCMWGMNVKSGLKVYFCYCFPSPLEYFPKEAPWKQTFINRSQTCILAGAFEQN*YHGF

Parental  T-VRKELAKQTGLPEERIQI
          ..V.KELAKQTGL.EE.IQ.
Retrocopy S>VKKELAKQTGLMEETIQV

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_2634 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 2 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000006577	2 retrocopies	retro_chof_1700, retro_chof_2634 ,
Nomascus leucogenys	ENSNLEG00000016146	2 retrocopies	retro_nleu_2945, retro_nleu_3091,