AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028364

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028364 MtrunA17_Chr5g0433851 94.286 420 13 1 1 409 1 420 0.0 816
MsaG028364 MtrunA17_Chr3g0109791 62.950 278 95 3 4 280 19 289 2.36e-103 310
MsaG028364 MtrunA17_Chr6g0481061 36.062 452 197 14 24 407 38 465 6.09e-54 186
MsaG028364 MtrunA17_Chr1g0181771 55.769 104 38 1 24 127 28 123 1.51e-34 130
MsaG028364 MtrunA17_Chr8g0348391 39.535 215 95 6 28 226 49 244 4.12e-34 129
MsaG028364 MtrunA17_Chr7g0276421 67.619 105 32 1 23 125 6 110 6.11e-33 131
MsaG028364 MtrunA17_Chr6g0469431 56.863 102 36 2 28 129 35 128 9.50e-32 120
MsaG028364 MtrunA17_Chr4g0030281 61.053 95 33 1 174 264 134 228 3.86e-24 104
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028364 AT5G17300.1 47.198 339 125 12 21 346 33 330 3.64e-55 187
MsaG028364 AT5G37260.1 58.537 164 59 3 23 186 16 170 1.25e-44 156
MsaG028364 AT3G10113.1 43.860 228 106 7 28 245 50 265 9.30e-38 139
MsaG028364 AT1G18330.1 41.224 245 113 7 28 245 35 275 1.62e-37 139
MsaG028364 AT1G18330.2 41.224 245 113 7 28 245 61 301 3.07e-37 139
MsaG028364 AT2G46830.1 61.798 89 34 0 20 108 1 89 1.71e-32 129
MsaG028364 AT3G09600.2 56.566 99 35 1 32 130 32 122 3.54e-32 123
MsaG028364 AT3G09600.6 56.566 99 35 1 32 130 32 122 3.54e-32 123
MsaG028364 AT3G09600.1 56.566 99 35 1 32 130 32 122 3.55e-32 124
MsaG028364 AT3G09600.7 56.566 99 35 1 32 130 32 122 3.55e-32 124
MsaG028364 AT3G09600.4 56.566 99 35 1 32 130 32 122 3.77e-32 123
MsaG028364 AT1G01060.4 64.486 107 36 1 20 124 1 107 1.10e-31 127
MsaG028364 AT1G01060.8 64.486 107 36 1 20 124 1 107 1.11e-31 127
MsaG028364 AT1G01060.2 64.486 107 36 1 20 124 1 107 1.11e-31 127
MsaG028364 AT1G01060.3 64.486 107 36 1 20 124 1 107 1.11e-31 127
MsaG028364 AT1G01060.1 64.486 107 36 1 20 124 1 107 1.11e-31 127
MsaG028364 AT1G01060.7 64.486 107 36 1 20 124 1 107 1.11e-31 127
MsaG028364 AT1G01520.2 38.350 206 92 6 28 226 46 223 1.01e-30 119
MsaG028364 AT1G01520.4 38.350 206 92 6 28 226 46 223 1.01e-30 119
MsaG028364 AT5G52660.1 56.122 98 35 1 28 125 57 146 1.04e-30 120
MsaG028364 AT5G52660.2 56.122 98 35 1 28 125 57 146 1.09e-30 120
MsaG028364 AT1G01520.3 38.350 206 92 6 28 226 46 223 1.64e-30 119
MsaG028364 AT1G01520.1 38.350 206 92 6 28 226 46 223 1.78e-30 119
MsaG028364 AT4G01280.1 57.843 102 35 2 24 125 40 133 2.16e-30 119
MsaG028364 AT4G01280.2 57.843 102 35 2 24 125 40 133 2.25e-30 119
MsaG028364 AT5G02840.4 49.565 115 49 2 32 145 37 143 3.59e-30 117
MsaG028364 AT5G02840.3 56.989 93 32 1 32 124 37 121 4.26e-30 117
MsaG028364 AT5G02840.1 56.383 94 33 1 32 125 37 122 4.43e-30 118
MsaG028364 AT5G02840.2 56.383 94 33 1 32 125 37 122 4.43e-30 118
MsaG028364 AT5G02840.5 49.565 115 49 2 32 145 37 143 5.57e-30 117
MsaG028364 AT5G17300.2 41.781 292 116 13 68 346 5 255 4.33e-23 99.4
MsaG028364 AT3G09600.3 50.000 64 24 1 61 124 5 60 3.19e-15 75.5
MsaG028364 AT3G09600.8 50.000 64 24 1 61 124 5 60 3.19e-15 75.5
MsaG028364 AT3G09600.5 50.000 64 24 1 61 124 5 60 3.97e-15 74.7
MsaG028364 AT3G09600.9 50.000 64 24 1 61 124 5 60 3.97e-15 74.7

Find 79 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTGATTCTATGGAGATTT+TGG 0.128871 5:+61322361 None:intergenic
TCATGATGTACAACCTTTAA+TGG 0.196529 5:+61324214 MsaT028364.1:CDS
GATTTAAGAAATACCATTAA+AGG 0.226502 5:-61324227 None:intergenic
TCGCTCGTGTCATTAGATTT+TGG 0.279286 5:+61323981 MsaT028364.1:CDS
GTAATTCACATTATCACTTT+TGG 0.280046 5:-61324878 None:intergenic
TTCCTCAGATGATGATGATT+TGG 0.286247 5:-61324150 None:intergenic
TGGTTGCGACACATTCTTTA+GGG 0.316667 5:-61324525 None:intergenic
CTCCTTGTGCAGTGGCTTGA+AGG 0.345306 5:-61324716 None:intergenic
GGATGAATCGGCTTCCGTTT+TGG 0.347869 5:-61323888 None:intergenic
TTGGTTGCGACACATTCTTT+AGG 0.358230 5:-61324526 None:intergenic
ACTGTGAGACTTAAAACATT+TGG 0.361069 5:+61324928 MsaT028364.1:CDS
CTTGAAGCTTTAAAGTTATA+CGG 0.366914 5:+61323422 MsaT028364.1:CDS
CGTATAACTTTAAAGCTTCA+AGG 0.388114 5:-61323421 None:intergenic
CCTATTGGGAGGGAACTATA+AGG 0.389437 5:-61325049 None:intergenic
GTCTTGCAACTGTTGTTCCT+TGG 0.392635 5:+61324671 MsaT028364.1:CDS
AGACTTAAAACATTTGGAAA+AGG 0.401391 5:+61324934 MsaT028364.1:CDS
TGATGTTGTAGAAGACTTGC+AGG 0.410502 5:-61324620 None:intergenic
TGAGACCGGGGACAAACTTC+CGG 0.418000 5:-61324084 None:intergenic
GTGGACTATTTCAGACAATT+CGG 0.423011 5:+61324693 MsaT028364.1:CDS
TAAAGTTATACGGTCGAGCC+TGG 0.431959 5:+61323432 MsaT028364.1:CDS
GATAATGTGAATTACTTTGT+TGG 0.443037 5:+61324886 MsaT028364.1:CDS
TTGCAACTGTTGTTCCTTGG+TGG 0.457649 5:+61324674 MsaT028364.1:CDS
CCCTCGGGCTCCTTGTGCAG+TGG 0.465390 5:-61324724 None:intergenic
GTTGCAAGACTAGCAGGAAT+AGG 0.468495 5:-61324658 None:intergenic
TTGTACATCATGAGTTGAAC+CGG 0.471354 5:-61324204 None:intergenic
ACTGCAGATAATACCGACTT+TGG 0.472597 5:-61324020 None:intergenic
GACTTAAAACATTTGGAAAA+GGG 0.481341 5:+61324935 MsaT028364.1:CDS
TCAACTACTTTACGTGGGTA+AGG 0.488398 5:-61323909 None:intergenic
CTCGAGAAGTGGAAATCTAC+TGG 0.488842 5:-61324126 None:intergenic
GAATGAAGGGAGAACCTTCA+AGG 0.489688 5:-61323232 None:intergenic
AAGGAAGGATCTTCTTGTGT+TGG 0.490240 5:+61324796 MsaT028364.1:CDS
GCAGTTGCTTCAGAAACCCT+TGG 0.491941 5:+61324038 MsaT028364.1:CDS
CAGATCAATCGAGACTCTGA+TGG 0.493763 5:+61323819 MsaT028364.1:intron
TTACGTGGGTAAGGATGAAT+CGG 0.497072 5:-61323900 None:intergenic
TGGAAATGACCATGCCTTGA+AGG 0.504748 5:+61323218 MsaT028364.1:CDS
CGGGGACAAACTTCCGGCAG+GGG 0.506435 5:-61324078 None:intergenic
TTCTTCTGCTGCTACTTCGT+TGG 0.506774 5:-61324545 None:intergenic
ACAACAGTTGCAAGACTAGC+AGG 0.513968 5:-61324664 None:intergenic
CGAAGATAAAGAAATTCAAA+AGG 0.522634 5:+61324777 MsaT028364.1:CDS
GAAGTGGAAATCTACTGGTA+TGG 0.527070 5:-61324121 None:intergenic
AAGGGTTTGTACCATACAAA+AGG 0.528705 5:+61324953 MsaT028364.1:CDS
CAGCACTGATGGATGAGACC+GGG 0.531459 5:-61324097 None:intergenic
GATAAAGAAATTCAAAAGGA+AGG 0.531765 5:+61324781 MsaT028364.1:CDS
GCGATTTCAACTACTTTACG+TGG 0.532217 5:-61323915 None:intergenic
ACCGGGGACAAACTTCCGGC+AGG 0.532872 5:-61324080 None:intergenic
ACTGGTATGGACAGCACTGA+TGG 0.540181 5:-61324108 None:intergenic
GCCACTGCACAAGGAGCCCG+AGG 0.547161 5:+61324723 MsaT028364.1:CDS
CCCTGCCGGAAGTTTGTCCC+CGG 0.547980 5:+61324079 MsaT028364.1:CDS
CCTCAGTGGCTGTTCCAAGT+TGG 0.552497 5:-61323952 None:intergenic
AAGACTAGCAGGAATAGGTT+CGG 0.557239 5:-61324653 None:intergenic
TCTGATTCAGATACCCCTGC+CGG 0.559724 5:+61324065 MsaT028364.1:CDS
TCACAAAACAGAGAGAAAAG+TGG 0.563691 5:+61323375 MsaT028364.1:CDS
GGCCTTCAAGCCACTGCACA+AGG 0.565013 5:+61324714 MsaT028364.1:CDS
CGACAGTAACAGACGAGAGG+AGG 0.565037 5:+61325004 MsaT028364.1:CDS
CAAATAGATGAACTGAATGC+CGG 0.567205 5:+61324185 MsaT028364.1:CDS
CCGGGGACAAACTTCCGGCA+GGG 0.568889 5:-61324079 None:intergenic
ACAGCACTGATGGATGAGAC+CGG 0.582260 5:-61324098 None:intergenic
TTCCACCTCCAAGACCAAAA+CGG 0.592397 5:+61323874 MsaT028364.1:CDS
AAAGAATGAAATCTCCAACT+TGG 0.596383 5:+61323938 MsaT028364.1:CDS
GACAGTAACAGACGAGAGGA+GGG 0.604818 5:+61325005 MsaT028364.1:CDS
CGATTTCAACTACTTTACGT+GGG 0.606836 5:-61323914 None:intergenic
AAGGGAGAACCTTCAAGGCA+TGG 0.608656 5:-61323227 None:intergenic
CAGTTTCACTTAGTGTAGTG+TGG 0.611986 5:-61324909 None:intergenic
AGATCAATCGAGACTCTGAT+GGG 0.620608 5:+61323820 MsaT028364.1:intron
GTCCAAATCATCATCATCTG+AGG 0.625336 5:+61324148 MsaT028364.1:CDS
AGAAAACAACTCTCCAAAGT+CGG 0.630200 5:+61324007 MsaT028364.1:CDS
GATGATTTGGACTCGAGAAG+TGG 0.632490 5:-61324137 None:intergenic
GGAGGGAACATCAACGCATG+AGG 0.635432 5:+61325022 MsaT028364.1:CDS
TATCTGAATCAGAGAAACCA+AGG 0.643676 5:-61324055 None:intergenic
TGATGGGAACGACACAACAA+TGG 0.647153 5:+61323836 MsaT028364.1:CDS
TGGGAACGACACAACAATGG+TGG 0.665179 5:+61323839 MsaT028364.1:CDS
CCACTGCACAAGGAGCCCGA+GGG 0.677376 5:+61324724 MsaT028364.1:CDS
AGCACTGATGGATGAGACCG+GGG 0.683824 5:-61324096 None:intergenic
ATCTGAATCAGAGAAACCAA+GGG 0.684620 5:-61324054 None:intergenic
CCAACTTGGAACAGCCACTG+AGG 0.697656 5:+61323952 MsaT028364.1:CDS
GTTCGACAGTAACAGACGAG+AGG 0.713362 5:+61325001 MsaT028364.1:CDS
TTGTCTGAAATAGTCCACCA+AGG 0.714861 5:-61324688 None:intergenic
AAAAGTTTGAGAGTTCGACA+AGG 0.741043 5:-61324571 None:intergenic
ACGAGCGAATTAGACCTCAG+TGG 0.785740 5:-61323966 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 61322371 61325056 61322371 ID=MsaG028364
Chr5 mRNA 61322371 61325056 61322371 ID=MsaT028364.1;Parent=MsaG028364
Chr5 exon 61322371 61322382 61322371 ID=MsaT028364.1.exon1;Parent=MsaT028364.1
Chr5 CDS 61322371 61322382 61322371 ID=cds.MsaT028364.1;Parent=MsaT028364.1
Chr5 exon 61323156 61323239 61323156 ID=MsaT028364.1.exon2;Parent=MsaT028364.1
Chr5 CDS 61323156 61323239 61323156 ID=cds.MsaT028364.1;Parent=MsaT028364.1
Chr5 exon 61323356 61323467 61323356 ID=MsaT028364.1.exon3;Parent=MsaT028364.1
Chr5 CDS 61323356 61323467 61323356 ID=cds.MsaT028364.1;Parent=MsaT028364.1
Chr5 exon 61323598 61323659 61323598 ID=MsaT028364.1.exon4;Parent=MsaT028364.1
Chr5 CDS 61323598 61323659 61323598 ID=cds.MsaT028364.1;Parent=MsaT028364.1
Chr5 exon 61323822 61324235 61323822 ID=MsaT028364.1.exon5;Parent=MsaT028364.1
Chr5 CDS 61323822 61324235 61323822 ID=cds.MsaT028364.1;Parent=MsaT028364.1
Chr5 exon 61324511 61325056 61324511 ID=MsaT028364.1.exon6;Parent=MsaT028364.1
Chr5 CDS 61324511 61325056 61324511 ID=cds.MsaT028364.1;Parent=MsaT028364.1
Gene Sequence

>MsaT028364.1

ATGGAGATTTTGGGTCAAAAAGAAGGAATGCATTCTGTTGTACATGTACAAAAACTACTTGATCAATTTTCATGTGGAAATGACCATGCCTTGAAGGCAAGGAAACCATATACTATCACAAAACAGAGAGAAAAGTGGACAGATGAAGAACATAAGAAGTTCCTTGAAGCTTTAAAGTTATACGGTCGAGCCTGGCGAAAAATCGAAGAACATGTTGGCACAAAGACTGCTGTGCAGATTCGAAGTCATGCTCAGAAGTTTTTTTCTAAGATCAATCGAGACTCTGATGGGAACGACACAACAATGGTGGAGACAATTGAAATTCCACCTCCAAGACCAAAACGGAAGCCGATTCATCCTTACCCACGTAAAGTAGTTGAAATCGCAAAGAATGAAATCTCCAACTTGGAACAGCCACTGAGGTCTAATTCGCTCGTGTCATTAGATTTTGGTCAAGAAAACAACTCTCCAAAGTCGGTATTATCTGCAGTTGCTTCAGAAACCCTTGGTTTCTCTGATTCAGATACCCCTGCCGGAAGTTTGTCCCCGGTCTCATCCATCAGTGCTGTCCATACCAGTAGATTTCCACTTCTCGAGTCCAAATCATCATCATCTGAGGAAGATCTGTCTCAACAAATAGATGAACTGAATGCCGGTTCAACTCATGATGTACAACCTTTAATGAAACTGGAGCTTTTCCCTAAAGAATGTGTCGCAACCAACGAAGTAGCAGCAGAAGAATCACCTTGTCGAACTCTCAAACTTTTTGGAACAACTTTGTTAGTAAAAGATACCTGCAAGTCTTCTACAACATCAACAGACGCATCCGAACCTATTCCTGCTAGTCTTGCAACTGTTGTTCCTTGGTGGACTATTTCAGACAATTCGGCCTTCAAGCCACTGCACAAGGAGCCCGAGGGAAAACATCTACATTCAAATCATGAAGAATGCGAAGATAAAGAAATTCAAAAGGAAGGATCTTCTTGTGTTGGTTCTAATAGTACTAGTTCAATGAATGATGAAGAAAGCAATGAAAGATTAGATGATCAAGCCAAAAGTGATAATGTGAATTACTTTGTTGGCCACACTACACTAAGTGAAACTGTGAGACTTAAAACATTTGGAAAAGGGTTTGTACCATACAAAAGGTGCATGTCAGAAAGAGAAAGACAATGTTCGACAGTAACAGACGAGAGGAGGGAACATCAACGCATGAGGCTTTCCTTATAG
Protein sequence

>MsaT028364.1

MEILGQKEGMHSVVHVQKLLDQFSCGNDHALKARKPYTITKQREKWTDEEHKKFLEALKLYGRAWRKIEEHVGTKTAVQIRSHAQKFFSKINRDSDGNDTTMVETIEIPPPRPKRKPIHPYPRKVVEIAKNEISNLEQPLRSNSLVSLDFGQENNSPKSVLSAVASETLGFSDSDTPAGSLSPVSSISAVHTSRFPLLESKSSSSEEDLSQQIDELNAGSTHDVQPLMKLELFPKECVATNEVAAEESPCRTLKLFGTTLLVKDTCKSSTTSTDASEPIPASLATVVPWWTISDNSAFKPLHKEPEGKHLHSNHEECEDKEIQKEGSSCVGSNSTSSMNDEESNERLDDQAKSDNVNYFVGHTTLSETVRLKTFGKGFVPYKRCMSERERQCSTVTDERREHQRMRLSL*