AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024011

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024011 MtrunA17_Chr8g0384531 60.339 295 92 4 92 361 479 773 4.61e-108 342
MsaG024011 MtrunA17_Chr8g0384531 69.565 92 20 2 15 98 332 423 2.76e-30 123
MsaG024011 MtrunA17_Chr8g0384541 95.699 93 4 0 1 93 1 93 6.67e-60 189
MsaG024011 MtrunA17_Chr8g0384551 91.753 97 8 0 269 365 17 113 4.19e-58 186
MsaG024011 MtrunA17_Chr1g0183681 27.437 277 160 7 94 361 524 768 8.23e-20 92.0
MsaG024011 MtrunA17_Chr4g0017211 26.603 312 193 9 80 361 1540 1845 2.27e-17 84.7
MsaG024011 MtrunA17_Chr1g0175191 25.728 206 119 5 97 283 623 813 3.54e-12 68.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024011 AT5G63950.1 47.671 365 148 7 83 404 463 827 1.97e-90 295
MsaG024011 AT5G63950.1 65.625 64 18 1 34 93 348 411 4.05e-18 87.4
MsaG024011 AT5G63950.2 48.447 322 135 6 114 404 489 810 2.07e-82 273
MsaG024011 AT5G63950.2 65.625 64 18 1 34 93 348 411 4.33e-18 87.4
MsaG024011 AT2G18760.3 29.242 277 155 7 94 361 575 819 5.69e-23 102
MsaG024011 AT2G18760.4 29.242 277 155 7 94 361 516 760 6.30e-23 102
MsaG024011 AT2G18760.1 29.242 277 155 7 94 361 516 760 6.30e-23 102
MsaG024011 AT2G18760.2 29.242 277 155 7 94 361 516 760 6.30e-23 102
MsaG024011 AT2G18760.7 29.242 277 155 7 94 361 516 760 6.30e-23 102
MsaG024011 AT2G18760.5 29.242 277 155 7 94 361 516 760 6.30e-23 102
MsaG024011 AT2G18760.6 29.242 277 155 7 94 361 516 760 6.30e-23 102
MsaG024011 AT3G54280.1 25.879 313 195 10 80 361 1541 1847 6.50e-17 84.0
MsaG024011 AT3G54280.2 25.879 313 195 10 80 361 1572 1878 7.75e-17 83.6
MsaG024011 AT3G12810.1 27.184 206 116 5 97 283 638 828 7.59e-12 68.2
MsaG024011 AT3G12810.2 27.184 206 116 5 97 283 634 824 7.93e-12 68.2

Find 79 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTCTTTGAAATTTCAAATA+TGG 0.213964 4:-94696578 None:intergenic
TTATAACTTCCACCATTTAT+AGG 0.232153 4:-94694724 None:intergenic
ATTCCTTGTCTATTACTTAC+TGG 0.236285 4:+94694026 MsaT024011.1:CDS
ATGTAAGCAAAGTGAAAATT+TGG 0.247300 4:-94696603 None:intergenic
TTCAATCCTTCCCTCTGATA+TGG 0.321992 4:-94690672 None:intergenic
GGTTAATGTTGCAGAGATAT+TGG 0.348033 4:+94696266 MsaT024011.1:CDS
AGCACCACTGGCTGCCATTT+GGG 0.351672 4:+94696016 MsaT024011.1:CDS
GCTTCCATTGAACAATGTTC+AGG 0.362486 4:+94695852 MsaT024011.1:CDS
AAGCACCACTGGCTGCCATT+TGG 0.370955 4:+94696015 MsaT024011.1:CDS
GCTCTGGTCATTACATTGTC+AGG 0.381421 4:+94690698 MsaT024011.1:CDS
TCTGCAACATTAACCTCATC+TGG 0.425290 4:-94696258 None:intergenic
CTCGCAGATGACATGGGATT+GGG 0.428089 4:+94690735 MsaT024011.1:CDS
TCCTTTCTCAATAGAAGCTA+AGG 0.430644 4:+94695740 MsaT024011.1:intron
AGAAGCTAAGGGCTCATATT+CGG 0.436415 4:+94695752 MsaT024011.1:intron
AGTCCTTAGGTGGGACTACA+TGG 0.442816 4:+94693207 MsaT024011.1:CDS
CCTCGCAGATGACATGGGAT+TGG 0.456122 4:+94690734 MsaT024011.1:CDS
TGAGTATGAATCAAATGATT+CGG 0.462163 4:+94690557 MsaT024011.1:CDS
ATGGATGTTATCACTCAGAT+TGG 0.469524 4:+94694049 MsaT024011.1:CDS
TAACTTCCTGCAGGAATTGT+GGG 0.469903 4:+94694564 MsaT024011.1:intron
CTTGTCTATTACTTACTGGA+TGG 0.471204 4:+94694030 MsaT024011.1:CDS
TCTCTGTCACCAAGCAACTC+AGG 0.471674 4:-94694607 None:intergenic
ATTTGATCGCCGAAGGGCAT+AGG 0.472749 4:+94696464 MsaT024011.1:CDS
TATTGTAGAATTATGATTGA+AGG 0.476854 4:-94693989 None:intergenic
GGGAAGGATTGAAGTGGCTC+TGG 0.490862 4:+94690682 MsaT024011.1:CDS
CACAAAGTCCACGTATAAGT+TGG 0.495204 4:+94690623 MsaT024011.1:CDS
AGAAAAGAGAAATCGTTGTA+TGG 0.496604 4:+94695830 MsaT024011.1:CDS
ATCTGCTGCCCTGAGTTGCT+TGG 0.496933 4:+94694598 MsaT024011.1:CDS
AGTAAGTAATAGACAAGGAA+TGG 0.496950 4:-94694024 None:intergenic
TGAATCAAATGATTCGGATC+TGG 0.499129 4:+94690563 MsaT024011.1:CDS
GCACGCTTTGTCATTAGAAG+TGG 0.500656 4:-94696195 None:intergenic
ATAACTTCCTGCAGGAATTG+TGG 0.514354 4:+94694563 MsaT024011.1:intron
TGGAATCCTCGCAGATGACA+TGG 0.518517 4:+94690728 MsaT024011.1:CDS
CTAACCTGAACATTGTTCAA+TGG 0.523158 4:-94695856 None:intergenic
TTTGATCGCCGAAGGGCATA+GGG 0.532060 4:+94696465 MsaT024011.1:CDS
GATAAGTACCCTATGCCCTT+CGG 0.532775 4:-94696473 None:intergenic
AAATGATTCGGATCTGGTGT+TGG 0.534372 4:+94690569 MsaT024011.1:CDS
TCATTACATTGTCAGGGTAA+AGG 0.534572 4:+94690705 MsaT024011.1:CDS
GTAATAGACAAGGAATGGAA+TGG 0.538140 4:-94694019 None:intergenic
TTTGCGGACAGTATCATAAG+TGG 0.539843 4:-94693177 None:intergenic
TTTGCCTCCCTTTAGGACAA+AGG 0.540299 4:+94693143 MsaT024011.1:intron
TGTAGTCCCACCTAAGGACT+TGG 0.541035 4:-94693204 None:intergenic
ATGCCTAAAGTCAACAAAAG+TGG 0.541436 4:+94696624 MsaT024011.1:CDS
CATAACAGGAAGTACCCAAA+TGG 0.546135 4:-94696030 None:intergenic
CTCTGTCACCAAGCAACTCA+GGG 0.548842 4:-94694606 None:intergenic
TGGATGTTATCACTCAGATT+GGG 0.550733 4:+94694050 MsaT024011.1:CDS
GATATTGGTAAAGCATATAA+CGG 0.553102 4:+94696281 MsaT024011.1:CDS
AGTTGCTTGGTGACAGAGAA+TGG 0.558130 4:+94694611 MsaT024011.1:CDS
TAGGATAATTTGATCGCCGA+AGG 0.562231 4:+94696457 MsaT024011.1:intron
GTCCCATGTAGTCCCACCTA+AGG 0.572540 4:-94693210 None:intergenic
TGAGGATGTGTTGGACGGGA+TGG 0.574924 4:+94696221 MsaT024011.1:CDS
AATGACAAAGCGTGCAGATG+AGG 0.575624 4:+94696203 MsaT024011.1:CDS
CCTTTCTCAATAGAAGCTAA+GGG 0.578996 4:+94695741 MsaT024011.1:intron
AAATGTTGATTCCATATCAG+AGG 0.584917 4:+94690661 MsaT024011.1:CDS
TTGATTCCATATCAGAGGGA+AGG 0.586105 4:+94690666 MsaT024011.1:CDS
AAAGTCCACGTATAAGTTGG+AGG 0.590302 4:+94690626 MsaT024011.1:CDS
GCGTGCAGATGAGGATGTGT+TGG 0.591224 4:+94696212 MsaT024011.1:CDS
CAGATGAGGATGTGTTGGAC+GGG 0.593535 4:+94696217 MsaT024011.1:CDS
CTCTGGTCATTACATTGTCA+GGG 0.600790 4:+94690699 MsaT024011.1:CDS
AGAGGATGAAATGAAGACGA+AGG 0.606720 4:+94690482 None:intergenic
TTACATTGTCAGGGTAAAGG+TGG 0.606790 4:+94690708 MsaT024011.1:CDS
AGACGAAGGTGAAGGTGCAA+TGG 0.606860 4:+94690496 MsaT024011.1:CDS
GCAGATGAGGATGTGTTGGA+CGG 0.607537 4:+94696216 MsaT024011.1:CDS
AATGTTGATTCCATATCAGA+GGG 0.609093 4:+94690662 MsaT024011.1:CDS
CTCAATGCTCAAGCCAGATG+AGG 0.612196 4:+94696245 MsaT024011.1:CDS
AAAATACCAAGTCCTTAGGT+GGG 0.616674 4:+94693198 MsaT024011.1:CDS
TATTTCTTCATCTACATCAG+AGG 0.620971 4:+94694771 MsaT024011.1:CDS
TGAAATGAAGACGAAGGTGA+AGG 0.621551 4:+94690488 None:intergenic
TTTGAGACGTATGAAGAGTG+AGG 0.622907 4:+94695783 MsaT024011.1:CDS
TGTCATGACAATTTGTCAAG+TGG 0.635037 4:-94696658 None:intergenic
AAGTCCACGTATAAGTTGGA+GGG 0.637438 4:+94690627 MsaT024011.1:CDS
GGAATCCTCGCAGATGACAT+GGG 0.648291 4:+94690729 MsaT024011.1:CDS
AGGATAATTTGATCGCCGAA+GGG 0.653083 4:+94696458 MsaT024011.1:intron
ATCAGAGGGAAGGATTGAAG+TGG 0.660849 4:+94690676 MsaT024011.1:CDS
CATCCAGTAAGTAATAGACA+AGG 0.661172 4:-94694029 None:intergenic
GTCCTTAGGTGGGACTACAT+GGG 0.662678 4:+94693208 MsaT024011.1:CDS
GGACTACACGATGCTTGATG+AGG 0.662932 4:+94693229 MsaT024011.1:CDS
CTCTTGACGAGCAGTATCGA+CGG 0.668548 4:-94690521 None:intergenic
CCAATCCCATGTCATCTGCG+AGG 0.678179 4:-94690734 None:intergenic
AGTACCCAAATGGCAGCCAG+TGG 0.678342 4:-94696020 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 94690492 94696678 94690492 ID=MsaG024011
Chr4 mRNA 94690492 94696678 94690492 ID=MsaT024011.1;Parent=MsaG024011
Chr4 exon 94690492 94690770 94690492 ID=MsaT024011.1.exon1;Parent=MsaT024011.1
Chr4 CDS 94690492 94690770 94690492 ID=cds.MsaT024011.1;Parent=MsaT024011.1
Chr4 exon 94693158 94693250 94693158 ID=MsaT024011.1.exon2;Parent=MsaT024011.1
Chr4 CDS 94693158 94693250 94693158 ID=cds.MsaT024011.1;Parent=MsaT024011.1
Chr4 exon 94693985 94694071 94693985 ID=MsaT024011.1.exon3;Parent=MsaT024011.1
Chr4 CDS 94693985 94694071 94693985 ID=cds.MsaT024011.1;Parent=MsaT024011.1
Chr4 exon 94694577 94694632 94694577 ID=MsaT024011.1.exon4;Parent=MsaT024011.1
Chr4 CDS 94694577 94694632 94694577 ID=cds.MsaT024011.1;Parent=MsaT024011.1
Chr4 exon 94694702 94694792 94694702 ID=MsaT024011.1.exon5;Parent=MsaT024011.1
Chr4 CDS 94694702 94694792 94694702 ID=cds.MsaT024011.1;Parent=MsaT024011.1
Chr4 exon 94695754 94695873 94695754 ID=MsaT024011.1.exon6;Parent=MsaT024011.1
Chr4 CDS 94695754 94695873 94695754 ID=cds.MsaT024011.1;Parent=MsaT024011.1
Chr4 exon 94695960 94696037 94695960 ID=MsaT024011.1.exon7;Parent=MsaT024011.1
Chr4 CDS 94695960 94696037 94695960 ID=cds.MsaT024011.1;Parent=MsaT024011.1
Chr4 exon 94696171 94696377 94696171 ID=MsaT024011.1.exon8;Parent=MsaT024011.1
Chr4 CDS 94696171 94696377 94696171 ID=cds.MsaT024011.1;Parent=MsaT024011.1
Chr4 exon 94696460 94696678 94696460 ID=MsaT024011.1.exon9;Parent=MsaT024011.1
Chr4 CDS 94696460 94696678 94696460 ID=cds.MsaT024011.1;Parent=MsaT024011.1
Gene Sequence

>MsaT024011.1

ATGAAGACGAAGGTGAAGGTGCAATGGCACCGTCGATACTGCTCGTCAAGAGATACTAAGAAGAATGAGTATGAATCAAATGATTCGGATCTGGTGTTGGATCACTTTAAAACTGAGAATGATGATTCTATCACAAAGTCCACGTATAAGTTGGAGGGAAAAATTGCAAAAATGTTGATTCCATATCAGAGGGAAGGATTGAAGTGGCTCTGGTCATTACATTGTCAGGGTAAAGGTGGAATCCTCGCAGATGACATGGGATTGGGAAAAACAATGCAGGACAAAGGTATTCTTCTCACCACTTATGATACTGTCCGCAAAAATACCAAGTCCTTAGGTGGGACTACATGGGACTACACGATGCTTGATGAGCAGGCCTTCAATCATAATTCTACAATATTCATATCCATTCCATTCCTTGTCTATTACTTACTGGATGGATGTTATCACTCAGATTGGGAATTGTGGGCATTGTATAATATCTGCTGCCCTGAGTTGCTTGGTGACAGAGAATGGTTCAAACGTGAATATGAAAAACCTATAAATGGTGGAAGTTATAAAAATGCTACGGACAGACAGAAGCGTATTTCTTCATCTACATCAGAGAAGCTAAGGGCTCATATTCGGCCTTACTTTTTGAGACGTATGAAGAGTGAGGTTTTCAATCAAGCAGAATTTTCTCAGAAAAGAGAAATCGTTGTATGGCTTCCATTGAACAATGTTCAGCGCTGTCTTTATGAAGAATTTTTTAAGGGTGCGATTGTTCTCTCAGCATTTAAAAAAGCACCACTGGCTGCCATTTGGATTTTGAAGAAAATATGTGATCATCCACTTCTAATGACAAAGCGTGCAGATGAGGATGTGTTGGACGGGATGGACTCAATGCTCAAGCCAGATGAGGTTAATGTTGCAGAGATATTGGTAAAGCATATAACGGATGTTGCAAAAACATATATGTTTAAAGATGAGAACGATGTACCATGCAAAATATCTTTTATCATGTCATTATTGGATAATTTGATCGCCGAAGGGCATAGGGTACTTATCTTTTCTCAGACTCGTATGATGCTTAATTTTATTCAGGTCAGTTCAGACACACCGCAAAAGAAGAACAGATTTAAAGCTAAAGCCATATTTGAAATTTCAAAGACAAACCAAATTTTCACTTTGCTTACATGCCTAAAGTCAACAAAAGTGGCTTTAGCTTTACCACTTGACAAATTGTCATGA
Protein sequence

>MsaT024011.1

MKTKVKVQWHRRYCSSRDTKKNEYESNDSDLVLDHFKTENDDSITKSTYKLEGKIAKMLIPYQREGLKWLWSLHCQGKGGILADDMGLGKTMQDKGILLTTYDTVRKNTKSLGGTTWDYTMLDEQAFNHNSTIFISIPFLVYYLLDGCYHSDWELWALYNICCPELLGDREWFKREYEKPINGGSYKNATDRQKRISSSTSEKLRAHIRPYFLRRMKSEVFNQAEFSQKREIVVWLPLNNVQRCLYEEFFKGAIVLSAFKKAPLAAIWILKKICDHPLLMTKRADEDVLDGMDSMLKPDEVNVAEILVKHITDVAKTYMFKDENDVPCKISFIMSLLDNLIAEGHRVLIFSQTRMMLNFIQVSSDTPQKKNRFKAKAIFEISKTNQIFTLLTCLKSTKVALALPLDKLS*