RetrogeneDB ID:

retro_chof_55

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:scaffold_9833:12973..14407(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSCHOG00000004561
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:KCNS3
Ensembl ID:ENSCHOG00000009105
Aliases:None
Description:potassium voltage-gated channel, delayed-rectifier, subfamily S, member 3 [Source:HGNC Symbol;Acc:6302]


Retrocopy-Parental alignment summary:






>retro_chof_55
ATGACCCACCAGAGCCTGTGGGACCTGTCGGAGGCCAACGTCGAGGATGGAGAGATCCGCATCAACGTGGGCGGCTTCAA
GAGGCGGCTGCGCTCGCACACGCTGCTGCGCTTCCCCGAGACGCGCCTGGGCCGCCTGCTGCTCTGCCACTCGCGCGAGG
CCATCCTGGAGCTCTGCGATGACTACGACGACGTCCAGCGTGAGTTCTACTTCGACCGCAACCCGGAGCTCTTCCCCTAC
GTGCTGCATTTCTACCACACCGGCAAGCTTCACGTCATGGCCGAGCTGTGCGTCTTCTCCTTCAGCCAGGAAATTGAGTA
CTGGGGCATCAATGAATTCTTCATCGACTCCTGCTGCAGCTACAGCTACCACGGCCGCAAAGTGGAGCCTGAGCAGGAGA
AGTGGGACGAGCAGAGCGACCAGGAGAGCACCACGTCCTCCTTCGACGAGATCCTCGCCTTCTATAACGACGCCTCCAAG
TTCGATGGGCAGCCCCTGGGCAACTTCCGAAGACAGCTGTGGCTGGCTCTGGACAACCCCGGCTACTCCGTCCTGAGCAG
GGTCTTCAGCATCCTGTCCATCCTCGTGGTGTTGGGGTCCATCATCACCATGTGCCTCAATAGCCTACCAGACTTCCAAA
TCCCTGACAGCCAGGGCAACCCTGCCGAGGACCCCAGGTTTGAAATCGTGGAGCACTTTGGCATCGCATGGTTCACGTTT
GAGCTGGTTGCTAGGTTTGCTGTGGCACCTGACTTCCTCAAGTTTTTCAAGAATGCCCTAAACCTTATCGACCTCATATC
CATTGTCCCTTTTTACATCACTCTGGTGGTGAACCTCGTGGTGGAGAGCACGCCTACCCTGGCCCATCTGGGCAGAGTGT
CCCAGGTCCTGAGGCTGATGCGGATTTTCCGCATCTTAAAGCTGGCCAGACACTACACTGGCCTCCGCTCCCTGGGAGCC
ACCTTGAAGTACAGTTACAAAGAAGTAGGGCTGCTCCTGCTCTACCTCTCCGTGGGCATTTCCATCTTCTCTGTGGTGGC
CTACACCATTGAAAAGGAAGAGAATGAGGGCCTGGCCACCATACCTGCTGGCTGGTGGTGGGCCACTGTCAGTATGACCA
CTGTGGGGTATGGAGATGTGGTCCCAGGGACCACAGCAGGGAAGCTGACTGCTTCTGCCTGCATCCTGGCAGGTATCCTA
GTGGTGGTTCTGCCCATCACCTTGATCTTCAATAAGTTCTCCCACTTCTATCGGCGCCAAAAGCAACTCGAGAGTGCCAT
GCGCAGCTGTGACTTTGGGGATGGTATGAAGGAGGTCCCTTCCATCAATTTAAGGGATTACTATGCCCATAAAGTTAAAT
CCCTCATGGCAAGCCTGACGAACATGAGCAGGAGTTCCCCAAGCGAACTAAGTTTAAATGATTCCCTACATTAG

ORF - retro_chof_55 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 55.73 %
Parental protein coverage: 90.02 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalVNLNVGGFKQSVDQSTLLRFPHTRLGRLLSCRSEEAILELCDDYSVADREYYFDRNPSLFRYVLNFYYTG
...NVGGFK......TLLRFP.TRLGRLL.C.S.EAILELCDDY....RE.YFDRNP.LF.YVL.FY.TG
RetrocopyIRINVGGFKRRLRSHTLLRFPETRLGRLLLCHSREAILELCDDYDDVQREFYFDRNPELFPYVLHFYHTG
ParentalKLHVMEELCVFSFCQEIEYWGINEFSLDACCSSRYQERKEEGRGKAWEQKSHGASTESSFEDSSLFEKEL
KLHVM.ELCVFSF.QEIEYWGINEF..D.CCS..Y..RK.E.....W...S...ST.SSF.....F....
RetrocopyKLHVMAELCVFSFSQEIEYWGINEFFIDSCCSYSYHGRKVEPEQEKWDEQSDQESTTSSFDEILAFYNDA
ParentalEKFDRLWFGQLRRKVWIRMENPAHCLSAKLIAISSLSVVLASIVAMCVHSMSEFQNEDGE---VDDPVLE
.KFD....G..RR..W....NP..........I.S..VVL.SI..MC..S...FQ..D.......DP..E
RetrocopySKFDGQPLGNFRRQLWLALDNPGYSVLSRVFSILSILVVLGSIITMCLNSLPDFQIPDSQGNPAEDPRFE
ParentalGVEIACIAWFTGELAVRLGAAPCQKRFWTNPLNIIDFVSIVPFYATLAVDTKEEESEDIENMGKVVQILR
.VE...IAWFT.EL..R...AP....F..N.LN.ID..SIVPFY.TL.V....E........G.V.Q.LR
RetrocopyIVEHFGIAWFTFELVARFAVAPDFLKFFKNALNLIDLISIVPFYITLVVNLVVESTPTLAHLGRVSQVLR
ParentalLMRIFRILKLARHSVGLRSLGATLRHSYHEVGLLLLFLSVGISIFSVLIFSVEKDEPTAGLTSIPICWWW
LMRIFRILKLARH..GLRSLGATL..SY.EVGLLLL.LSVGISIFSV.....EK.E...GL..IP..WWW
RetrocopyLMRIFRILKLARHYTGLRSLGATLKYSYKEVGLLLLYLSVGISIFSVVAYTIEKEE-NEGLATIPAGWWW
ParentalATISMTTVGYGDTHPVTLAGKLIASTCIICGILVVALPITIIFNKFSKYYQKQKDIDVDQGGEDPPEKCH
AT.SMTTVGYGD..P.T.AGKL.AS.CI..GILVV.LPIT.IFNKFS..Y..QK.........D......
RetrocopyATVSMTTVGYGDVVPGTTAGKLTASACILAGILVVVLPITLIFNKFSHFYRRQKQLESAMRSCDFGDGMK
ParentalELPYFNIRDIYAQRVHAFLASLTSV
E.P..N.RD.YA..V....ASLT..
RetrocopyEVPSINLRDYYAHKVKSLMASLTNM

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_55 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 ENSCHOG00000009105 1 retrocopy
retro_chof_55 ,




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