AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001446

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001446 MtrunA17_Chr6g0476171 83.830 235 37 1 52 286 12 245 2.66e-147 412
MsaG001446 MtrunA17_Chr1g0163201 35.385 325 152 10 7 286 81 392 2.39e-47 163
MsaG001446 MtrunA17_Chr1g0163111 38.565 223 121 7 74 286 12 228 8.68e-44 149
MsaG001446 MtrunA17_Chr1g0163151 38.498 213 125 4 74 286 15 221 1.15e-43 148
MsaG001446 MtrunA17_Chr1g0163181 30.791 354 164 11 7 286 83 429 1.32e-41 148
MsaG001446 MtrunA17_Chr1g0162151 37.083 240 109 7 52 285 3 206 1.37e-38 135
MsaG001446 MtrunA17_Chr1g0163261 37.736 212 98 4 6 186 86 294 4.26e-34 125
MsaG001446 MtrunA17_Chr1g0163091 45.223 157 78 4 52 208 3 151 6.57e-33 118
MsaG001446 MtrunA17_Chr1g0163251 37.037 216 93 6 7 186 83 291 1.31e-28 112
MsaG001446 MtrunA17_Chr1g0163231 36.082 194 100 6 7 176 87 280 2.99e-26 104
MsaG001446 MtrunA17_Chr1g0163131 29.078 282 130 6 6 286 94 306 4.31e-25 102
MsaG001446 MtrunA17_Chr1g0171611 34.615 182 107 3 7 176 87 268 1.45e-24 100
MsaG001446 MtrunA17_Chr5g0419211 35.870 92 58 1 95 186 11 101 8.63e-13 63.5
MsaG001446 MtrunA17_Chr1g0163081 65.957 47 16 0 6 52 66 112 2.34e-12 63.5
MsaG001446 MtrunA17_Chr1g0163101 42.222 90 43 3 7 95 94 175 2.68e-11 61.2
MsaG001446 MtrunA17_Chr1g0163121 52.542 59 28 0 6 64 71 129 6.61e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 48 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGCATGGTTCCTTTGTGGC+TGG 0.290615 1:+20209008 None:intergenic
TATATTGGATGATAGTAGTT+TGG 0.295324 1:-20210278 MsaT001446.1:CDS
TTGAATTTGTCATGTAAATT+CGG 0.311912 1:+20208669 None:intergenic
TTCCTTTGTGGCTGGGATAA+TGG 0.345212 1:+20209016 None:intergenic
GGTCTGAGTTCAAAATGAAT+TGG 0.350012 1:-20210414 None:intergenic
TATAATGAACATCTTGACTA+TGG 0.371074 1:-20208436 MsaT001446.1:CDS
CTCTGGGCATGGTTCCTTTG+TGG 0.384680 1:+20209004 None:intergenic
ATAGGAAACATACCAATCTA+TGG 0.397767 1:+20209644 None:intergenic
GGCATGGTTCCTTTGTGGCT+GGG 0.402651 1:+20209009 None:intergenic
TTAATACCTTGAAACTGCTC+TGG 0.427580 1:+20208987 None:intergenic
GTCTGAGTTCAAAATGAATT+GGG 0.455385 1:-20210413 None:intergenic
GAATTTACATGACAAATTCA+AGG 0.456040 1:-20208667 MsaT001446.1:CDS
AAGGAACATGACTTGAAAGT+TGG 0.470859 1:-20209092 MsaT001446.1:CDS
ATTCGGTGGAGTTGAAAGTA+GGG 0.471281 1:-20208486 MsaT001446.1:CDS
TTAGAAGTGTTGATGAGGAC+AGG 0.485676 1:-20209190 MsaT001446.1:CDS
AGTGAAACTAGGATTCTCAT+TGG 0.490637 1:+20209696 None:intergenic
TGAAAGTAGGGGAAGGAACA+TGG 0.498346 1:-20208474 MsaT001446.1:CDS
TCATGTTGAAGGCCATAGAT+TGG 0.499482 1:-20209656 MsaT001446.1:intron
AATTCGGTGGAGTTGAAAGT+AGG 0.502201 1:-20208487 MsaT001446.1:CDS
AGAGATTGCAAAGTAAAGAC+TGG 0.513081 1:-20208382 MsaT001446.1:CDS
CCATGCCCAGAGCAGTTTCA+AGG 0.516067 1:-20208993 MsaT001446.1:intron
ATGGCCTTCAACATGAGATC+GGG 0.518094 1:+20209663 None:intergenic
GACTATGGATGGTTCACTAA+AGG 0.520625 1:-20208421 MsaT001446.1:CDS
TGTGCAAAATCATGTGTTCA+AGG 0.521657 1:-20208332 MsaT001446.1:CDS
ATGGTAATTGTGAATGAAAG+TGG 0.526717 1:+20209035 None:intergenic
TTATCCCGATCTCATGTTGA+AGG 0.533386 1:-20209667 MsaT001446.1:CDS
GTGAAACTAGGATTCTCATT+GGG 0.534567 1:+20209697 None:intergenic
CCTTGAAACTGCTCTGGGCA+TGG 0.538312 1:+20208993 None:intergenic
TATGGCCTTCAACATGAGAT+CGG 0.541774 1:+20209662 None:intergenic
ATGAACATCTTGACTATGGA+TGG 0.542388 1:-20208432 MsaT001446.1:CDS
TACATGAATGAGTTATTGCA+AGG 0.543984 1:-20209224 MsaT001446.1:CDS
CAATGATGAACAAGAAGCTA+AGG 0.548779 1:-20210230 MsaT001446.1:CDS
TATTCGTTTGAAAACCATGT+AGG 0.557476 1:+20209245 None:intergenic
ATGGATGGTTCACTAAAGGC+TGG 0.558556 1:-20208417 MsaT001446.1:CDS
GATAATTTGAGAGTGAAACT+AGG 0.566910 1:+20209685 None:intergenic
TAATACCTTGAAACTGCTCT+GGG 0.569622 1:+20208988 None:intergenic
TGAAACAGAGGCTACCTACA+TGG 0.580260 1:-20209259 MsaT001446.1:intron
AACAATTAGAAGTGTTGATG+AGG 0.583313 1:-20209195 MsaT001446.1:CDS
GGAAGGAACATGGTTTGTAG+AGG 0.629163 1:-20208464 MsaT001446.1:CDS
TTCGGTGGAGTTGAAAGTAG+GGG 0.634551 1:-20208485 MsaT001446.1:CDS
GAATGAGTTATTGCAAGGGA+AGG 0.643476 1:-20209219 MsaT001446.1:CDS
GTGGAGTTGAAAGTAGGGGA+AGG 0.644645 1:-20208481 MsaT001446.1:CDS
TAGAAGTGTTGATGAGGACA+GGG 0.646868 1:-20209189 MsaT001446.1:CDS
TACCATTATCCCAGCCACAA+AGG 0.660933 1:-20209018 MsaT001446.1:CDS
ACATGAATGAGTTATTGCAA+GGG 0.661417 1:-20209223 MsaT001446.1:CDS
GTGTTGATGAGGACAGGGCA+CGG 0.684939 1:-20209184 MsaT001446.1:CDS
CAATGATTATGATTGTGTCG+AGG 0.711528 1:-20210185 MsaT001446.1:intron
AAAATGAATTGGGTACAACG+AGG 0.756191 1:-20210403 MsaT001446.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 20208318 20210422 20208318 ID=MsaG001446
Chr1 mRNA 20208318 20210422 20208318 ID=MsaT001446.1;Parent=MsaG001446
Chr1 exon 20208318 20208560 20208318 ID=MsaT001446.1.exon6;Parent=MsaT001446.1
Chr1 CDS 20208318 20208560 20208318 ID=cds.MsaT001446.1;Parent=MsaT001446.1
Chr1 exon 20208644 20208702 20208644 ID=MsaT001446.1.exon5;Parent=MsaT001446.1
Chr1 CDS 20208644 20208702 20208644 ID=cds.MsaT001446.1;Parent=MsaT001446.1
Chr1 exon 20208994 20209273 20208994 ID=MsaT001446.1.exon4;Parent=MsaT001446.1
Chr1 CDS 20208994 20209273 20208994 ID=cds.MsaT001446.1;Parent=MsaT001446.1
Chr1 exon 20209657 20209779 20209657 ID=MsaT001446.1.exon3;Parent=MsaT001446.1
Chr1 CDS 20209657 20209779 20209657 ID=cds.MsaT001446.1;Parent=MsaT001446.1
Chr1 exon 20210186 20210322 20210186 ID=MsaT001446.1.exon2;Parent=MsaT001446.1
Chr1 CDS 20210186 20210322 20210186 ID=cds.MsaT001446.1;Parent=MsaT001446.1
Chr1 exon 20210404 20210422 20210404 ID=MsaT001446.1.exon1;Parent=MsaT001446.1
Chr1 CDS 20210404 20210422 20210404 ID=cds.MsaT001446.1;Parent=MsaT001446.1
Gene Sequence

>MsaT001446.1

ATGAATTGGGTACAACGAGGAGGGTCAGATTTTCATGTCATTATATTGGATGATAGTAGTTTGGAAATTGACTATTCGTGTATGAGATGCAATGATGAACAAGAAGCTAAGGATAGTGATGATGATGACAATGACAATGATTATGATTGTGTCGAGAAAGCTAAGAAATGCACAAAAACTGAACGTGGGAATGAGAGAAGCTGCACAAATTATCATCCCAATGAGAATCCTAGTTTCACTCTCAAATTATCCCGATCTCATGTTGAAGGCCATAGATTGAGGCTACCTACATGGTTTTCAAACGAATACATGAATGAGTTATTGCAAGGGAAGGCAACAATTAGAAGTGTTGATGAGGACAGGGCACGGTACGTGACGTTAAACTTTGATAAAAGCAATGACAGTTTTTTAATGCAGGTTGGTTGGAAGTCATTTTCAAAGGAACATGACTTGAAAGTTGGTGATGCATGTAAATTTGAGATGACTCAACGCGAACCACTTTCATTCACAATTACCATTATCCCAGCCACAAAGGAACCATGCCCAGAGCAGTTTCAAGATTCTGTAAGTCCGAATTTACATGACAAATTCAAGGTTTTTGTAACATCATTAGACAAGTTGGTTGTACTACCAAGTGAGCTGTTAAAAAGACATAATATATTTTGTGGAAATTCGGTGGAGTTGAAAGTAGGGGAAGGAACATGGTTTGTAGAGGTGAGTTATAATGAACATCTTGACTATGGATGGTTCACTAAAGGCTGGCAAGAGTTTCTGAGAGATTGCAAAGTAAAGACTGGAGACACTTGCTTGTTTGAGATGATTGATGTGCAAAATCATGTGTTCAAGGTTTCAATTGTTTGA
Protein sequence

>MsaT001446.1

MNWVQRGGSDFHVIILDDSSLEIDYSCMRCNDEQEAKDSDDDDNDNDYDCVEKAKKCTKTERGNERSCTNYHPNENPSFTLKLSRSHVEGHRLRLPTWFSNEYMNELLQGKATIRSVDEDRARYVTLNFDKSNDSFLMQVGWKSFSKEHDLKVGDACKFEMTQREPLSFTITIIPATKEPCPEQFQDSVSPNLHDKFKVFVTSLDKLVVLPSELLKRHNIFCGNSVELKVGEGTWFVEVSYNEHLDYGWFTKGWQEFLRDCKVKTGDTCLFEMIDVQNHVFKVSIV*