RetrogeneDB ID: retro_chof_502

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_115311:959..1555(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCHOG00000002051
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MOB1A
• Ensembl ID: ENSCHOG00000007277
• Aliases: None
• Description: MOB kinase activator 1A [Source:HGNC Symbol;Acc:16015]

Sequence

>retro_chof_502
AGCAGCAGCTCTTCTAAAACATTCAAACCCAAGAAGAATATCCCAGAAGGGTCTCATCAGTATGAACTCTTAAACATGCA
GAAGCAACTCTAGGAGGTGGGAATCCGGGACAAGCTGTTATGTTGCCAGAGAGAGAGGACTTCAATGAATGGATTGCCAT
TAACAATGTGGATTTCTTCAATCAGATCCACATGTTATATGGAACGATCACAGAATTCTGCACCGAAGCAAGCTGTCCAG
TCATGTCTGCAGGTCCACAATATGAATATCATTGGGCAGATAGTACTAATATTAAAAAGCCAATCAAATGTTCTGCTCCA
AAATATATCGACTATTTGATGACTTGGGTTCAAGATCAGCTTGATGATGAAACTCTTTTTCCTTCTAAGATGGGTGTCCC
ATTTCCCAACAACTTTGTGTCTGTGGCAAAGACTATTCTAAAGCATCTCCTCAGGGTTTGTGCCCATATTTATCACTTTG
ATTCTGTCATGCAGCTGCAAGAGGAGGCTCACCTCAACACCTCCTTTAAGCACTTTATTTTCTTTGTTCAGGAGTTTAAT
CTGATTGATAGGCGTGAGTTGGCACCTCTTGAGGAA

Alignment

ORF - retro_chof_502 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.1 %
• Parental protein coverage: 94.37 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SSRSSKTFKPKKNIPEGSHQYELL-KHAEATLGSGNLRQAVMLPEGEDLNEWIAVNTVDFFNQINMLYGT
          SS.SSKTFKPKKNIPEGSHQYELL.KHAEATLG.GN..QAVMLPE.ED.NEWIA.N.VDFFNQI.MLYGT
Retrocopy SSSSSKTFKPKKNIPEGSHQYELL<KHAEATLGGGNPGQAVMLPEREDFNEWIAINNVDFFNQIHMLYGT

Parental  ITEFCTEASCPVMSAGPRYEYHWADGTNIKKPIKCSAPKYIDYLMTWVQDQLDDETLFPSKIGVPFPKNF
          ITEFCTEASCPVMSAGP.YEYHWAD.TNIKKPIKCSAPKYIDYLMTWVQDQLDDETLFPSK.GVPFP.NF
Retrocopy ITEFCTEASCPVMSAGPQYEYHWADSTNIKKPIKCSAPKYIDYLMTWVQDQLDDETLFPSKMGVPFPNNF

Parental  MSVAKTILKRLFRVYAHIYHQHFDSVMQLQEEAHLNTSFKHFIFFVQEFNLIDRRELAPLEE
          .SVAKTILK.L.RV.AHIY..HFDSVMQLQEEAHLNTSFKHFIFFVQEFNLIDRRELAPLEE
Retrocopy VSVAKTILKHLLRVCAHIY--HFDSVMQLQEEAHLNTSFKHFIFFVQEFNLIDRRELAPLEE

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_502 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 12 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000007277	1 retrocopy	retro_chof_502 ,
Choloepus hoffmanni	ENSCHOG00000012418	3 retrocopies	retro_chof_1124, retro_chof_1337, retro_chof_660,
Echinops telfairi	ENSETEG00000018245	1 retrocopy	retro_etel_425,
Homo sapiens	ENSG00000114978	2 retrocopies	retro_hsap_1223, retro_hsap_4670,
Gorilla gorilla	ENSGGOG00000010015	1 retrocopy	retro_ggor_954,
Loxodonta africana	ENSLAFG00000014338	2 retrocopies	retro_lafr_223, retro_lafr_285,
Macaca mulatta	ENSMMUG00000015208	2 retrocopies	retro_mmul_1299, retro_mmul_297,
Nomascus leucogenys	ENSNLEG00000000321	2 retrocopies	retro_nleu_2161, retro_nleu_694,
Otolemur garnettii	ENSOGAG00000003504	1 retrocopy	retro_ogar_2688,
Pongo abelii	ENSPPYG00000012284	2 retrocopies	retro_pabe_1017, retro_pabe_3629,
Pan troglodytes	ENSPTRG00000012079	2 retrocopies	retro_ptro_3103, retro_ptro_837,
Rattus norvegicus	ENSRNOG00000042657	2 retrocopies	retro_rnor_2544, retro_rnor_2545,