RetrogeneDB ID:

retro_chof_1451

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_297824:340..918(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:TPMT
Ensembl ID:ENSCHOG00000008676
Aliases:None
Description:thiopurine S-methyltransferase [Source:HGNC Symbol;Acc:12014]


Retrocopy-Parental alignment summary:






>retro_chof_1451
ATGAATAATGCAAGAGCTTCACTTGAAATTAAAAAGTACCCCAATAATGAGGTACAGAAAAAGAGTACTAACTCTGGAAG
ATGGCAAGAAAAGTGGATGAGTCACAAAATTGGACTTCATCAAGAACAAGGACATCAGCTATTAAAGAAGCATTTGGAAA
CTTTTCTTAATGGCAAGAGTGGATTCAGGATATTTTTTCATCTTTGTGGAAAACCAGTTGAGATGAGACAGTTTGCACTT
GGGGGACACAGTGTAATTGGTGTGGAGACCAGTGAACTTACGATTTAAGAAATTTTTACAAAGCAGAATCTTTCTCACTC
AGAAGAATCGATTACTGAAATTCCTGGTGCTAAAGTATTTAAGAATTCCTTAGCAGATATTTCATTGTACTGTTGTAGCA
TTTTTTAAGTTTCAGAGTAAATATTGGCAAATTTGACAAGACTTGTGATAGAGAAGCATTAGTCACTATTAATCCAGGTG
ATGGAGTATGCTATGCTGGTAAAATATTCTCCACGGCAAGAAAAGGATTTCACTACCACGTGTTTGTTGTTTCTTATGAT
CCAACTATATGGGCAGGA

ORF - retro_chof_1451 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 65.99 %
Parental protein coverage: 93.27 %
Number of stop codons detected: 2
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMNDTRTLHEI-KEYPDNEVQKNRVLTLED-WQGKWVSRNIAFHQEQGHQLLKKHLDTFLNGKSGLRIFFP
MN..R...EI.K..P.....K.RVLTLED.WQ.KW.S..I..HQEQGHQLLKKHL.TFLNGKSG.RIFF.
RetrocopyMNNARASLEI>KSTPIMRYRK-RVLTLED<WQEKWMSHKIGLHQEQGHQLLKKHLETFLNGKSGFRIFFH
ParentalLCGKAVEMRWFADLGHTVVGVEISELGIREFFTEQNLSYSEEPIAEIPGAKVFKSSSGNISLYCCSIFDI
LCGK.VEMR.FA..GH.V.GVE.SEL.I.E.FT.QNLS.SEE.I.EIPGAKVFK.S...ISLYCCSIF..
RetrocopyLCGKPVEMRQFALGGHSVIGVETSELTI*EIFTKQNLSHSEESITEIPGAKVFKNSLADISLYCCSIF*V
ParentalS-RVNIGKFDRIWDRGALVAVNPGDRERYVDIMLSLTRKGFHYLACIVSYDPTKHAG
S.RVNIGKFD...DR.ALV..NPGD...Y.....S..RKGFHY....VSYDPT..AG
RetrocopyS<RVNIGKFDKTCDREALVTINPGDGVCYAGKIFSTARKGFHYHVFVVSYDPTIWAG

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_1451 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 14 parental genes, and 61 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000008676 27 retrocopies
Callithrix jacchus ENSCJAG000000069062 retrocopies
Cavia porcellus ENSCPOG000000052951 retrocopy
Dasypus novemcinctus ENSDNOG000000048421 retrocopy
Homo sapiens ENSG000001373644 retrocopies
Gorilla gorilla ENSGGOG000000161554 retrocopies
Loxodonta africana ENSLAFG000000116321 retrocopy
Macaca mulatta ENSMMUG000000166273 retrocopies
Mus musculus ENSMUSG000000213761 retrocopy
Nomascus leucogenys ENSNLEG000000015484 retrocopies
Oryctolagus cuniculus ENSOCUG000000038542 retrocopies
Otolemur garnettii ENSOGAG000000077382 retrocopies
Pongo abelii ENSPPYG000000162634 retrocopies
Pan troglodytes ENSPTRG000000177565 retrocopies



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