RetrogeneDB ID: retro_chof_1862

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_406952:58..361(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBE2H
• Ensembl ID: ENSCHOG00000003605
• Aliases: None
• Description: ubiquitin-conjugating enzyme E2H [Source:HGNC Symbol;Acc:12484]

Sequence

>retro_chof_1862
TCAGGAACTGTGTGTCTAGATGTAATTAATCAAACTTGGACAGCTCTGTATGATCTTACCAATATATTTGAGTCCTTCCT
GCCCCAGTTGTTGGCCTATCCTAACCCCATAGATCCTCTCAATGGTGATGCTGCAGCCATGTACCTCCACCGACCAGAAG
AGTACAAGCAGAAAATTAAAGAGTACATTCAGAAATATGCAACGGAGGAGGCACCGAAAGAGCAGGAAGAGGGCACCGGT
GACAGCTTGTCGGAGAGTTCTATGTCTGACTTTTCGGAAGATGAGGCCCAGGATATGGAGTTG

Alignment

ORF - retro_chof_1862 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.02 %
• Parental protein coverage: 55.19 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SGTVCLDVINQTWTALYDLTNIFESFLPQLLAYPNPIDPLNGDAAAMYLHRPEEYKQKIKEYIQKYATEE
          SGTVCLDVINQTWTALYDLTNIFESFLPQLLAYPNPIDPLNGDAAAMYLHRPEEYKQKIKEYIQKYATEE
Retrocopy SGTVCLDVINQTWTALYDLTNIFESFLPQLLAYPNPIDPLNGDAAAMYLHRPEEYKQKIKEYIQKYATEE

Parental  ALKEQEEGTGDSSSESSMSDFSEDEAQDMEL
          A.KEQEEGTGDS.SESSMSDFSEDEAQDMEL
Retrocopy APKEQEEGTGDSLSESSMSDFSEDEAQDMEL

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_1862 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 6 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003605	2 retrocopies	retro_chof_1862 , retro_chof_1932,
Callithrix jacchus	ENSCJAG00000010520	1 retrocopy	retro_cjac_1081,
Homo sapiens	ENSG00000186591	1 retrocopy	retro_hsap_3977,
Nomascus leucogenys	ENSNLEG00000012685	1 retrocopy	retro_nleu_2037,
Pongo abelii	ENSPPYG00000017997	1 retrocopy	retro_pabe_3271,
Rattus norvegicus	ENSRNOG00000048205	2 retrocopies	retro_rnor_2188, retro_rnor_2266,