AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG031717

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031717 MtrunA17_Chr6g0469431 95.154 227 11 0 1 227 1 227 5.59e-159 442
MsaG031717 MtrunA17_Chr8g0348391 56.782 317 113 6 1 293 1 317 4.31e-112 327
MsaG031717 MtrunA17_Chr1g0181771 51.986 277 122 5 32 304 28 297 2.53e-85 258
MsaG031717 MtrunA17_Chr6g0469441 100.000 57 0 0 218 274 23 79 3.51e-34 120
MsaG031717 MtrunA17_Chr7g0276421 53.509 114 43 2 28 131 4 117 3.03e-25 105
MsaG031717 MtrunA17_Chr6g0481061 49.565 115 47 4 39 144 46 158 5.65e-25 104
MsaG031717 MtrunA17_Chr3g0109791 53.922 102 39 1 30 123 37 138 3.45e-23 97.8
MsaG031717 MtrunA17_Chr5g0433851 57.732 97 33 2 35 123 28 124 4.37e-23 98.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031717 AT5G52660.2 58.258 333 96 7 1 296 1 327 8.44e-119 345
MsaG031717 AT5G52660.1 58.434 332 96 7 1 296 1 326 2.20e-118 344
MsaG031717 AT4G01280.1 55.921 304 103 10 1 281 1 296 1.52e-101 300
MsaG031717 AT4G01280.2 55.738 305 103 10 1 281 1 297 2.20e-101 300
MsaG031717 AT1G01520.1 52.740 292 109 5 7 281 5 284 3.60e-97 288
MsaG031717 AT1G01520.3 52.817 284 105 5 7 273 5 276 7.98e-94 280
MsaG031717 AT3G09600.1 51.786 280 112 3 15 282 8 276 7.21e-87 262
MsaG031717 AT3G09600.7 51.786 280 112 3 15 282 8 276 7.21e-87 262
MsaG031717 AT3G09600.2 52.593 270 105 3 15 272 8 266 1.12e-84 256
MsaG031717 AT3G09600.6 52.593 270 105 3 15 272 8 266 1.12e-84 256
MsaG031717 AT3G09600.4 52.593 270 105 3 15 272 8 266 1.53e-84 256
MsaG031717 AT5G02840.3 52.713 258 107 4 33 280 31 283 3.28e-83 253
MsaG031717 AT1G01520.2 51.504 266 100 5 7 255 5 258 8.18e-83 251
MsaG031717 AT1G01520.4 51.504 266 100 5 7 255 5 258 8.18e-83 251
MsaG031717 AT5G02840.1 54.694 245 96 4 38 272 36 275 3.60e-82 250
MsaG031717 AT5G02840.2 54.694 245 96 4 38 272 36 275 3.60e-82 250
MsaG031717 AT5G02840.4 53.070 228 92 4 38 255 36 258 5.45e-71 221
MsaG031717 AT5G02840.5 51.931 233 97 4 33 255 31 258 2.55e-70 220
MsaG031717 AT3G09600.3 49.339 227 92 3 68 282 5 220 2.41e-63 200
MsaG031717 AT3G09600.8 49.339 227 92 3 68 282 5 220 2.41e-63 200
MsaG031717 AT3G09600.5 50.230 217 85 3 68 272 5 210 3.75e-61 194
MsaG031717 AT3G09600.9 50.230 217 85 3 68 272 5 210 3.75e-61 194
MsaG031717 AT1G01520.5 41.892 148 81 2 137 281 55 200 4.39e-30 113
MsaG031717 AT5G37260.1 58.163 98 37 1 30 123 16 113 5.56e-26 104
MsaG031717 AT5G17300.1 53.608 97 37 1 35 123 40 136 4.78e-25 103
MsaG031717 AT1G18330.1 53.191 94 36 1 39 124 39 132 1.03e-23 99.8
MsaG031717 AT1G01060.4 55.844 77 34 0 32 108 6 82 1.58e-23 101
MsaG031717 AT1G01060.8 55.844 77 34 0 32 108 6 82 1.60e-23 101
MsaG031717 AT1G01060.2 55.844 77 34 0 32 108 6 82 1.60e-23 101
MsaG031717 AT1G01060.3 55.844 77 34 0 32 108 6 82 1.60e-23 101
MsaG031717 AT1G01060.1 55.844 77 34 0 32 108 6 82 1.60e-23 101
MsaG031717 AT1G01060.7 55.844 77 34 0 32 108 6 82 1.60e-23 101
MsaG031717 AT3G10113.1 53.191 94 36 1 39 124 54 147 1.65e-23 99.0
MsaG031717 AT1G18330.2 53.191 94 36 1 39 124 65 158 1.84e-23 99.4
MsaG031717 AT2G46830.1 62.857 70 26 0 31 100 5 74 2.38e-23 100

Find 71 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTAAATGCTCAGATGCTTC+TGG 0.201836 6:+33474802 None:intergenic
CAGAAACCTTCTGGCGGGTT+CGG 0.236144 6:+33483046 None:intergenic
TCACCAACCGGCCGCCCTTT+TGG 0.259929 6:+33475569 None:intergenic
GTACGGCTTCCTGATCTTCT+TGG 0.264852 6:+33482952 None:intergenic
GTAAAGATTATTACCACTTT+TGG 0.287124 6:+33476044 None:intergenic
CTTACGTGATCCTCAAAATC+TGG 0.298138 6:+33474490 None:intergenic
TAACCAAGTCTAGAGAAAAT+TGG 0.315233 6:-33482925 MsaT031717.1:CDS
TCAAGAAACTTGTCATGTTC+AGG 0.315318 6:+33482896 None:intergenic
AGTATGGCTCTACCGGGTTT+TGG 0.320173 6:-33483010 MsaT031717.1:CDS
TGAACACTGTGGTGTCTTCC+TGG 0.339021 6:-33475833 MsaT031717.1:CDS
CTAAATACCATGTAACAAAT+TGG 0.354102 6:+33475788 None:intergenic
GGATCCAGGCAGAAACCTTC+TGG 0.358407 6:+33483037 None:intergenic
CTGCAAGAATTATTCACCTT+TGG 0.363429 6:+33475608 None:intergenic
TGTCCAGGTTTGACCGTGAT+TGG 0.376092 6:-33479605 MsaT031717.1:intron
CAAAACACCAATTTGTTACA+TGG 0.379861 6:-33475795 MsaT031717.1:intron
TTGTCTCTAGATCAACTTCA+TGG 0.389933 6:+33473586 None:intergenic
ATCTGGGCTAGTTAAATTGA+TGG 0.398314 6:+33474507 None:intergenic
AGAAACCTTCTGGCGGGTTC+GGG 0.417308 6:+33483047 None:intergenic
CGACGAGTTCACGGCGGCGA+AGG 0.419440 6:+33482985 None:intergenic
TCTCAAGTATACAACTTCAT+TGG 0.420911 6:-33474838 MsaT031717.1:CDS
GACACCACAGTGTTCATAAT+AGG 0.421614 6:+33475840 None:intergenic
GGCTAGTTAAATTGATGGAC+AGG 0.422321 6:+33474512 None:intergenic
TCGTCGTGTATCGGTCTATC+TGG 0.428375 6:+33473549 None:intergenic
TTCAATGGCTCGTCGTGTAT+CGG 0.434781 6:+33473540 None:intergenic
TCCGACCAGTATGGCTCTAC+CGG 0.437514 6:-33483017 MsaT031717.1:CDS
GTAAATGCTCAGATGCTTCT+GGG 0.441602 6:+33474803 None:intergenic
CTAGACTTGGTTATCGTGTA+CGG 0.446568 6:+33482935 None:intergenic
GACGAGTTCACGGCGGCGAA+GGG 0.446989 6:+33482986 None:intergenic
AAAACCCGGTAGAGCCATAC+TGG 0.447620 6:+33483012 None:intergenic
TCACCGGCTTTGCTTGAACC+TGG 0.448756 6:-33475903 MsaT031717.1:CDS
CTGCCTGGATCCGACCAGTA+TGG 0.454089 6:-33483026 MsaT031717.1:CDS
AGGAGTTTCAAGCATTGGTA+TGG 0.456828 6:+33475860 None:intergenic
GAGCCATACTGGTCGGATCC+AGG 0.459962 6:+33483023 None:intergenic
TGGATCGAAGACTGTTATAC+AGG 0.460170 6:-33479562 MsaT031717.1:intron
ATAATAGGAGTTTCAAGCAT+TGG 0.470835 6:+33475855 None:intergenic
GGCGTCTTCCGACGAGTTCA+CGG 0.478542 6:+33482976 None:intergenic
ATACCGTCTCAACATCTATA+CGG 0.480443 6:+33474761 None:intergenic
AGCACCGAAAGTACTCCAAA+AGG 0.483595 6:-33475584 MsaT031717.1:CDS
AAGACGCCTCCAAGAAGATC+AGG 0.493667 6:-33482961 MsaT031717.1:CDS
TGATCATTAGATTCACCAAC+CGG 0.494286 6:+33475557 None:intergenic
CGGCTTCCTGATCTTCTTGG+AGG 0.501225 6:+33482955 None:intergenic
TTTCTAAAAGTTCAGAAGAG+TGG 0.517774 6:-33476135 MsaT031717.1:CDS
CCTGGTAATTGTCCGAGTAC+AGG 0.518897 6:+33475939 None:intergenic
CCTGTACTCGGACAATTACC+AGG 0.522636 6:-33475939 MsaT031717.1:CDS
GCGGCGAAGGGGCCAAAACC+CGG 0.527831 6:+33482998 None:intergenic
TAAGTAGTAGCACTCTTCAA+TGG 0.528602 6:+33473525 None:intergenic
GGGTGGAGGAAGATGTTCAT+TGG 0.531777 6:+33476110 None:intergenic
CCCGCCAGAAGGTTTCTGCC+TGG 0.536343 6:-33483041 MsaT031717.1:CDS
GCACCGAAAGTACTCCAAAA+GGG 0.548013 6:-33475583 MsaT031717.1:CDS
TTACGTGATCCTCAAAATCT+GGG 0.558719 6:+33474491 None:intergenic
TGTCTCTAGATCAACTTCAT+GGG 0.559818 6:+33473587 None:intergenic
ATTAAAGTCTTGCCTCTCAA+AGG 0.565495 6:+33475518 None:intergenic
TTTACAGAAACTCAAACAGA+TGG 0.572259 6:-33474785 MsaT031717.1:CDS
ACTCCAAAAGGGCGGCCGGT+TGG 0.572559 6:-33475572 MsaT031717.1:CDS
TATTTGACAGCTCCTGTACT+CGG 0.573431 6:-33475951 MsaT031717.1:intron
GGTGAAGATTGAAAAGATCC+TGG 0.573493 6:+33475921 None:intergenic
AAGTACTCCAAAAGGGCGGC+CGG 0.578696 6:-33475576 MsaT031717.1:CDS
AATAAAAGCCTTCCTTTGAG+AGG 0.579191 6:-33475530 MsaT031717.1:intron
AAGTCTTGCCTCTCAAAGGA+AGG 0.579991 6:+33475522 None:intergenic
CCAGGCAGAAACCTTCTGGC+GGG 0.583171 6:+33483041 None:intergenic
TATCCAGGTTCAAGCAAAGC+CGG 0.585795 6:+33475900 None:intergenic
CCGACCAGTATGGCTCTACC+GGG 0.599871 6:-33483016 MsaT031717.1:CDS
TTGCAACGTGTTGTTTGACC+AGG 0.600219 6:+33475815 None:intergenic
CTTCGCCGCCGTGAACTCGT+CGG 0.610061 6:-33482984 MsaT031717.1:CDS
CCCGGTAGAGCCATACTGGT+CGG 0.614220 6:+33483016 None:intergenic
TCCAGGCAGAAACCTTCTGG+CGG 0.614423 6:+33483040 None:intergenic
ACGAGTTCACGGCGGCGAAG+GGG 0.627667 6:+33482987 None:intergenic
GGACCGTATAGATGTTGAGA+CGG 0.661522 6:-33474764 MsaT031717.1:intron
CCGAAAGTACTCCAAAAGGG+CGG 0.715328 6:-33475580 MsaT031717.1:CDS
GTCTTCCGACGAGTTCACGG+CGG 0.755866 6:+33482979 None:intergenic
AACTCCTATTATGAACACTG+TGG 0.802902 6:-33475844 MsaT031717.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 33473524 33483083 33473524 ID=MsaG031717
Chr6 mRNA 33473524 33483083 33473524 ID=MsaT031717.1;Parent=MsaG031717
Chr6 exon 33473524 33473625 33473524 ID=MsaT031717.1.exon8;Parent=MsaT031717.1
Chr6 CDS 33473524 33473625 33473524 ID=cds.MsaT031717.1;Parent=MsaT031717.1
Chr6 exon 33474495 33474554 33474495 ID=MsaT031717.1.exon7;Parent=MsaT031717.1
Chr6 CDS 33474495 33474554 33474495 ID=cds.MsaT031717.1;Parent=MsaT031717.1
Chr6 exon 33474765 33474874 33474765 ID=MsaT031717.1.exon6;Parent=MsaT031717.1
Chr6 CDS 33474765 33474874 33474765 ID=cds.MsaT031717.1;Parent=MsaT031717.1
Chr6 exon 33475531 33475632 33475531 ID=MsaT031717.1.exon5;Parent=MsaT031717.1
Chr6 CDS 33475531 33475632 33475531 ID=cds.MsaT031717.1;Parent=MsaT031717.1
Chr6 exon 33475796 33475963 33475796 ID=MsaT031717.1.exon4;Parent=MsaT031717.1
Chr6 CDS 33475796 33475963 33475796 ID=cds.MsaT031717.1;Parent=MsaT031717.1
Chr6 exon 33476058 33476181 33476058 ID=MsaT031717.1.exon3;Parent=MsaT031717.1
Chr6 CDS 33476058 33476181 33476058 ID=cds.MsaT031717.1;Parent=MsaT031717.1
Chr6 exon 33479563 33479620 33479563 ID=MsaT031717.1.exon2;Parent=MsaT031717.1
Chr6 CDS 33479563 33479620 33479563 ID=cds.MsaT031717.1;Parent=MsaT031717.1
Chr6 exon 33482884 33483083 33482884 ID=MsaT031717.1.exon1;Parent=MsaT031717.1
Chr6 CDS 33482884 33483083 33482884 ID=cds.MsaT031717.1;Parent=MsaT031717.1
Gene Sequence

>MsaT031717.1

ATGGTATCCAAAAACCCGAACCCGCCAGAAGGTTTCTGCCTGGATCCGACCAGTATGGCTCTACCGGGTTTTGGCCCCTTCGCCGCCGTGAACTCGTCGGAAGACGCCTCCAAGAAGATCAGGAAGCCGTACACGATAACCAAGTCTAGAGAAAATTGGACTGAACCTGAACATGACAAGTTTCTTGAAGCTCTTCAATTGTTTGACCGTGATTGGAAAAAAATTGAAGCATTTGTTGGATCGAAGACTGTTATACAGATACGTAGCCATGCACAAAAATACTTTCTAAAAGTTCAGAAGAGTGGAGCCAATGAACATCTTCCTCCACCCAGACCTAAAAGAAAAGCTGCCCATCCCTATCCTCAAAAAGCTTCCAAAAGTGCTCCTGTACTCGGACAATTACCAGGATCTTTTCAATCTTCACCGGCTTTGCTTGAACCTGGATATATAATGAAAAATGAATCCATACCAATGCTTGAAACTCCTATTATGAACACTGTGGTGTCTTCCTGGTCAAACAACACGTTGCAAAACACCAATTTGTTACATGTGCCAAAGGTGAATAATTCTTGCAGTAGCACCGAAAGTACTCCAAAAGGGCGGCCGGTTGGTGAATCTAATGATCAAGTGAATAAAAGCCTTCCTTTGAGAGTTCTTCCGGATTTTTCTCAAGTATACAACTTCATTGGCAGTGTATTTGACCCAGAAGCATCTGAGCATTTACAGAAACTCAAACAGATGGACCGTATAGATGTTGAGACGGTGCTTCTGTTGATGAGAAACCTGTCCATCAATTTAACTAGCCCAGATTTTGAGGATCACAAAAAGCTGCTTTCATCCCATGAAGTTGATCTAGAGACAAACAGCTATCTCAATCCAGATAGACCGATACACGACGAGCCATTGAAGAGTGCTACTACTTAA
Protein sequence

>MsaT031717.1

MVSKNPNPPEGFCLDPTSMALPGFGPFAAVNSSEDASKKIRKPYTITKSRENWTEPEHDKFLEALQLFDRDWKKIEAFVGSKTVIQIRSHAQKYFLKVQKSGANEHLPPPRPKRKAAHPYPQKASKSAPVLGQLPGSFQSSPALLEPGYIMKNESIPMLETPIMNTVVSSWSNNTLQNTNLLHVPKVNNSCSSTESTPKGRPVGESNDQVNKSLPLRVLPDFSQVYNFIGSVFDPEASEHLQKLKQMDRIDVETVLLLMRNLSINLTSPDFEDHKKLLSSHEVDLETNSYLNPDRPIHDEPLKSATT*