RetrogeneDB ID:

retro_chof_1958

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_43333:5533..5997(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:HUS1
Ensembl ID:ENSCHOG00000001764
Aliases:None
Description:HUS1 checkpoint homolog (S. pombe) [Source:HGNC Symbol;Acc:5309]


Retrocopy-Parental alignment summary:






>retro_chof_1958
ATGAAGTTTCAGGCTAAGATTGTGGACAGGGCCTGTTTGAACCACTTCATGTGAGTCAGTAACATGATATCTAAACTTGC
CAAAACCTGTACCCTTCACATCAGCCTGGATAAGCTGAATTCATCCTTTCAGACAGGGTGGCTAATGGAGGGGTGAGCAT
GTGGTGTGAACTGGAATGGGAGAACTTCTTCGGTGAATTTCAAATGGAAGGTGTCTCCACAGAAAACAATGAGATTGATT
TAGAGCTGACACCAGGAAACTTATCTTGAGCCTTGAAAACTGCCCAGAATGCCAGAGTTTTGAAAATCAAGCTGACCAAT
AAACACTTTCCCTGCTTCACAGTCTCTGTAGAACTGCTATCTGTATCAAGCACTAGTTGCATTGTGTCACATGACATCCC
CATAAAAGTTATTCTGAGGAAACTGTGGAAGGATTTACAAGAACCTATAATCCCAGACTCTGAT

ORF - retro_chof_1958 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.26 %
Parental protein coverage: 56.2 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMKFRAKIVDGACLNHFTRVSNMISKLAKTCTLRISPDKLN-FILSDRVANGGVSMWCELEQENYFSEFQM
MKF.AKIVD.ACLNHF..VSNMISKLAKTCTL.IS.DKLN.FILSDRVANGGVSMWCELE.EN.F.EFQM
RetrocopyMKFQAKIVDRACLNHFM*VSNMISKLAKTCTLHISLDKLN<FILSDRVANGGVSMWCELEWENFFGEFQM
ParentalEGVSAENNEIYLELTSENLSRALKTAQNARTLKIKLTNKHFPCLTVSVELLSLSSTSRIVTHDIPIKVI-
EGVS.ENNEI.LELT..NLS.ALKTAQNAR.LKIKLTNKHFPC.TVSVELLS.SSTS.IV.HDIPIKVI.
RetrocopyEGVSTENNEIDLELTPGNLS*ALKTAQNARVLKIKLTNKHFPCFTVSVELLSVSSTSCIVSHDIPIKVIL
ParentalKKLWKDLQEPTIPDSD
.KLWKDLQEP.IPDSD
RetrocopyRKLWKDLQEPIIPDSD

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Choloepus hoffmanni was not studied using RNA-Seq expression data.
Choloepus hoffmanni was not studied using ChIP-Seq data.
Choloepus hoffmanni was not studied using EST data.
Choloepus hoffmanni was not studied using FANTOM5 data.
retro_chof_1958 was not experimentally validated.

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.

Parental genes homology:
Parental genes homology involve 9 parental genes, and 13 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000001764 4 retrocopies
Dipodomys ordii ENSDORG000000065821 retrocopy
Echinops telfairi ENSETEG000000099412 retrocopies
Nomascus leucogenys ENSNLEG000000044971 retrocopy
Oryctolagus cuniculus ENSOCUG000000272631 retrocopy
Otolemur garnettii ENSOGAG000000126831 retrocopy
Pongo abelii ENSPPYG000000258211 retrocopy
Sorex araneus ENSSARG000000123481 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000272041 retrocopy



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