RetrogeneDB ID: retro_chof_1737

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_3716:8036..8360(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UCHL1
• Ensembl ID: ENSCHOG00000003295
• Aliases: None
• Description: ubiquitin carboxyl-terminal esterase L1 (ubiquitin thiolesterase) [Source:HGNC Symbol;Acc:12513]

Sequence

>retro_chof_1737
ATGCAGCTCAAACCGTTGGAGATTAATCCCGAGATGCTGAACAAAGTGCTGGCCCGGCTGGGGGTCGCTGGGCATTGGCG
CTTCGCGGATGTGTTGGGACTGGAGGACGAGGCTCTGGGGTCAGTGCCAGCGCCTGCCTGGGCGCTGCTGCTCCTGTTCC
CCCTCACGGCCCAGCATGAGAACTTCAGGAAAAAACAGATTGAGGAGCTGATGGGACAAGAAGTTAGTCCTAAAGTATAC
TTCATGAAACAGACCATTGGGAACTCCTGTGGTACAATCGGACTCATACATGCGGTGGCCAATAATCAGGGCAAACTGGA
CTTT

Alignment

ORF - retro_chof_1737 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.96 %
• Parental protein coverage: 55.38 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MQLKPXXXXXXXXXXVLARLGVAGHWRFADVLGLEDEALGSVPAPACALLLLFPLTAQHENFRKKQIEEL
          MQLKP..........VLARLGVAGHWRFADVLGLEDEALGSVPAPA.ALLLLFPLTAQHENFRKKQIEEL
Retrocopy MQLKPLEINPEMLNKVLARLGVAGHWRFADVLGLEDEALGSVPAPAWALLLLFPLTAQHENFRKKQIEEL

Parental  KGQEVSPKVYFMKQTIGNSCGTIGLIHAVANNQDKLDF
          .GQEVSPKVYFMKQTIGNSCGTIGLIHAVANNQ.KLDF
Retrocopy MGQEVSPKVYFMKQTIGNSCGTIGLIHAVANNQGKLDF

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_1737 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003295	1 retrocopy	retro_chof_1737 ,
Callithrix jacchus	ENSCJAG00000019346	1 retrocopy	retro_cjac_365,
Echinops telfairi	ENSETEG00000012347	1 retrocopy	retro_etel_44,
Felis catus	ENSFCAG00000025457	1 retrocopy	retro_fcat_1321,
Macropus eugenii	ENSMEUG00000013774	1 retrocopy	retro_meug_8,
Oryctolagus cuniculus	ENSOCUG00000001353	1 retrocopy	retro_ocun_309,
Ictidomys tridecemlineatus	ENSSTOG00000015507	1 retrocopy	retro_itri_288,
Tupaia belangeri	ENSTBEG00000011438	1 retrocopy	retro_tbel_306,
Tursiops truncatus	ENSTTRG00000012095	1 retrocopy	retro_ttru_1370,