RetrogeneDB ID: retro_chof_709

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_138079:2521..2949(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCHOG00000009718
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCHOG00000011962
• Aliases: None
• Description: None

Sequence

>retro_chof_709
GCCAATGGCGCTAATGAAGATAGAGAAGACATTGCCGATGAAGGTAAGAGAATTATTACTGATGATGAGATAATAAGTTT
ATCCGTTGAATTCTTTGACCAGAACAGATTGGATCGAAAAGTAAACAAAGACAAAGAGACATCTAAGGAAGAGGTGAATG
ATAAAAGGTACTTATGGTGCCCCGCGCCATGACTGTGATGCACCTGAGGAAGTTTCTCAGGAGCAAAATGGACATACCTA
ACACTTTCCAGATTGATGTCATGTACGAAGAGGAGCCTTTAAAGGATTACTATACACTGATGGCTATTGCCTACGTTTAT
ACCTGGAGAAGGAATGGGCCGCTTCCTTGGAAATACAGAGTTCGACCCACTTGTAAAAGAATGAAGATCAGTCACCAGAG
AGACGGACTGACGGCTGCTGGGGACCTA

Alignment

ORF - retro_chof_709 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.58 %
• Parental protein coverage: 57.85 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ANGSNEDRGEVADEDKRIITDDEIISLSIEFFDQNRLDRKVNKDKEKSKEEVNDKRYLRCPA-AMTVMHL
          ANG.NEDR...ADE.KRIITDDEIISLS.EFFDQNRLDRKVNKDKE.SKEEVNDKRYL.CPA.AMTVMHL
Retrocopy ANGANEDREDIADEGKRIITDDEIISLSVEFFDQNRLDRKVNKDKETSKEEVNDKRYLWCPA<AMTVMHL

Parental  RKFLRSKMDIPNTFQIDVMYEEEPLKDYYTLMDIAYIYTWRRNGPLP-LYRVRPTCKRM-ISH-RDGLTA
          RKFLRSKMDIPNTFQIDVMYEEEPLKDYYTLM.IAY.YTWRRNGPLP..YRVRPTCKRM.ISH.RDGLTA
Retrocopy RKFLRSKMDIPNTFQIDVMYEEEPLKDYYTLMAIAYVYTWRRNGPLPWKYRVRPTCKRMKISHQRDGLTA

Parental  AGDL
          AGDL
Retrocopy AGDL

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_709 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 9 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000011962	1 retrocopy	retro_chof_709 ,
Callithrix jacchus	ENSCJAG00000036548	1 retrocopy	retro_cjac_2437,
Cavia porcellus	ENSCPOG00000015427	2 retrocopies	retro_cpor_1209, retro_cpor_546,
Gorilla gorilla	ENSGGOG00000025243	1 retrocopy	retro_ggor_3025,
Loxodonta africana	ENSLAFG00000016845	1 retrocopy	retro_lafr_591,
Macaca mulatta	ENSMMUG00000000881	1 retrocopy	retro_mmul_2591,
Mus musculus	ENSMUSG00000026739	1 retrocopy	retro_mmus_3710,
Oryctolagus cuniculus	ENSOCUG00000005420	1 retrocopy	retro_ocun_489,
Tupaia belangeri	ENSTBEG00000015631	1 retrocopy	retro_tbel_2369,