RetrogeneDB ID: retro_chof_2382

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_70006:1019..2088(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: QRSL1
• Ensembl ID: ENSCHOG00000001036
• Aliases: None
• Description: glutaminyl-tRNA synthase (glutamine-hydrolyzing)-like 1 [Source:HGNC Symbol;Acc:21020]

Sequence

>retro_chof_2382
AAAGACAACTTTAGCACATTTGGCATTGAAACGACATGTGCATCAAACATGCTGAAAGGTTTATGTACCACATTATAATG
CTACAGTAGTTCAGAAGTTGTTGGATCAGGGAGCTCTACTTATGGGAATAACAAATTTAGATGAGTTTGCTATGGGATCT
GGAAGCACAGATGGTGTATTTGGGCCAGTTAAAAACCCTTGGAGTTATTCAAGACAATATAGAGAAAAGAGGAAGCAGAA
GCACCCTGATGAGCATGAAGATTCAAACTGGTTAATAACTGGAGGAAGCTCAGGCGGTAGTGCAGCTGCCGTATCAGCAT
TCACATGCTTTGCGGCATTAGGATCAGATACAGGAGGATCAACCAGAAATCCAGCTGCTCACTGTGGGCTTGTTGGTTTA
AAACCAAGCTATGGACTAGTTTCCCGTCATGGTCTCATTCCCTTGGTGAATTCCATGGATGTGCCAGGAATCTTAACCAG
ATGCGTGGATGATGCGGCAGTTGTCTTGGGTGTACTGGCTGGACATGATCCCAAAGACTCTACTACAATACAAGACCCTG
TTAAACCATTTATGCTTCCCAGTTTGACAGATGTGAGCAAACTATGTATAGGAATTCCAAAGGAATATCTTGTCCCGGAA
TTATCAACTGAAGTACGGTCTCTTTGGTCCAAAGCTGCTGACCTCTTTGAGTCTGAGGGGGCTAAAGTAATTGAAGTGTC
CTTGCCCCACACAACTTATTCAATTGTCTGCTATCATGTATTGTGCACATCGGAAGTGGCATCGAATATGGCAAGATTTG
ATGGACTAGAATATGGTCACAGATGTGACGTTAATGTGTCTACTGAAGCCATGTATGCTGCAACCAGACGACAAGGGTTC
AATGATGTGGTGAGAGGAAGAATTCTCTCAGGAAACTTTTTCTTATTAAAAGAAAACTATGAGAAGTATTTCATAAAAGC
ACAGAAAGTGAGGCGGCTCATTGCCAATGATTTTGTGAATGTTTTTAACTCAGGAGTGGATGTCTTGCTAACTCCTACTA
CCTTAAGTGAGGCAGTACCATACTTGGAG

Alignment

ORF - retro_chof_2382 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.16 %
• Parental protein coverage: 71.34 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KDNFSTFGIETTCASNMLKG-YVPPYNATVVQKLLDQGALLMGKTNLDEFAMGSGSTDGVFGPVKNPWSY
          KDNFSTFGIETTCASNMLKG.YVP.YNATVVQKLLDQGALLMG.TNLDEFAMGSGSTDGVFGPVKNPWSY
Retrocopy KDNFSTFGIETTCASNMLKG>YVPHYNATVVQKLLDQGALLMGITNLDEFAMGSGSTDGVFGPVKNPWSY

Parental  SRQYREKRKQKHPDEHEDSNWLITGGSSGGSAAAVSAFTCFAALGSDTGGSTRNPAAHCGLVGLKPSYGL
          SRQYREKRKQKHPDEHEDSNWLITGGSSGGSAAAVSAFTCFAALGSDTGGSTRNPAAHCGLVGLKPSYGL
Retrocopy SRQYREKRKQKHPDEHEDSNWLITGGSSGGSAAAVSAFTCFAALGSDTGGSTRNPAAHCGLVGLKPSYGL

Parental  VSRHGLIPLVNSMDVPGILTRCVDDAAVVLGVLAGHDPKDSTTIQDPVKPFMLPSLTDVSKLCIGIPKEY
          VSRHGLIPLVNSMDVPGILTRCVDDAAVVLGVLAGHDPKDSTTIQDPVKPFMLPSLTDVSKLCIGIPKEY
Retrocopy VSRHGLIPLVNSMDVPGILTRCVDDAAVVLGVLAGHDPKDSTTIQDPVKPFMLPSLTDVSKLCIGIPKEY

Parental  LVPELSTEVRSLWSKAADLFESEGAKVIEVSLPHTTYSIVCYHVLCTSEVASNMARFDGLEYGHRCDVNV
          LVPELSTEVRSLWSKAADLFESEGAKVIEVSLPHTTYSIVCYHVLCTSEVASNMARFDGLEYGHRCDVNV
Retrocopy LVPELSTEVRSLWSKAADLFESEGAKVIEVSLPHTTYSIVCYHVLCTSEVASNMARFDGLEYGHRCDVNV

Parental  STEAMYAATRRQGFNDVVRGRILSGNFFLLKENYEKYFIKAQKVRRLIANDFVNVFNSGVDVLLTPTTLS
          STEAMYAATRRQGFNDVVRGRILSGNFFLLKENYEKYFIKAQKVRRLIANDFVNVFNSGVDVLLTPTTLS
Retrocopy STEAMYAATRRQGFNDVVRGRILSGNFFLLKENYEKYFIKAQKVRRLIANDFVNVFNSGVDVLLTPTTLS

Parental  EAVPYLE
          EAVPYLE
Retrocopy EAVPYLE

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_2382 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 10 parental genes, and 24 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000017557	3 retrocopies	retro_btau_476, retro_btau_493, retro_btau_616,
Choloepus hoffmanni	ENSCHOG00000001036	1 retrocopy	retro_chof_2382 ,
Callithrix jacchus	ENSCJAG00000006200	4 retrocopies	retro_cjac_1421, retro_cjac_3781, retro_cjac_3919, retro_cjac_692,
Cavia porcellus	ENSCPOG00000021670	1 retrocopy	retro_cpor_179,
Homo sapiens	ENSG00000130348	3 retrocopies	retro_hsap_1321, retro_hsap_466, retro_hsap_514,
Gorilla gorilla	ENSGGOG00000008261	3 retrocopies	retro_ggor_1031, retro_ggor_445, retro_ggor_474,
Macaca mulatta	ENSMMUG00000008330	2 retrocopies	retro_mmul_429, retro_mmul_675,
Nomascus leucogenys	ENSNLEG00000013383	2 retrocopies	retro_nleu_1403, retro_nleu_1550,
Pongo abelii	ENSPPYG00000016883	3 retrocopies	retro_pabe_1100, retro_pabe_230, retro_pabe_268,
Pan troglodytes	ENSPTRG00000018462	2 retrocopies	retro_ptro_351, retro_ptro_902,