RetrogeneDB ID: retro_chof_1667

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_35394:7562..8039(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: IDI2
• Ensembl ID: ENSCHOG00000008984
• Aliases: None
• Description: isopentenyl-diphosphate delta isomerase 2 [Source:HGNC Symbol;Acc:23487]

Sequence

>retro_chof_1667
ATAAACACCCACAATCTTGATAAGCAACAGGTTCAACTTCTGGCAGAGATGTGTATTATTATTGATGAAAACAATAATAA
AATTGGAGCTGAGACCAAAAAGAATTGTCACTTGAAGGAAAACATTGATAAAGGATTATTGCATCAAGCTTTCAATGTCT
TCTTATTCAACACCGAAAATAAGCTCCTACTACAGCAGAGATCAGATGCTAACATTACCTTTCCAGGTTGTTTTACCAGT
ACTTATTGCAGTCATCCATTAAGTAATCCGGGAGAACTTGAAGAAAATGATGCAACTGGTATAAGATGATCAGCACAGAG
GCATTTCAAAGCTGAATTAGGAAGTCCCATGAAAGAGGTTCCTCCAGAAGAAATGAATTATGTAACATAAATTCACTACA
TGGCTCAATCTGATGGTATTTGGGGTGGACATGAAATTGATTACATTTTGTTTGTGAGAAAGAATGTAACTTTGGAT

Alignment

ORF - retro_chof_1667 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.23 %
• Parental protein coverage: 69.91 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LNLDWIDKQQLWRLKEMLIVVDENDKLIGTDTKKNCHLNENIEKGLLH-AFSVVLFNTENKILIQQRADI
          .N....DKQQ...L.EM.I..DEN...IG..TKKNCHL.ENI.KGLLH.AF.V.LFNTENK.L.QQR.D.
Retrocopy INTHNLDKQQVQLLAEMCIIIDENNNKIGAETKKNCHLKENIDKGLLHQAFNVFLFNTENKLLLQQRSDA

Parental  KLTFPGDFTDSCSSHPISNPEELEEKDAIGERKAAQRRLQTELGIPQGQISPEDILFMTIYHHKAKSDKI
          ..TFPG.FT....SHP.SNP.ELEE.DA.G.R..AQR....ELG.P.....PE.....T..H..A.SD.I
Retrocopy NITFPGCFTSTYCSHPLSNPGELEENDATGIR*SAQRHFKAELGSPMKEVPPEEMNYVT*IHYMAQSDGI

Parental  WGEHEICYLLLIRKNVTVN
          WG.HEI.Y.L..RKNVT..
Retrocopy WGGHEIDYILFVRKNVTLD

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_1667 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 2 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000008984	5 retrocopies	retro_chof_1078, retro_chof_1667 , retro_chof_1771, retro_chof_1881, retro_chof_1921,
Macropus eugenii	ENSMEUG00000015260	1 retrocopy	retro_meug_1719,