RetrogeneDB ID:

retro_chof_2336

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_66936:2964..3578(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MAK16
Ensembl ID:ENSCHOG00000009081
Aliases:None
Description:MAK16 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:13703]


Retrocopy-Parental alignment summary:






>retro_chof_2336
ACCAAGACTCAGAGATTTGCAGGAATGAACACAGCCTAACCCAATTATGCAATCGGTCATCCTGTTCCCTGGCAAACAGT
GAGTATGTCACAATCAATGAAGAAAAAGGACAGTGCTACTTGTAAATGAAGGTTATAGAATGAACAGCTTTCACTAGGTG
TCTCTCGGAATGGGTCTGGCTCAGTAAAAACTATGAGAAAGCGCTGGAGCAAATAGATGAAAATCTAATTTGCTGTAGCT
GTTTTATTAGACATAAATGTAAACAGATTCACCAAGATTACCCAGTACCTTATTTGAATTTAAAAACTTACACTAAGGCG
ACAGAAGAAACTTGTCCCTTTGAAAAAGAAGATGGAATAGAGGGGAAAAAGGAGAAAGGAAAAGCCATTAATAGCTGCTC
AGCAGGACACCACCATTGAAAAGGAATTACAGGAGAGACTGAAATAAGATACTTACGGTGGCATCTACGGCTTCCCTGGC
CATGCCTTCAGCAAGGTCTAACAGCCCGAGGTAGAGAGTGACTCCAGATGCTGGGGGGAGAACAGGATCAAAATGAGGAC
GAAGATGTGGGAAAAAGAGACTTTGTGGAAGATGATGAGGTAGGTGACAGTGAG

ORF - retro_chof_2336 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 60. %
Parental protein coverage: 69.59 %
Number of stop codons detected: 5
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalTKTQSF-CRNEYSLTGLCNRSSCPLANSQYATIKEEKGQCYLYMKVIERAAFPRRLWERVLLSKNYEKAL
TKTQ.F.CRNE.SLT.LCNRSSC.LANS.Y.TI.EEKGQCYL.MKVIE..AF.R.L.E.V.LSKNYEKAL
RetrocopyTKTQRF<CRNEHSLTQLCNRSSCSLANSEYVTINEEKGQCYL*MKVIE*TAFTRCLSEWVWLSKNYEKAL
ParentalEQIDENLIYWPRFIRHKCKQRFTKITQYLIRIRKLTLKRQRKIVPLSK-KVERREKRREEKALIAAQLDN
EQIDENLI....FIRHKCKQ...............T.K......P..K.K.E.R.KRR.EK.LIAAQ.D.
RetrocopyEQIDENLICCSCFIRHKCKQIHQDYPVPYLNLKTYT-KATEETCPFEK>KME*RGKRRKEKPLIAAQQDT
ParentalAIEKELLERLKQDTYSDIYNFPIHAFDKALEQQEAESDSSDAEE-KDDEEEEVD-ETREFLEDDEVDESD
.IEKEL.ERLK.DTY..IY.FP.HAF.K...Q.E.ESDS....E...D..E..D...R.F.EDDEV..S.
RetrocopyTIEKELQERLK*DTYGGIYGFPGHAFSK-V*QPEVESDSRCWGE<EQDQNEDEDVGKRDFVEDDEVGDSE

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_2336 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 7 parental genes, and 13 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000009081 5 retrocopies
Dasypus novemcinctus ENSDNOG000000084241 retrocopy
Latimeria chalumnae ENSLACG000000187581 retrocopy
Macropus eugenii ENSMEUG000000069451 retrocopy
Myotis lucifugus ENSMLUG000000027581 retrocopy
Oryctolagus cuniculus ENSOCUG000000087353 retrocopies
Sus scrofa ENSSSCG000000158321 retrocopy



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