AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000324

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000324 MtrunA17_Chr1g0153171 98.305 236 4 0 1 236 1 236 1.06e-175 482
MsaG000324 MtrunA17_Chr8g0392991 45.255 137 69 1 22 152 22 158 2.24e-29 112
MsaG000324 MtrunA17_Chr7g0238431 71.642 67 19 0 86 152 4 70 5.78e-29 108
MsaG000324 MtrunA17_Chr4g0031341 36.932 176 81 4 90 235 25 200 1.81e-26 103
MsaG000324 MtrunA17_Chr5g0436661 65.152 66 23 0 90 155 33 98 8.85e-26 99.4
MsaG000324 MtrunA17_Chr4g0043891 68.750 64 20 0 89 152 7 70 1.13e-25 100
MsaG000324 MtrunA17_Chr5g0405351 64.062 64 22 1 89 151 29 92 1.20e-22 94.0
MsaG000324 MtrunA17_Chr3g0125111 40.146 137 60 2 22 152 22 142 6.47e-22 88.6
MsaG000324 MtrunA17_Chr8g0385441 76.923 52 12 0 101 152 93 144 2.76e-21 87.0
MsaG000324 MtrunA17_Chr2g0283141 35.577 104 55 1 49 152 26 117 3.87e-14 71.2
MsaG000324 MtrunA17_Chr7g0223471 46.774 62 33 0 90 151 47 108 1.68e-13 68.9
MsaG000324 MtrunA17_Chr3g0144021 39.474 76 46 0 90 165 82 157 3.20e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000324 AT1G46480.1 52.896 259 91 9 1 236 1 251 1.63e-72 221
MsaG000324 AT1G46480.2 59.067 193 60 7 1 182 1 185 3.05e-63 196
MsaG000324 AT3G18010.1 42.857 147 74 2 6 152 2 138 6.13e-30 114
MsaG000324 AT3G11260.1 56.818 88 33 1 87 169 16 103 1.24e-27 104
MsaG000324 AT5G59340.1 61.333 75 29 0 78 152 2 76 5.75e-27 104
MsaG000324 AT2G28610.1 68.182 66 21 0 87 152 5 70 9.84e-27 103
MsaG000324 AT5G05770.1 63.077 65 24 0 90 154 29 93 1.72e-24 94.4
MsaG000324 AT2G17950.1 51.765 85 40 1 89 172 37 121 1.05e-23 96.7
MsaG000324 AT2G01500.1 66.667 63 19 1 84 144 53 115 2.07e-21 90.1
MsaG000324 AT2G33880.2 38.614 101 52 1 49 149 24 114 4.42e-14 71.2
MsaG000324 AT2G33880.1 38.614 101 52 1 49 149 24 114 4.70e-14 70.9
MsaG000324 AT1G20700.2 47.541 61 32 0 90 150 33 93 2.70e-13 65.9
MsaG000324 AT5G45980.1 46.774 62 33 0 90 151 55 116 4.97e-13 67.8
MsaG000324 AT1G20710.1 38.462 91 44 1 97 187 86 164 6.50e-13 65.9
MsaG000324 AT1G20700.3 47.541 61 32 0 90 150 95 155 9.15e-13 65.5
MsaG000324 AT1G20700.1 47.541 61 32 0 90 150 95 155 1.09e-12 65.5
MsaG000324 AT4G35550.1 47.541 61 32 0 90 150 99 159 1.15e-11 63.2

Find 60 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCAATTCACACGTGGATTT+TGG 0.121803 1:-4331057 MsaT000324.1:CDS
TCTCGCGTGCTTTGTGGTTT+TGG 0.203041 1:+4330232 None:intergenic
AAACTCCTTCATCTGCCTTC+TGG 0.237007 1:+4329699 None:intergenic
AACTCCTTCATCTGCCTTCT+GGG 0.285945 1:+4329700 None:intergenic
CAACTTTGGACACCCCAAAA+AGG 0.296385 1:-4330113 MsaT000324.1:CDS
ACTAATTCTAGGAGCACTTT+CGG 0.300053 1:+4330901 None:intergenic
CTAATTCTAGGAGCACTTTC+GGG 0.314910 1:+4330902 None:intergenic
TGTTCTATTTGTTGTGCATT+TGG 0.328080 1:+4330315 None:intergenic
ACAAGAACAAATAGGAATAT+TGG 0.328145 1:-4330367 MsaT000324.1:CDS
GAGGAAGAAAGACTAATTCT+AGG 0.342909 1:+4330890 None:intergenic
GGATTCCACCTTGTCCCTCC+TGG 0.366142 1:+4330393 None:intergenic
ATCTGCCTTCTGGGTGTAAT+GGG 0.376276 1:+4329709 None:intergenic
CTTTAGTACTATTACAACTT+TGG 0.384910 1:-4330127 MsaT000324.1:CDS
CATCTGCCTTCTGGGTGTAA+TGG 0.398760 1:+4329708 None:intergenic
ATTCCTATTTGTTCTTGTGT+TGG 0.415008 1:+4330372 None:intergenic
AATCCAACACAAGAACAAAT+AGG 0.426122 1:-4330375 MsaT000324.1:CDS
TTCTCTTCCAAGTACTCAAA+TGG 0.427494 1:+4329780 None:intergenic
TTTGTCTCTCGCGTGCTTTG+TGG 0.448508 1:+4330226 None:intergenic
TAGGTTGAAACGCATATTCC+AGG 0.450427 1:-4330411 MsaT000324.1:CDS
TCCACCTTCACCGCAAAGCC+AGG 0.461999 1:-4330849 MsaT000324.1:intron
GAGTTGGCCATTTGAGTACT+TGG 0.464745 1:-4329787 MsaT000324.1:CDS
GGTGTTAGAAGTAACATTAT+CGG 0.465029 1:+4330961 None:intergenic
CACAGACACAAGTGTGGTGG+TGG 0.469900 1:+4330158 None:intergenic
CAAAGTTGTAATAGTACTAA+AGG 0.472738 1:+4330128 None:intergenic
AGCAAGTACGGTAAAATTGA+AGG 0.477134 1:-4330276 MsaT000324.1:CDS
CAACTCCTACTCTTCTTCAA+TGG 0.501838 1:+4329804 None:intergenic
AGTGTGGTGGTGGGAGTTCG+AGG 0.518160 1:+4330168 None:intergenic
CATGAACCTTCCCTCACACT+TGG 0.520457 1:-4331031 MsaT000324.1:CDS
TGAACCTGGCTTTGCGGTGA+AGG 0.521265 1:+4330845 None:intergenic
GTTGTAATAGTACTAAAGGT+GGG 0.528602 1:+4330132 None:intergenic
TGAGATCAAAAGAAAGAGAA+GGG 0.531578 1:+4330939 None:intergenic
AGTATATGAACCTGGCTTTG+CGG 0.544738 1:+4330839 None:intergenic
ATAGTCCATTGAAGAAGAGT+AGG 0.545832 1:-4329809 MsaT000324.1:CDS
AAGCAGAAACGTAACAGTCT+TGG 0.547628 1:-4330204 MsaT000324.1:CDS
ACAGTTCAACTTAGCAAGTA+CGG 0.553808 1:-4330288 MsaT000324.1:CDS
ATCTTTCTTGTTATCATCAG+AGG 0.556963 1:+4330871 None:intergenic
CGCATATTCCAGGAGGGACA+AGG 0.565252 1:-4330401 MsaT000324.1:CDS
TACACCCAGAAGGCAGATGA+AGG 0.566613 1:-4329704 None:intergenic
GTGGGAGTTCGAGGACTATG+AGG 0.567688 1:+4330177 None:intergenic
TTGGTCAATGTGCAAAGTAG+AGG 0.568050 1:-4329754 MsaT000324.1:CDS
TTGAGATCAAAAGAAAGAGA+AGG 0.574637 1:+4330938 None:intergenic
AGTTGTAATAGTACTAAAGG+TGG 0.581733 1:+4330131 None:intergenic
AACGCTTGCAACCAAGTGTG+AGG 0.582297 1:+4331020 None:intergenic
GCAAGTACGGTAAAATTGAA+GGG 0.588273 1:-4330275 MsaT000324.1:CDS
CATTGAAGAAGAGTAGGAGT+TGG 0.590517 1:-4329803 MsaT000324.1:CDS
ACCTGGCTTTGCGGTGAAGG+TGG 0.590968 1:+4330848 None:intergenic
TGTAATAGTACTAAAGGTGG+GGG 0.603492 1:+4330134 None:intergenic
TTGTAATAGTACTAAAGGTG+GGG 0.606911 1:+4330133 None:intergenic
TTGGAGATGTTATACAGAGG+TGG 0.611718 1:-4330348 MsaT000324.1:CDS
GAGTTCGAGGACTATGAGGA+AGG 0.633348 1:+4330181 None:intergenic
ACGCTTGCAACCAAGTGTGA+GGG 0.656705 1:+4331021 None:intergenic
TTGAAACGCATATTCCAGGA+GGG 0.657126 1:-4330407 MsaT000324.1:CDS
ACAGACACAAGTGTGGTGGT+GGG 0.659851 1:+4330159 None:intergenic
GGACACAGACACAAGTGTGG+TGG 0.666759 1:+4330155 None:intergenic
GAGATCAAAAGAAAGAGAAG+GGG 0.671823 1:+4330940 None:intergenic
TTGCAACCAAGTGTGAGGGA+AGG 0.674259 1:+4331025 None:intergenic
GTTGAAACGCATATTCCAGG+AGG 0.708848 1:-4330408 MsaT000324.1:CDS
ATATTGGAGATGTTATACAG+AGG 0.712720 1:-4330351 MsaT000324.1:CDS
AAAGTGCATCAATTCACACG+TGG 0.742454 1:-4331064 MsaT000324.1:CDS
ATATTCCAGGAGGGACAAGG+TGG 0.756182 1:-4330398 MsaT000324.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 4329707 4331089 4329707 ID=MsaG000324
Chr1 mRNA 4329707 4331089 4329707 ID=MsaT000324.1;Parent=MsaG000324
Chr1 exon 4329707 4329859 4329707 ID=MsaT000324.1.exon3;Parent=MsaT000324.1
Chr1 CDS 4329707 4329859 4329707 ID=cds.MsaT000324.1;Parent=MsaT000324.1
Chr1 exon 4330113 4330430 4330113 ID=MsaT000324.1.exon2;Parent=MsaT000324.1
Chr1 CDS 4330113 4330430 4330113 ID=cds.MsaT000324.1;Parent=MsaT000324.1
Chr1 exon 4330850 4331089 4330850 ID=MsaT000324.1.exon1;Parent=MsaT000324.1
Chr1 CDS 4330850 4331089 4330850 ID=cds.MsaT000324.1;Parent=MsaT000324.1
Gene Sequence

>MsaT000324.1

ATGAAAGTGCATCAATTCACACGTGGATTTTGGGAGCATGAACCTTCCCTCACACTTGGTTGCAAGCGTTTACGTCCTCTTGCACCTAAAATTTCTTCTAATAACACCGATAATGTTACTTCTAACACCCCTTCTCTTTCTTTTGATCTCAAGAGCTTCATTAGACCCGAAAGTGCTCCTAGAATTAGTCTTTCTTCCTCTGATGATAACAAGAAAGATCCACCTTCACCGCAAAGCCAGGTTGAAACGCATATTCCAGGAGGGACAAGGTGGAATCCAACACAAGAACAAATAGGAATATTGGAGATGTTATACAGAGGTGGAATGAGAACTCCAAATGCACAACAAATAGAACAAATCACAGTTCAACTTAGCAAGTACGGTAAAATTGAAGGGAAAAATGTGTTCTATTGGTTCCAAAACCACAAAGCACGCGAGAGACAAAAGCAGAAACGTAACAGTCTTGGCCTTCCTCATAGTCCTCGAACTCCCACCACCACACTTGTGTCTGTGTCCCCCACCTTTAGTACTATTACAACTTTGGACACCCCAAAAAGGGTGCAAGTAATGGAAAGAGATCAAGAAGATAGTCCATTGAAGAAGAGTAGGAGTTGGCCATTTGAGTACTTGGAAGAGAAAAATTGGTCAATGTGCAAAGTAGAGGAACATAAAACTCTAGAGCTTTTCCCATTACACCCAGAAGGCAGATGA
Protein sequence

>MsaT000324.1

MKVHQFTRGFWEHEPSLTLGCKRLRPLAPKISSNNTDNVTSNTPSLSFDLKSFIRPESAPRISLSSSDDNKKDPPSPQSQVETHIPGGTRWNPTQEQIGILEMLYRGGMRTPNAQQIEQITVQLSKYGKIEGKNVFYWFQNHKARERQKQKRNSLGLPHSPRTPTTTLVSVSPTFSTITTLDTPKRVQVMERDQEDSPLKKSRSWPFEYLEEKNWSMCKVEEHKTLELFPLHPEGR*