RetrogeneDB ID:

retro_shar_122

Retrocopy
location
Organism:Tasmanian devil (Sarcophilus harrisii)
Coordinates:GL864810.1:299090..300872(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSSHAG00000007253
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSSHAG00000004211
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_shar_122
ATGGAGCCCCAGCCCACGGCCGGACCCCAGCAGGGATCCTGGTACAAGATGGCGCCGCAGCTGACCACCTACGAGGAGCT
GGCCACCAAGAAGTTTCTGAAGAAGATTAACAAGTGGACGTCTCAGTACAATGTGTCTCCGATCCCTTGGAAGCTGGCTG
TCAGGTTTCTCGTGGCTAGAAAGTTTGATGTCCGCCTGGCTGTTGAATTGTTCCGCGCCTACGTGAAAATGCGACAGAAA
GAAGGAATCTTAAATCTGAGGCCTGATGAGGAACCCCTCCGTTCAGAAATCCTCAGTGGGAAGTTTACTATTCTAAATAC
ACGGGATCCCTCTGGAGCCTCCATCGCTCTCTTCACTGCTAAATTACATCATCCCCATAAATCCTCTCAACGTGTAGTGC
TCCAGGCTCTGTTTTACCTGCTGGACAGAGCACTGGATAGTTTTGAAATTCAAAGAAATGGACTGGTGTTTATCTACGAC
ATGGAGGGTTCCAAATATAACAACTTCGAGCTAAAACTTGGCAAGAAAATCCTAAAGCTCCTGAAGGCAGCCTTTCCGGC
TCCCTTGAAGAAAGTATTTATTGTAGGGGCACCCATGTGGTTCCGAGTGCCCTATTCCATCATCAGTATCCTACTGAAAG
GCAAAGCCTGTGGAAGGATTCAGATAATGAAGACAAGTAAGTTGACCCAACACTTGCCTCCGGAGTGCCTTCCTGAAAGC
CTGGGAGGATATGTAAAGTTGGACCTCACCAGCTGGAACTTTCAATTTCTCCCTCAAATGAATGACCACGAGGACCCTCT
TGGTAAAATTATCTTATTGTCCCTCACTTCCTCTGAGGACAGTCACTCAGTGGACCACTCAGCCCCCCCAGCAATGAACA
TTGTGGAGCTGCTGGATCACTTCCACAGCAAGCAGAGGAGGGGAATTTACCAAGAATTTGAGAGCATTAACTATGCTCAC
CCTGTTGGCACTTTCCACTTTTCCATATTACCAGGTAACTTGGAGAAAAATAGGTACGATGATGTGATGTGCCTAGACGA
AACCCGGGTGAAGTTGATCAGAAGGATGGATGAGACCCAAACAGATTATATCAATGCCAATTTCATAGATGGCTATAATC
ATAAGAATGCTTACATTGGCACACAAGGTCCCTTGGAGAACACCTTTGGTGACTTTTGGCTCATGGTCTGGGAGCAGAAA
GTTCTGGTGATTGTCATGATCACACAACTTGAGGAAAGGGGCAAGAGAAAGTGTGGCCAGTACTGGCCCATGGAAAAAGA
TGACCAGTTCCAATTTGACTCTCTCATAGTTACCAATGAAGGAGTGGAACACATGAATTATTATAAGAAAACTACACTAG
AAATTCATAACATAGAAAACCAACAAAAAAGACAGGTTATCCACCTCCATTTCCTGAATTGGCCAGATTATGGGGTCCCT
GCCACTTCTGATTTGATTAACTTTCTCTTAGTGGTAAGAAAACAGCAGATGAAAGCAGTGGAGAACTTGGGAACATCCTT
CAAAGGTCATCCCAAAGGACCACCCATCGTCATCCATTGCAGCGCAGGCATTGGCAGGACAGGCACCTTTTGTTTGTTGG
ACATCTGCCTGGCAGAGCTGGAAGCGCTAGGCATGGTGAATGTGTTCCAGATACTGTCCCACATAAGAACCCAGAGGGCA
CTAAGCATCCAGAACCCAGAACAGTACTACTTCTGTTATAAGGCCATCATTGAATATTCCAGGAAGATGGGCACGCTGCC
CTCTGCTACTATCTCTGGGCAC

ORF - retro_shar_122 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.4 %
Parental protein coverage: 87.93 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalATKQFLEEINKWTVQYNVSPLSWNLAVRFLMARKFDVLRAIELFHAYREMRRKEGIVKLRPHEDPLRSEI
ATK.FL..INKWT.QYNVSP..W.LAVRFL.ARKFDV..A.ELF.AY..MR.KEGI..LRP.E.PLRSEI
RetrocopyATKKFLKKINKWTSQYNVSPIPWKLAVRFLVARKFDVRLAVELFRAYVKMRQKEGILNLRPDEEPLRSEI
ParentalLSGKFTILNTRDPSGASIALFTAKLHHPHKSSQHVVLQALFYLLDRAMDSFETQRNGLVFIYDMGGSNYN
LSGKFTILNTRDPSGASIALFTAKLHHPHKSSQ.VVLQALFYLLDRA.DSFE.QRNGLVFIYDM.GS.YN
RetrocopyLSGKFTILNTRDPSGASIALFTAKLHHPHKSSQRVVLQALFYLLDRALDSFEIQRNGLVFIYDMEGSKYN
ParentalNFELDLGKKVLNLLKGAFPARLKKVLIVGAPMWFRVPYSIISILLKDKVRERIQIMRTSELTQHLPRECL
NFEL.LGKK.L.LLK.AFPA.LKKV.IVGAPMWFRVPYSIISILLK.K...RIQIM.TS.LTQHLP.ECL
RetrocopyNFELKLGKKILKLLKAAFPAPLKKVFIVGAPMWFRVPYSIISILLKGKACGRIQIMKTSKLTQHLPPECL
ParentalPESLGGYIKLDLSSWNFQFLPQVNGHLDPLDEIILLSLTPSGDGDSVHVPGPQAMTIVELLEHFSHRQKR
PESLGGY.KLDL.SWNFQFLPQ.N.H.DPL..IILLSLT.S.D..SV....P.AM.IVELL.HF...Q.R
RetrocopyPESLGGYVKLDLTSWNFQFLPQMNDHEDPLGKIILLSLTSSEDSHSVDHSAPPAMNIVELLDHFHSKQRR
ParentalGIYEEYEDIRRENPVGTFHCSMSPGNLEKNRYGDVPCLDQTRVKLTKGSGVAQTDYINASFMDGYKQKNA
GIY.E.E.I....PVGTFH.S..PGNLEKNRY.DV.CLD.TRVKL.......QTDYINA.F.DGY..KNA
RetrocopyGIYQEFESINYAHPVGTFHFSILPGNLEKNRYDDVMCLDETRVKLIRRMDETQTDYINANFIDGYNHKNA
ParentalYIGTQGPLENTYHDFWLMVWEQKVLVIVMTTRFEEGGRRKCGQYWPLEKDCRIRFGFLTVTNQGVENMNH
YIGTQGPLENT..DFWLMVWEQKVLVIVM.T..EE.G.RKCGQYWP.EKD....F..L.VTN.GVE.MN.
RetrocopyYIGTQGPLENTFGDFWLMVWEQKVLVIVMITQLEERGKRKCGQYWPMEKDDQFQFDSLIVTNEGVEHMNY
ParentalYKKTTLEIHNTEERQKRQVIHFQFLSWPDYGVPSSADSLIDFLRVVRNQQKMAVRSLGPRFKGHPRGPPI
YKKTTLEIHN.E..QKRQVIH..FL.WPDYGVP...D.LI.FL.VVR.QQ..AV..LG..FKGHP.GPPI
RetrocopyYKKTTLEIHNIENQQKRQVIHLHFLNWPDYGVPATSD-LINFLLVVRKQQMKAVENLGTSFKGHPKGPPI
ParentalVVHCSAGIGRTGTFCSLDICLAQLEELGTLNVFQTVSRMRTQRAFSIQTPEQYYFCYKAIIEYALKEGMV
V.HCSAGIGRTGTFC.LDICLA.LE.LG..NVFQ..S..RTQRA.SIQ.PEQYYFCYKAIIEY..K.G..
RetrocopyVIHCSAGIGRTGTFCLLDICLAELEALGMVNVFQILSHIRTQRALSIQNPEQYYFCYKAIIEYSRKMGTL
ParentalP
P
RetrocopyP

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






RNA-Seq - click to see more details

Sarcophilus harrisii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Sarcophilus harrisii was not studied using ChIP-Seq data.

EST - click to see more details

Sarcophilus harrisii was not studied using EST data.

TSS - click to see more details

Sarcophilus harrisii was not studied using FANTOM5 data.

Lab - click to see more details

retro_shar_122 was not experimentally validated.

Retrocopy orthology:
Sarcophilus harrisii 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
Sarcophilus harrisii ENSSHAG00000004211 1 retrocopy
retro_shar_122 ,


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