AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039449

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039449 MtrunA17_Chr7g0258531 88.587 368 21 4 1 356 1 359 0.0 640
MsaG039449 MtrunA17_Chr1g0175071 40.240 333 151 10 35 346 9 314 1.18e-51 174
MsaG039449 MtrunA17_Chr1g0175091 41.765 170 81 5 191 342 220 389 6.37e-26 107
MsaG039449 MtrunA17_Chr7g0258551 43.609 133 73 2 222 353 212 343 1.41e-22 97.8
MsaG039449 MtrunA17_Chr1g0190301 41.176 136 69 3 212 336 165 300 5.09e-20 90.5
MsaG039449 MtrunA17_Chr7g0261911 37.576 165 79 6 190 336 229 387 6.58e-19 87.8
MsaG039449 MtrunA17_Chr7g0274471 42.063 126 62 3 222 336 218 343 2.26e-18 85.9
MsaG039449 MtrunA17_Chr7g0254981 33.766 154 80 4 205 340 33 182 6.99e-17 79.7
MsaG039449 MtrunA17_Chr2g0291021 40.441 136 60 6 222 340 49 180 1.99e-16 79.3
MsaG039449 MtrunA17_Chr6g0461641 35.461 141 64 3 221 334 41 181 2.02e-14 73.9
MsaG039449 MtrunA17_Chr5g0409731 35.417 144 69 4 222 341 25 168 2.37e-14 72.8
MsaG039449 MtrunA17_Chr2g0310011 38.281 128 63 4 222 334 35 161 8.55e-14 71.6
MsaG039449 MtrunA17_Chr8g0356501 37.795 127 65 4 222 334 37 163 1.03e-13 71.2
MsaG039449 MtrunA17_Chr1g0197171 32.394 142 82 2 222 353 44 181 3.35e-13 69.3
MsaG039449 MtrunA17_Chr2g0290991 31.724 145 82 2 222 353 39 179 6.46e-13 68.6
MsaG039449 MtrunA17_Chr8g0379121 60.377 53 21 0 224 276 113 165 9.81e-13 68.9
MsaG039449 MtrunA17_Chr1g0175081 43.182 88 44 3 206 292 5 87 1.74e-12 63.2
MsaG039449 MtrunA17_Chr2g0321461 33.793 145 65 4 221 334 44 188 9.65e-12 65.9
MsaG039449 MtrunA17_Chr2g0288601 43.243 74 38 1 199 272 52 121 1.60e-11 61.2
MsaG039449 MtrunA17_Chr3g0095611 53.704 54 25 0 224 277 21 74 1.64e-11 63.2
MsaG039449 MtrunA17_Chr2g0320231 56.604 53 23 0 224 276 99 151 2.49e-11 64.3
MsaG039449 MtrunA17_Chr7g0242521 35.433 127 69 3 220 333 11 137 2.93e-11 62.8
MsaG039449 MtrunA17_Chr1g0162931 45.714 70 37 1 224 293 20 88 3.66e-11 63.2
MsaG039449 MtrunA17_Chr7g0243081 56.604 53 23 0 224 276 73 125 5.19e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039449 AT5G06800.1 42.222 135 66 2 218 340 186 320 1.10e-21 95.5
MsaG039449 AT5G06800.2 42.857 140 63 3 218 340 186 325 3.86e-21 94.0
MsaG039449 AT3G13040.3 36.264 182 90 4 194 354 213 389 2.63e-19 89.4
MsaG039449 AT3G13040.1 36.264 182 90 4 194 354 213 389 2.63e-19 89.4
MsaG039449 AT3G13040.2 36.264 182 90 4 194 354 213 389 2.63e-19 89.4
MsaG039449 AT2G01060.1 37.037 162 80 6 210 355 3 158 1.09e-18 85.5
MsaG039449 AT3G04450.1 40.152 132 63 4 220 336 236 366 2.50e-18 86.3
MsaG039449 AT4G28610.1 40.136 147 73 5 202 336 208 351 3.46e-18 85.5
MsaG039449 AT3G04450.4 40.152 132 63 4 220 336 196 326 3.51e-18 85.5
MsaG039449 AT3G04450.2 40.152 132 63 4 220 336 196 326 3.51e-18 85.5
MsaG039449 AT5G29000.2 38.732 142 71 5 210 336 219 359 7.66e-18 84.7
MsaG039449 AT5G29000.1 38.732 142 71 5 210 336 176 316 1.05e-17 84.0
MsaG039449 AT5G29000.3 38.732 142 71 5 210 336 176 316 1.05e-17 84.0
MsaG039449 AT5G06800.3 61.667 60 21 1 218 275 186 245 1.99e-15 76.3
MsaG039449 AT2G20400.1 38.636 132 69 3 222 342 231 361 3.53e-15 76.6
MsaG039449 AT1G79430.2 39.062 128 62 4 222 334 34 160 3.73e-15 76.3
MsaG039449 AT3G24120.1 36.364 143 54 4 222 334 41 176 2.06e-14 73.2
MsaG039449 AT4G13640.1 35.664 143 55 3 222 334 37 172 4.29e-14 72.4
MsaG039449 AT2G20400.2 37.594 133 70 3 222 342 231 362 4.36e-14 73.2
MsaG039449 AT5G29000.4 48.529 68 35 0 210 277 219 286 6.77e-14 72.0
MsaG039449 AT3G04450.3 51.724 58 28 0 220 277 236 293 2.22e-13 70.5
MsaG039449 AT2G42660.1 60.377 53 21 0 224 276 52 104 2.36e-13 69.7
MsaG039449 AT3G12730.1 54.098 61 28 0 222 282 23 83 4.34e-13 68.6
MsaG039449 AT3G24120.2 32.624 141 65 3 222 334 41 179 4.66e-13 69.3
MsaG039449 AT3G04030.3 33.571 140 67 3 221 334 44 183 8.82e-13 69.3
MsaG039449 AT4G13640.2 33.562 146 57 3 222 334 37 175 1.78e-12 67.8
MsaG039449 AT5G18240.1 34.286 140 66 3 221 334 44 183 2.06e-12 68.2
MsaG039449 AT5G18240.4 34.286 140 66 3 221 334 44 183 2.06e-12 68.2
MsaG039449 AT2G06020.1 31.387 137 80 3 147 275 9 139 2.16e-12 67.4
MsaG039449 AT4G04605.1 47.619 63 32 1 224 286 16 77 4.17e-12 65.5
MsaG039449 AT5G18240.5 32.609 138 69 2 221 334 44 181 5.33e-12 67.0
MsaG039449 AT2G40260.1 54.717 53 24 0 224 276 84 136 1.82e-11 65.5
MsaG039449 AT3G04030.1 32.847 137 66 4 221 334 44 177 3.84e-11 64.3
MsaG039449 AT1G14600.1 45.455 77 38 1 205 277 2 78 4.32e-11 63.2
MsaG039449 AT5G18240.2 32.090 134 71 3 221 334 44 177 5.66e-11 63.9
MsaG039449 AT5G18240.3 32.090 134 71 3 221 334 44 177 5.66e-11 63.9
MsaG039449 AT4G04555.1 54.902 51 23 0 226 276 18 68 6.58e-11 59.3
MsaG039449 AT5G42630.2 40.506 79 45 1 201 277 82 160 8.23e-11 61.6
MsaG039449 AT2G38300.1 56.604 53 23 0 224 276 56 108 8.59e-11 63.2

Find 59 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAAACAATTGACCTGTTATT+TGG 0.085317 7:+89178559 None:intergenic
AAGCAGACTCCTCAACTTTA+TGG 0.179376 7:-89179594 MsaT039449.1:CDS
GAACCAACCAAAGAAAATTT+TGG 0.205784 7:-89178604 MsaT039449.1:CDS
CTTCTAACAATTCTGCTTCT+AGG 0.211425 7:-89179560 MsaT039449.1:CDS
GAGGATGAGATTGAAGTTTC+TGG 0.281912 7:-89180711 MsaT039449.1:CDS
AAACAATTGACCTGTTATTT+GGG 0.315634 7:+89178560 None:intergenic
CAAACATCTCATGATGGTTT+TGG 0.318369 7:-89180795 MsaT039449.1:CDS
ATTGGAGGGTCTGTTATCTT+TGG 0.328987 7:+89180669 None:intergenic
TCATGTTAAAAGCCATTTGC+AGG 0.345777 7:-89179318 MsaT039449.1:intron
ACGCATGCATAAAGCTTTGC+AGG 0.361361 7:-89179171 MsaT039449.1:CDS
GTGATTCCTCAATTTGCTTA+AGG 0.361437 7:+89178872 None:intergenic
TTCAAGGGGCTTCTCATCAA+TGG 0.375794 7:+89180440 None:intergenic
AACAACCTAGTTAAGGTTGT+TGG 0.392826 7:-89180906 MsaT039449.1:CDS
TTCTCTGAAAAGAAATTTCA+AGG 0.402613 7:+89180424 None:intergenic
TAGGTTGTTAATTCCTATGT+AGG 0.408171 7:+89180920 None:intergenic
AGGAATTAACAACCTAGTTA+AGG 0.413307 7:-89180913 MsaT039449.1:CDS
TGTAGTGACAATGTTGTTGC+AGG 0.413465 7:+89180830 None:intergenic
TGTGTTCTGATCCAACAATT+TGG 0.429748 7:+89180877 None:intergenic
ACAACCTAGTTAAGGTTGTT+GGG 0.437913 7:-89180905 MsaT039449.1:CDS
CAACATTGGTCAAAGATGTA+TGG 0.453490 7:-89180957 MsaT039449.1:CDS
GTTGGGTCAGACCAAATTGT+TGG 0.464581 7:-89180888 MsaT039449.1:CDS
CATACATCTTTGACCAATGT+TGG 0.474221 7:+89180958 None:intergenic
CAAAGATGTATGGAACTCAA+TGG 0.475646 7:-89180947 MsaT039449.1:CDS
TGTAAAATTCTCTCCTCCAT+AGG 0.496495 7:+89180632 None:intergenic
AAAGATGTATGGAACTCAAT+GGG 0.496984 7:-89180946 MsaT039449.1:CDS
TCTGTTCTATGTCCTTCCTC+AGG 0.498706 7:+89179049 None:intergenic
ATGCTGAATTGTCAAGCCTA+TGG 0.501729 7:-89180648 MsaT039449.1:CDS
CTTTGACCAATGTTGGTACA+TGG 0.506794 7:+89180965 None:intergenic
TTGTTGCAGGGTGACTTGAT+TGG 0.508916 7:+89180843 None:intergenic
CAAGGTCAAACATCTCATGA+TGG 0.511209 7:-89180801 MsaT039449.1:CDS
CTGACCCAACAACCTTAACT+AGG 0.516049 7:+89180901 None:intergenic
TAGCAGCCTTAAGCAAATTG+AGG 0.522396 7:-89178878 MsaT039449.1:intron
GCTTGACAATTCAGCATTGG+AGG 0.527222 7:+89180654 None:intergenic
CTCTGAAAAGAAATTTCAAG+GGG 0.530710 7:+89180426 None:intergenic
CATGTAAAAGAAGAGTAAGA+TGG 0.531937 7:-89179527 MsaT039449.1:CDS
TCTCTGAAAAGAAATTTCAA+GGG 0.533832 7:+89180425 None:intergenic
TAGGCTTGACAATTCAGCAT+TGG 0.547239 7:+89180651 None:intergenic
AGATTCATCAACAGAGTACA+AGG 0.551613 7:+89180590 None:intergenic
AATTGCAGAGGCAAAGCCTA+AGG 0.561046 7:-89179381 MsaT039449.1:intron
ATGATAATCGTTGATCACCT+TGG 0.567335 7:-89179480 MsaT039449.1:CDS
ATCATATCTAGTATAGCCTT+AGG 0.576046 7:+89179365 None:intergenic
ACTCAATGGGAATCCTACAT+AGG 0.576742 7:-89180933 MsaT039449.1:CDS
AGAAGCAGAATTGTTAGAAG+TGG 0.580769 7:+89179563 None:intergenic
CTTGACAATTCAGCATTGGA+GGG 0.587253 7:+89180655 None:intergenic
ATAATCGTTGATCACCTTGG+TGG 0.592004 7:-89179477 MsaT039449.1:CDS
ATCACGGCAGTTGCATCTAG+AGG 0.593133 7:-89178854 MsaT039449.1:intron
ATGAGATTGAAGTTTCTGGT+TGG 0.603059 7:-89180707 MsaT039449.1:CDS
AACCAACCATGTACCAACAT+TGG 0.603963 7:-89180971 None:intergenic
TTAAGCAAATTGAGGAATCA+CGG 0.605256 7:-89178870 MsaT039449.1:CDS
CGCATGCATAAAGCTTTGCA+GGG 0.606639 7:-89179170 MsaT039449.1:intron
CTGAATTGTCAAGCCTATGG+AGG 0.616055 7:-89180645 MsaT039449.1:CDS
AAGAAGAGTAAGATGGACAG+AGG 0.623246 7:-89179520 MsaT039449.1:CDS
GCACACATTCCATAAAGTTG+AGG 0.636332 7:+89179585 None:intergenic
CTTTCAGAAAGACCTGAGGA+AGG 0.638784 7:-89179061 MsaT039449.1:intron
AGGTGAAGAATATTATGATG+AGG 0.647413 7:-89180730 MsaT039449.1:CDS
GTAGTGACAATGTTGTTGCA+GGG 0.658470 7:+89180831 None:intergenic
CAAGGAGTTTGTGAACTGAG+AGG 0.666646 7:+89180608 None:intergenic
TTATCTTTCAGAAAGACCTG+AGG 0.675030 7:-89179065 MsaT039449.1:intron
ACTTACTTTCTGGACCACCA+AGG 0.699661 7:+89179463 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 89178574 89180985 89178574 ID=MsaG039449
Chr7 mRNA 89178574 89180985 89178574 ID=MsaT039449.1;Parent=MsaG039449
Chr7 exon 89178574 89178693 89178574 ID=MsaT039449.1.exon7;Parent=MsaT039449.1
Chr7 CDS 89178574 89178693 89178574 ID=cds.MsaT039449.1;Parent=MsaT039449.1
Chr7 exon 89178855 89178894 89178855 ID=MsaT039449.1.exon6;Parent=MsaT039449.1
Chr7 CDS 89178855 89178894 89178855 ID=cds.MsaT039449.1;Parent=MsaT039449.1
Chr7 exon 89179022 89179076 89179022 ID=MsaT039449.1.exon5;Parent=MsaT039449.1
Chr7 CDS 89179022 89179076 89179022 ID=cds.MsaT039449.1;Parent=MsaT039449.1
Chr7 exon 89179171 89179210 89179171 ID=MsaT039449.1.exon4;Parent=MsaT039449.1
Chr7 CDS 89179171 89179210 89179171 ID=cds.MsaT039449.1;Parent=MsaT039449.1
Chr7 exon 89179319 89179395 89179319 ID=MsaT039449.1.exon3;Parent=MsaT039449.1
Chr7 CDS 89179319 89179395 89179319 ID=cds.MsaT039449.1;Parent=MsaT039449.1
Chr7 exon 89179469 89179640 89179469 ID=MsaT039449.1.exon2;Parent=MsaT039449.1
Chr7 CDS 89179469 89179640 89179469 ID=cds.MsaT039449.1;Parent=MsaT039449.1
Chr7 exon 89180419 89180985 89180419 ID=MsaT039449.1.exon1;Parent=MsaT039449.1
Chr7 CDS 89180419 89180985 89180419 ID=cds.MsaT039449.1;Parent=MsaT039449.1
Gene Sequence

>MsaT039449.1

ATGTACCAACATTGGTCAAAGATGTATGGAACTCAATGGGAATCCTACATAGGAATTAACAACCTAGTTAAGGTTGTTGGGTCAGACCAAATTGTTGGATCAGAACACATGAGTTATGAGCCAATCAAGTCACCCTGCAACAACATTGTCACTACAAATTTTCAAGGTCAAACATCTCATGATGGTTTTGGTGCAGTGAGTGTAGCCAAAATCAAAAGTAATGTTAGTTTTCAAGGTGAAGAATATTATGATGAGGATGAGATTGAAGTTTCTGGTTGGTGTTTTGATCAGTTTCCAAAGATAACAGACCCTCCAATGCTGAATTGTCAAGCCTATGGAGGAGAGAATTTTACAACCTCTCAGTTCACAAACTCCTTGTACTCTGTTGATGAATCTTTGTTGTCTAACAGTGCAGATAGTCATAATTCTTCTGAAGAAGAATATAGTAATTTTCAGTCTGGAAATATGTCATTTTATGACCACTTTCCGAAAAAACATGATGAATTGTTTAGGAATGATGCTTCCATTGATGAGAAGCCCCTTGAAATTTCTTTTCAGAGAACTAAGTCAGGCTCATCTACAAAGTCACAAAAGCAGACTCCTCAACTTTATGGAATGTGTGCCACTTCTAACAATTCTGCTTCTAGGAAAGCTCCAACATGTAAAAGAAGAGTAAGATGGACAGAGGATCTGCATGAATCATTCATGATAATCGTTGATCACCTTGGTGGTCCAGAAAAGGCAAAGCCTAAGGCTATACTAGATATGATGAAATCAAATTTGCTATCCATTTCTCATGTTAAAAGCCATTTGCAGAAATGTCGATCTACAATACGCATGCATAAAGCTTTGCAGGAAAGACCTGAGGAAGGACATAGAACAGATAGAGTCGCAGATCTTCAACTCAAAATCCTTAAGCAAATTGAGGAATCACGGCAGTTGCATCTAGAGACGCAAAGAAAGTTGCAAATACTAATTGAACAACATGACAAGAAGCTCAAACTAATGCAAAAAGAAAGAACCAACCAAAGAAAATTTTGGACACAACGAGAAAGGACAGTTCCCAAATAA
Protein sequence

>MsaT039449.1

MYQHWSKMYGTQWESYIGINNLVKVVGSDQIVGSEHMSYEPIKSPCNNIVTTNFQGQTSHDGFGAVSVAKIKSNVSFQGEEYYDEDEIEVSGWCFDQFPKITDPPMLNCQAYGGENFTTSQFTNSLYSVDESLLSNSADSHNSSEEEYSNFQSGNMSFYDHFPKKHDELFRNDASIDEKPLEISFQRTKSGSSTKSQKQTPQLYGMCATSNNSASRKAPTCKRRVRWTEDLHESFMIIVDHLGGPEKAKPKAILDMMKSNLLSISHVKSHLQKCRSTIRMHKALQERPEEGHRTDRVADLQLKILKQIEESRQLHLETQRKLQILIEQHDKKLKLMQKERTNQRKFWTQRERTVPK*