AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038724


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038724 MtrunA17_Chr7g0249711 91.667 360 30 0 37 396 122 481 0.0 677
MsaG038724 MtrunA17_Chr8g0335121 56.583 357 152 2 40 396 108 461 4.80e-139 409
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038724 AT3G60400.1 46.797 359 183 2 40 396 101 453 3.05e-101 313
MsaG038724 AT4G19650.2 22.817 355 245 8 40 386 151 484 1.72e-14 75.9
MsaG038724 AT4G19650.1 22.817 355 245 8 40 386 134 467 1.80e-14 75.9
MsaG038724 AT5G06811.1 24.277 346 238 9 41 379 136 464 3.56e-11 65.5

Find 92 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTTGTGTGCTTTGTGATTT+TGG 0.070594 7:-79981690 MsaT038724.1:CDS
TTTGGTAATGTTGAAGTTAT+TGG 0.228613 7:-79981561 MsaT038724.1:CDS
GAGGATGTTATTGAAAATTT+TGG 0.244503 7:-79981111 MsaT038724.1:CDS
GAAGACGGTGATTAATGTTT+TGG 0.262397 7:-79981172 MsaT038724.1:CDS
ATTCAATTCTTGGGCGTAAA+AGG 0.264658 7:+79980770 None:intergenic
ATGGAGAAGAGTTCTATATT+TGG 0.292885 7:-79981636 MsaT038724.1:CDS
TTGGTAATGTTGAAGTTATT+GGG 0.297592 7:-79981560 MsaT038724.1:CDS
TGAAGTCTTGAAGCTTGATT+TGG 0.297730 7:-79981196 MsaT038724.1:CDS
GAAGTTAGGTGTGTTGTATA+TGG 0.320179 7:-79981655 MsaT038724.1:CDS
GTAGAGTATTTCTGTAGATT+TGG 0.327428 7:-79981261 MsaT038724.1:CDS
TGGCATGAACTCTAAAGATT+TGG 0.329917 7:-79981133 MsaT038724.1:CDS
GGGTTTCCTTGGGAGAAGTT+AGG 0.333161 7:-79981669 MsaT038724.1:CDS
TGGCACAAGCAGTGAGTTAC+AGG 0.336816 7:-79980806 MsaT038724.1:CDS
TGGAGAAGAGTTCTATATTT+GGG 0.347223 7:-79981635 MsaT038724.1:CDS
TGAAAAGAACAACTTATCAT+TGG 0.347419 7:+79981737 None:intergenic
TTCTTACATAGGTTAGGCTT+TGG 0.350861 7:-79980868 MsaT038724.1:CDS
ATGGTTCTGTGATAAGTTAA+AGG 0.357332 7:-79981022 MsaT038724.1:CDS
AGCTTTGAGAATTCAATTCT+TGG 0.365719 7:+79980760 None:intergenic
AAATCAAGCTTCAAGACTTC+AGG 0.367485 7:+79981198 None:intergenic
GGTGATGCTGGAGGTTCTGT+TGG 0.374626 7:-79979065 MsaT038724.1:CDS
CATAGCTTCTTCATTGCTAC+AGG 0.384557 7:+79979154 None:intergenic
TGAAGTTATTGGGATTTGTT+TGG 0.398881 7:-79981550 MsaT038724.1:CDS
AGTTGAAATTGAGGCTTTGT+TGG 0.399309 7:-79981599 MsaT038724.1:CDS
GAGCTATGAGTTTGAAAGAA+TGG 0.402302 7:-79981041 MsaT038724.1:CDS
GTGATGCTGGAGGTTCTGTT+GGG 0.405296 7:-79979064 MsaT038724.1:CDS
TGCATTGACTATGAATCTCT+TGG 0.410279 7:-79980839 MsaT038724.1:CDS
CTCATAGCTCTCATCACATT+TGG 0.412904 7:+79981054 None:intergenic
CTGTAGATTTGGTGGAAAGA+AGG 0.427510 7:-79981250 MsaT038724.1:CDS
TTGAATTTCTTACATAGGTT+AGG 0.429912 7:-79980874 MsaT038724.1:CDS
GAAAAGAACAACTTATCATT+GGG 0.433792 7:+79981738 None:intergenic
CATGAACTCTAAAGATTTGG+AGG 0.437849 7:-79981130 MsaT038724.1:CDS
TGGGTTAAAAGACGTGGTTT+TGG 0.450854 7:-79981579 MsaT038724.1:CDS
TTGAAGGAAATGTAGATTCA+TGG 0.453142 7:-79981410 MsaT038724.1:CDS
GTTGAAATTGAGGCTTTGTT+GGG 0.455136 7:-79981598 MsaT038724.1:CDS
GCTTTGAGAATTCAATTCTT+GGG 0.455393 7:+79980761 None:intergenic
AAGATTATCAAGATGGTTTG+AGG 0.456096 7:-79980939 MsaT038724.1:CDS
CATAGGGATAGATTATACTT+TGG 0.460683 7:-79981775 MsaT038724.1:CDS
ATAAGTTGAATTTCTTACAT+AGG 0.466024 7:-79980879 MsaT038724.1:CDS
GAGTATTTCTGTAGATTTGG+TGG 0.485283 7:-79981258 MsaT038724.1:CDS
CGGGATAAAGATTATCAAGA+TGG 0.492595 7:-79980946 MsaT038724.1:CDS
ATAGGTGAAGGGTATGGATT+TGG 0.493429 7:+79981941 None:intergenic
AATGGATGGAAGGGTAATGT+AGG 0.497129 7:-79981348 MsaT038724.1:CDS
TTCGAAAGTCTGCGGATGTA+TGG 0.498063 7:-79979086 MsaT038724.1:CDS
AATCAAGCTTCAAGACTTCA+GGG 0.502740 7:+79981199 None:intergenic
TGGTTCTGTGATAAGTTAAA+GGG 0.503197 7:-79981021 MsaT038724.1:CDS
CAAGTGATCGCAATGAAGAC+CGG 0.503592 7:-79980966 MsaT038724.1:CDS
GGAACTGGGTCAAATTCAAA+AGG 0.507606 7:-79981505 MsaT038724.1:CDS
CATCTTGATAATCTTTATCC+CGG 0.516234 7:+79980947 None:intergenic
AATCTCTTGGATCGTTTGCA+TGG 0.518346 7:-79980826 MsaT038724.1:CDS
AGTTCCTCACTCAAAACAAA+AGG 0.523057 7:+79981522 None:intergenic
CTGCGGATGTATGGTGATGC+TGG 0.527970 7:-79979077 MsaT038724.1:CDS
CCTCACAAATCTCATTTCAA+AGG 0.541683 7:-79981886 MsaT038724.1:intron
AGGGTATGGATTTGGTGTTG+TGG 0.544585 7:+79981949 None:intergenic
TTGGAGCTGTTGAAACACTT+TGG 0.546214 7:-79981153 MsaT038724.1:CDS
TCTTTGGGGAGTTATGTTGA+AGG 0.549056 7:-79981426 MsaT038724.1:CDS
GTGTTGAAGAGTTGAAATTG+AGG 0.549592 7:-79981608 MsaT038724.1:CDS
GTTGCCCATGTGTTCTGCAT+AGG 0.551348 7:+79981923 None:intergenic
CTTCACCTATGCAGAACACA+TGG 0.552095 7:-79981928 MsaT038724.1:CDS
CTTTGTTGGGTTAAAAGACG+TGG 0.557709 7:-79981585 MsaT038724.1:CDS
TATGATTTGAATGGATGGAA+GGG 0.564181 7:-79981357 MsaT038724.1:CDS
TAGATTTGGTGGAAAGAAGG+AGG 0.566105 7:-79981247 MsaT038724.1:CDS
ATTCTCAAAGCTCTGCATGA+TGG 0.566277 7:-79980749 MsaT038724.1:intron
TTATGATTTGAATGGATGGA+AGG 0.566317 7:-79981358 MsaT038724.1:CDS
GGGTAATGTAGGAGAACTCA+TGG 0.567143 7:-79981337 MsaT038724.1:CDS
CTTTGAAATGAGATTTGTGA+GGG 0.572972 7:+79981887 None:intergenic
GAAGCTTGATTTGGAGAAGA+CGG 0.577664 7:-79981187 MsaT038724.1:CDS
TGTGCTGGGAACAATTAGAA+TGG 0.585503 7:-79981085 MsaT038724.1:CDS
TTTGAGCTTCGTGAATGACA+TGG 0.585863 7:+79981991 None:intergenic
AAGTGATCGCAATGAAGACC+GGG 0.587085 7:-79980965 MsaT038724.1:CDS
AGTTAAAGGGTGGACATCAT+CGG 0.591752 7:-79981008 MsaT038724.1:CDS
GGTAATGTAGGAGAACTCAT+GGG 0.593941 7:-79981336 MsaT038724.1:CDS
TTCTGCATAGGTGAAGGGTA+TGG 0.599546 7:+79981935 None:intergenic
GCTATGCTGCTGTTGACAAG+TGG 0.599674 7:-79979137 MsaT038724.1:CDS
GAACTGGGTCAAATTCAAAA+GGG 0.603474 7:-79981504 MsaT038724.1:CDS
TGGACATCATCGGTTGTTAG+CGG 0.610567 7:-79980998 MsaT038724.1:CDS
ATGTGTTCTGCATAGGTGAA+GGG 0.610997 7:+79981930 None:intergenic
TTCTGTGATAAGTTAAAGGG+TGG 0.612876 7:-79981018 MsaT038724.1:CDS
GTATGGATTTGGTGTTGTGG+AGG 0.614500 7:+79981952 None:intergenic
GCTTGCAGTACTCAATCAGA+TGG 0.615444 7:-79979113 MsaT038724.1:CDS
TGATGCTGGAGGTTCTGTTG+GGG 0.623357 7:-79979063 MsaT038724.1:CDS
AACACACCTAACTTCTCCCA+AGG 0.625967 7:+79981663 None:intergenic
GTTGTGGAGGTAGTCAGTGA+GGG 0.627809 7:+79981965 None:intergenic
CATGTGTTCTGCATAGGTGA+AGG 0.630707 7:+79981929 None:intergenic
ATAGCTTCTTCATTGCTACA+GGG 0.630849 7:+79979155 None:intergenic
AAATGTAGATTCATGGCATG+AGG 0.630954 7:-79981403 MsaT038724.1:CDS
GTAATGTAGGAGAACTCATG+GGG 0.661705 7:-79981335 MsaT038724.1:CDS
TGTTGTGGAGGTAGTCAGTG+AGG 0.663801 7:+79981964 None:intergenic
ATGTAGGAGAACTCATGGGG+AGG 0.683085 7:-79981332 MsaT038724.1:CDS
CGGATGTATGGTGATGCTGG+AGG 0.684837 7:-79979074 MsaT038724.1:CDS
ATGGTGATTTCGAAAGTCTG+CGG 0.687262 7:-79979094 MsaT038724.1:CDS
TTCACCTATGCAGAACACAT+GGG 0.692667 7:-79981927 MsaT038724.1:CDS
CCTTTGAAATGAGATTTGTG+AGG 0.730568 7:+79981886 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 79979055 79982011 79979055 ID=MsaG038724
Chr7 mRNA 79979055 79982011 79979055 ID=MsaT038724.1;Parent=MsaG038724
Chr7 exon 79979055 79979189 79979055 ID=MsaT038724.1.exon3;Parent=MsaT038724.1
Chr7 CDS 79979055 79979189 79979055 ID=cds.MsaT038724.1;Parent=MsaT038724.1
Chr7 exon 79980750 79981797 79980750 ID=MsaT038724.1.exon2;Parent=MsaT038724.1
Chr7 CDS 79980750 79981797 79980750 ID=cds.MsaT038724.1;Parent=MsaT038724.1
Chr7 exon 79981887 79982011 79981887 ID=MsaT038724.1.exon1;Parent=MsaT038724.1
Chr7 CDS 79981887 79982011 79981887 ID=cds.MsaT038724.1;Parent=MsaT038724.1
Gene Sequence

>MsaT038724.1

ATGTCATTCACGAAGCTCAAAAAGCCCTCACTGACTACCTCCACAACACCAAATCCATACCCTTCACCTATGCAGAACACATGGGCAACAACACTCTCTGTTCCCTCACAAATCTCATTTCAAAGCATAGGGATAGATTATACTTTGGTTTCTGATTTGTTACCCAATGATAAGTTGTTCTTTTCAGAAGATAAGACTCTTCTAGAAGCTGCTTGTGTGCTTTGTGATTTTGGGTTTCCTTGGGAGAAGTTAGGTGTGTTGTATATGGAGAAGAGTTCTATATTTGGGAAAAGTGTTGAAGAGTTGAAATTGAGGCTTTGTTGGGTTAAAAGACGTGGTTTTGGTAATGTTGAAGTTATTGGGATTTGTTTGGCTTTTCCTTTTGTTTTGAGTGAGGAACTGGGTCAAATTCAAAAGGGTGTTTTTGGAATTGATGAGTTGTTTAGTGATCTAAAGTTGATTTTTTTAGATAATTCTTTGGGGAGTTATGTTGAAGGAAATGTAGATTCATGGCATGAGGTGTGTAGAAAGTTGCGATTGTTTTATGATTTGAATGGATGGAAGGGTAATGTAGGAGAACTCATGGGGAGGAATAAAAGTATATTTGTTGATCACAAAGAAGATGAGATAGTACATAAAGTAGAGTATTTCTGTAGATTTGGTGGAAAGAAGGAGGAAGTAGCTTTGTTGATTCTACAATGCCCTGAAGTCTTGAAGCTTGATTTGGAGAAGACGGTGATTAATGTTTTGGAGCTGTTGAAACACTTTGGCATGAACTCTAAAGATTTGGAGGATGTTATTGAAAATTTTGGTCATGTGCTGGGAACAATTAGAATGGTTAATCTACCAAATGTGATGAGAGCTATGAGTTTGAAAGAATGGTTCTGTGATAAGTTAAAGGGTGGACATCATCGGTTGTTAGCGGATTATATCACAAGTGATCGCAATGAAGACCGGGATAAAGATTATCAAGATGGTTTGAGGAGAATTCTCATTTCACGAGCTCGAGTTCATAGCATTAATAAGTTGAATTTCTTACATAGGTTAGGCTTTGGAGAAAATGCATTGACTATGAATCTCTTGGATCGTTTGCATGGCACAAGCAGTGAGTTACAGGAAAGATTTGACTGCCTTTTACGCCCAAGAATTGAATTCTCAAAGCTCTGCATGATGGATGGTGATTTGCCCTGTAGCAATGAAGAAGCTATGCTGCTGTTGACAAGTGGAGCTTGCAGTACTCAATCAGATGGTGATTTCGAAAGTCTGCGGATGTATGGTGATGCTGGAGGTTCTGTTGGGGTAATCTGA

Protein sequence

>MsaT038724.1

MSFTKLKKPSLTTSTTPNPYPSPMQNTWATTLSVPSQISFQSIGIDYTLVSDLLPNDKLFFSEDKTLLEAACVLCDFGFPWEKLGVLYMEKSSIFGKSVEELKLRLCWVKRRGFGNVEVIGICLAFPFVLSEELGQIQKGVFGIDELFSDLKLIFLDNSLGSYVEGNVDSWHEVCRKLRLFYDLNGWKGNVGELMGRNKSIFVDHKEDEIVHKVEYFCRFGGKKEEVALLILQCPEVLKLDLEKTVINVLELLKHFGMNSKDLEDVIENFGHVLGTIRMVNLPNVMRAMSLKEWFCDKLKGGHHRLLADYITSDRNEDRDKDYQDGLRRILISRARVHSINKLNFLHRLGFGENALTMNLLDRLHGTSSELQERFDCLLRPRIEFSKLCMMDGDLPCSNEEAMLLLTSGACSTQSDGDFESLRMYGDAGGSVGVI*