RetrogeneDB ID:

retro_chof_470

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_112824:87..569(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ENOPH1
Ensembl ID:ENSCHOG00000003283
Aliases:None
Description:enolase-phosphatase 1 [Source:HGNC Symbol;Acc:24599]


Retrocopy-Parental alignment summary:






>retro_chof_470
TGGGTAATGTGTGCTGGGAGATGTCTCTGGACCGAAAGACCACCGCGGGGCCACATGTGGAAGGCAGCATTCACAGCTGG
GCACATAAAAGCAGAGTTCTTTGAAGCTTTAGTTCCAGCAGTCAAGAAATGGAGAGAGGCTGGAATGAAGGTGTATATCT
ATTCTTCAGGGAGTGTAGAGGCACATAAACTATTATTTGGACATTCTACAGAGGGAGATATCTTAAGCTTGTCAGTGATC
ACTTTGATACCAAGGTTGGACACAAAGTGGACAGAATTACTGCAAGATCGCAGTCAACATTGGGTGCTGAACCAACAACA
TCCTGTTTCTGACAGATGTTACTCTAGAGGTCATGCTGCCAAGGGAGCAGATGTGCATGTAGCTGTAGTGGTGAGACCTG
GCATCGCAGATTAACCGATGACAAAAAGAGTTACTACAGCCTCATCACATCCTTCAATGAACTGTACCTGCCTTCCTCAA
CC

ORF - retro_chof_470 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 72.46 %
Parental protein coverage: 62.45 %
Number of stop codons detected: 1
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalWQMSLDRKTTALKQLQGHMWKAAFTAGRMKAEFFEDVVPAVKKWREAGMKVYIYSSGSVEAQKLLFGHST
W.M...R.........GHMWKAAFTAG..KAEFFE..VPAVKKWREAGMKVYIYSSGSVEA.KLLFGHST
RetrocopyWVMCAGRCLWTERPPRGHMWKAAFTAGHIKAEFFEALVPAVKKWREAGMKVYIYSSGSVEAHKLLFGHST
ParentalEGDI-LELVDGHFDTKIGHKVESESYRKIADSIG-CSTNNILFLTDVTLE-ASAAEEADVHVAVVVRPGN
EGDI.L.LV..HFDTK.GHKV.....R......G.C.TNNILFLTDVTLE...AA..ADVHVAVVVRPG.
RetrocopyEGDI<LKLVSDHFDTKVGHKVDRITARS-QSTLG<C*TNNILFLTDVTLE<GHAAKGADVHVAVVVRPGI
ParentalAG-LTDDEKTYYSLITSFNELYLPSST
A..LTDD.K.YYSLITSFNELYLPSST
RetrocopyAD<LTDDKKSYYSLITSFNELYLPSST

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_470 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 15 parental genes, and 21 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000051402 retrocopies
Choloepus hoffmanni ENSCHOG00000003283 4 retrocopies
Callithrix jacchus ENSCJAG000000152512 retrocopies
Equus caballus ENSECAG000000196121 retrocopy
Erinaceus europaeus ENSEEUG000000042741 retrocopy
Homo sapiens ENSG000001452931 retrocopy
Gorilla gorilla ENSGGOG000000037191 retrocopy
Loxodonta africana ENSLAFG000000086191 retrocopy
Macropus eugenii ENSMEUG000000114581 retrocopy
Myotis lucifugus ENSMLUG000000144601 retrocopy
Otolemur garnettii ENSOGAG000000025021 retrocopy
Pongo abelii ENSPPYG000000148871 retrocopy
Pan troglodytes ENSPTRG000000162181 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000139872 retrocopies
Tursiops truncatus ENSTTRG000000018001 retrocopy



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