RetrogeneDB ID: retro_chof_2033

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_461039:2..820(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCHOG00000000842
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PPP2R2B
• Ensembl ID: ENSCHOG00000001182
• Aliases: None
• Description: protein phosphatase 2, regulatory subunit B, beta [Source:HGNC Symbol;Acc:9305]

Sequence

>retro_chof_2033
AGAATATTTGCCAATGCTCATACATATCACGTCAACGCTATTTCTATAAATAGTGATTATGAAACATATTCATCTGCAGA
TGATTGCAGATTAATCTTGGGCATCTGGAAATTACAGACAGAAGTTTTAATACTGTGGATATCAATTCTGCCGATATGGA
AGAACTGACACAGGTGATTATAGCAGCAGAATTCCATCCAAACAGCTGTAACATATTTGCATACAGCAGCAGTAAAGGAA
CTATTAGGTTATGTGACATGAGGGCATCTGCCCTCTGTCATAGACATTCTAAACTGTTTGAAGAGCCTGAAGATCCCAGT
AATAGGTCATTTTTTTTCTGAAATCATCTCCTCTATTTTTGATGTAAAATTCAGCCATAGTGGTCAATATATGATGACTA
GAGACTCTTTGTCAGTCAAAATTTGGGACTTAAATATGGAAAACAGGCCTCTGGAAACTATCAGGTTCATGAATACCTCA
GAAGTAAACTGTGTTCACTGTATGCAAATGACTGCATATTTGGCAAATTTGAATGTAGTTGGAATGGATCTGACAGTGTT
GTTACAACTGGATCTTACAATAATTTCTTCAGAACATTTGACAGGAACACAAAGCGAGATATAACCCTAGAAGCATCGTG
GAAAAATAATAAACTTTGCACATTTTTTGAAGCCACACAAAGTCTGTGCAAGTGGCAAGCGAAAGAAAGATGAAATAAGT
GTTGACAGCCTAGACTTCAACAAGAAAATACACCATACAGCCTGCACCCCAAGGAAAATACCATTGCTGTAGCAACTACA
AACAATCTGTATATATTT

Alignment

ORF - retro_chof_2033 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.26 %
• Parental protein coverage: 53.63 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  RVFANAHTYHINSISVNSDYETYMSADD-LRINLWNFEITNQSFNIVDIKPANMEELTEVITAAEFHPHH
          R.FANAHTYH.N.IS.NSDYETY.SADD.L.INL...EIT..SFN.VDI..A.MEELT.VI.AAEFHP..
Retrocopy RIFANAHTYHVNAISINSDYETYSSADD<LQINLGHLEITDRSFNTVDINSADMEELTQVIIAAEFHPNS

Parental  CNTFVYSSSKGTIRLCDMRASALCDRHTKFFEEPEDPSNRS-FFSEIISSISDVKFSHSGRYIMTRDYLT
          CN.F.YSSSKGTIRLCDMRASALC.RH.K.FEEPEDPSNRS....EIISSI.DVKFSHSG.Y.MTRD.L.
Retrocopy CNIFAYSSSKGTIRLCDMRASALCHRHSKLFEEPEDPSNRS>XXXEIISSIFDVKFSHSGQYMMTRDSLS

Parental  VKVWDLNMENRPIET-YQVHDYLRSKLCSLYENDCIFDKFECVWNGSDSVIMTGSYNNFFRMFDRNTKRD
          VK.WDLNMENRP.ET.YQVH.YLRSKLCSLY.NDCIF.KFEC.WNGSDSV..TGSYNNFFR.FDRNTKRD
Retrocopy VKIWDLNMENRPLET<YQVHEYLRSKLCSLYANDCIFGKFECSWNGSDSVVTTGSYNNFFRTFDRNTKRD

Parental  VTLEASRENSKPRAILK-PRKVCVGGKRRKDEISVDSLDFSKKILHTA-WHPSENIIAVAATNNLYIF
          .TLEAS..N.K.......P.KVC..GKR.KDEISVDSLDF.KKI.HTA..HP.EN.IAVA.TNNLYIF
Retrocopy ITLEASWKNNKLCTFFE>PHKVCASGKRKKDEISVDSLDFNKKIHHTA<LHPKENTIAVATTNNLYIF

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_2033 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000001182	2 retrocopies	retro_chof_1495, retro_chof_2033 ,
Otolemur garnettii	ENSOGAG00000010873	1 retrocopy	retro_ogar_3069,