AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG033044

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033044 MtrunA17_Chr6g0471041 81.967 366 48 3 1 357 1 357 0.0 601
MsaG033044 MtrunA17_Chr6g0471041 62.000 100 30 1 266 365 326 417 3.82e-28 114
MsaG033044 MtrunA17_Chr4g0009851 45.981 311 144 7 1 298 1 300 4.60e-72 227
MsaG033044 MtrunA17_Chr4g0009901 46.639 238 122 3 14 249 10 244 6.59e-62 199
MsaG033044 MtrunA17_Chr8g0383961 48.425 254 103 5 1 254 1 226 1.66e-60 196
MsaG033044 MtrunA17_Chr1g0161431 43.580 257 113 4 13 237 10 266 8.80e-60 203
MsaG033044 MtrunA17_Chr4g0009981 42.045 264 126 5 59 302 2 258 1.76e-53 177
MsaG033044 MtrunA17_Chr4g0067981 38.735 253 126 3 13 237 30 281 6.84e-50 177
MsaG033044 MtrunA17_Chr2g0294911 39.113 248 124 3 13 234 28 274 2.49e-49 175
MsaG033044 MtrunA17_Chr8g0376881 38.843 242 121 3 14 228 25 266 2.23e-48 171
MsaG033044 MtrunA17_Chr3g0123131 38.211 246 123 4 12 228 11 256 4.54e-48 171
MsaG033044 MtrunA17_Chr8g0391911 39.574 235 113 4 14 220 9 242 4.74e-42 147
MsaG033044 MtrunA17_Chr3g0137101 36.145 249 126 4 13 228 7 255 2.60e-40 150
MsaG033044 MtrunA17_Chr1g0149841 36.585 246 125 4 13 228 4 248 3.19e-39 145
MsaG033044 MtrunA17_Chr4g0074411 31.159 276 161 3 12 258 16 291 7.76e-39 146
MsaG033044 MtrunA17_Chr4g0074401 31.538 260 146 3 1 228 1 260 5.33e-38 143
MsaG033044 MtrunA17_Chr7g0275401 33.065 248 136 4 13 230 4 251 7.44e-37 135
MsaG033044 MtrunA17_Chr2g0304841 30.682 264 145 3 4 229 8 271 2.57e-35 136
MsaG033044 MtrunA17_Chr3g0134481 32.710 214 111 1 7 220 1 181 6.75e-34 124
MsaG033044 MtrunA17_Chr7g0275891 31.128 257 135 4 13 227 4 260 8.40e-32 122
MsaG033044 MtrunA17_Chr6g0456631 43.125 160 86 4 13 170 8 164 1.08e-30 115
MsaG033044 MtrunA17_Chr1g0149851 30.337 267 142 3 13 235 4 270 2.83e-30 121
MsaG033044 MtrunA17_Chr3g0134461 33.486 218 119 3 7 222 1 194 2.34e-29 112
MsaG033044 MtrunA17_Chr4g0074421 32.597 181 98 2 64 220 2 182 1.09e-28 110
MsaG033044 MtrunA17_Chr4g0011071 41.429 140 74 3 61 195 36 172 2.10e-27 106
MsaG033044 MtrunA17_Chr1g0149831 33.514 185 91 3 73 228 1 182 6.37e-26 103
MsaG033044 MtrunA17_Chr4g0009991 43.220 118 62 2 106 220 1 116 2.03e-24 96.7
MsaG033044 MtrunA17_Chr5g0423031 53.086 81 37 1 14 94 10 89 2.26e-18 82.0
MsaG033044 MtrunA17_Chr6g0473731 32.192 146 91 1 94 231 10 155 1.09e-17 84.0
MsaG033044 MtrunA17_Chr4g0010001 49.383 81 40 1 14 94 10 89 1.17e-17 77.4
MsaG033044 MtrunA17_Chr4g0031961 50.704 71 32 1 170 240 130 197 5.16e-15 75.1
MsaG033044 MtrunA17_Chr7g0255711 55.932 59 26 0 170 228 90 148 9.13e-15 73.9
MsaG033044 MtrunA17_Chr5g0400241 34.109 129 81 2 12 139 12 137 5.97e-13 70.1
MsaG033044 MtrunA17_Chr5g0400241 47.273 55 29 0 170 224 310 364 1.28e-11 65.9
MsaG033044 MtrunA17_Chr5g0417521 54.545 55 24 1 171 224 15 69 4.48e-12 66.6
MsaG033044 MtrunA17_Chr1g0198601 51.667 60 28 1 170 228 210 269 7.28e-12 66.2
MsaG033044 MtrunA17_Chr4g0054981 47.273 55 29 0 170 224 309 363 9.57e-12 66.2
MsaG033044 MtrunA17_Chr7g0261911 39.080 87 50 2 143 228 236 320 2.51e-11 64.7
MsaG033044 MtrunA17_Chr4g0042451 50.909 55 26 1 171 224 17 71 3.94e-11 63.5
MsaG033044 MtrunA17_Chr2g0321461 38.043 92 49 3 135 225 16 100 4.24e-11 63.9
MsaG033044 MtrunA17_Chr6g0461641 48.214 56 28 1 171 225 42 97 6.83e-11 63.2
MsaG033044 MtrunA17_Chr5g0422621 49.180 61 30 1 170 229 197 257 7.14e-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
MsaG033044 AT2G01760.1 38.996 259 121 5 13 234 6 264 1.72e-51 176
MsaG033044 AT2G01760.2 35.192 287 121 6 13 234 6 292 1.70e-45 161
MsaG033044 AT1G67710.1 40.239 251 118 6 17 236 10 259 1.74e-45 163
MsaG033044 AT3G16857.1 34.909 275 130 6 8 234 27 300 1.78e-43 160
MsaG033044 AT3G16857.2 34.909 275 130 6 8 234 27 300 2.08e-43 160
MsaG033044 AT2G25180.1 34.109 258 144 4 1 233 1 257 2.47e-38 145
MsaG033044 AT4G31920.1 35.317 252 148 5 1 238 1 251 1.00e-37 142
MsaG033044 AT3G16857.3 33.913 230 105 4 52 234 1 230 2.06e-35 137
MsaG033044 AT2G01760.3 38.265 196 84 5 76 234 4 199 1.06e-34 130
MsaG033044 AT5G58080.1 33.740 246 138 4 13 234 13 257 2.15e-34 134
MsaG033044 AT1G67710.2 38.660 194 89 4 73 236 1 194 2.89e-32 126
MsaG033044 AT5G49240.1 29.960 247 143 5 3 220 27 272 4.97e-29 114
MsaG033044 AT3G62670.1 31.513 238 131 7 19 229 42 274 2.25e-28 115
MsaG033044 AT1G49190.1 28.788 264 153 8 4 234 20 281 9.58e-27 110
MsaG033044 AT1G67710.3 39.655 174 75 4 93 236 12 185 3.60e-26 109
MsaG033044 AT5G07210.2 26.374 273 136 6 18 231 16 282 4.02e-19 89.4
MsaG033044 AT5G07210.1 27.731 238 107 6 53 231 59 290 4.45e-17 83.2
MsaG033044 AT5G59570.2 41.000 100 58 1 134 233 105 203 5.96e-16 77.8
MsaG033044 AT5G59570.1 41.000 100 58 1 134 233 105 203 5.96e-16 77.8
MsaG033044 AT3G46640.2 52.113 71 31 1 170 240 143 210 1.46e-15 77.0
MsaG033044 AT3G46640.1 52.113 71 31 1 170 240 143 210 1.46e-15 77.0
MsaG033044 AT3G46640.3 52.113 71 31 1 170 240 143 210 2.17e-15 76.6
MsaG033044 AT5G05090.1 55.932 59 26 0 170 228 80 138 7.72e-15 74.3
MsaG033044 AT2G40970.1 54.237 59 27 0 170 228 104 162 8.04e-15 73.9
MsaG033044 AT3G10760.1 55.932 59 26 0 170 228 104 162 9.75e-15 74.7
MsaG033044 AT1G49190.2 28.889 135 96 0 4 138 20 154 4.64e-14 73.9
MsaG033044 AT2G27070.1 52.381 63 29 1 166 228 221 282 9.05e-14 72.8
MsaG033044 AT3G04030.1 53.571 56 25 1 171 225 45 100 9.02e-12 66.2
MsaG033044 AT3G04030.3 53.571 56 25 1 171 225 45 100 9.47e-12 66.2
MsaG033044 AT3G04030.2 50.909 55 27 0 171 225 45 99 1.21e-11 65.9
MsaG033044 AT5G18240.2 53.571 56 25 1 171 225 45 100 1.51e-11 65.9
MsaG033044 AT5G18240.3 53.571 56 25 1 171 225 45 100 1.51e-11 65.9
MsaG033044 AT5G18240.5 53.571 56 25 1 171 225 45 100 1.60e-11 65.5
MsaG033044 AT5G18240.1 53.571 56 25 1 171 225 45 100 1.67e-11 65.5
MsaG033044 AT5G18240.4 53.571 56 25 1 171 225 45 100 1.67e-11 65.5
MsaG033044 AT5G44190.1 48.148 54 28 0 170 223 146 199 2.14e-11 65.1
MsaG033044 AT5G44190.2 48.148 54 28 0 170 223 146 199 2.49e-11 64.7

Find 48 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACAATTCTTAGAGGGTTTA+AGG 0.118099 6:+74458889 MsaT033044.1:CDS
CTAAGGGCTGTGAATCAATT+TGG 0.229550 6:+74459801 MsaT033044.1:CDS
CAATGCATCAAGAATTTCTA+AGG 0.275756 6:+74459784 MsaT033044.1:CDS
GCATATTGCTAGCCATTTAC+AGG 0.279083 6:+74459980 MsaT033044.1:CDS
CCCGTTTGCAATAGCCTTCA+TGG 0.290834 6:-74459562 None:intergenic
TCCACAACATTCATCAAAAT+TGG 0.291775 6:+74461343 MsaT033044.1:CDS
ACTTCCCCAACAATTCTTAG+AGG 0.375785 6:+74458881 MsaT033044.1:CDS
TGACAGGAATATTGATTTGT+TGG 0.378211 6:-74459237 None:intergenic
GATCAAATTCATGTTGATAA+TGG 0.381612 6:+74459678 MsaT033044.1:CDS
TAAACCCTCTAAGAATTGTT+GGG 0.382270 6:-74458886 None:intergenic
ACAATTCTTAGAGGGTTTAA+GGG 0.385698 6:+74458890 MsaT033044.1:CDS
TGATTTGTTGGGTAATTTGT+TGG 0.402510 6:-74459225 None:intergenic
ATTCAAGTGATGAATGTTCC+TGG 0.409770 6:+74459945 MsaT033044.1:CDS
TTAAACCCTCTAAGAATTGT+TGG 0.427205 6:-74458887 None:intergenic
GCCATCGTTGAAAAGTCAAT+TGG 0.430946 6:+74458948 MsaT033044.1:CDS
GACAGGAATATTGATTTGTT+GGG 0.435755 6:-74459236 None:intergenic
AATTTGTTGGAGAAAATCAT+AGG 0.440238 6:-74459212 None:intergenic
CCATGAAGGCTATTGCAAAC+GGG 0.441100 6:+74459562 MsaT033044.1:CDS
AGACTGATCAGTAAAATTGT+TGG 0.443399 6:-74461456 None:intergenic
TGTGCAGTGATGGGTGTTGA+TGG 0.445400 6:+74459525 MsaT033044.1:intron
TCCATGAAGGCTATTGCAAA+CGG 0.446848 6:+74459561 MsaT033044.1:CDS
AACGATGGCATTGTGGATAG+TGG 0.451069 6:-74458934 None:intergenic
TTATTGTCACATTGTATGAC+TGG 0.461320 6:-74461311 None:intergenic
AATTGAGACTTACTTTAAAG+AGG 0.462807 6:+74461165 MsaT033044.1:CDS
TTCAAAACATTAGACTGATC+AGG 0.466345 6:-74461377 None:intergenic
TTGCTTGAGACCATGTTAAA+CGG 0.467130 6:-74459764 None:intergenic
GGCAAAGAATCTTACTATCA+AGG 0.473824 6:-74459824 None:intergenic
AATGGCTCTTTCAACTGAGA+TGG 0.494149 6:+74458854 None:intergenic
TCATGTTGATGTGGTTGAAA+AGG 0.515561 6:+74459713 MsaT033044.1:CDS
TATATGTTCTTACTAATGAC+AGG 0.536013 6:-74459253 None:intergenic
TTAAAGAATGAAATACCAAA+AGG 0.536683 6:+74461206 MsaT033044.1:CDS
CTCATCACCTGGATTCATGT+TGG 0.553676 6:-74461567 None:intergenic
CTTCCCCAACAATTCTTAGA+GGG 0.553790 6:+74458882 MsaT033044.1:CDS
ACATGTGCAAACACGTTCCA+AGG 0.562980 6:+74459631 MsaT033044.1:CDS
CAATTAAAGAACTCATCACC+TGG 0.565714 6:-74461578 None:intergenic
TCAATTGGATGGAATTACAA+AGG 0.566461 6:+74458963 MsaT033044.1:CDS
TTGATTAGGTCATCACTCAA+AGG 0.569533 6:-74459606 None:intergenic
GATCAGTCCAACATGAATCC+AGG 0.574425 6:+74461560 MsaT033044.1:CDS
ATGAAATACCAAAAGGTGAG+TGG 0.583760 6:+74461213 MsaT033044.1:CDS
ATCAACAAGTGCATCCATGA+AGG 0.588196 6:+74459548 MsaT033044.1:CDS
TCGTTGAAAAGTCAATTGGA+TGG 0.597816 6:+74458952 MsaT033044.1:CDS
AAACCCTCTAAGAATTGTTG+GGG 0.603847 6:-74458885 None:intergenic
AAAAGAAGCATTAGAGCATG+TGG 0.613637 6:-74459113 None:intergenic
AATGCATCAAGAATTTCTAA+GGG 0.619626 6:+74459785 MsaT033044.1:CDS
AAAAGAATCTCATGTTGATG+TGG 0.621750 6:+74459704 MsaT033044.1:CDS
GTGAATGTCGGTGAATGTTG+TGG 0.625497 6:-74461524 None:intergenic
CATGAAGGCTATTGCAAACG+GGG 0.626135 6:+74459563 MsaT033044.1:CDS
ATATGCTCTCTTGTCAAACC+AGG 0.644357 6:-74459963 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 74458855 74461601 74458855 ID=MsaG033044
Chr6 mRNA 74458855 74461601 74458855 ID=MsaT033044.1;Parent=MsaG033044
Chr6 exon 74458855 74458984 74458855 ID=MsaT033044.1.exon1;Parent=MsaT033044.1
Chr6 CDS 74458855 74458984 74458855 ID=cds.MsaT033044.1;Parent=MsaT033044.1
Chr6 exon 74459110 74459262 74459110 ID=MsaT033044.1.exon2;Parent=MsaT033044.1
Chr6 CDS 74459110 74459262 74459110 ID=cds.MsaT033044.1;Parent=MsaT033044.1
Chr6 exon 74459532 74459831 74459532 ID=MsaT033044.1.exon3;Parent=MsaT033044.1
Chr6 CDS 74459532 74459831 74459532 ID=cds.MsaT033044.1;Parent=MsaT033044.1
Chr6 exon 74459925 74460001 74459925 ID=MsaT033044.1.exon4;Parent=MsaT033044.1
Chr6 CDS 74459925 74460001 74459925 ID=cds.MsaT033044.1;Parent=MsaT033044.1
Chr6 exon 74461164 74461601 74461164 ID=MsaT033044.1.exon5;Parent=MsaT033044.1
Chr6 CDS 74461164 74461601 74461164 ID=cds.MsaT033044.1;Parent=MsaT033044.1
Gene Sequence

>MsaT033044.1

ATGGCTCTTTCAACTGAGATGGAAGCACTTCCCCAACAATTCTTAGAGGGTTTAAGGGTTCTTGTGATTGATCATGACACCACTATCCACAATGCCATCGTTGAAAAGTCAATTGGATGGAATTACAAAGTTACCACATGCTCTAATGCTTCTTTTGCATTGACTCTTTTGAGGGAAGCAAAGGGTTGTTTTGATGTGATACTAATTGAAGAACTAATCTCAGACATGAATTCCTATGATTTTCTCCAACAAATTACCCAACAAATCAATATTCCTGTCATTATGATGGGTGTTGATGGATCAACAAGTGCATCCATGAAGGCTATTGCAAACGGGGCTTGTGAGTATTGTGTTAAGCCTTTGAGTGATGACCTAATCAAAAACATGTGCAAACACGTTCCAAGGAAAACTTTGAATGAAACTAAACATGATCAAATTCATGTTGATAATGGCACAAAAGAATCTCATGTTGATGTGGTTGAAAAGGATAATTATCAACCCCCAACAAAAAAGAACCGTTTAACATGGTCTCAAGCAATGCATCAAGAATTTCTAAGGGCTGTGAATCAATTTGGCCTTGATAATGCAAAACCAAAAAAAATTATTCAAGTGATGAATGTTCCTGGTTTGACAAGAGAGCATATTGCTAGCCATTTACAGAAATTGAGACTTACTTTAAAGAGGTCAAATGAAGTGACACAGTTAAAGAATGAAATACCAAAAGGTGAGTGGAAAAAATCAAAGCAGGATCAATGTCATCTTGAAGCTGCTAAGTCAACGCCAGAACTTGATCAAAATGTTAAAAATCCAGTCATACAATGTGACAATAATTCTCATGCTCCACAACATTCATCAAAATTGGCCAACATTTTTCCTGATCAGTCTAATGTTTTGAATTCGATCATACAATATGACAATAACTATCAAGCACTACAACATTCACTGACATTTACCAACAATTTTACTGATCAGTCTAATGTTATGAATTCAGTCATACAACATGACAATAATTCTCATGCACCACAACATTCACCGACATTCACCAATATTTTTACTGATCAGTCCAACATGAATCCAGGTGATGAGTTCTTTAATTGA
Protein sequence

>MsaT033044.1

MALSTEMEALPQQFLEGLRVLVIDHDTTIHNAIVEKSIGWNYKVTTCSNASFALTLLREAKGCFDVILIEELISDMNSYDFLQQITQQINIPVIMMGVDGSTSASMKAIANGACEYCVKPLSDDLIKNMCKHVPRKTLNETKHDQIHVDNGTKESHVDVVEKDNYQPPTKKNRLTWSQAMHQEFLRAVNQFGLDNAKPKKIIQVMNVPGLTREHIASHLQKLRLTLKRSNEVTQLKNEIPKGEWKKSKQDQCHLEAAKSTPELDQNVKNPVIQCDNNSHAPQHSSKLANIFPDQSNVLNSIIQYDNNYQALQHSLTFTNNFTDQSNVMNSVIQHDNNSHAPQHSPTFTNIFTDQSNMNPGDEFFN*