RetrogeneDB ID:

retro_chof_1542

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_31837:12427..13295(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSCHOG00000008888
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_chof_1542
ATGGCGCGGACCCCGGGGCCCGCTCCGCCGTGTCCCGGAAGCCGCAGAAAACAACTTTCCACCGCTTCTGCCGCTGGGAC
CAGGATCCTGCTGCCGCCACCGACGCCTCTGCCGCTGCTACTGATGCTGTTCCCGCTGCTGCTCCTCTCGGGGCTCTGTG
GTGCCTCAGCTCTACCAGTCATCGTGCAGCCCAGTGTCTTCGCGGTTTGGGGAAAGAATGTGTCTTTGAAATGCTTCATT
GAAGCGAAGGACAGTATAACCCAGATTTCTTGGGAGAAGATCAATGGCAAAAGTTCACAGACTGTTGCGGTTCATCATCC
TCAATATGGATTTTCTGTTGTAGGGGAATATCAGGGAAGAATCTTGTTTAAGAACCTGTCAATGAGTGATGCAACAATTA
CTCTACATAATATAGGAGTCTCTGATTCCGGACAATATATATGCAAAGCTGTTACATTCCCAGGTGGAATTGTGGAGTCC
TCAACAACTGTAACTTTTAGTTGAACCCACTGTAAGCCTGATGAAAGGGCCAGATTCTTTAATTGATGGAGGAAATGAAA
CAGTAGCAGCCATTTGTACAGCAGCCACTGGCAAACCAGTTGCACATATTGACTGGGAAGGTGATCTTGGTGAAATGGAA
TCGATTACAACTTCTTTTCCAAATGAAACGGTGACAATTGTCAGCCAGTACAAGCTGTTTCCAACCAGATTTGCTCAAGG
AAGACGAATTACCTGTGTCGTAAAGCATCCAACCTTGGACAAGGACATTCGATATTCTTTCATATCAGATATACTGTACG
CTCCTGAGGTTTCTGTAACAGGATAAGATGGAAATTGGTTTGTAGGAAGAAAAGGTGTTAATCTTCAG

ORF - retro_chof_1542 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.54 %
Parental protein coverage: 52.82 %
Number of stop codons detected: 1
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMAWTPGPAPPCPGSRRKQLSTASAAGTRILLPPPTPLPLLLMLFPLLLLSGLCGALAGPIIVEPHIIAVW
MA.TPGPAPPCPGSRRKQLSTASAAGTRILLPPPTPLPLLLMLFPLLLLSGLCGA.A.P.IV.P...AVW
RetrocopyMARTPGPAPPCPGSRRKQLSTASAAGTRILLPPPTPLPLLLMLFPLLLLSGLCGASALPVIVQPSVFAVW
ParentalGKNVSLKCLIEVNETITHILWEKIQGQNSQIVAVHHPQDGFSVQGAYQGRVLFKSYSLTDATITLHNIGF
GKNVSLKC.IE....IT.I.WEKI.G..SQ.VAVHHPQ.GFSV.G.YQGR.LFK..S..DATITLHNIG.
RetrocopyGKNVSLKCFIEAKDSITQISWEKINGKSSQTVAVHHPQYGFSVVGEYQGRILFKNLSMSDATITLHNIGV
ParentalSDSGKYICKAVTFPGGNAQSSTTVT-VLVEPTVSLIKGPDSLIDGGNETVAAICTAATGKPVAHIDWEGD
SDSG.YICKAVTFPGG....S.T....LVEPTVSL.KGPDSLIDGGNETVAAICTAATGKPVAHIDWEGD
RetrocopySDSGQYICKAVTFPGGIVE-SSTTV>LLVEPTVSLMKGPDSLIDGGNETVAAICTAATGKPVAHIDWEGD
ParentalLGEMESTTTSFPNETVTIVSQYKLFPTRFARGRRITCVVKHPTLDKDIRYSFILDIQYAPEVSVTGYDGN
LGEMES.TTSFPNETVTIVSQYKLFPTRFA.GRRITCVVKHPTLDKDIRYSFI.DI.YAPEVSVTG.DGN
RetrocopyLGEMESITTSFPNETVTIVSQYKLFPTRFAQGRRITCVVKHPTLDKDIRYSFISDILYAPEVSVTG*DGN
ParentalWFVGRKGVNLK
WFVGRKGVNL.
RetrocopyWFVGRKGVNLQ

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_1542 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 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG00000008888 1 retrocopy
retro_chof_1542 ,



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