RetrogeneDB ID: retro_chof_2624

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_91944:3678..4029(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KDELR2
• Ensembl ID: ENSCHOG00000000125
• Aliases: None
• Description: KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 2 [Source:HGNC Symbol;Acc:6305]

Sequence

>retro_chof_2624
GTTCCTGTGGGCCATGTGGGAGCCTCTCCCTCCTTTCTAGACAATCATGACCCCTCTCCTCTTGAGATTCTGTGGACCTT
CTCCAGCTACCTTGAATCAGTGACTATCCTCCCGCAGCTCTTTGTGATCAGCAAGACGGGCGAGTTGGAGACCATCACCA
CCTACTACCTGTTCTTCCTGGGCCTCTGCAGTGCGTTGTGTCTCCTCAGCTGGATCAGGGGCTTCTACTTCAAGGGCTTC
TTTGACCTCGTTGCTGTGGTGGCTGGAATAGTCTGGACCATTCTGTACTTCGGCTTCTTCTATCTGTACATCACAAAAGT
ACTCCGGGGAAAGAAGCTCAGTTTGCCAGCA

Alignment

ORF - retro_chof_2624 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.92 %
• Parental protein coverage: 55.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VPVGGL----SFLVNHDFSPLEILWTFSIYLESVAILPQLFMISKTGEAETITTHYLFFLGLYRALYLVN
          VPVG......SFL.NHD.SPLEILWTFS.YLESV.ILPQLF.ISKTGE.ETITT.YLFFLGL..AL.L..
Retrocopy VPVGHVGASPSFLDNHDPSPLEILWTFSSYLESVTILPQLFVISKTGELETITTYYLFFLGLCSALCLLS

Parental  WIWRFYFEGFFDLIAVVAGVVQTILYCDFFYLYITKVLKGKKLSLPA
          WI..FYF.GFFDL.AVVAG.V.TILY..FFYLYITKVL.GKKLSLPA
Retrocopy WIRGFYFKGFFDLVAVVAGIVWTILYFGFFYLYITKVLRGKKLSLPA

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_2624 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000015746	2 retrocopies	retro_cfam_1944, retro_cfam_318,
Choloepus hoffmanni	ENSCHOG00000000125	1 retrocopy	retro_chof_2624 ,
Dasypus novemcinctus	ENSDNOG00000009897	1 retrocopy	retro_dnov_2654,
Echinops telfairi	ENSETEG00000016544	1 retrocopy	retro_etel_1867,
Monodelphis domestica	ENSMODG00000007832	1 retrocopy	retro_mdom_1547,