AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036258


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036258 MtrunA17_Chr7g0223971 71.007 407 37 4 88 414 1 406 0.0 528
MsaG036258 MtrunA17_Chr7g0223991 69.302 215 37 5 204 408 24 219 3.66e-88 267
MsaG036258 MtrunA17_Chr6g0473731 41.848 368 129 9 86 405 10 340 2.15e-68 224
MsaG036258 MtrunA17_Chr6g0471041 34.419 215 114 3 12 199 20 234 3.70e-38 142
MsaG036258 MtrunA17_Chr1g0161431 29.630 270 126 5 10 216 15 283 6.07e-36 139
MsaG036258 MtrunA17_Chr3g0123131 30.916 262 122 3 10 212 17 278 3.26e-35 137
MsaG036258 MtrunA17_Chr3g0134481 40.678 177 98 2 12 188 14 183 5.21e-35 128
MsaG036258 MtrunA17_Chr8g0376881 31.321 265 125 3 10 217 29 293 5.84e-35 135
MsaG036258 MtrunA17_Chr2g0294911 30.672 238 114 2 10 196 33 270 1.07e-34 135
MsaG036258 MtrunA17_Chr4g0009851 28.990 307 166 6 10 277 15 308 1.65e-34 130
MsaG036258 MtrunA17_Chr3g0134461 40.659 182 98 3 12 186 14 192 4.90e-34 125
MsaG036258 MtrunA17_Chr4g0009901 33.484 221 118 3 10 202 14 233 5.67e-33 125
MsaG036258 MtrunA17_Chr4g0009981 29.368 269 133 7 51 277 2 255 2.92e-31 120
MsaG036258 MtrunA17_Chr4g0067981 35.772 123 79 0 10 132 35 157 1.95e-19 90.9
MsaG036258 MtrunA17_Chr4g0067981 63.158 57 21 0 140 196 218 274 4.47e-19 89.7
MsaG036258 MtrunA17_Chr7g0275401 36.134 119 76 0 12 130 11 129 6.82e-19 86.7
MsaG036258 MtrunA17_Chr7g0275401 59.615 52 21 0 142 193 197 248 6.56e-13 68.9
MsaG036258 MtrunA17_Chr4g0074401 30.645 248 111 6 12 201 23 267 7.83e-19 89.0
MsaG036258 MtrunA17_Chr7g0275891 35.246 122 78 1 10 130 9 130 5.56e-18 84.7
MsaG036258 MtrunA17_Chr7g0275891 42.857 91 32 3 140 215 194 279 1.74e-13 71.2
MsaG036258 MtrunA17_Chr1g0149841 36.364 121 77 0 10 130 9 129 6.48e-18 85.9
MsaG036258 MtrunA17_Chr1g0149841 58.929 56 23 0 141 196 195 250 5.54e-17 82.8
MsaG036258 MtrunA17_Chr4g0074421 28.877 187 83 2 55 191 1 187 1.11e-17 80.9
MsaG036258 MtrunA17_Chr2g0304841 55.224 67 28 1 140 204 216 282 1.58e-17 85.1
MsaG036258 MtrunA17_Chr2g0304841 34.454 119 78 0 12 130 24 142 1.08e-14 76.3
MsaG036258 MtrunA17_Chr3g0137101 37.815 119 74 0 12 130 14 132 1.70e-17 84.7
MsaG036258 MtrunA17_Chr3g0137101 57.895 57 24 0 140 196 201 257 2.51e-17 84.3
MsaG036258 MtrunA17_Chr1g0149851 34.711 121 79 0 10 130 9 129 1.76e-17 84.7
MsaG036258 MtrunA17_Chr1g0149851 44.304 79 29 1 140 203 194 272 3.95e-12 68.2
MsaG036258 MtrunA17_Chr8g0383961 28.502 207 106 5 9 193 17 203 1.10e-16 79.7
MsaG036258 MtrunA17_Chr4g0031961 57.407 54 23 0 140 193 134 187 2.00e-15 76.6
MsaG036258 MtrunA17_Chr7g0255711 57.407 54 23 0 140 193 94 147 4.82e-15 75.5
MsaG036258 MtrunA17_Chr4g0074411 34.167 120 79 0 12 131 24 143 7.59e-15 76.6
MsaG036258 MtrunA17_Chr4g0074411 50.000 62 31 0 140 201 204 265 8.58e-13 70.1
MsaG036258 MtrunA17_Chr4g0040481 62.500 48 18 0 142 189 163 210 6.23e-14 73.2
MsaG036258 MtrunA17_Chr4g0011071 27.857 140 73 2 52 163 35 174 6.52e-14 69.7
MsaG036258 MtrunA17_Chr1g0149831 55.357 56 22 1 141 196 132 184 1.01e-13 70.5
MsaG036258 MtrunA17_Chr4g0009991 34.483 116 47 2 99 186 2 116 1.36e-13 67.4
MsaG036258 MtrunA17_Chr2g0324891 62.500 48 18 0 142 189 166 213 1.60e-13 72.0
MsaG036258 MtrunA17_Chr4g0054981 40.789 76 40 1 123 198 301 371 5.52e-13 70.9
MsaG036258 MtrunA17_Chr5g0400241 51.852 54 26 0 142 195 316 369 1.17e-12 69.7
MsaG036258 MtrunA17_Chr6g0469321 56.818 44 19 0 153 196 70 113 3.89e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036258 AT4G31920.1 33.913 230 113 2 10 200 17 246 1.40e-34 135
MsaG036258 AT1G67710.1 33.333 246 107 4 10 199 11 255 9.71e-32 127
MsaG036258 AT2G01760.1 30.120 249 112 5 10 196 11 259 7.00e-29 117
MsaG036258 AT2G01760.2 29.268 246 108 6 13 196 46 287 3.45e-23 101
MsaG036258 AT1G49190.1 29.098 244 115 4 9 194 33 276 2.09e-22 99.0
MsaG036258 AT5G07210.1 58.140 86 29 1 128 213 228 306 6.89e-22 98.6
MsaG036258 AT5G07210.1 29.231 130 81 3 10 130 16 143 4.23e-13 71.6
MsaG036258 AT5G07210.2 58.140 86 29 1 128 213 220 298 7.24e-22 98.6
MsaG036258 AT5G07210.2 31.148 122 81 2 10 130 16 135 1.85e-15 79.0
MsaG036258 AT1G67710.2 31.915 188 71 4 68 199 4 190 3.43e-19 89.7
MsaG036258 AT3G16857.3 59.701 67 21 1 140 206 170 230 3.44e-19 90.5
MsaG036258 AT3G16857.3 32.967 91 61 0 45 135 2 92 1.01e-11 67.4
MsaG036258 AT3G16857.1 59.701 67 21 1 140 206 240 300 4.05e-19 90.5
MsaG036258 AT3G16857.1 31.579 133 91 0 3 135 30 162 1.19e-17 85.9
MsaG036258 AT3G16857.2 59.701 67 21 1 140 206 240 300 4.12e-19 90.5
MsaG036258 AT3G16857.2 31.579 133 91 0 3 135 30 162 1.26e-17 85.9
MsaG036258 AT2G01760.3 28.646 192 75 5 67 196 3 194 1.56e-18 86.3
MsaG036258 AT2G27070.1 50.000 86 36 1 128 213 223 301 2.03e-17 85.1
MsaG036258 AT2G25180.1 34.959 123 80 0 10 132 17 139 3.83e-17 84.3
MsaG036258 AT2G25180.1 57.895 57 24 0 140 196 198 254 5.55e-16 80.5
MsaG036258 AT5G58080.1 44.318 88 48 1 140 227 197 283 1.81e-16 82.0
MsaG036258 AT5G59570.2 55.357 56 25 0 140 195 144 199 6.93e-16 78.2
MsaG036258 AT5G59570.1 55.357 56 25 0 140 195 144 199 6.93e-16 78.2
MsaG036258 AT2G40970.1 59.259 54 22 0 140 193 108 161 7.04e-16 77.4
MsaG036258 AT3G46640.2 57.407 54 23 0 140 193 147 200 7.37e-16 78.6
MsaG036258 AT3G46640.1 57.407 54 23 0 140 193 147 200 7.37e-16 78.6
MsaG036258 AT3G46640.3 57.407 54 23 0 140 193 147 200 1.02e-15 78.2
MsaG036258 AT3G10760.1 43.038 79 45 0 115 193 83 161 1.43e-15 77.8
MsaG036258 AT5G05090.1 57.407 54 23 0 140 193 84 137 2.47e-15 76.3
MsaG036258 AT5G49240.1 30.894 123 85 0 10 132 42 164 2.82e-15 76.6
MsaG036258 AT5G49240.1 59.574 47 19 0 140 186 226 272 3.25e-11 64.3
MsaG036258 AT1G67710.3 30.939 181 68 4 75 199 2 181 4.61e-15 77.4
MsaG036258 AT5G44190.1 64.583 48 17 0 142 189 152 199 1.57e-14 75.1
MsaG036258 AT5G44190.2 64.583 48 17 0 142 189 152 199 1.66e-14 75.1
MsaG036258 AT1G49190.2 31.405 121 83 0 9 129 33 153 8.34e-14 73.9
MsaG036258 AT4G18020.8 45.070 71 36 1 142 212 301 368 2.41e-13 72.0
MsaG036258 AT4G18020.11 45.070 71 36 1 142 212 301 368 2.41e-13 72.0
MsaG036258 AT4G18020.4 45.070 71 36 1 142 212 301 368 2.41e-13 72.0
MsaG036258 AT4G18020.5 45.070 71 36 1 142 212 301 368 2.41e-13 72.0
MsaG036258 AT4G18020.10 45.070 71 36 1 142 212 301 368 2.41e-13 72.0
MsaG036258 AT4G18020.7 45.070 71 36 1 142 212 301 368 2.41e-13 72.0
MsaG036258 AT2G20570.2 55.357 56 25 0 134 189 166 221 2.52e-13 72.0
MsaG036258 AT4G18020.3 45.070 71 36 1 142 212 301 368 2.63e-13 72.0
MsaG036258 AT4G18020.2 45.070 71 36 1 142 212 301 368 2.63e-13 72.0
MsaG036258 AT4G18020.1 45.070 71 36 1 142 212 301 368 2.63e-13 72.0
MsaG036258 AT4G18020.6 45.070 71 36 1 142 212 301 368 2.63e-13 72.0
MsaG036258 AT4G18020.9 45.070 71 36 1 142 212 301 368 2.63e-13 72.0
MsaG036258 AT2G20570.1 60.417 48 19 0 142 189 158 205 4.68e-13 70.9

Find 70 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATTTCCTTATATACAAAA+AGG 0.233477 7:-30459192 MsaT036258.1:CDS
GGACCATGATGATGTTTATT+TGG 0.237699 7:-30464563 MsaT036258.1:CDS
GAACTATGAACAATGGATTA+AGG 0.243060 7:-30458795 MsaT036258.1:CDS
GTTGATCTTTAACATGCTTT+TGG 0.248731 7:+30461036 None:intergenic
GCTGAAGACTTCAAACATAT+TGG 0.250357 7:-30460580 MsaT036258.1:CDS
TATGCCAGTGTTTGCAAATA+TGG 0.272397 7:+30459279 None:intergenic
AAATGTAGCAAGTCACTTAC+AGG 0.277878 7:-30459621 MsaT036258.1:intron
CAACATGATGTGTTGGAAAT+TGG 0.289454 7:+30459217 None:intergenic
CTGCTTGCTATTGACCAAAT+TGG 0.292299 7:-30460383 MsaT036258.1:CDS
TTTGGAATTCAGCTGAATAA+TGG 0.295030 7:-30458838 MsaT036258.1:CDS
GTAAGAAATAACAATCCTTT+TGG 0.299725 7:-30458856 MsaT036258.1:CDS
ACTTACTTTCCAATCCAATT+TGG 0.301438 7:+30460369 None:intergenic
GATATTAGAAACCAAAATTA+TGG 0.315005 7:-30458922 MsaT036258.1:CDS
AGGGCTGGCTCTTCAAGATT+TGG 0.319081 7:-30459172 MsaT036258.1:CDS
ACTTACTTATTATAGGTATC+TGG 0.323118 7:+30461012 None:intergenic
ATCTCGAAGACACTAGAAAA+TGG 0.329147 7:-30460634 MsaT036258.1:CDS
TTCAAGATTTGGAACAAGTT+AGG 0.330501 7:-30459161 MsaT036258.1:CDS
TGCCAAAACAAAAGCTTGTT+TGG 0.338365 7:-30460430 MsaT036258.1:intron
GAGTGACACTTACTTATTAT+AGG 0.338576 7:+30461005 None:intergenic
TTGAAGTCTTCAGCACAAAA+AGG 0.338736 7:+30460589 None:intergenic
GGCTGTGCCAAAGAAAATTC+TGG 0.364480 7:-30459675 MsaT036258.1:CDS
AACTATGAACAATGGATTAA+GGG 0.373260 7:-30458794 MsaT036258.1:CDS
CTGAAGACTTCAAACATATT+GGG 0.380229 7:-30460579 MsaT036258.1:CDS
ACATATTGGGAAATATGTTA+TGG 0.400575 7:-30460566 MsaT036258.1:CDS
CAAAGCATGACGAGCATCTC+TGG 0.407288 7:+30461139 None:intergenic
ATTGTAGAATTTCACATAGT+AGG 0.410495 7:-30461077 MsaT036258.1:CDS
GGAGCAGGAATGGTTGGAAT+TGG 0.414917 7:-30458817 MsaT036258.1:CDS
AGTGCAAATAACAATGAAAC+GGG 0.416165 7:-30458766 MsaT036258.1:CDS
TAGAGCTGAACAAGGATTGA+TGG 0.418771 7:-30458992 MsaT036258.1:CDS
TTTCACATAGTAGGAATGAA+TGG 0.421323 7:-30461068 MsaT036258.1:CDS
CTGCGAGATGTTGCAGAGAA+AGG 0.423104 7:-30459420 MsaT036258.1:CDS
GTGTTGGAAATTGGTTGAAA+TGG 0.423793 7:+30459226 None:intergenic
TGCTATTGACCAAATTGGAT+TGG 0.439605 7:-30460378 MsaT036258.1:CDS
AGCTATGATCAATACAGGTT+TGG 0.444597 7:-30459093 MsaT036258.1:CDS
ATCACTCTTCGAGAAAATGA+AGG 0.451581 7:-30461116 MsaT036258.1:CDS
ACATCAGAAGTAAATTTATG+AGG 0.469959 7:+30458877 None:intergenic
CTTCTTCAAGTTTCTTAACA+AGG 0.470322 7:-30458960 MsaT036258.1:CDS
TAGTGCAAATAACAATGAAA+CGG 0.476245 7:-30458767 MsaT036258.1:CDS
ATAACAGCTATGATCAATAC+AGG 0.478599 7:-30459098 MsaT036258.1:CDS
GATTTGGAACAAGTTAGGCT+TGG 0.484973 7:-30459156 MsaT036258.1:CDS
CAGTTATGTCTGAAGACAAC+AGG 0.493617 7:-30460666 MsaT036258.1:CDS
AGTGTCTTCGAGATTAAACT+TGG 0.495636 7:+30460643 None:intergenic
GTTGCAGAGAAAGGAATGGT+TGG 0.508048 7:-30459411 MsaT036258.1:CDS
TAGGCTTGGAAAATCAAAGT+TGG 0.508790 7:-30459142 MsaT036258.1:CDS
CTCACAGAGCTCTAAGATCA+AGG 0.512314 7:-30459380 MsaT036258.1:CDS
ACAATGAAACGGGGAGGGAG+TGG 0.514140 7:-30458756 MsaT036258.1:CDS
AATAATGGAGCAGGAATGGT+TGG 0.529804 7:-30458823 MsaT036258.1:CDS
TTCTTCAAGTTTCTTAACAA+GGG 0.536372 7:-30458959 MsaT036258.1:CDS
GCTGAATAATGGAGCAGGAA+TGG 0.538668 7:-30458827 MsaT036258.1:CDS
ATTCAGCTGAATAATGGAGC+AGG 0.542016 7:-30458832 MsaT036258.1:CDS
TTATTCAGCTGAATTCCAAA+AGG 0.546390 7:+30458841 None:intergenic
ATTTCTTGCTAAGATACTCA+TGG 0.565810 7:-30464539 MsaT036258.1:CDS
AGTGGAAGAGAGTTTCTAGC+AGG 0.567708 7:-30458738 MsaT036258.1:CDS
ATGCCAAATAAACATCATCA+TGG 0.567811 7:+30464560 None:intergenic
AATTGGTCAACATGATGTGT+TGG 0.569003 7:+30459210 None:intergenic
GCAGAGAAAGGAATGGTTGG+AGG 0.578705 7:-30459408 MsaT036258.1:CDS
TTGCTAAGATACTCATGGCA+TGG 0.581729 7:-30464534 MsaT036258.1:CDS
ACTTCCATATTTGCAAACAC+TGG 0.582579 7:-30459283 MsaT036258.1:CDS
GGAATTGGAACTATGAACAA+TGG 0.591999 7:-30458802 MsaT036258.1:CDS
GTTATTCTCTGCAACAACAT+CGG 0.600928 7:+30459116 None:intergenic
TCTATATGATGAAAAGCTAG+TGG 0.601942 7:+30459011 None:intergenic
TCATCATATAGAGCTGAACA+AGG 0.608032 7:-30459000 MsaT036258.1:CDS
ATTTCTCTTATCATAGACAT+CGG 0.611317 7:+30459342 None:intergenic
GTTTGCAAATATGGAAGTGT+TGG 0.612895 7:+30459288 None:intergenic
CTCATGGCATGGCAATACAA+AGG 0.648754 7:-30464523 MsaT036258.1:intron
ACACTGGCATATCAAACAAG+AGG 0.654807 7:-30459267 MsaT036258.1:CDS
CAAATAACAATGAAACGGGG+AGG 0.675066 7:-30458762 MsaT036258.1:CDS
AAATAACAATGAAACGGGGA+GGG 0.679481 7:-30458761 MsaT036258.1:CDS
AGATGTTGCAGAGAAAGGAA+TGG 0.689031 7:-30459415 MsaT036258.1:CDS
GTGCAAATAACAATGAAACG+GGG 0.779545 7:-30458765 MsaT036258.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 30458729 30464629 30458729 ID=MsaG036258
Chr7 mRNA 30458729 30464629 30458729 ID=MsaT036258.1;Parent=MsaG036258
Chr7 exon 30458729 30459457 30458729 ID=MsaT036258.1.exon6;Parent=MsaT036258.1
Chr7 CDS 30458729 30459457 30458729 ID=cds.MsaT036258.1;Parent=MsaT036258.1
Chr7 exon 30459622 30459698 30459622 ID=MsaT036258.1.exon5;Parent=MsaT036258.1
Chr7 CDS 30459622 30459698 30459622 ID=cds.MsaT036258.1;Parent=MsaT036258.1
Chr7 exon 30460375 30460438 30460375 ID=MsaT036258.1.exon4;Parent=MsaT036258.1
Chr7 CDS 30460375 30460438 30460375 ID=cds.MsaT036258.1;Parent=MsaT036258.1
Chr7 exon 30460528 30460685 30460528 ID=MsaT036258.1.exon3;Parent=MsaT036258.1
Chr7 CDS 30460528 30460685 30460528 ID=cds.MsaT036258.1;Parent=MsaT036258.1
Chr7 exon 30461018 30461170 30461018 ID=MsaT036258.1.exon2;Parent=MsaT036258.1
Chr7 CDS 30461018 30461170 30461018 ID=cds.MsaT036258.1;Parent=MsaT036258.1
Chr7 exon 30464524 30464629 30464524 ID=MsaT036258.1.exon1;Parent=MsaT036258.1
Chr7 CDS 30464524 30464629 30464524 ID=cds.MsaT036258.1;Parent=MsaT036258.1
Gene Sequence

>MsaT036258.1

ATGGATTGCGAAATATCTAATAATAATATCACAGTTTTGATTGTGGACCATGATGATGTTTATTTGGCATTTCTTGCTAAGATACTCATGGCATGGCAATACAAAGTTATTACTACCAGAGATGCTCGTCATGCTTTGATCACTCTTCGAGAAAATGAAGGCTTGTTTGATCTCGTTATTGTAGAATTTCACATAGTAGGAATGAATGGATTAGAATTCCAAAAGCATGTTAAAGATCAACTCCAGATACCTATAATAATTATGTCTGAAGACAACAGGCCAAGTTTAATCTCGAAGACACTAGAAAATGGAGCTGCACAGTACATTGTGAAACCTTTTTGTGCTGAAGACTTCAAACATATTGGGAAATATGTTATGGAAGCAAAGAAAGAGAAACTTTTCATTGAAAGTTTATTTCTTGTTTGGACACCTTATCTCCACAAAATGTTTCTGCTTGCTATTGACCAAATTGGATTGGAAAAGGCTGTGCCAAAGAAAATTCTGGAGATCATGAATATACCTAACGTGACCAGAGAAAATGTAGCAAGTCACTTACAGAAATATCGCATATTTCTGCGAGATGTTGCAGAGAAAGGAATGGTTGGAGGCATATCTCACAGAGCTCTAAGATCAAGGTTTGCATCAAGTCTTCCGATGTCTATGATAAGAGAAATCGAAGAAAAAAGAACAAACAAACTTCATGCGCCAACACTTCCATATTTGCAAACACTGGCATATCAAACAAGAGGTGCAAACGATGTTTTTAACCATTTCAACCAATTTCCAACACATCATGTTGACCAATTTCCTTATATACAAAAAGGGCTGGCTCTTCAAGATTTGGAACAAGTTAGGCTTGGAAAATCAAAGTTGGAAGCCGATGTTGTTGCAGAGAATAACAGCTATGATCAATACAGGTTTGGAATAAGCTCTTCAAGCCTTCCAATTTTTCAAGCAAAAAACTCATTCAATGATGGTGCTTCCACTAGCTTTTCATCATATAGAGCTGAACAAGGATTGATGGTTTCTTCTTCTTCTTCAAGTTTCTTAACAAGGGATTTTAAATTTGGTGATATTAGAAACCAAAATTATGGTGTTAAAAGCACTAATGTCATGCCTCATAAATTTACTTCTGATGTAAGAAATAACAATCCTTTTGGAATTCAGCTGAATAATGGAGCAGGAATGGTTGGAATTGGAACTATGAACAATGGATTAAGGGCTTCTAGTGCAAATAACAATGAAACGGGGAGGGAGTGGAAGAGAGTTTCTAGCAGGATCAGTTAA

Protein sequence

>MsaT036258.1

MDCEISNNNITVLIVDHDDVYLAFLAKILMAWQYKVITTRDARHALITLRENEGLFDLVIVEFHIVGMNGLEFQKHVKDQLQIPIIIMSEDNRPSLISKTLENGAAQYIVKPFCAEDFKHIGKYVMEAKKEKLFIESLFLVWTPYLHKMFLLAIDQIGLEKAVPKKILEIMNIPNVTRENVASHLQKYRIFLRDVAEKGMVGGISHRALRSRFASSLPMSMIREIEEKRTNKLHAPTLPYLQTLAYQTRGANDVFNHFNQFPTHHVDQFPYIQKGLALQDLEQVRLGKSKLEADVVAENNSYDQYRFGISSSSLPIFQAKNSFNDGASTSFSSYRAEQGLMVSSSSSSFLTRDFKFGDIRNQNYGVKSTNVMPHKFTSDVRNNNPFGIQLNNGAGMVGIGTMNNGLRASSANNNETGREWKRVSSRIS*