AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG033913


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033913 MtrunA17_Chr6g0480541 83.024 377 35 2 1 348 774 1150 0.0 600
MsaG033913 MtrunA17_Chr5g0437131 63.043 276 67 3 105 348 383 655 1.17e-116 353
MsaG033913 MtrunA17_Chr6g0480481 78.061 196 9 2 105 300 14 175 1.58e-101 298
MsaG033913 MtrunA17_Chr6g0480491 96.250 80 3 0 1 80 83 162 7.82e-47 157
MsaG033913 MtrunA17_Chr8g0369241 37.805 246 110 8 125 334 139 377 6.94e-35 135
MsaG033913 MtrunA17_Chr6g0480471 96.078 51 2 0 298 348 25 75 3.09e-28 105
MsaG033913 MtrunA17_Chr1g0210061 33.659 205 119 8 117 310 602 800 3.85e-24 103
MsaG033913 MtrunA17_Chr3g0139371 28.179 291 149 9 104 340 51 335 1.16e-22 97.8
MsaG033913 MtrunA17_Chr3g0116701 29.333 225 125 7 104 300 71 289 2.26e-19 88.6
MsaG033913 MtrunA17_Chr4g0058241 28.889 225 126 7 104 300 75 293 7.44e-19 87.0
MsaG033913 MtrunA17_Chr3g0123491 26.335 281 144 8 104 327 70 344 5.87e-18 84.3
MsaG033913 MtrunA17_Chr5g0443351 31.606 193 102 7 122 298 19 197 1.23e-14 74.7
MsaG033913 MtrunA17_Chr2g0287271 30.622 209 102 9 122 306 22 211 2.84e-14 73.9
MsaG033913 MtrunA17_Chr1g0197721 29.902 204 107 8 125 308 51 238 1.66e-13 71.2
MsaG033913 MtrunA17_Chr4g0027671 34.868 152 84 5 123 265 37 182 2.19e-13 71.2
MsaG033913 MtrunA17_Chr4g0045841 29.670 182 106 6 131 302 61 230 5.54e-13 69.3
MsaG033913 MtrunA17_Chr6g0482681 30.622 209 102 9 122 306 86 275 8.58e-13 69.3
MsaG033913 MtrunA17_Chr1g0179611 32.335 167 92 6 112 265 29 187 2.62e-12 67.8
MsaG033913 MtrunA17_Chr2g0320631 33.553 152 86 4 123 265 38 183 2.64e-12 67.8
MsaG033913 MtrunA17_Chr5g0407121 31.210 157 97 3 116 265 29 181 5.16e-12 66.6
MsaG033913 MtrunA17_Chr8g0348481 29.665 209 128 8 131 329 43 242 6.26e-12 66.2
MsaG033913 MtrunA17_Chr4g0030151 29.508 183 101 7 131 300 45 212 6.38e-12 66.2
MsaG033913 MtrunA17_Chr5g0397261 30.508 177 107 6 131 300 47 214 1.13e-11 65.5
MsaG033913 MtrunA17_Chr7g0270371 27.624 181 119 5 125 300 75 248 2.14e-11 64.7
MsaG033913 MtrunA17_Chr1g0193081 28.177 181 118 5 125 300 75 248 5.61e-11 63.5
MsaG033913 MtrunA17_Chr7g0248461 28.333 180 107 6 131 300 44 211 7.56e-11 62.8
MsaG033913 MtrunA17_Chr4g0030231 31.383 188 91 9 131 300 46 213 8.41e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033913 AT1G73450.1 65.714 385 83 5 1 348 721 1093 4.58e-156 468
MsaG033913 AT1G73460.2 65.285 386 86 6 1 348 735 1110 1.22e-152 459
MsaG033913 AT1G73460.1 65.285 386 86 6 1 348 735 1110 1.22e-152 459
MsaG033913 AT3G17750.1 65.517 377 99 3 1 348 705 1079 1.52e-150 453
MsaG033913 AT2G40120.1 52.809 356 121 6 28 348 170 513 1.24e-117 352
MsaG033913 AT5G35980.1 41.989 181 95 5 125 300 122 297 4.46e-33 130
MsaG033913 AT5G35980.2 41.989 181 95 5 125 300 122 297 5.15e-33 130
MsaG033913 AT5G35980.3 41.989 181 95 5 125 300 87 262 5.94e-33 130
MsaG033913 AT4G24740.1 27.397 292 150 9 104 339 75 360 2.39e-21 94.7
MsaG033913 AT4G24740.7 27.397 292 150 9 104 339 37 322 2.56e-21 94.4
MsaG033913 AT4G24740.3 27.698 278 140 8 104 326 75 346 5.37e-21 92.8
MsaG033913 AT4G32660.2 27.027 296 153 9 101 340 45 333 1.21e-20 92.0
MsaG033913 AT4G32660.1 27.027 296 153 9 101 340 45 333 1.36e-20 92.4
MsaG033913 AT4G32660.3 26.962 293 151 9 101 337 37 322 1.59e-20 92.0
MsaG033913 AT4G24740.4 29.333 225 125 7 104 300 75 293 1.83e-20 90.9
MsaG033913 AT1G13350.1 32.292 192 117 6 117 300 434 620 4.19e-20 92.0
MsaG033913 AT1G13350.2 32.292 192 117 6 117 300 461 647 4.85e-20 92.0
MsaG033913 AT1G13350.3 29.630 189 126 4 117 300 507 693 6.74e-20 91.7
MsaG033913 AT3G25840.1 31.606 193 117 7 117 300 609 795 8.41e-20 91.3
MsaG033913 AT3G25840.2 31.606 193 117 7 117 300 347 533 1.10e-19 90.9
MsaG033913 AT4G24740.6 27.757 263 130 8 131 339 1 257 4.28e-19 87.0
MsaG033913 AT4G24740.9 27.757 263 130 8 131 339 1 257 4.28e-19 87.0
MsaG033913 AT4G24740.2 27.757 263 130 8 131 339 1 257 4.28e-19 87.0
MsaG033913 AT3G53570.1 26.780 295 152 9 104 340 92 380 8.18e-19 87.8
MsaG033913 AT3G53570.4 26.780 295 152 9 104 340 92 380 8.18e-19 87.8
MsaG033913 AT3G53570.2 26.780 295 152 9 104 340 92 380 8.18e-19 87.8
MsaG033913 AT4G24740.5 28.112 249 120 7 131 326 1 243 9.80e-19 84.7
MsaG033913 AT3G53570.3 26.780 295 152 9 104 340 78 366 1.25e-18 87.0
MsaG033913 AT3G53570.5 26.780 295 152 9 104 340 78 366 1.25e-18 87.0
MsaG033913 AT3G53640.1 25.475 263 162 5 117 347 315 575 2.25e-18 86.7
MsaG033913 AT5G19010.1 30.622 209 102 9 122 306 22 211 3.66e-14 73.9
MsaG033913 AT2G17530.2 36.424 151 85 4 122 265 35 181 6.91e-14 72.4
MsaG033913 AT2G17530.1 36.424 151 85 4 122 265 35 181 1.18e-13 72.0
MsaG033913 AT2G17530.3 36.424 151 85 4 122 265 35 181 1.18e-13 72.0
MsaG033913 AT3G14720.1 30.244 205 89 8 122 298 22 200 2.78e-13 71.2
MsaG033913 AT2G01450.3 30.542 203 110 8 122 306 13 202 1.01e-12 69.3
MsaG033913 AT2G01450.1 30.542 203 110 8 122 306 13 202 1.01e-12 69.3
MsaG033913 AT2G01450.2 30.542 203 110 8 122 306 13 202 1.01e-12 69.3
MsaG033913 AT2G01450.4 30.542 203 110 8 122 306 13 202 1.01e-12 69.3
MsaG033913 AT3G14720.2 30.244 205 89 8 122 298 22 200 1.02e-12 69.3
MsaG033913 AT3G14720.3 30.244 205 89 8 122 298 22 200 1.02e-12 69.3
MsaG033913 AT3G44850.1 31.579 152 89 4 123 265 43 188 1.44e-12 68.9
MsaG033913 AT2G43790.1 30.168 179 109 6 131 302 69 238 3.87e-12 67.4
MsaG033913 AT3G53030.1 29.697 165 99 5 112 265 27 185 5.71e-12 67.0
MsaG033913 AT4G11330.1 27.957 186 104 6 131 302 49 218 6.23e-12 66.6
MsaG033913 AT5G22840.1 32.051 156 91 4 123 269 43 192 7.99e-12 66.6
MsaG033913 AT4G32660.4 27.803 223 100 8 169 337 3 218 1.03e-11 65.1
MsaG033913 AT5G04510.1 30.198 202 95 10 132 308 51 231 1.25e-11 65.9
MsaG033913 AT5G04510.2 29.592 196 104 8 132 308 51 231 1.44e-11 65.5
MsaG033913 AT3G45640.1 30.000 200 111 8 131 316 44 228 1.60e-11 65.5
MsaG033913 AT4G01370.1 29.524 210 127 8 131 329 49 248 1.73e-11 65.1
MsaG033913 AT5G04510.3 29.592 196 104 8 132 308 51 231 2.55e-11 64.3
MsaG033913 AT3G61160.6 27.624 181 119 5 125 300 109 282 4.53e-11 63.9
MsaG033913 AT3G61160.3 27.624 181 119 5 125 300 102 275 5.28e-11 63.5
MsaG033913 AT3G61160.5 27.624 181 119 5 125 300 102 275 5.65e-11 63.5
MsaG033913 AT1G01560.4 30.047 213 122 9 131 329 46 245 7.31e-11 62.4
MsaG033913 AT1G01560.1 30.047 213 122 9 131 329 46 245 7.31e-11 62.4
MsaG033913 AT3G61160.2 27.624 181 119 5 125 300 109 282 7.41e-11 63.5
MsaG033913 AT3G61160.1 27.624 181 119 5 125 300 102 275 8.50e-11 63.2
MsaG033913 AT3G61160.4 27.624 181 119 5 125 300 102 275 9.96e-11 63.2

Find 69 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTATCATGTCACCGAGTATC+TGG 0.223286 6:-102226884 MsaT033913.1:CDS
CTTGAAGCCGGAGAATATTT+TGG 0.237591 6:-102225087 MsaT033913.1:CDS
CATAAATTTAACAGAGAATC+AGG 0.249259 6:-102225973 MsaT033913.1:CDS
GTCAATTACCATTCAATGTT+TGG 0.292705 6:-102225153 MsaT033913.1:CDS
CTTCACCCGAGAAAAGTTCT+AGG 0.316441 6:-102227866 MsaT033913.1:CDS
ACATTACTTGCTAGGGTAAT+CGG 0.321223 6:-102223978 MsaT033913.1:CDS
ATTGCAAAGGATGATGATTT+AGG 0.349917 6:-102227726 MsaT033913.1:CDS
CCAACTACTGTAGATAATTA+CGG 0.350202 6:-102227801 MsaT033913.1:CDS
ACAGCGCATTGGGTTAATAA+TGG 0.352807 6:-102227385 MsaT033913.1:intron
CTTCACAATGCCAAGATTGC+AGG 0.358829 6:-102225938 MsaT033913.1:intron
GCTAGCATACTTTGACCAAT+TGG 0.379617 6:+102223945 None:intergenic
ACTCTACAAACCTGCAATCT+TGG 0.406214 6:+102225928 None:intergenic
TCGGTTCATAACAGCGCATT+GGG 0.422215 6:-102227395 MsaT033913.1:intron
GTGCAGGTCATGAGCTTGTA+TGG 0.428039 6:+102226840 None:intergenic
ACCCTAGCAAGTAATGTTGC+CGG 0.432217 6:+102223984 None:intergenic
CAACTACTGTAGATAATTAC+GGG 0.435480 6:-102227800 MsaT033913.1:CDS
TTTATGAAACTCGTATAAGT+TGG 0.437394 6:+102225990 None:intergenic
CTTCAGTATTTACATAACCT+TGG 0.444556 6:-102225125 MsaT033913.1:CDS
CATTACTTGCTAGGGTAATC+GGG 0.445037 6:-102223977 MsaT033913.1:CDS
ATCGGGATCATCGGTCCAAT+TGG 0.470869 6:-102223960 MsaT033913.1:CDS
GTTGTTCAGAACTGGGTTTG+AGG 0.474487 6:-102226953 MsaT033913.1:intron
CCCTAGCAAGTAATGTTGCC+GGG 0.476537 6:+102223985 None:intergenic
ATCGGTTCATAACAGCGCAT+TGG 0.477314 6:-102227396 MsaT033913.1:intron
TATGCTTTATGAGAGGAATC+AGG 0.494533 6:-102223883 MsaT033913.1:intron
CCCGGCAACATTACTTGCTA+GGG 0.494802 6:-102223985 MsaT033913.1:CDS
CCCCGGCAACATTACTTGCT+AGG 0.495623 6:-102223986 MsaT033913.1:CDS
GGTCAAAGTATGCTAGCAAA+AGG 0.496032 6:-102223939 MsaT033913.1:CDS
AAGTGCTTCCAAACATTGAA+TGG 0.497818 6:+102225145 None:intergenic
CTGATGAAATGCTTTCTTCG+TGG 0.513180 6:-102227908 None:intergenic
GATTGCTGCTGTGCAAGAGC+AGG 0.514712 6:-102227682 MsaT033913.1:intron
TGAGAAGTTTGATTTCATCA+AGG 0.517055 6:+102226758 None:intergenic
CTTATTTCAAAATGATTCCC+CGG 0.520946 6:-102224003 MsaT033913.1:CDS
GAGGTGAAGGTCATTGATCT+TGG 0.522315 6:-102225044 MsaT033913.1:CDS
TTTGCTCATATGTTCAGTCC+AGG 0.529127 6:-102224995 MsaT033913.1:CDS
GATACTCGGTGACATGATAG+TGG 0.533103 6:+102226887 None:intergenic
CCGTAATTATCTACAGTAGT+TGG 0.536230 6:+102227801 None:intergenic
CTCAGGAGCACGATAGGACC+TGG 0.537644 6:+102224977 None:intergenic
TATGTCAATAAGCATGATCC+TGG 0.545673 6:-102226733 MsaT033913.1:CDS
AAAATAAGATGAAACTAAGA+TGG 0.546372 6:-102227362 MsaT033913.1:CDS
TTCACCCGAGAAAAGTTCTA+GGG 0.553463 6:-102227865 MsaT033913.1:CDS
TATCATGTCACCGAGTATCT+GGG 0.561541 6:-102226883 MsaT033913.1:CDS
AAACATCCACACCTGTGTGC+AGG 0.562424 6:+102226824 None:intergenic
AATACATTGCGACTTGAAGC+CGG 0.562519 6:-102225099 MsaT033913.1:CDS
AGTCGCAATGTATTAGTCCA+AGG 0.567368 6:+102225108 None:intergenic
ATTAACCTCAGGAGCACGAT+AGG 0.571694 6:+102224971 None:intergenic
TGCAGCAGATCCCAGATACT+CGG 0.574398 6:+102226873 None:intergenic
AAAATGTGATACTTGTCGCC+AGG 0.577417 6:+102226715 None:intergenic
GCTAGGGTAATCGGGATCAT+CGG 0.577471 6:-102223969 MsaT033913.1:CDS
TGATTTAGGTGTTTCACAAG+AGG 0.578381 6:-102227712 MsaT033913.1:CDS
AAGTATGCTAGCAAAAGGAC+GGG 0.589744 6:-102223934 MsaT033913.1:CDS
AAAGTATGCTAGCAAAAGGA+CGG 0.592834 6:-102223935 MsaT033913.1:CDS
GTTCAGAACTGGGTTTGAGG+AGG 0.612984 6:-102226950 MsaT033913.1:intron
CTACATCCGATGTGAGGTGA+AGG 0.619012 6:-102225057 MsaT033913.1:CDS
AAAATCATATGCTTTATGAG+AGG 0.623112 6:-102223890 MsaT033913.1:CDS
CAGGTCCTATCGTGCTCCTG+AGG 0.625226 6:-102224976 MsaT033913.1:intron
ATGAAATGCTTTCTTCGTGG+AGG 0.631843 6:-102227905 None:intergenic
AATTTAACAGAGAATCAGGA+GGG 0.648186 6:-102225969 MsaT033913.1:CDS
GGATGAGAATAATGCTCATG+CGG 0.652471 6:-102227844 MsaT033913.1:CDS
TGGACTGAACATATGAGCAA+AGG 0.655558 6:+102224997 None:intergenic
CCTAGCAAGTAATGTTGCCG+GGG 0.658672 6:+102223986 None:intergenic
TTACAGAATTTAAAACAACA+TGG 0.659407 6:+102226917 None:intergenic
ATTTAACAGAGAATCAGGAG+GGG 0.672016 6:-102225968 MsaT033913.1:CDS
TAAAATTATAAAGAACAACA+AGG 0.674441 6:-102226797 MsaT033913.1:CDS
TAAAAGCTACATCCGATGTG+AGG 0.675087 6:-102225063 MsaT033913.1:CDS
TGAAGAAGTTGACATTGCAA+AGG 0.677003 6:-102227739 MsaT033913.1:CDS
AAATTTAACAGAGAATCAGG+AGG 0.687710 6:-102225970 MsaT033913.1:CDS
CAAGCTCATGACCTGCACAC+AGG 0.691098 6:-102226835 MsaT033913.1:CDS
TCATGACCTGCACACAGGTG+TGG 0.696525 6:-102226830 MsaT033913.1:CDS
CAATGACCTTCACCTCACAT+CGG 0.701300 6:+102225051 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 102223454 102227922 102223454 ID=MsaG033913
Chr6 mRNA 102223454 102227922 102223454 ID=MsaT033913.1;Parent=MsaG033913
Chr6 exon 102223454 102223468 102223454 ID=MsaT033913.1.exon7;Parent=MsaT033913.1
Chr6 CDS 102223454 102223468 102223454 ID=cds.MsaT033913.1;Parent=MsaT033913.1
Chr6 exon 102223884 102224027 102223884 ID=MsaT033913.1.exon6;Parent=MsaT033913.1
Chr6 CDS 102223884 102224027 102223884 ID=cds.MsaT033913.1;Parent=MsaT033913.1
Chr6 exon 102224977 102225174 102224977 ID=MsaT033913.1.exon5;Parent=MsaT033913.1
Chr6 CDS 102224977 102225174 102224977 ID=cds.MsaT033913.1;Parent=MsaT033913.1
Chr6 exon 102225939 102226030 102225939 ID=MsaT033913.1.exon4;Parent=MsaT033913.1
Chr6 CDS 102225939 102226030 102225939 ID=cds.MsaT033913.1;Parent=MsaT033913.1
Chr6 exon 102226677 102226966 102226677 ID=MsaT033913.1.exon3;Parent=MsaT033913.1
Chr6 CDS 102226677 102226966 102226677 ID=cds.MsaT033913.1;Parent=MsaT033913.1
Chr6 exon 102227333 102227403 102227333 ID=MsaT033913.1.exon2;Parent=MsaT033913.1
Chr6 CDS 102227333 102227403 102227333 ID=cds.MsaT033913.1;Parent=MsaT033913.1
Chr6 exon 102227683 102227922 102227683 ID=MsaT033913.1.exon1;Parent=MsaT033913.1
Chr6 CDS 102227683 102227922 102227683 ID=cds.MsaT033913.1;Parent=MsaT033913.1
Gene Sequence

>MsaT033913.1

ATGCTTTCTTCGTGGAGGCAGAAGAGTAGTGATTCTTCACCCGAGAAAAGTTCTAGGGATGAGAATAATGCTCATGCGGTCAGATCTTCGAACTCTTCTCCAACTACTGTAGATAATTACGGGTACGCTGATAAAGAGCATGTCAAGCTAGAAAAAGATGATGAAGAAGTTGACATTGCAAAGGATGATGATTTAGGTGTTTCACAAGAGGATGAAGAGATTGCTGCTGTGCAAGAGCAGCGCATTGGGTTAATAATGGAAAATAAGATGAAACTAAGATGGCAGCAGAGTTTCTATTTCCTTTTTGATCCAACTGGGTTTGAGGAGGACAAGAATTTCCATGTTGTTTTAAATTCTGTAATAGCTGGCCACTATCATGTCACCGAGTATCTGGGATCTGCTGCATTTAGTAAAGCCATACAAGCTCATGACCTGCACACAGGTGTGGATGTTTGTATTAAAATTATAAAGAACAACAAGGATTTCTTTGATCAAAGCCTTGATGAAATCAAACTTCTCAAGTATGTCAATAAGCATGATCCTGGCGACAAGTATCACATTTTGCGATTATATGATTATTTTTCGATCTGCTACTCATCTTTGTGTGAACTACTCAAAGCCAACTTATACGAGTTTCATAAATTTAACAGAGAATCAGGAGGGGAAGTTTACTTCACAATGCCAAGATTGCAGTCAATTACCATTCAATGTTTGGAAGCACTTCAGTATTTACATAACCTTGGACTAATACATTGCGACTTGAAGCCGGAGAATATTTTGGTTAAAAGCTACATCCGATGTGAGGTGAAGGTCATTGATCTTGGAAGTAGTTGTTTTGAGACAGATCACCTTTGCTCATATGTTCAGTCCAGGTCCTATCGTGCTCCTGAGGTCTTATTTCAAAATGATTCCCCGGCAACATTACTTGCTAGGGTAATCGGGATCATCGGTCCAATTGGTCAAAGTATGCTAGCAAAAGGACGGGATACTTATAAGTACTTCACAAAAAATCATATGCTTTATGAGAGGAATCAGGAAAGCAACATGTAA

Protein sequence

>MsaT033913.1

MLSSWRQKSSDSSPEKSSRDENNAHAVRSSNSSPTTVDNYGYADKEHVKLEKDDEEVDIAKDDDLGVSQEDEEIAAVQEQRIGLIMENKMKLRWQQSFYFLFDPTGFEEDKNFHVVLNSVIAGHYHVTEYLGSAAFSKAIQAHDLHTGVDVCIKIIKNNKDFFDQSLDEIKLLKYVNKHDPGDKYHILRLYDYFSICYSSLCELLKANLYEFHKFNRESGGEVYFTMPRLQSITIQCLEALQYLHNLGLIHCDLKPENILVKSYIRCEVKVIDLGSSCFETDHLCSYVQSRSYRAPEVLFQNDSPATLLARVIGIIGPIGQSMLAKGRDTYKYFTKNHMLYERNQESNM*