AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG031204

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031204 MtrunA17_Chr5g0445271 84.615 169 8 1 126 276 2 170 1.28e-101 298
MsaG031204 MtrunA17_Chr7g0225201 72.189 169 29 1 126 276 2 170 1.71e-83 253
MsaG031204 MtrunA17_Chr3g0101091 71.006 169 31 1 126 276 1 169 4.62e-83 251
MsaG031204 MtrunA17_Chr3g0101081 71.006 169 31 1 126 276 1 169 4.62e-83 251
MsaG031204 MtrunA17_Chr3g0101111 71.006 169 31 1 126 276 1 169 6.98e-83 251
MsaG031204 MtrunA17_Chr3g0132681 68.824 170 34 2 126 276 1 170 6.20e-79 241
MsaG031204 MtrunA17_Chr5g0447731 64.198 162 40 1 133 276 5 166 1.19e-72 224
MsaG031204 MtrunA17_Chr3g0116811 56.250 160 51 2 135 276 11 169 8.62e-55 186
MsaG031204 MtrunA17_Chr7g0273851 49.689 161 63 1 134 276 7 167 3.96e-49 172
MsaG031204 MtrunA17_Chr8g0346511 53.205 156 55 1 139 276 26 181 1.24e-48 171
MsaG031204 MtrunA17_Chr1g0190951 49.689 161 63 1 134 276 7 167 7.17e-48 169
MsaG031204 MtrunA17_Chr1g0205471 49.390 164 65 1 131 276 4 167 7.95e-48 169
MsaG031204 MtrunA17_Chr7g0244601 50.943 159 60 1 136 276 13 171 2.37e-47 166
MsaG031204 MtrunA17_Chr5g0432541 49.057 159 63 1 136 276 12 170 4.58e-47 165
MsaG031204 MtrunA17_Chr3g0119911 48.734 158 63 1 137 276 6 163 1.21e-46 164
MsaG031204 MtrunA17_Chr4g0013051 50.323 155 59 1 140 276 13 167 3.14e-46 163
MsaG031204 MtrunA17_Chr6g0455931 50.968 155 58 1 140 276 18 172 3.76e-45 160
MsaG031204 MtrunA17_Chr8g0384001 47.368 152 62 1 143 276 20 171 2.07e-43 155
MsaG031204 MtrunA17_Chr3g0129771 47.712 153 62 1 142 276 24 176 1.63e-42 154
MsaG031204 MtrunA17_Chr4g0066741 86.000 50 7 0 32 81 40 89 1.13e-12 68.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031204 AT5G55560.1 74.375 160 23 1 135 276 15 174 7.19e-83 251
MsaG031204 AT3G48260.1 57.325 157 47 3 139 276 10 165 3.22e-52 178
MsaG031204 AT5G28080.2 49.689 161 63 1 134 276 8 168 6.57e-50 171
MsaG031204 AT3G22420.1 50.617 162 62 1 133 276 6 167 7.52e-50 173
MsaG031204 AT3G22420.5 50.617 162 62 1 133 276 6 167 1.10e-49 173
MsaG031204 AT3G22420.6 50.617 162 62 1 133 276 6 167 1.50e-49 172
MsaG031204 AT3G22420.2 50.617 162 62 1 133 276 6 167 2.13e-49 172
MsaG031204 AT3G51630.1 51.899 158 58 1 137 276 11 168 2.29e-49 171
MsaG031204 AT3G51630.2 51.899 158 58 1 137 276 11 168 2.29e-49 171
MsaG031204 AT3G04910.1 50.932 161 61 1 134 276 7 167 2.37e-49 173
MsaG031204 AT3G22420.4 50.617 162 62 1 133 276 77 238 2.95e-49 172
MsaG031204 AT3G22420.3 50.617 162 62 1 133 276 77 238 3.74e-49 172
MsaG031204 AT5G41990.1 52.597 154 55 1 141 276 19 172 3.78e-49 171
MsaG031204 AT3G18750.6 53.289 152 53 1 143 276 20 171 1.98e-48 168
MsaG031204 AT3G18750.2 53.289 152 53 1 143 276 20 171 1.98e-48 168
MsaG031204 AT3G18750.1 53.289 152 53 1 143 276 20 171 7.37e-48 167
MsaG031204 AT3G18750.3 53.289 152 53 1 143 276 20 171 7.37e-48 167
MsaG031204 AT3G18750.5 53.289 152 53 1 143 276 20 171 7.37e-48 167
MsaG031204 AT1G49160.2 50.658 152 57 1 143 276 20 171 2.88e-46 163
MsaG031204 AT5G58350.1 49.351 154 60 1 141 276 9 162 4.01e-46 163
MsaG031204 AT1G64630.1 49.351 154 60 1 141 276 6 159 3.89e-45 159
MsaG031204 AT3G18750.4 52.448 143 50 1 152 276 11 153 7.17e-44 156
MsaG031204 AT3G04910.2 48.872 133 50 1 162 276 12 144 2.64e-38 142
MsaG031204 AT1G49160.5 39.196 199 56 2 143 276 20 218 8.19e-38 140
MsaG031204 AT1G49160.3 39.196 199 56 2 143 276 20 218 1.63e-37 138
MsaG031204 AT1G49160.1 49.612 129 47 1 166 276 25 153 2.20e-37 139
MsaG031204 AT5G28080.8 39.860 143 67 2 134 276 8 131 7.91e-30 117
MsaG031204 AT3G48260.2 66.667 69 23 0 208 276 2 70 3.30e-27 109
MsaG031204 AT5G28080.4 54.321 81 37 0 196 276 2 82 1.53e-26 107
MsaG031204 AT5G28080.3 54.321 81 37 0 196 276 2 82 1.53e-26 107
MsaG031204 AT5G28080.5 54.321 81 37 0 196 276 2 82 1.53e-26 107
MsaG031204 AT5G28080.6 54.321 81 37 0 196 276 2 82 1.53e-26 107
MsaG031204 AT5G28080.7 54.321 81 37 0 196 276 2 82 1.53e-26 107
MsaG031204 AT1G49160.7 59.091 44 18 0 233 276 1 44 2.28e-12 67.0
MsaG031204 AT1G49160.6 59.091 44 18 0 233 276 1 44 2.28e-12 67.0
MsaG031204 AT1G49160.4 59.091 44 18 0 233 276 1 44 2.28e-12 67.0
MsaG031204 AT3G04910.3 60.976 41 16 0 236 276 1 41 4.91e-12 66.2

Find 64 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGCTAGGTTAAATGAATT+TGG 0.202312 6:-22096782 MsaT031204.1:CDS
TGCAGTAATGTGTTTGTTAA+TGG 0.230278 6:-22094208 MsaT031204.1:CDS
ATGACCAAACCCTTTGAAAA+TGG 0.288398 6:+22097275 None:intergenic
GCAGTAATGTGTTTGTTAAT+GGG 0.358405 6:-22094207 MsaT031204.1:CDS
TCATCTGCGGCGGGATCATC+TGG 0.363265 6:+22096969 None:intergenic
CGCCGCCATCCTATTTGTTC+CGG 0.368423 6:+22095134 None:intergenic
AAACGGAAGGTTCAGGAGAT+TGG 0.377671 6:-22096748 MsaT031204.1:CDS
GGTAGATATCCCGAACTATT+AGG 0.388637 6:-22094601 MsaT031204.1:CDS
CTATGAAGGCATTGAAGAAA+TGG 0.389560 6:-22094303 MsaT031204.1:CDS
AGCACCACATCCTAATAGTT+CGG 0.409203 6:+22094591 None:intergenic
CAGGCAACACCGGAACAAAT+AGG 0.417007 6:-22095143 MsaT031204.1:CDS
CATGGAACCAAGTGAAGTTA+AGG 0.417769 6:-22094519 MsaT031204.1:CDS
CGACGACGAGGACGAAAATC+AGG 0.422269 6:-22096937 MsaT031204.1:intron
CAGTGCAATTGTGGGAGCTC+AGG 0.438908 6:-22095162 MsaT031204.1:CDS
GCACCACATCCTAATAGTTC+GGG 0.441500 6:+22094592 None:intergenic
GTTGAAGAAACGGAAGGTTC+AGG 0.451332 6:-22096755 MsaT031204.1:CDS
CAAAGACTCTGAGGCATTTG+CGG 0.464899 6:-22094647 MsaT031204.1:CDS
AGAGTCTTTGTCGAATGAAC+CGG 0.465471 6:+22094660 None:intergenic
TTCTCACGCTTACTAATCTC+AGG 0.465778 6:+22096803 None:intergenic
ATGGCCGCACAGCAAATAGA+TGG 0.476777 6:+22097294 None:intergenic
ATTTGGAACGGTTGAAGAAA+CGG 0.477812 6:-22096765 MsaT031204.1:CDS
ATCTCAGAACAGTGCAATTG+TGG 0.487263 6:-22095171 MsaT031204.1:CDS
ATCACTGAGGTTTGTACAAG+TGG 0.487514 6:-22094364 MsaT031204.1:CDS
GTGGGAATTTGAGAGAGTAT+AGG 0.493749 6:-22094345 MsaT031204.1:CDS
TTAGTAAGCGTGAGAAAGCT+AGG 0.498354 6:-22096796 MsaT031204.1:CDS
CTTCTTCTTGTTCGAATGCA+CGG 0.499842 6:+22094554 None:intergenic
ACTGATCAAACTGGTAGGTA+TGG 0.501577 6:-22094622 MsaT031204.1:CDS
AGAAGTTCCTTAACTTCACT+TGG 0.505019 6:+22094512 None:intergenic
ACAGCAAATAGATGGTTCAT+TGG 0.512531 6:+22097302 None:intergenic
TTCGTCCTCGTCGTCGACGC+CGG 0.520056 6:+22096944 None:intergenic
TTTGCGGAAACTGATCAAAC+TGG 0.520751 6:-22094631 MsaT031204.1:CDS
TGTTAATGGGAATGTTGGCC+AGG 0.524765 6:-22094194 MsaT031204.1:intron
TAAAGCCTCTCTATCATAGC+AGG 0.530301 6:+22094481 None:intergenic
AAGAAGGAATTGAGGTAGCA+TGG 0.534488 6:-22094537 MsaT031204.1:CDS
TAACGATCTGATTGAAGAAG+AGG 0.538837 6:-22097048 MsaT031204.1:CDS
ACATAGACATGTTTCTATGA+AGG 0.539017 6:-22094317 MsaT031204.1:CDS
GTGTTTGTTAATGGGAATGT+TGG 0.550532 6:-22094199 MsaT031204.1:CDS
TCTCAGAACAGTGCAATTGT+GGG 0.558191 6:-22095170 MsaT031204.1:CDS
ACGCCGGCATCATCTGCGGC+GGG 0.559729 6:+22096960 None:intergenic
CGTGCATTCGAACAAGAAGA+AGG 0.561746 6:-22094553 MsaT031204.1:CDS
TAGGTTAAATGAATTTGGAA+CGG 0.564611 6:-22096777 MsaT031204.1:CDS
ATCCTCATCGTCGGAATCAG+CGG 0.569669 6:+22096995 None:intergenic
GATCCCGCCGCAGATGATGC+CGG 0.571397 6:-22096963 MsaT031204.1:CDS
GACGCCGGCATCATCTGCGG+CGG 0.588874 6:+22096959 None:intergenic
CGAACAAGAAGAAGGAATTG+AGG 0.592473 6:-22094545 MsaT031204.1:CDS
AGAGGCTTTATTCTGAAGTG+AGG 0.595040 6:-22094468 MsaT031204.1:intron
ATCTGGCGCATCCTCATCGT+CGG 0.598843 6:+22096986 None:intergenic
GTCGACGCCGGCATCATCTG+CGG 0.599151 6:+22096956 None:intergenic
TGTGGGAGCTCAGGCAACAC+CGG 0.602729 6:-22095153 MsaT031204.1:CDS
TATCCCGAACTATTAGGATG+TGG 0.603001 6:-22094595 MsaT031204.1:CDS
GGAACGGTTGAAGAAACGGA+AGG 0.605075 6:-22096761 MsaT031204.1:CDS
CGGAAACTGATCAAACTGGT+AGG 0.611239 6:-22094627 MsaT031204.1:CDS
TCACTGAGGTTTGTACAAGT+GGG 0.624882 6:-22094363 MsaT031204.1:CDS
CTCCGCTGATTCCGACGATG+AGG 0.631672 6:-22096997 MsaT031204.1:CDS
ATGAACCTGCTATGATAGAG+AGG 0.634842 6:-22094486 MsaT031204.1:CDS
CAACACCGGAACAAATAGGA+TGG 0.636297 6:-22095139 MsaT031204.1:CDS
AGGCATTGAAGAAATGGTCA+AGG 0.636906 6:-22094297 MsaT031204.1:CDS
CACGCTGAATTTCATCACTG+AGG 0.643624 6:-22094377 MsaT031204.1:CDS
AATGAACCGGAGTGAACACT+CGG 0.644556 6:+22094673 None:intergenic
TGATGCCGGCGTCGACGACG+AGG 0.680240 6:-22096949 MsaT031204.1:CDS
TTCATTCGACAAAGACTCTG+AGG 0.681738 6:-22094656 MsaT031204.1:CDS
CACCGGAACAAATAGGATGG+CGG 0.698758 6:-22095136 MsaT031204.1:CDS
TGAACCATCTATTTGCTGTG+CGG 0.701146 6:-22097298 MsaT031204.1:CDS
TAGATGCCGAGTGTTCACTC+CGG 0.720989 6:-22094679 MsaT031204.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 22094146 22097321 22094146 ID=MsaG031204
Chr6 mRNA 22094146 22097321 22094146 ID=MsaT031204.1;Parent=MsaG031204
Chr6 exon 22094146 22094154 22094146 ID=MsaT031204.1.exon7;Parent=MsaT031204.1
Chr6 CDS 22094146 22094154 22094146 ID=cds.MsaT031204.1;Parent=MsaT031204.1
Chr6 exon 22094195 22094414 22094195 ID=MsaT031204.1.exon6;Parent=MsaT031204.1
Chr6 CDS 22094195 22094414 22094195 ID=cds.MsaT031204.1;Parent=MsaT031204.1
Chr6 exon 22094469 22094698 22094469 ID=MsaT031204.1.exon5;Parent=MsaT031204.1
Chr6 CDS 22094469 22094698 22094469 ID=cds.MsaT031204.1;Parent=MsaT031204.1
Chr6 exon 22095133 22095200 22095133 ID=MsaT031204.1.exon4;Parent=MsaT031204.1
Chr6 CDS 22095133 22095200 22095133 ID=cds.MsaT031204.1;Parent=MsaT031204.1
Chr6 exon 22096720 22096840 22096720 ID=MsaT031204.1.exon3;Parent=MsaT031204.1
Chr6 CDS 22096720 22096840 22096720 ID=cds.MsaT031204.1;Parent=MsaT031204.1
Chr6 exon 22096938 22097086 22096938 ID=MsaT031204.1.exon2;Parent=MsaT031204.1
Chr6 CDS 22096938 22097086 22096938 ID=cds.MsaT031204.1;Parent=MsaT031204.1
Chr6 exon 22097285 22097321 22097285 ID=MsaT031204.1.exon1;Parent=MsaT031204.1
Chr6 CDS 22097285 22097321 22097285 ID=cds.MsaT031204.1;Parent=MsaT031204.1
Gene Sequence

>MsaT031204.1

ATGAACCATCTATTTGCTGTGCGGCCATTTTCAAAGGAAGAGGTTGAGAACGTTAACGATCTGATTGAAGAAGAGGACGAAGAAGAACTCGATGCTGTTGCTCGCTCCGCTGATTCCGACGATGAGGATGCGCCAGATGATCCCGCCGCAGATGATGCCGGCGTCGACGACGAGGACGAAAATCAGCATGAAAGTGTTAATCCTGAGATTAGTAAGCGTGAGAAAGCTAGGTTAAATGAATTTGGAACGGTTGAAGAAACGGAAGGTTCAGGAGATTGGATGCGCAAAATGCATCTATTAATGCTAATGTTTGAATCTCAGAACAGTGCAATTGTGGGAGCTCAGGCAACACCGGAACAAATAGGATGGCGGCGAATGCCGAGTGTTCACTCCGGTTCATTCGACAAAGACTCTGAGGCATTTGCGGAAACTGATCAAACTGGTAGGTATGGTAGATATCCCGAACTATTAGGATGTGGTGCTCTGAAGAAAGTGTACCGTGCATTCGAACAAGAAGAAGGAATTGAGGTAGCATGGAACCAAGTGAAGTTAAGGAACTTCTGTGATGAACCTGCTATGATAGAGAGGCTTTATTCTGAAGTGAGCGATGATCGAAACAACACGCTGAATTTCATCACTGAGGTTTGTACAAGTGGGAATTTGAGAGAGTATAGGAAGAAACATAGACATGTTTCTATGAAGGCATTGAAGAAATGGTCAAGGCAGATTTTGAAGGGGTTGAATTATTTGCACACTCATGAGTCTTGCATCATTCATAGAGATCTGAATTGCAGTAATGTGTTTGTTAATGGGAATGTTGGCCAGCTTGCTTGA
Protein sequence

>MsaT031204.1

MNHLFAVRPFSKEEVENVNDLIEEEDEEELDAVARSADSDDEDAPDDPAADDAGVDDEDENQHESVNPEISKREKARLNEFGTVEETEGSGDWMRKMHLLMLMFESQNSAIVGAQATPEQIGWRRMPSVHSGSFDKDSEAFAETDQTGRYGRYPELLGCGALKKVYRAFEQEEGIEVAWNQVKLRNFCDEPAMIERLYSEVSDDRNNTLNFITEVCTSGNLREYRKKHRHVSMKALKKWSRQILKGLNYLHTHESCIIHRDLNCSNVFVNGNVGQLA*