RetrogeneDB ID: retro_chof_1437

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_29437:3562..4050(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DERA
• Ensembl ID: ENSCHOG00000008904
• Aliases: None
• Description: deoxyribose-phosphate aldolase (putative) [Source:HGNC Symbol;Acc:24269]

Sequence

>retro_chof_1437
GGCACCAAGTTCGACCTTCGCTGGCTCTCCAAAATACAAGTGAATCAAACAGCAGTACTGAGGTGTGCAGAACAAATCCA
GGCTCGCGGAACTGTAAAAAAGGAGTGGCAAGCTGCTTGGTTGCTGAAAGCTGTTACCTTTATATATCTTACTATGCTTT
CTTGTGATGACACATCTTCCAAAATTCAAAGGCTCTGTTATAAAGCCAAGTATCCAATCTGGGAGGATCTCTTAAAAACT
GTAAATATGCACAATAAAGGCATTACTACAGCTGCCACTTGTGTTTATCCTGCTCAGATGTGTGATGCTGTGAAAGCACT
AAAGGCTGCAGGATGTAATATCCCAGCAGCATCAATGGCCACTGGCTTTCCAGCTGGAAAGCTGATTTAAGAACACGATT
AGAAGAGATCAGATTGGCTACTGAAGATGCAGCTACAGAAATCAATGTGGTAATTAACAGGACATTGGTGCTGACAGGCC
AGTGGGCA

Alignment

ORF - retro_chof_1437 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.32 %
• Parental protein coverage: 51.42 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GSSLDLSWISKIQVNQPAVLRRAEQIQARRTVKKEWQAAWLLRAVTFIDLTTLSGDDTSSNIQRLCYKAK
          G...DL.W.SKIQVNQ.AVLR.AEQIQAR.TVKKEWQAAWLL.AVTFI.LT.LS.DDTSS.IQRLCYKAK
Retrocopy GTKFDLRWLSKIQVNQTAVLRCAEQIQARGTVKKEWQAAWLLKAVTFIYLTMLSCDDTSSKIQRLCYKAK

Parental  YPIREDLLKALNMHDKGITTAAVCVYPARVCDAVKALKAAGCGIPVASVATGFPAG-QTDLRTRLEEIRL
          YPI.EDLLK..NMH.KGITTAA.CVYPA..CDAVKALKAAGC.IP.AS.ATGFPAG...DLRTRLEEIRL
Retrocopy YPIWEDLLKTVNMHNKGITTAATCVYPAQMCDAVKALKAAGCNIPAASMATGFPAG<KADLRTRLEEIRL

Parental  AIEDGATEIDVVINRTLVLTGQWA
          A.ED.ATEI.VVINRTLVLTGQWA
Retrocopy ATEDAATEINVVINRTLVLTGQWA

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_1437 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000008904	1 retrocopy	retro_chof_1437 ,