AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028729

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028729 MtrunA17_Chr1g0203051 56.356 236 97 2 1 236 1 230 4.64e-87 271
MsaG028729 MtrunA17_Chr8g0389811 41.848 184 89 2 30 196 13 195 7.37e-46 152
MsaG028729 MtrunA17_Chr2g0331371 45.736 129 70 0 65 193 35 163 1.40e-32 118
MsaG028729 MtrunA17_Chr6g0473421 47.917 96 50 0 65 160 35 130 4.27e-28 105
MsaG028729 MtrunA17_Chr1g0171741 32.105 190 121 3 33 215 74 262 9.96e-26 102
MsaG028729 MtrunA17_Chr1g0172931 44.554 101 56 0 67 167 58 158 3.94e-22 89.7
MsaG028729 MtrunA17_Chr2g0287651 28.750 160 114 0 76 235 66 225 6.95e-21 92.0
MsaG028729 MtrunA17_Chr2g0290391 27.811 169 119 2 97 263 63 230 4.29e-16 77.8
MsaG028729 MtrunA17_Chr1g0198761 28.889 180 111 6 61 224 16 194 1.64e-13 70.1
MsaG028729 MtrunA17_Chr2g0276841 33.083 133 84 4 91 219 76 207 2.60e-13 69.7
MsaG028729 MtrunA17_Chr8g0366311 44.828 58 32 0 59 116 53 110 7.09e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028729 AT5G28530.3 30.935 139 93 2 97 233 67 204 6.79e-18 83.6
MsaG028729 AT5G28530.2 30.935 139 93 2 97 233 67 204 6.79e-18 83.6
MsaG028729 AT5G28530.4 30.935 139 93 2 97 233 67 204 6.92e-18 83.6
MsaG028729 AT5G28530.5 30.935 139 93 2 97 233 67 204 6.97e-18 83.6
MsaG028729 AT5G28530.1 30.935 139 93 2 97 233 67 204 6.99e-18 83.6
MsaG028729 AT1G10240.2 30.827 133 87 4 96 224 59 190 9.82e-11 62.4
MsaG028729 AT1G10240.1 30.827 133 87 4 96 224 59 190 9.82e-11 62.4

Find 42 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAACTACACGATCCGGAAAA+TGG 0.277299 5:-67779105 None:intergenic
CTTTCCTCATTGCTTTCATT+TGG 0.313855 5:-67779465 None:intergenic
TTTGTCATAGAGAAGGTTTC+CGG 0.338339 5:+67779230 MsaT028729.1:CDS
CCTTGAGAAAATTAATTTCA+AGG 0.345881 5:+67779054 MsaT028729.1:CDS
GCGTTCCTCGGATGATGATA+TGG 0.366309 5:+67778964 MsaT028729.1:CDS
ATTCCTACGTCACGTATCTA+TGG 0.370361 5:+67779493 MsaT028729.1:CDS
GGTTGTGTGCACAGATTTGC+CGG 0.403162 5:+67779151 MsaT028729.1:CDS
CTTGGACAGTGGCTCTTCTT+CGG 0.429033 5:+67778931 MsaT028729.1:CDS
ATACACCCACATCTACTAAC+TGG 0.429759 5:-67779298 None:intergenic
TTGTCATAGAGAAGGTTTCC+GGG 0.431471 5:+67779231 MsaT028729.1:CDS
AGTTAGTAGATGTGGGTGTA+TGG 0.443366 5:+67779300 MsaT028729.1:CDS
TCAAATGTGAGCAACATAAC+GGG 0.446705 5:+67778748 MsaT028729.1:CDS
CTTGAATTGCTCATTGTACA+TGG 0.461269 5:-67779565 None:intergenic
CAGAAGCCAGTTAGTAGATG+TGG 0.482057 5:+67779292 MsaT028729.1:CDS
TTCAAATGTGAGCAACATAA+CGG 0.501010 5:+67778747 MsaT028729.1:CDS
TTGAATGCAACTACACGATC+CGG 0.501028 5:-67779112 None:intergenic
GGAAAGTGTCGTGCGTTCCT+CGG 0.501486 5:+67778952 MsaT028729.1:CDS
TATTGCCATTCCTTGCATCC+CGG 0.529673 5:-67779249 None:intergenic
ACAATGAGCAATTCAAGGAT+AGG 0.534325 5:+67779571 MsaT028729.1:CDS
CAATGAGCAATTCAAGGATA+GGG 0.537667 5:+67779572 MsaT028729.1:CDS
AACAACACGGGATCTTCTAC+CGG 0.539063 5:-67779170 None:intergenic
CATGTACAATGAGCAATTCA+AGG 0.539489 5:+67779566 MsaT028729.1:CDS
GACGAAGAGTTCTGATGCAG+AGG 0.547324 5:+67779596 MsaT028729.1:CDS
GAAGGCAACGTAGGTGTGGA+AGG 0.552457 5:+67778772 MsaT028729.1:CDS
GGAAGCAGTTGAATTTCTGA+AGG 0.561109 5:+67779617 MsaT028729.1:CDS
CGTAGGTGTGGAAGGTTCAG+AGG 0.567602 5:+67778780 MsaT028729.1:CDS
TTCAGACATCATATTCAAGA+AGG 0.572183 5:+67779541 MsaT028729.1:CDS
ATTCAAGTTCACGTTGACTA+CGG 0.576810 5:+67779328 MsaT028729.1:CDS
AGAAGCCAGTTAGTAGATGT+GGG 0.577650 5:+67779293 MsaT028729.1:CDS
GAGAAGGTTTCCGGGATGCA+AGG 0.585476 5:+67779239 MsaT028729.1:CDS
GGTTTCCGGGATGCAAGGAA+TGG 0.593279 5:+67779244 MsaT028729.1:CDS
ATTCTACAGGACTTGGACAG+TGG 0.602899 5:+67778920 MsaT028729.1:intron
CATGCTTGTTCTTAACAACA+CGG 0.605806 5:-67779183 None:intergenic
CGTGTTGTTAAGAACAAGCA+TGG 0.609169 5:+67779184 MsaT028729.1:CDS
CAAATGTGAGCAACATAACG+GGG 0.613878 5:+67778749 MsaT028729.1:CDS
ATGCTTGTTCTTAACAACAC+GGG 0.628391 5:-67779182 None:intergenic
GTCTTCCATATCATCATCCG+AGG 0.646493 5:-67778969 None:intergenic
AATACCAAATGAAAGCAATG+AGG 0.671984 5:+67779461 MsaT028729.1:CDS
ACGTTGACTACGGTAGTGAA+CGG 0.682166 5:+67779338 MsaT028729.1:CDS
GAACCATAGATACGTGACGT+AGG 0.700125 5:-67779496 None:intergenic
AAATGTGAGCAACATAACGG+GGG 0.740353 5:+67778750 MsaT028729.1:CDS
TTGACTACGGTAGTGAACGG+TGG 0.752541 5:+67779341 MsaT028729.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 67778712 67779636 67778712 ID=MsaG028729
Chr5 mRNA 67778712 67779636 67778712 ID=MsaT028729.1;Parent=MsaG028729
Chr5 exon 67778712 67778801 67778712 ID=MsaT028729.1.exon1;Parent=MsaT028729.1
Chr5 CDS 67778712 67778801 67778712 ID=cds.MsaT028729.1;Parent=MsaT028729.1
Chr5 exon 67778929 67779636 67778929 ID=MsaT028729.1.exon2;Parent=MsaT028729.1
Chr5 CDS 67778929 67779636 67778929 ID=cds.MsaT028729.1;Parent=MsaT028729.1
Gene Sequence

>MsaT028729.1

ATGGATATGAGTGAAATTCTTGAAATTTTTCAAGTTTCAAATGTGAGCAACATAACGGGGGAAGGCAACGTAGGTGTGGAAGGTTCAGAGGACTTGGACAGTGGCTCTTCTTCGGAAAGTGTCGTGCGTTCCTCGGATGATGATATGGAAGACACGTACAATTCGACGTATGTGTGCAGTTTTGATGATGAATTTGCGGTTGATTGCATGACTGACCTTGAGAAAATTAATTTCAAGGAATTAAGTTATGATGACTTTGTGATGTACCATTTTCCGGATCGTGTAGTTGCATTCAAGTTTTACAATATGTACGGTTGTGTGCACAGATTTGCCGGTAGAAGATCCCGTGTTGTTAAGAACAAGCATGGCGATGCTATTCAACAAACTTTTGTTTGTCATAGAGAAGGTTTCCGGGATGCAAGGAATGGCAATAATCCGTCTAGAAAAAGAGAGCAGAAGCCAGTTAGTAGATGTGGGTGTATGGCAAGAATTCAAGTTCACGTTGACTACGGTAGTGAACGGTGGTACATAAAAATGTTTGACGATGTTCATAATCACTCATTTTTGGATAATAAGTATGAGGGGATGCTACCTGCACATAAAAAGATGAGTGATTATGACAAATACCAAATGAAAGCAATGAGGAAAGCTGACATTCCTACGTCACGTATCTATGGTTCTTTTGCTTCACAAGCTGGTGGATTCAGACATCATATTCAAGAAGGACCATGTACAATGAGCAATTCAAGGATAGGGAGACGAAGAGTTCTGATGCAGAGGAAGCAGTTGAATTTCTGA
Protein sequence

>MsaT028729.1

MDMSEILEIFQVSNVSNITGEGNVGVEGSEDLDSGSSSESVVRSSDDDMEDTYNSTYVCSFDDEFAVDCMTDLEKINFKELSYDDFVMYHFPDRVVAFKFYNMYGCVHRFAGRRSRVVKNKHGDAIQQTFVCHREGFRDARNGNNPSRKREQKPVSRCGCMARIQVHVDYGSERWYIKMFDDVHNHSFLDNKYEGMLPAHKKMSDYDKYQMKAMRKADIPTSRIYGSFASQAGGFRHHIQEGPCTMSNSRIGRRRVLMQRKQLNF*