RetrogeneDB ID: retro_chof_37

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_240559:3563..4202(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCHOG00000001477
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCHOG00000000695
• Aliases: None
• Description: None

Sequence

>retro_chof_37
GTCACGTATCAGTTGAAAATTCTTACAACGGCATTATTTCCTGTGTCTATGCTTGGTAAAAAATTAGATGTGTACCAGTG
GTTGTCCCTAGTAATTCTGATGACAGGAGTTGCTTTTGTTCAGTGGCCTTCAGATTCACAAGAACTTGATTCTAAGGAAC
TCTCAGCTGGCTCTCAATTTGTAGGACTCATGGCAGTTCTTACAGCGTGTTTTTCAAGTGGCTTTGCTGCAGTTTACTTT
GAGAAAATTTTAAAAGAAACCAAGCAATCTGTGTGGATAAGAAACATTCAGCTTGGTTTCTTTGGGAGTATATTTGGATT
AATGGGTGTATACGTTTATGATGGAGAATTGGTATCAAAGAATGGATTTTTTCAGGGATATAATAGACTGACCTGGATAG
TAGTTGTTCTTCAGGCACTTGGAGGACTTGTAATAGCTGCTGTTATTAAGTATGCAGATAATATTTTAAAAGGATTTGCA
ACTTCATTATCCTTAATATTATCAACACTGATATCCTATTTTTGGCTACAAGATTTTGTGCCAACCAGTGTCTTTTTCCT
TGGAGCCATCCTTGTAATAACAGCTACTTTCCTATATGGTTATGATCCTAAACCTACAGGAAATCCCACTAAAGCATAG

Alignment

ORF - retro_chof_37 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.15 %
• Parental protein coverage: 57.42 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VTYQLKILTTALFSVSMLGKKLGVYQWLSLVILMTGVAFVQWRSDSQELDSKDLSAGFQLVGIMTIDTAC
          VTYQLKILTTALF.VSMLGKKL.VYQWLSLVILMTGVAFVQW.SDSQELDSK.LSAG.Q.VG.M...TAC
Retrocopy VTYQLKILTTALFPVSMLGKKLDVYQWLSLVILMTGVAFVQWPSDSQELDSKELSAGSQFVGLMAVLTAC

Parental  FSSGFGVL--EKLLNATKQSR-TRNIQLRFFGSIFGLMGVYVYDGELVSKNGFFQGYNRLTWIVVVLQAL
          FSSGF.....EK.L..TKQS...RNIQL.FFGSIFGLMGVYVYDGELVSKNGFFQGYNRLTWIVVVLQAL
Retrocopy FSSGFAAVYFEKILKETKQSVWIRNIQLGFFGSIFGLMGVYVYDGELVSKNGFFQGYNRLTWIVVVLQAL

Parental  GGLVIAAVIKYADNILKGFATSLSIILSTLISYFWLQDFVPTSVFFLGAILVITATFLYGYDPKPTGNPT
          GGLVIAAVIKYADNILKGFATSLS.ILSTLISYFWLQDFVPTSVFFLGAILVITATFLYGYDPKPTGNPT
Retrocopy GGLVIAAVIKYADNILKGFATSLSLILSTLISYFWLQDFVPTSVFFLGAILVITATFLYGYDPKPTGNPT

Parental  KA
          KA
Retrocopy KA

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_37 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 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000695	1 retrocopy	retro_chof_37 ,
Myotis lucifugus	ENSMLUG00000001147	2 retrocopies	retro_mluc_1795, retro_mluc_2354,
Oryctolagus cuniculus	ENSOCUG00000015538	2 retrocopies	retro_ocun_1564, retro_ocun_436,
Tupaia belangeri	ENSTBEG00000004128	1 retrocopy	retro_tbel_198,
Vicugna pacos	ENSVPAG00000001029	1 retrocopy	retro_vpac_428,