RetrogeneDB ID:

retro_chof_646

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_13052:3778..5267(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:DIS3
Ensembl ID:ENSCHOG00000008758
Aliases:None
Description:DIS3 mitotic control homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:20604]


Retrocopy-Parental alignment summary:






>retro_chof_646
GACATGAAAAATTGAGAAGACCTGAAGCATCTGTATATTTGTAGTGTTGACCCAGCAGGATGTGCTGATATAGATGATGC
TCTACATTGTAGAGAACAAGGAAATGGAAAATTGGAGGTTGGTGTTCATGTTGCTGATGCTTAGCCATTTCATTGGGCCA
GGAAATGCTTTAGATCAAGAATCAGTCAGAAGAGGAACAACTGTGTATCTTTGTGAAAAGAGGATTGACGTGGTCCCAGA
GTTGCTTAGCTCTAACTTGTGTTCCTTAAGATGCGATGTGAACAGGCTGGCATTTTCATGTATTTGGGAAATGAATCACA
ATGCTGAAATCTTAAAAACAAGGTTTACAGAAAGTGCCATTAATTCAAAGGCTTCTCTTACATATGCTGAAGCTCAGATG
AGAATTGATTCAGCAACCATGAATGATGGATGATATTACTACTAGTCTCCGTGGACTAAATAAACTAGCTAAAATTTTGA
AAAAACTAAGAATTGGAAAAGGGGCCTTGACTCTTTCTTCCCCAGAAGTTCGATTTCACATGGACAGTGAAACTCATGAT
CCCATAGATCTGCAAACCAAGGAACTTAGAGAAACAGATTCCATGGTGGAAGAATTTACATTACTTGCTAATATCTCTGG
TGCAAAAAAAATTCATGAAGAATTTTCGGAATATGCCCTGCTTCGGAAACATCCTGCTCCTCCCCCATCAAATTATGAAA
TTCTTGTTAAGGCAGCCAAGTCCAACAATTTGGAAATTAATACTGATACAGCAAAGTCTCTGGCTGACTCTTTGGACCAG
GCTGAATCTCCTGCTTTCCCATCTCTAAATACTCTGTTAAGAATATTAACCATTCGCTGTATGATGCAAGCTGTTTACTT
CTGCTCTGGAATGGATAATGATTTTCATCACTATGGTTTAGCATCACCAATATATGCACATTTTACTTCACCCATCAGAA
GATATGCAGACATCATTGTTCATAGGTTGTTGGCAGTGGCTGTTGGAGCAGATTGTACTTATCCAGAGTTGACAGACAAA
CACAAGCTTTCAGATTTATGTAAAAATCTCAATTTCCAGCACAAAATGGCTCAATATGCCCAACGCGCATCAGTGGCATT
TCATACCCAGTTATTTCTCAAAAGCAAAGGAATAATAAGTGAAGAAGCCTATATTCTTTTTGTAAGAAAGAATGCTACTG
TGGTATTAATCCCAAAGTATGGTTTAGAAGGTACAGCCTTTTTGAAGAAAAGGACAAACCAAGGCCACGGCTTACTTATG
ATGATGAGATACCTTCACTTAAAATAGAAGATACAATCTTTCACATATTTGATAAAATTAAAGTGAAAATCATGTTAGAC
TCATCTAATCTTTAGCATCAGAAAATCCGAATGTCCCTGGTAGAACCACAGATACCAGGAATAAACATTCCTGCTGATAT
TTCAAACATGGATATTAACAAGCCACAGAAAAAGAAGCAGCTTGGAAAA

ORF - retro_chof_646 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.4 %
Parental protein coverage: 56.3 %
Number of stop codons detected: 2
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalDMKNREDLRHLCICSVDPPGCTDIDDALHCRELGNGNLEVGVHIAD-VSHFIRPGNALDQESARRGTTVY
DMKN.EDL.HL.ICSVDP.GC.DIDDALHCRE.GNG.LEVGVH.AD..SHFI.PGNALDQES.RRGTTVY
RetrocopyDMKN*EDLKHLYICSVDPAGCADIDDALHCREQGNGKLEVGVHVAD>LSHFIGPGNALDQESVRRGTTVY
ParentalLCEKRIDMVPELLSSNLCSLRCDVDRLAFSCIWEMNHNAEILKTXXXXXXXXXXASLTYAEAQMRIDSAT
LCEKRID.VPELLSSNLCSLRCDV.RLAFSCIWEMNHNAEILKT..........ASLTYAEAQMRIDSAT
RetrocopyLCEKRIDVVPELLSSNLCSLRCDVNRLAFSCIWEMNHNAEILKTRFTESAINSKASLTYAEAQMRIDSAT
ParentalMND-DITTS-LRGLNKLAKILKKRRIEKGALTLSSPEVRFHMDSETHDPIDLQTKELRETNSMVEEFMLL
MND.D..T..LRGLNKLAKILKK.RI.KGALTLSSPEVRFHMDSETHDPIDLQTKELRET.SMVEEF.LL
RetrocopyMND>DDITTSLRGLNKLAKILKKLRIGKGALTLSSPEVRFHMDSETHDPIDLQTKELRETDSMVEEFTLL
ParentalANISVAKKIHGEFSEHALLRKHPAPPPSNYEILVKAAKSKNLEIKTDTAKSLADSLDQAESPAFPYLNTL
ANIS.....H.EFSE.ALLRKHPAPPPSNYEILVKAAKS.NLEI.TDTAKSLADSLDQAESPAFP.LNTL
RetrocopyANISGXXXXHEEFSEYALLRKHPAPPPSNYEILVKAAKSNNLEINTDTAKSLADSLDQAESPAFPSLNTL
ParentalLRILATRCMMQAVYFCSGMDNDFHHYGLASPIYTHFTSPIRRYADIIVHRLLAVAIGADCTYPELTDKHK
LRIL..RCMMQAVYFCSGMDNDFHHYGLASPIY.HFTSPIRRYADIIVHRLLAVA.GADCTYPELTDKHK
RetrocopyLRILTIRCMMQAVYFCSGMDNDFHHYGLASPIYAHFTSPIRRYADIIVHRLLAVAVGADCTYPELTDKHK
ParentalLADLCKNLNFRHKMAQYAQRASVAFHTQLFFKSKGIISEEAYILFVRKNAIVVLIPKYGLEGTVF-FEEK
L.DLCKNLNF.HKMAQYAQRASVAFHTQLF.KSKGIISEEAYILFVRKNA.VVLIPKYGLEGT.F.FEEK
RetrocopyLSDLCKNLNFQHKMAQYAQRASVAFHTQLFLKSKGIISEEAYILFVRKNATVVLIPKYGLEGTAF<FEEK
ParentalDKPKPRLTYDDEIPSLKIEDTVFHIFDKVKVKIMLDSSNLQHQKIRMSLVEPQIPGVSIPADISNMNINE
DKP.PRLTYDDEIPSLKIEDT.FHIFDK.KVKIMLDSSNL.HQKIRMSLVEPQIPG..IPADISNM.IN.
RetrocopyDKPRPRLTYDDEIPSLKIEDTIFHIFDKIKVKIMLDSSNL*HQKIRMSLVEPQIPGINIPADISNMDINK
ParentalPQKKKKKLGK
PQ.KKK.LGK
RetrocopyPQ-KKKQLGK

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






RNA-Seq - click to see more details

Choloepus hoffmanni was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Choloepus hoffmanni was not studied using ChIP-Seq data.

EST - click to see more details

Choloepus hoffmanni was not studied using EST data.

TSS - click to see more details

Choloepus hoffmanni was not studied using FANTOM5 data.

Lab - click to see more details

retro_chof_646 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 ENSCHOG00000008758 1 retrocopy
retro_chof_646 ,


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