AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016520

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016520 MtrunA17_Chr3g0129721 72.822 287 14 3 2 224 4 290 3.67e-141 396
MsaG016520 MtrunA17_Chr4g0008561 37.066 259 98 5 23 217 19 276 2.46e-46 163
MsaG016520 MtrunA17_Chr3g0129701 82.192 73 8 1 130 197 14 86 1.70e-37 126
MsaG016520 MtrunA17_Chr8g0345801 29.796 245 108 5 23 203 15 259 4.26e-32 117
MsaG016520 MtrunA17_Chr1g0203881 24.615 260 130 8 23 217 41 299 4.34e-16 76.6
MsaG016520 MtrunA17_Chr2g0304111 34.286 140 71 5 90 218 150 279 3.40e-15 73.9
MsaG016520 MtrunA17_Chr5g0441011 36.090 133 64 5 90 211 140 262 4.77e-15 73.6
MsaG016520 MtrunA17_Chr6g0453681 33.088 136 75 4 90 218 146 272 1.25e-14 72.4
MsaG016520 MtrunA17_Chr1g0176421 30.000 140 91 3 90 224 289 426 1.38e-14 72.4
MsaG016520 MtrunA17_Chr6g0468751 33.582 134 73 4 90 216 146 270 1.46e-14 72.0
MsaG016520 MtrunA17_Chr1g0190131 30.827 133 83 3 90 217 136 264 6.41e-14 68.9
MsaG016520 MtrunA17_Chr3g0132671 31.852 135 78 3 90 218 176 302 9.11e-14 69.7
MsaG016520 MtrunA17_Chr2g0284011 32.609 138 76 5 90 218 138 267 1.21e-13 69.3
MsaG016520 MtrunA17_Chr3g0131181 30.714 140 90 3 90 224 157 294 1.68e-13 68.9
MsaG016520 MtrunA17_Chr1g0200601 29.078 141 91 3 90 224 158 295 5.63e-13 67.4
MsaG016520 MtrunA17_Chr8g0385341 30.216 139 92 2 90 224 158 295 1.02e-12 66.6
MsaG016520 MtrunA17_Chr7g0244561 31.333 150 87 4 72 211 123 266 4.31e-12 64.7
MsaG016520 MtrunA17_Chr8g0346071 32.117 137 76 5 90 218 144 271 4.39e-12 64.7
MsaG016520 MtrunA17_Chr1g0176751 28.289 152 102 3 71 217 233 382 7.12e-12 64.3
MsaG016520 MtrunA17_Chr5g0432471 32.432 148 73 5 90 223 138 272 7.55e-12 63.9
MsaG016520 MtrunA17_Chr5g0444171 27.632 152 94 4 81 218 202 351 1.31e-11 63.5
MsaG016520 MtrunA17_Chr6g0453671 30.328 122 74 2 103 218 156 272 1.49e-11 63.2
MsaG016520 MtrunA17_Chr5g0432491 34.058 138 74 5 90 218 150 279 3.31e-11 62.0
MsaG016520 MtrunA17_Chr4g0063881 44.737 76 32 3 90 158 138 210 5.33e-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
MsaG016520 AT1G49180.2 40.784 255 87 5 23 213 7 261 1.05e-50 169
MsaG016520 AT1G49180.1 40.784 255 87 5 23 213 7 261 2.69e-50 169
MsaG016520 AT2G37840.1 37.452 259 97 5 23 217 12 269 5.01e-47 165
MsaG016520 AT3G61960.2 33.846 260 108 3 23 218 10 269 6.04e-43 152
MsaG016520 AT3G61960.1 33.846 260 108 3 23 218 10 269 7.64e-43 152
MsaG016520 AT3G53930.1 34.351 262 107 5 23 220 20 280 1.37e-41 150
MsaG016520 AT3G53930.2 34.351 262 107 5 23 220 20 280 1.59e-41 150
MsaG016520 AT2G37840.2 43.966 116 59 2 110 220 21 135 1.98e-25 103
MsaG016520 AT1G12580.1 34.752 141 87 3 81 217 163 302 6.23e-20 88.2
MsaG016520 AT3G53930.4 44.792 96 47 2 130 220 1 95 8.03e-19 84.7
MsaG016520 AT3G53930.3 44.792 96 47 2 130 220 1 95 8.74e-19 84.7
MsaG016520 AT3G53930.5 44.792 96 47 2 130 220 1 95 8.74e-19 84.7
MsaG016520 AT1G01140.2 38.235 136 59 6 90 211 146 270 5.26e-17 79.3
MsaG016520 AT1G30270.3 34.286 140 71 5 90 218 61 190 4.60e-16 76.6
MsaG016520 AT1G30270.2 34.286 140 71 5 90 218 158 287 6.33e-16 76.3
MsaG016520 AT1G30270.1 34.286 140 71 5 90 218 158 287 6.51e-16 76.3
MsaG016520 AT1G01140.1 38.060 134 60 6 90 211 146 268 2.36e-15 74.7
MsaG016520 AT1G01140.3 38.060 134 60 6 90 211 146 268 2.66e-15 74.7
MsaG016520 AT3G29160.3 33.824 136 74 4 90 218 147 273 8.38e-15 72.8
MsaG016520 AT3G29160.1 33.824 136 74 4 90 218 147 273 1.22e-14 72.8
MsaG016520 AT3G29160.2 33.824 136 74 4 90 218 147 273 1.22e-14 72.8
MsaG016520 AT2G26980.1 35.000 140 70 5 90 218 141 270 2.18e-14 71.6
MsaG016520 AT2G26980.3 35.000 140 70 5 90 218 141 270 2.29e-14 71.6
MsaG016520 AT2G26980.4 35.000 140 70 5 90 218 151 280 2.54e-14 71.6
MsaG016520 AT5G21326.1 35.000 140 70 5 90 218 140 269 3.44e-14 71.2
MsaG016520 AT2G26980.5 35.000 140 70 5 90 218 141 270 4.17e-14 70.9
MsaG016520 AT2G38910.1 31.343 134 85 3 90 218 262 393 6.45e-14 70.5
MsaG016520 AT4G04740.4 31.111 135 86 3 90 219 197 329 1.07e-13 70.1
MsaG016520 AT4G04740.6 31.111 135 86 3 90 219 197 329 1.07e-13 70.1
MsaG016520 AT4G04740.5 31.111 135 86 3 90 219 197 329 1.07e-13 70.1
MsaG016520 AT4G04740.3 31.111 135 86 3 90 219 197 329 1.07e-13 70.1
MsaG016520 AT4G04740.1 31.111 135 86 3 90 219 197 329 1.07e-13 70.1
MsaG016520 AT4G04740.7 31.111 135 86 3 90 219 197 329 1.07e-13 70.1
MsaG016520 AT4G04740.2 31.111 135 86 3 90 219 197 329 1.13e-13 69.7
MsaG016520 AT3G01090.3 32.117 137 77 4 90 219 146 273 1.38e-13 69.7
MsaG016520 AT3G01090.1 32.117 137 77 4 90 219 146 273 1.38e-13 69.7
MsaG016520 AT3G01090.2 32.117 137 77 4 90 219 169 296 1.77e-13 69.3
MsaG016520 AT5G23580.1 31.429 140 89 3 90 224 150 287 2.00e-13 68.9
MsaG016520 AT1G50700.3 29.605 152 91 4 81 218 183 332 2.25e-13 68.9
MsaG016520 AT5G01810.1 35.507 138 72 5 90 218 138 267 2.69e-13 68.6
MsaG016520 AT5G01810.2 35.507 138 72 5 90 218 138 267 2.69e-13 68.6
MsaG016520 AT5G57630.3 44.737 76 33 2 90 159 50 122 2.95e-13 68.2
MsaG016520 AT5G01810.3 35.507 138 72 5 90 218 138 267 2.95e-13 68.6
MsaG016520 AT1G50700.1 29.605 152 91 4 81 218 183 332 3.05e-13 68.6
MsaG016520 AT1G50700.2 29.605 152 91 4 81 218 183 332 3.23e-13 68.6
MsaG016520 AT5G57630.1 44.737 76 33 2 90 159 138 210 3.65e-13 68.2
MsaG016520 AT5G57630.2 44.737 76 33 2 90 159 138 210 4.07e-13 68.2
MsaG016520 AT2G26980.2 36.296 135 62 6 90 213 141 262 4.23e-13 67.0
MsaG016520 AT2G35890.2 30.556 144 85 4 90 224 260 397 5.07e-13 67.8
MsaG016520 AT2G35890.1 30.556 144 85 4 90 224 260 397 5.07e-13 67.8
MsaG016520 AT3G20410.2 29.605 152 91 4 81 218 201 350 5.99e-13 67.8
MsaG016520 AT3G20410.1 29.605 152 91 4 81 218 201 350 5.99e-13 67.8
MsaG016520 AT1G35670.1 31.034 145 83 3 90 224 154 291 1.60e-12 66.6
MsaG016520 AT5G39440.1 33.083 133 74 4 90 216 146 269 1.82e-12 66.2
MsaG016520 AT4G18700.1 35.000 140 70 5 90 218 152 281 2.62e-12 65.9
MsaG016520 AT4G23650.1 31.343 134 85 3 90 218 206 337 2.68e-12 65.9
MsaG016520 AT1G08650.1 30.000 150 97 3 74 218 128 274 2.90e-12 65.1
MsaG016520 AT2G30360.1 34.286 140 74 6 90 219 149 280 3.82e-12 65.5
MsaG016520 AT3G10660.2 26.415 159 110 3 71 224 295 451 4.22e-12 65.5
MsaG016520 AT3G10660.1 26.415 159 110 3 71 224 295 451 4.22e-12 65.5
MsaG016520 AT1G76040.3 28.477 151 92 4 81 217 222 370 4.43e-12 65.1
MsaG016520 AT1G76040.2 28.477 151 92 4 81 217 222 370 4.73e-12 65.1
MsaG016520 AT4G04720.2 26.797 153 96 4 81 219 190 340 4.82e-12 65.1
MsaG016520 AT4G04720.1 26.797 153 96 4 81 219 190 340 4.82e-12 65.1
MsaG016520 AT1G12680.1 28.369 141 91 4 82 217 220 355 6.55e-12 64.7
MsaG016520 AT4G04700.1 28.758 153 102 3 71 218 141 291 7.43e-12 64.3
MsaG016520 AT4G09570.1 29.655 145 85 3 90 224 153 290 7.90e-12 64.3
MsaG016520 AT5G04870.1 27.857 140 94 3 90 224 278 415 8.16e-12 64.3
MsaG016520 AT4G21940.3 28.105 153 94 4 81 219 212 362 1.12e-11 63.9
MsaG016520 AT4G21940.1 28.105 153 94 4 81 219 212 362 1.18e-11 63.9
MsaG016520 AT4G35310.2 30.000 140 91 3 90 224 225 362 1.20e-11 63.9
MsaG016520 AT4G35310.1 30.000 140 91 3 90 224 225 362 1.20e-11 63.9
MsaG016520 AT4G21940.2 28.105 153 94 4 81 219 212 362 1.27e-11 63.9
MsaG016520 AT2G17290.1 29.286 140 92 3 90 224 213 350 1.45e-11 63.5
MsaG016520 AT2G17290.2 29.286 140 92 3 90 224 213 350 1.45e-11 63.5
MsaG016520 AT1G08650.2 30.986 142 90 3 74 210 128 266 1.72e-11 62.8
MsaG016520 AT5G35410.2 34.884 129 63 6 90 208 138 255 1.97e-11 63.2
MsaG016520 AT5G35410.1 34.884 129 63 6 90 208 138 255 2.11e-11 63.2
MsaG016520 AT3G04530.1 30.833 120 76 3 103 217 152 269 3.49e-11 61.6
MsaG016520 AT5G45810.1 40.000 90 42 3 90 170 154 240 9.47e-11 61.2

Find 38 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAAGAACCTTCTCCAATTT+TGG 0.070296 3:-98893321 None:intergenic
TAAAGAATCGATTGAGAAAA+TGG 0.230503 3:-98895038 None:intergenic
ACATTATTTCTGCCGTTAAA+AGG 0.253516 3:-98894899 None:intergenic
TCACCTTCTTCACTTCTTCC+AGG 0.291605 3:+98893490 MsaT016520.1:CDS
TGAAGAAGGTGAACAATATT+AGG 0.298961 3:-98893479 None:intergenic
GTGCTGAAGATAGCTGATTT+TGG 0.306738 3:+98894223 MsaT016520.1:CDS
CTCTGGAACTGAAGAACTTC+AGG 0.337569 3:-98894425 None:intergenic
GAAAAGTTGGTAAGAGAAGA+AGG 0.396784 3:+98893266 MsaT016520.1:CDS
TAACGGCAGAAATAATGTTC+AGG 0.398893 3:+98894904 MsaT016520.1:CDS
TCAATCGATTCTTTATGGAT+TGG 0.433528 3:+98895046 MsaT016520.1:CDS
TCCTCGCCTCAAAGCTTCCT+TGG 0.439383 3:+98893421 MsaT016520.1:CDS
ATACCTTGTGATCATATCTC+TGG 0.462832 3:-98894442 None:intergenic
TTAAAGTCCAAAATTGGAGA+AGG 0.528444 3:+98893314 MsaT016520.1:CDS
AGACTACTGTGCTTAAATCC+AGG 0.529430 3:+98895095 MsaT016520.1:CDS
TTGTGGAACTCCATCGTACA+TGG 0.531694 3:+98894400 MsaT016520.1:CDS
CACAGTCCAAGGAAGCTTTG+AGG 0.533171 3:-98893427 None:intergenic
CGATTGAGAAAATGGAAGAC+AGG 0.533322 3:-98895030 None:intergenic
GAGTATGTTGAGACAGTTTG+TGG 0.537353 3:+98894383 MsaT016520.1:CDS
AGCTATCTTCAGCACTGCAT+CGG 0.541617 3:-98894215 None:intergenic
ACCGCAACATCTTCACCACT+TGG 0.546152 3:-98893371 None:intergenic
AAAATTGATCTCACAGTCCA+AGG 0.551415 3:-98893438 None:intergenic
CTTTCTGCGAGGAAAATCAC+TGG 0.552431 3:+98895259 MsaT016520.1:CDS
ACTGTCTCAACATACTCACC+TGG 0.552954 3:-98894377 None:intergenic
TAACCTGGAAGAAGTGAAGA+AGG 0.556262 3:-98893493 None:intergenic
AATAAAATTCATCAAAAGAG+AGG 0.573975 3:-98895229 None:intergenic
TCCAAGGAAGCTTTGAGGCG+AGG 0.574061 3:-98893422 None:intergenic
AATGTGAGAACTGTCCGCCC+AGG 0.584428 3:+98894359 MsaT016520.1:intron
TTATTTCTGCCGTTAAAAGG+TGG 0.588755 3:-98894896 None:intergenic
TTGTTCTGCTTTCCACACTG+TGG 0.593242 3:-98893345 None:intergenic
ACCAAGTGGTGAAGATGTTG+CGG 0.642864 3:+98893370 MsaT016520.1:CDS
TCAGCACTGCATCGGCACCA+TGG 0.647791 3:-98894207 None:intergenic
ACTTCAGGAGCCATGTACGA+TGG 0.648921 3:-98894410 None:intergenic
CTGTCTCAACATACTCACCT+GGG 0.657983 3:-98894376 None:intergenic
TTTCTGCGAGGAAAATCACT+GGG 0.662367 3:+98895260 MsaT016520.1:CDS
GTTCCAGAGATATGATCACA+AGG 0.686583 3:+98894439 MsaT016520.1:CDS
AAAGCAGAACAAAGACCAAG+TGG 0.701880 3:+98893356 MsaT016520.1:CDS
TATTTCCATAGCTTTCTGCG+AGG 0.727124 3:+98895248 MsaT016520.1:CDS
TCTCAACATACTCACCTGGG+CGG 0.769257 3:-98894373 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 98893242 98895289 98893242 ID=MsaG016520
Chr3 mRNA 98893242 98895289 98893242 ID=MsaT016520.1;Parent=MsaG016520
Chr3 exon 98893242 98893511 98893242 ID=MsaT016520.1.exon1;Parent=MsaT016520.1
Chr3 CDS 98893242 98893511 98893242 ID=cds.MsaT016520.1;Parent=MsaT016520.1
Chr3 exon 98894190 98894254 98894190 ID=MsaT016520.1.exon2;Parent=MsaT016520.1
Chr3 CDS 98894190 98894254 98894190 ID=cds.MsaT016520.1;Parent=MsaT016520.1
Chr3 exon 98894367 98894460 98894367 ID=MsaT016520.1.exon3;Parent=MsaT016520.1
Chr3 CDS 98894367 98894460 98894367 ID=cds.MsaT016520.1;Parent=MsaT016520.1
Chr3 exon 98894860 98894925 98894860 ID=MsaT016520.1.exon4;Parent=MsaT016520.1
Chr3 CDS 98894860 98894925 98894860 ID=cds.MsaT016520.1;Parent=MsaT016520.1
Chr3 exon 98895005 98895116 98895005 ID=MsaT016520.1.exon5;Parent=MsaT016520.1
Chr3 CDS 98895005 98895116 98895005 ID=cds.MsaT016520.1;Parent=MsaT016520.1
Chr3 exon 98895222 98895289 98895222 ID=MsaT016520.1.exon6;Parent=MsaT016520.1
Chr3 CDS 98895222 98895289 98895222 ID=cds.MsaT016520.1;Parent=MsaT016520.1
Gene Sequence

>MsaT016520.1

ATGGAATATGATCGTGATTTTGAAGAAAAGTTGGTAAGAGAAGAAGGAAACAAAAAAAACTACTACTATGTTTTAAAGTCCAAAATTGGAGAAGGTTCTTTTTCCACAGTGTGGAAAGCAGAACAAAGACCAAGTGGTGAAGATGTTGCGGTGAAGCAAGTCTTTCTCTCTAAACTCAATCCTCGCCTCAAAGCTTCCTTGGACTGTGAGATCAATTTTTTGTCTTCTGTTAATCATCCTAATATTGTTCACCTTCTTCACTTCTTCCAGAACATTTTGCTATCAAGCCATGGTGCCGATGCAGTGCTGAAGATAGCTGATTTTGGTCTCTCAAGAACTGTCCGCCCAGGTGAGTATGTTGAGACAGTTTGTGGAACTCCATCGTACATGGCTCCTGAAGTTCTTCAGTTCCAGAGATATGATCACAAGTGTCGGGCCATGCTTTTTGAGCTTCTAAATGGTTATCCACCTTTTAACGGCAGAAATAATGTTCAGGTGTTGAAAAACATCAGATCATGTACCTGTCTTCCATTTTCTCAATCGATTCTTTATGGATTGGATTCTGCCTGTCTTGATATTTGTAAAAGACTACTGTGCTTAAATCCAGTTGAGCGCCTCTCTTTTGATGAATTTTATTTCCATAGCTTTCTGCGAGGAAAATCACTGGGACCTTGA
Protein sequence

>MsaT016520.1

MEYDRDFEEKLVREEGNKKNYYYVLKSKIGEGSFSTVWKAEQRPSGEDVAVKQVFLSKLNPRLKASLDCEINFLSSVNHPNIVHLLHFFQNILLSSHGADAVLKIADFGLSRTVRPGEYVETVCGTPSYMAPEVLQFQRYDHKCRAMLFELLNGYPPFNGRNNVQVLKNIRSCTCLPFSQSILYGLDSACLDICKRLLCLNPVERLSFDEFYFHSFLRGKSLGP*