AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG033034

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033034 MtrunA17_Chr6g0471041 82.412 398 60 2 1 397 7 395 0.0 662
MsaG033034 MtrunA17_Chr4g0009851 45.333 300 143 6 5 295 8 295 4.53e-71 229
MsaG033034 MtrunA17_Chr4g0009901 47.500 240 121 3 8 245 10 246 5.68e-62 204
MsaG033034 MtrunA17_Chr8g0383961 47.191 267 111 6 1 265 7 245 1.15e-59 197
MsaG033034 MtrunA17_Chr1g0161431 41.154 260 115 2 7 231 10 266 1.87e-58 204
MsaG033034 MtrunA17_Chr4g0009981 43.651 252 122 5 53 295 2 242 1.95e-55 186
MsaG033034 MtrunA17_Chr4g0067981 37.945 253 128 3 7 231 30 281 1.30e-47 175
MsaG033034 MtrunA17_Chr2g0294911 38.306 248 126 3 7 228 28 274 2.65e-47 173
MsaG033034 MtrunA17_Chr8g0376881 38.866 247 120 6 8 225 25 269 4.30e-46 169
MsaG033034 MtrunA17_Chr3g0123131 36.220 254 123 4 6 225 11 259 6.75e-45 166
MsaG033034 MtrunA17_Chr8g0391911 39.676 247 119 5 8 225 9 254 2.22e-42 151
MsaG033034 MtrunA17_Chr3g0137101 33.455 275 147 5 7 248 7 278 3.29e-39 151
MsaG033034 MtrunA17_Chr4g0074411 33.740 246 137 2 6 225 16 261 4.74e-38 147
MsaG033034 MtrunA17_Chr4g0074401 31.727 249 141 2 6 225 15 263 5.92e-37 144
MsaG033034 MtrunA17_Chr7g0275401 32.794 247 136 3 7 223 4 250 6.46e-36 135
MsaG033034 MtrunA17_Chr1g0149841 34.553 246 130 4 7 222 4 248 3.44e-35 137
MsaG033034 MtrunA17_Chr2g0304841 30.196 255 140 5 7 223 17 271 3.77e-33 133
MsaG033034 MtrunA17_Chr3g0134481 31.776 214 113 1 1 214 1 181 2.83e-32 122
MsaG033034 MtrunA17_Chr6g0456631 43.506 154 84 3 7 158 8 160 8.41e-31 117
MsaG033034 MtrunA17_Chr1g0149851 29.851 268 142 4 7 229 4 270 1.80e-29 121
MsaG033034 MtrunA17_Chr4g0074421 32.597 181 98 2 58 214 2 182 9.74e-29 112
MsaG033034 MtrunA17_Chr7g0275891 30.739 257 136 6 7 221 4 260 1.26e-28 116
MsaG033034 MtrunA17_Chr4g0011071 42.446 139 74 2 55 189 36 172 1.63e-28 111
MsaG033034 MtrunA17_Chr3g0134461 33.175 211 117 3 7 216 7 194 1.25e-27 109
MsaG033034 MtrunA17_Chr4g0009991 44.915 118 60 2 100 214 1 116 1.56e-23 95.9
MsaG033034 MtrunA17_Chr1g0149831 32.432 185 93 3 67 222 1 182 2.50e-23 98.6
MsaG033034 MtrunA17_Chr6g0473731 32.432 148 80 3 88 221 10 151 2.97e-17 84.3
MsaG033034 MtrunA17_Chr5g0423031 51.852 81 38 1 8 88 10 89 3.64e-17 79.7
MsaG033034 MtrunA17_Chr4g0010001 46.914 81 42 1 8 88 10 89 1.13e-15 72.4
MsaG033034 MtrunA17_Chr4g0031961 50.704 71 32 1 164 234 130 197 1.11e-14 75.1
MsaG033034 MtrunA17_Chr7g0255711 55.932 59 26 0 164 222 90 148 2.02e-14 73.9
MsaG033034 MtrunA17_Chr5g0400241 33.333 129 82 2 6 133 12 137 2.13e-12 69.3
MsaG033034 MtrunA17_Chr5g0400241 47.273 55 29 0 164 218 310 364 2.71e-11 65.9
MsaG033034 MtrunA17_Chr5g0417521 54.545 55 24 1 165 218 15 69 1.03e-11 66.6
MsaG033034 MtrunA17_Chr4g0054981 35.955 89 52 1 130 218 280 363 1.23e-11 67.0
MsaG033034 MtrunA17_Chr1g0198601 51.667 60 28 1 164 222 210 269 3.06e-11 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033034 AT2G01760.1 38.889 252 118 4 7 222 6 257 2.94e-50 177
MsaG033034 AT2G01760.2 40.807 223 96 4 36 222 63 285 2.25e-45 164
MsaG033034 AT3G16857.1 33.455 275 134 5 2 228 27 300 3.05e-42 160
MsaG033034 AT3G16857.2 33.455 275 134 5 2 228 27 300 4.39e-42 160
MsaG033034 AT1G67710.1 38.000 250 125 4 11 230 10 259 5.44e-42 157
MsaG033034 AT2G25180.1 33.730 252 141 3 1 227 7 257 2.54e-37 145
MsaG033034 AT4G31920.1 34.583 240 143 4 7 232 12 251 1.77e-35 139
MsaG033034 AT2G01760.3 39.683 189 78 4 70 222 4 192 4.66e-35 134
MsaG033034 AT3G16857.3 33.043 230 107 3 46 228 1 230 4.67e-35 139
MsaG033034 AT5G58080.1 31.707 246 143 3 7 228 13 257 4.39e-33 133
MsaG033034 AT1G67710.2 38.144 194 90 4 67 230 1 194 5.99e-30 122
MsaG033034 AT5G49240.1 29.661 236 136 6 8 214 38 272 6.98e-27 110
MsaG033034 AT3G62670.1 30.252 238 134 7 13 223 42 274 8.03e-27 113
MsaG033034 AT1G49190.1 27.059 255 152 5 1 222 23 276 2.50e-24 105
MsaG033034 AT1G67710.3 39.080 174 76 4 87 230 12 185 3.26e-24 105
MsaG033034 AT5G59570.2 41.000 100 58 1 128 227 105 203 1.29e-15 78.2
MsaG033034 AT5G59570.1 41.000 100 58 1 128 227 105 203 1.29e-15 78.2
MsaG033034 AT3G46640.2 52.113 71 31 1 164 234 143 210 1.84e-15 77.8
MsaG033034 AT3G46640.1 52.113 71 31 1 164 234 143 210 1.84e-15 77.8
MsaG033034 AT3G46640.3 52.113 71 31 1 164 234 143 210 2.64e-15 77.4
MsaG033034 AT5G07210.1 52.459 61 29 0 162 222 227 287 1.55e-14 76.6
MsaG033034 AT5G05090.1 55.932 59 26 0 164 222 80 138 1.63e-14 74.3
MsaG033034 AT5G07210.2 52.459 61 29 0 162 222 219 279 1.65e-14 76.6
MsaG033034 AT2G40970.1 54.237 59 27 0 164 222 104 162 1.70e-14 73.9
MsaG033034 AT3G10760.1 55.932 59 26 0 164 222 104 162 2.06e-14 75.1
MsaG033034 AT2G27070.1 50.820 61 30 0 162 222 222 282 3.80e-13 72.4
MsaG033034 AT1G49190.2 28.030 132 95 0 1 132 23 154 5.12e-13 72.0
MsaG033034 AT3G04030.1 53.571 56 25 1 165 219 45 100 1.89e-11 66.2
MsaG033034 AT3G04030.3 53.571 56 25 1 165 219 45 100 2.14e-11 66.2
MsaG033034 AT3G04030.2 50.909 55 27 0 165 219 45 99 2.62e-11 65.9
MsaG033034 AT5G44190.1 48.148 54 28 0 164 217 146 199 4.49e-11 65.1
MsaG033034 AT5G44190.2 48.148 54 28 0 164 217 146 199 4.78e-11 64.7

Find 77 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATGCATCAAGAATTTCTA+AGG 0.275756 6:-74183926 MsaT033034.1:CDS
GCATATTGCTAGCCATTTAC+AGG 0.279083 6:-74183730 MsaT033034.1:intron
TCCACAACATTCATCAAAAT+TGG 0.291775 6:-74182849 MsaT033034.1:CDS
CATCAGACTGATCAGTAAAA+AGG 0.315666 6:+74182912 None:intergenic
GGACTGATCAGTAAAATTAT+TGG 0.322179 6:+74182646 None:intergenic
AAAAGAAACTCATGTTGATA+TGG 0.344142 6:-74184006 MsaT033034.1:CDS
GATCAAATTCATGTTGATAA+TGG 0.375219 6:-74184032 MsaT033034.1:CDS
TTTGAGATGTGTAGTGTATT+GGG 0.376144 6:+74181378 None:intergenic
TGACAGGAATATTGATTTGT+TGG 0.378211 6:+74184298 None:intergenic
CTAAGGGCTGTGAATCAGTT+TGG 0.378849 6:-74183909 MsaT033034.1:CDS
TGATTTGTTGGGTAATTTGT+TGG 0.402510 6:+74184310 None:intergenic
CTTCCTACTGAAACACAATT+AGG 0.403491 6:-74183043 MsaT033034.1:CDS
ATTCAAGTGATGAATGTTCC+TGG 0.409770 6:-74183765 MsaT033034.1:CDS
AACGATGGCATTATGGATAG+TGG 0.418605 6:+74184600 None:intergenic
CTATGAAGGCTATTGCAAAC+GGG 0.418613 6:-74184148 MsaT033034.1:CDS
GCTATGAAGGCTATTGCAAA+CGG 0.428459 6:-74184149 MsaT033034.1:CDS
GATGGATCTGTCGTGGTTCA+AGG 0.430991 6:-74181221 MsaT033034.1:CDS
GTGGGTTTAACAGCGGCAAT+AGG 0.432276 6:-74181180 MsaT033034.1:CDS
GACAGGAATATTGATTTGTT+GGG 0.435755 6:+74184299 None:intergenic
AATTTGTTGGAGAAAATCAT+AGG 0.440238 6:+74184323 None:intergenic
TTAGGCCGTCTAAGAATTGT+TGG 0.445891 6:+74184647 None:intergenic
TCTGATGGGTTACGACGGTT+TGG 0.446297 6:+74181443 None:intergenic
TAGGCCGTCTAAGAATTGTT+GGG 0.453307 6:+74184648 None:intergenic
TATGCAGTGATGGGTGTTGA+TGG 0.456558 6:-74184185 MsaT033034.1:intron
AGACTGAGCAGTAAAATTGT+TGG 0.459077 6:+74182736 None:intergenic
AATTGAGACTTACTTTAAAG+AGG 0.462807 6:-74183141 MsaT033034.1:CDS
TCGATGAATGTTGTGGTGAA+TGG 0.464279 6:+74182945 None:intergenic
TTCAAAACATTAGACTGATC+AGG 0.466345 6:+74182815 None:intergenic
TTATTGTCACATTGTATGAC+AGG 0.466387 6:+74182971 None:intergenic
TTGCTTGAGACCATGTTAAA+CGG 0.467130 6:+74183946 None:intergenic
TGGGTGCTGTTTGGTTGCAA+TGG 0.467767 6:+74181397 None:intergenic
GTAGTGTATTGGGTGCTGTT+TGG 0.468241 6:+74181388 None:intergenic
TACTGGTTGTGATGGTCTGA+TGG 0.470824 6:+74181428 None:intergenic
GGCAAAGAATCTTACTATCA+AGG 0.473824 6:+74183886 None:intergenic
AACAACAGCCGCTGTTACAC+TGG 0.482476 6:-74181466 MsaT033034.1:CDS
ATCAACAAGTGCAGCTATGA+AGG 0.487052 6:-74184162 MsaT033034.1:CDS
CAGATCTGTGCAGAAGGAAC+TGG 0.490699 6:-74181255 MsaT033034.1:CDS
GTCGCGCGCGGTGGCAACAG+TGG 0.493619 6:-74181199 MsaT033034.1:CDS
CGGCGGTTTGGATGTTGTTG+TGG 0.500898 6:+74181498 None:intergenic
GATCAATCACAAGAACCTTT+AGG 0.516587 6:+74184629 None:intergenic
ACAATTCTTAGACGGCCTAA+AGG 0.517558 6:-74184644 MsaT033034.1:CDS
GGCGACATGAACGGCGACGA+TGG 0.528557 6:-74181133 MsaT033034.1:CDS
ATGAAAAGCCAAAAGGTAAG+TGG 0.529920 6:-74183093 MsaT033034.1:CDS
TCAATTGGATGGGATTTCAA+AGG 0.530454 6:-74184571 MsaT033034.1:intron
TTAAAGAATGAAAAGCCAAA+AGG 0.534779 6:-74183100 MsaT033034.1:CDS
TATATGTTCTTACTAATGAC+AGG 0.536013 6:+74184282 None:intergenic
CTTCCCCAACAATTCTTAGA+CGG 0.540784 6:-74184652 MsaT033034.1:CDS
GTAAAATTGTTGGTAAATGT+CGG 0.544091 6:+74182746 None:intergenic
TCGCGCGCGGTGGCAACAGT+GGG 0.544650 6:-74181198 MsaT033034.1:CDS
GCGACATGAACGGCGACGAT+GGG 0.545956 6:-74181132 MsaT033034.1:CDS
CTCATCACCTGGATTCATGT+TGG 0.553676 6:+74182625 None:intergenic
AGACCTAATTGTGTTTCAGT+AGG 0.555876 6:+74183040 None:intergenic
ATGAACGACGGCGACATGAA+CGG 0.559387 6:-74181142 MsaT033034.1:CDS
TTTGATTTGTAACAGTGTTG+AGG 0.566227 6:+74181539 None:intergenic
TGGTTCAAGGTCGCGCGCGG+TGG 0.566505 6:-74181208 MsaT033034.1:CDS
TTGATTAGGTCATCACTCAA+AGG 0.569533 6:+74184104 None:intergenic
GATCAGTCCAACATGAATCC+AGG 0.574425 6:-74182632 MsaT033034.1:intron
ACATGTGCAAACATGTTCCA+AGG 0.586197 6:-74184079 MsaT033034.1:CDS
AACAGCGGCAATAGGTTGAA+CGG 0.586574 6:-74181172 MsaT033034.1:CDS
TAAACACAGATCTGTGCAGA+AGG 0.601293 6:-74181261 MsaT033034.1:intron
AGGCCGTCTAAGAATTGTTG+GGG 0.604607 6:+74184649 None:intergenic
GCAAATATCGATGAATGTTG+TGG 0.607587 6:+74182938 None:intergenic
AAAAGAAGCATTAGAGCATG+TGG 0.613637 6:+74184422 None:intergenic
ACTGGTTGTGATGGTCTGAT+GGG 0.618013 6:+74181429 None:intergenic
AATGCATCAAGAATTTCTAA+GGG 0.619626 6:-74183925 MsaT033034.1:CDS
TCGTGGTTCAAGGTCGCGCG+CGG 0.621989 6:-74181211 MsaT033034.1:CDS
TTACAAATCAAACATCATAG+AGG 0.633396 6:-74181528 MsaT033034.1:CDS
GAACTGGCAGCTGACAGTGA+TGG 0.641611 6:-74181239 MsaT033034.1:CDS
ATATGCTCTCTTGTCAAACC+AGG 0.644357 6:+74183747 None:intergenic
AACGGCGGCGACATGAACGA+CGG 0.661615 6:-74181154 MsaT033034.1:CDS
GCGAATGTCGATGAATGTTG+TGG 0.682254 6:+74182668 None:intergenic
TGACAGTGATGGATCTGTCG+TGG 0.683968 6:-74181228 MsaT033034.1:CDS
GGCAACAGTGGGTTTAACAG+CGG 0.690134 6:-74181187 MsaT033034.1:CDS
CGGTTTGGCCAGTGTAACAG+CGG 0.695613 6:+74181458 None:intergenic
TATGAAGGCTATTGCAAACG+GGG 0.700349 6:-74184147 MsaT033034.1:CDS
GATGGTCTGATGGGTTACGA+CGG 0.716400 6:+74181438 None:intergenic
AGCGGCAATAGGTTGAACGG+CGG 0.733730 6:-74181169 MsaT033034.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 74181123 74184683 74181123 ID=MsaG033034
Chr6 mRNA 74181123 74184683 74181123 ID=MsaT033034.1;Parent=MsaG033034
Chr6 exon 74181123 74181274 74181123 ID=MsaT033034.1.exon7;Parent=MsaT033034.1
Chr6 CDS 74181123 74181274 74181123 ID=cds.MsaT033034.1;Parent=MsaT033034.1
Chr6 exon 74181354 74181569 74181354 ID=MsaT033034.1.exon6;Parent=MsaT033034.1
Chr6 CDS 74181354 74181569 74181354 ID=cds.MsaT033034.1;Parent=MsaT033034.1
Chr6 exon 74182633 74183164 74182633 ID=MsaT033034.1.exon5;Parent=MsaT033034.1
Chr6 CDS 74182633 74183164 74182633 ID=cds.MsaT033034.1;Parent=MsaT033034.1
Chr6 exon 74183731 74183807 74183731 ID=MsaT033034.1.exon4;Parent=MsaT033034.1
Chr6 CDS 74183731 74183807 74183731 ID=cds.MsaT033034.1;Parent=MsaT033034.1
Chr6 exon 74183901 74184200 74183901 ID=MsaT033034.1.exon3;Parent=MsaT033034.1
Chr6 CDS 74183901 74184200 74183901 ID=cds.MsaT033034.1;Parent=MsaT033034.1
Chr6 exon 74184295 74184447 74184295 ID=MsaT033034.1.exon2;Parent=MsaT033034.1
Chr6 CDS 74184295 74184447 74184295 ID=cds.MsaT033034.1;Parent=MsaT033034.1
Chr6 exon 74184572 74184683 74184572 ID=MsaT033034.1.exon1;Parent=MsaT033034.1
Chr6 CDS 74184572 74184683 74184572 ID=cds.MsaT033034.1;Parent=MsaT033034.1
Gene Sequence

>MsaT033034.1

ATGGAGGCACTTCCCCAACAATTCTTAGACGGCCTAAAGGTTCTTGTGATTGATCATGACGCCACTATCCATAATGCCATCGTTGAAAAATCAATTGGATGGGATTTCAAAGTTACCACATGCTCTAATGCTTCTTTTGCATTGACTCTTTTGAGGGAAGCAAAGGGTTGTTTTGATGTGATACTAATTGAAGAACAAATCTCAGACATGAATTCCTATGATTTTCTCCAACAAATTACCCAACAAATCAATATTCCTGTCATTATGATGGGTGTTGATGGATCAACAAGTGCAGCTATGAAGGCTATTGCAAACGGGGCTTGTGAGTATTGTGTTAAGCCTTTGAGTGATGACCTAATCAAAAACATGTGCAAACATGTTCCAAGGAAAGTTTTGAATGAAAATAAACAAGATCAAATTCATGTTGATAATGGCACAAAAGAAACTCATGTTGATATGGTTGAAGAGAATAATTATGAACCCCCAACAAAAAAGAACCGTTTAACATGGTCTCAAGCAATGCATCAAGAATTTCTAAGGGCTGTGAATCAGTTTGGCCTTGATAATGCAAAACCAAAAAAAATTATTCAAGTGATGAATGTTCCTGGTTTGACAAGAGAGCATATTGCTAGCCATTTACAGAAATTGAGACTTACTTTAAAGAGGTCAGATAAAGTGACACAATTAAAGAATGAAAAGCCAAAAGGTAAGTGGAAAAAATCAAATCAGGATCAATGTCATCTTCCTACTGAAACACAATTAGGTCTTGAAGCTGTTAAGTCAACGCCAGAACTTGATCAAAATGTTAAAAATCCTGTCATACAATGTGACAATAATTTCCATTCACCACAACATTCATCGATATTTGCAAACCTTTTTACTGATCAGTCTGATGTTCAGAATTCAATCATACAATGTGACAATAACTCTCATGCTCCACAACATTCATCAAAATTGGCCAACATTTTTCCTGATCAGTCTAATGTTTTGAATTTGATCATACAATGTGACAATAATTATCATGCACTACAACATTCACCGACATTTACCAACAATTTTACTGCTCAGTCTAATGTTATGAATTCAGTCATACAATGTGACAATAATTCTCATGCACCACAACATTCATCGACATTCGCCAATAATTTTACTGATCAGTCCAACATGAATCCAGATTCAAAACCTCAACACTGTTACAAATCAAACATCATAGAGGCGTGCAACCACAACAACATCCAAACCGCCGTGATATCAAAACAACAGCCGCTGTTACACTGGCCAAACCGTCGTAACCCATCAGACCATCACAACCAGTATCGAAAATCCATTGCAACCAAACAGCACCCAATACACTACACATCTCAAAAATTGATCCAAAAATCCAAAAAAGATCTGTGCAGAAGGAACTGGCAGCTGACAGTGATGGATCTGTCGTGGTTCAAGGTCGCGCGCGGTGGCAACAGTGGGTTTAACAGCGGCAATAGGTTGAACGGCGGCGACATGAACGACGGCGACATGAACGGCGACGATGGGTTTTTTTAG
Protein sequence

>MsaT033034.1

MEALPQQFLDGLKVLVIDHDATIHNAIVEKSIGWDFKVTTCSNASFALTLLREAKGCFDVILIEEQISDMNSYDFLQQITQQINIPVIMMGVDGSTSAAMKAIANGACEYCVKPLSDDLIKNMCKHVPRKVLNENKQDQIHVDNGTKETHVDMVEENNYEPPTKKNRLTWSQAMHQEFLRAVNQFGLDNAKPKKIIQVMNVPGLTREHIASHLQKLRLTLKRSDKVTQLKNEKPKGKWKKSNQDQCHLPTETQLGLEAVKSTPELDQNVKNPVIQCDNNFHSPQHSSIFANLFTDQSDVQNSIIQCDNNSHAPQHSSKLANIFPDQSNVLNLIIQCDNNYHALQHSPTFTNNFTAQSNVMNSVIQCDNNSHAPQHSSTFANNFTDQSNMNPDSKPQHCYKSNIIEACNHNNIQTAVISKQQPLLHWPNRRNPSDHHNQYRKSIATKQHPIHYTSQKLIQKSKKDLCRRNWQLTVMDLSWFKVARGGNSGFNSGNRLNGGDMNDGDMNGDDGFF*