AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027623

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027623 MtrunA17_Chr5g0424871 73.709 213 7 1 1 164 85 297 1.59e-98 287
MsaG027623 MtrunA17_Chr8g0355121 33.333 198 103 6 4 185 100 284 3.56e-20 85.9
MsaG027623 MtrunA17_Chr7g0254991 31.132 212 110 7 1 187 93 293 1.68e-19 84.0
MsaG027623 MtrunA17_Chr3g0080341 30.144 209 114 8 1 185 93 293 5.87e-18 79.7
MsaG027623 MtrunA17_Chr2g0321411 31.771 192 104 7 1 185 81 252 4.93e-15 71.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027623 AT2G41070.5 34.375 192 94 6 1 188 73 236 1.75e-19 83.2
MsaG027623 AT3G56850.1 32.195 205 95 6 1 185 88 268 2.47e-19 83.6
MsaG027623 AT2G41070.3 34.375 192 94 6 1 188 73 236 3.04e-19 82.8
MsaG027623 AT2G41070.1 34.375 192 94 6 1 188 73 236 3.04e-19 82.8
MsaG027623 AT2G41070.2 34.375 192 94 6 1 188 73 236 3.04e-19 82.8
MsaG027623 AT2G41070.4 34.375 192 94 6 1 188 82 245 3.07e-19 82.8
MsaG027623 AT2G36270.3 29.150 247 113 8 1 185 152 398 7.52e-13 66.2
MsaG027623 AT2G36270.1 29.150 247 113 8 1 185 152 398 8.50e-13 66.2
MsaG027623 AT2G36270.2 29.150 247 113 8 1 185 152 398 8.50e-13 66.2
MsaG027623 AT4G34000.3 55.172 58 25 1 128 185 359 415 7.78e-11 60.5

Find 41 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAACTCAAGTTCCATTTAT+TGG 0.183062 5:+49048094 MsaT027623.1:CDS
TTTGGTTCAACTCCAATAAA+TGG 0.213001 5:-49048106 None:intergenic
GAGAACAAACTTATGGAAAT+TGG 0.227423 5:+49048313 MsaT027623.1:CDS
TATTGGAGTTGAACCAAATT+TGG 0.228912 5:+49048111 MsaT027623.1:CDS
TGTGAAGCCATGACCAAATT+TGG 0.273930 5:-49048124 None:intergenic
GGTTTATGAGAACAAACTTA+TGG 0.279232 5:+49048306 MsaT027623.1:CDS
CATGCTAAGGCTATTAATAT+TGG 0.286901 5:+49048040 MsaT027623.1:CDS
CAAGAAAATGTTCATGCTAT+TGG 0.325704 5:+49048067 MsaT027623.1:CDS
CTCACTCCATACCTCATTGA+TGG 0.344051 5:-49047924 None:intergenic
AGATTTCGGTGTTGCAAATT+CGG 0.363775 5:+49048285 MsaT027623.1:intron
TACCGAACTCAAATTGATAA+AGG 0.388384 5:+49048691 MsaT027623.1:CDS
GGTGCTGGTGGAAGCGGCGT+TGG 0.410177 5:+49048403 MsaT027623.1:CDS
TACCTTTATCAATTTGAGTT+CGG 0.422062 5:-49048693 None:intergenic
GAGATCAAGGGCAAAGAAAC+AGG 0.423260 5:+49048513 MsaT027623.1:CDS
GCGAATCTGCTGCGAGATCA+AGG 0.428490 5:+49048500 MsaT027623.1:CDS
AAGGGAGGTGCTGGTGGAAG+CGG 0.452209 5:+49048397 MsaT027623.1:CDS
CAATTTGCAACAATCAATGT+TGG 0.470147 5:+49047988 MsaT027623.1:CDS
TTGATCTCGCAGCAGATTCG+CGG 0.487789 5:-49048498 None:intergenic
AATTTGCAACAATCAATGTT+GGG 0.488793 5:+49047989 MsaT027623.1:CDS
ATCTACATGTTCAGATTCAA+AGG 0.498171 5:+49048378 MsaT027623.1:CDS
TCAGATTCAAAGGGAGGTGC+TGG 0.512549 5:+49048388 MsaT027623.1:CDS
CAAGTATTCAGATGAGATGA+TGG 0.513206 5:+49048435 MsaT027623.1:CDS
CTGGTGGAAGCGGCGTTGGA+AGG 0.516752 5:+49048407 MsaT027623.1:CDS
AATGTTGGGAGAAACAACTT+TGG 0.520689 5:+49048003 MsaT027623.1:CDS
ACAGATGGACAAATTTCAGT+TGG 0.521534 5:+49048658 MsaT027623.1:CDS
ACAAAACCATCAATGAGGTA+TGG 0.522632 5:+49047918 MsaT027623.1:CDS
GTTACTCAGAAATACCAATC+GGG 0.531399 5:+49048335 MsaT027623.1:CDS
GGTTACTCAGAAATACCAAT+CGG 0.533750 5:+49048334 MsaT027623.1:CDS
AGTTGAACCAAATTTGGTCA+TGG 0.554386 5:+49048117 MsaT027623.1:CDS
TGTGTTGTCGTTGCCCCGAT+TGG 0.555305 5:-49048349 None:intergenic
GATTCAAAGGGAGGTGCTGG+TGG 0.564466 5:+49048391 MsaT027623.1:CDS
TGATGGAAAAGACTATTGAG+AGG 0.567476 5:+49048452 MsaT027623.1:CDS
ACACATAAATAAGTTACAGA+TGG 0.576179 5:+49048643 MsaT027623.1:CDS
CGAATCTGCTGCGAGATCAA+GGG 0.577446 5:+49048501 MsaT027623.1:CDS
TGAGAGGAGGCAGAAGCGAA+TGG 0.590383 5:+49048468 MsaT027623.1:CDS
TCTACATGTTCAGATTCAAA+GGG 0.597077 5:+49048379 MsaT027623.1:CDS
GTCATGGCTTCACAGCCAGA+AGG 0.598955 5:+49048133 MsaT027623.1:CDS
GTGTAACAAAACCATCAATG+AGG 0.645158 5:+49047913 MsaT027623.1:CDS
ACATGTTCAGATTCAAAGGG+AGG 0.661738 5:+49048382 MsaT027623.1:CDS
TGGAAAAGACTATTGAGAGG+AGG 0.667614 5:+49048455 MsaT027623.1:CDS
TTACTCAGAAATACCAATCG+GGG 0.689219 5:+49048336 MsaT027623.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 49047911 49048712 49047911 ID=MsaG027623
Chr5 mRNA 49047911 49048712 49047911 ID=MsaT027623.1;Parent=MsaG027623
Chr5 exon 49047911 49048154 49047911 ID=MsaT027623.1.exon1;Parent=MsaT027623.1
Chr5 CDS 49047911 49048154 49047911 ID=cds.MsaT027623.1;Parent=MsaT027623.1
Chr5 exon 49048287 49048534 49048287 ID=MsaT027623.1.exon2;Parent=MsaT027623.1
Chr5 CDS 49048287 49048534 49048287 ID=cds.MsaT027623.1;Parent=MsaT027623.1
Chr5 exon 49048641 49048712 49048641 ID=MsaT027623.1.exon3;Parent=MsaT027623.1
Chr5 CDS 49048641 49048712 49048641 ID=cds.MsaT027623.1;Parent=MsaT027623.1
Gene Sequence

>MsaT027623.1

ATGTGTAACAAAACCATCAATGAGGTATGGAGTGAGATTAACCAACAAAAAAATGTAATTGGGTCAATGGATCATAACAATTTGCAACAATCAATGTTGGGAGAAACAACTTTGGATAATTTTCTTGCACATGCTAAGGCTATTAATATTGGAAATCAAGAAAATGTTCATGCTATTGGTGATGAAACTCAAGTTCCATTTATTGGAGTTGAACCAAATTTGGTCATGGCTTCACAGCCAGAAGATTTCGGTGTTGCAAATTCGGTTTATGAGAACAAACTTATGGAAATTGGTTACTCAGAAATACCAATCGGGGCAACGACAACACATTTATCATCTACATGTTCAGATTCAAAGGGAGGTGCTGGTGGAAGCGGCGTTGGAAGGAAGCACAAGTATTCAGATGAGATGATGGAAAAGACTATTGAGAGGAGGCAGAAGCGAATGGCGAAGAACCGCGAATCTGCTGCGAGATCAAGGGCAAAGAAACAGGAACACATAAATAAGTTACAGATGGACAAATTTCAGTTGGAGAAAAAAAATACCGAACTCAAATTGATAAAG
Protein sequence

>MsaT027623.1

MCNKTINEVWSEINQQKNVIGSMDHNNLQQSMLGETTLDNFLAHAKAINIGNQENVHAIGDETQVPFIGVEPNLVMASQPEDFGVANSVYENKLMEIGYSEIPIGATTTHLSSTCSDSKGGAGGSGVGRKHKYSDEMMEKTIERRQKRMAKNRESAARSRAKKQEHINKLQMDKFQLEKKNTELKLIK