AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG023956

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG023956 MtrunA17_Chr8g0383961 71.429 308 36 7 1 300 1 264 5.38e-133 379
MsaG023956 MtrunA17_Chr6g0471041 51.622 339 128 7 1 325 1 317 9.06e-102 305
MsaG023956 MtrunA17_Chr4g0009851 48.476 328 136 8 1 313 1 310 2.34e-92 277
MsaG023956 MtrunA17_Chr4g0009981 47.601 271 113 6 58 313 1 257 2.05e-74 229
MsaG023956 MtrunA17_Chr4g0009901 44.983 289 127 6 1 278 1 268 1.03e-70 221
MsaG023956 MtrunA17_Chr1g0161431 37.766 376 164 9 12 320 9 381 4.80e-68 224
MsaG023956 MtrunA17_Chr8g0391911 42.562 242 101 5 9 213 4 244 1.23e-53 176
MsaG023956 MtrunA17_Chr2g0294911 42.083 240 105 2 13 218 28 267 2.84e-51 179
MsaG023956 MtrunA17_Chr8g0376881 38.462 260 121 3 14 237 25 281 3.63e-49 172
MsaG023956 MtrunA17_Chr4g0067981 40.083 242 109 2 13 218 30 271 9.17e-49 173
MsaG023956 MtrunA17_Chr3g0123131 37.500 272 130 4 14 247 13 282 4.40e-48 169
MsaG023956 MtrunA17_Chr6g0456631 47.134 157 70 4 9 153 4 159 9.15e-42 143
MsaG023956 MtrunA17_Chr4g0011071 50.735 136 56 2 61 185 36 171 7.55e-41 140
MsaG023956 MtrunA17_Chr4g0074411 33.840 263 132 3 14 234 18 280 1.38e-40 149
MsaG023956 MtrunA17_Chr4g0074401 35.458 251 124 3 14 226 17 267 1.30e-39 147
MsaG023956 MtrunA17_Chr3g0137101 35.081 248 119 3 13 218 7 254 1.85e-38 144
MsaG023956 MtrunA17_Chr3g0134481 37.186 199 101 1 13 211 7 181 2.89e-38 134
MsaG023956 MtrunA17_Chr1g0149841 34.836 244 121 2 13 218 4 247 2.38e-37 139
MsaG023956 MtrunA17_Chr2g0304841 31.559 263 133 3 6 221 10 272 1.71e-36 139
MsaG023956 MtrunA17_Chr7g0275401 32.661 248 128 3 13 221 4 251 1.05e-35 130
MsaG023956 MtrunA17_Chr4g0009991 53.448 116 44 2 106 211 1 116 5.98e-34 121
MsaG023956 MtrunA17_Chr3g0134461 36.139 202 114 3 13 213 7 194 4.38e-33 121
MsaG023956 MtrunA17_Chr7g0275891 31.783 258 125 4 13 219 4 261 2.71e-32 123
MsaG023956 MtrunA17_Chr4g0074421 35.870 184 85 2 65 215 3 186 1.96e-30 114
MsaG023956 MtrunA17_Chr1g0149851 30.888 259 126 3 13 218 4 262 1.70e-29 118
MsaG023956 MtrunA17_Chr5g0423031 54.255 94 38 2 1 94 1 89 7.72e-24 96.3
MsaG023956 MtrunA17_Chr4g0010001 55.556 81 35 1 14 94 10 89 1.28e-21 87.4
MsaG023956 MtrunA17_Chr8g0350761 26.299 308 157 8 18 268 21 315 3.97e-21 93.6
MsaG023956 MtrunA17_Chr1g0181811 31.707 123 79 2 18 136 85 206 2.61e-14 73.9
MsaG023956 MtrunA17_Chr6g0473731 32.353 170 95 6 94 246 10 176 2.65e-14 73.2
MsaG023956 MtrunA17_Chr4g0030271 34.146 123 76 2 18 136 89 210 1.13e-13 72.0
MsaG023956 MtrunA17_Chr8g0345901 31.452 124 82 1 16 136 34 157 1.43e-13 71.6
MsaG023956 MtrunA17_Chr3g0127941 30.328 122 82 1 18 136 56 177 2.74e-13 70.5
MsaG023956 MtrunA17_Chr7g0276361 30.400 125 84 1 15 136 11 135 2.91e-13 70.5
MsaG023956 MtrunA17_Chr4g0031961 55.172 58 26 0 161 218 130 187 7.51e-13 68.2
MsaG023956 MtrunA17_Chr5g0417521 48.571 70 34 2 162 230 15 83 1.02e-11 65.1
MsaG023956 MtrunA17_Chr5g0400241 29.197 137 90 4 5 139 6 137 1.10e-11 65.5
MsaG023956 MtrunA17_Chr7g0255711 51.724 58 28 0 161 218 90 147 1.40e-11 64.3
MsaG023956 MtrunA17_Chr4g0054981 51.923 52 25 0 161 212 309 360 8.58e-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
MsaG023956 AT2G01760.1 37.548 261 118 2 13 228 6 266 5.46e-50 171
MsaG023956 AT2G01760.2 33.910 289 118 3 13 228 6 294 3.07e-44 156
MsaG023956 AT3G16857.1 34.831 267 118 2 8 218 27 293 2.50e-42 155
MsaG023956 AT3G16857.2 34.831 267 118 2 8 218 27 293 2.87e-42 155
MsaG023956 AT1G67710.1 38.095 252 117 5 15 227 8 259 2.57e-41 150
MsaG023956 AT2G25180.1 36.508 252 125 4 1 218 1 251 3.54e-40 149
MsaG023956 AT4G31920.1 37.860 243 122 5 1 218 1 239 2.63e-38 143
MsaG023956 AT2G01760.3 35.323 201 85 2 73 228 1 201 2.03e-32 123
MsaG023956 AT3G16857.3 33.632 223 92 2 52 218 1 223 2.64e-32 127
MsaG023956 AT5G58080.1 30.962 239 131 3 13 218 13 250 1.90e-30 121
MsaG023956 AT1G49190.1 29.688 256 137 5 5 218 21 275 7.37e-29 115
MsaG023956 AT1G67710.2 37.113 194 83 5 73 227 1 194 1.39e-27 112
MsaG023956 AT3G62670.1 31.381 239 125 6 19 224 42 274 8.49e-27 109
MsaG023956 AT5G49240.1 28.125 256 135 3 3 215 27 276 6.13e-26 105
MsaG023956 AT1G49190.2 35.878 131 84 0 6 136 22 152 9.51e-21 93.6
MsaG023956 AT1G67710.3 35.632 174 73 5 93 227 12 185 8.68e-19 87.0
MsaG023956 AT5G60100.2 33.607 122 78 1 18 136 64 185 2.44e-16 80.1
MsaG023956 AT5G60100.5 33.607 122 78 1 18 136 64 185 2.64e-16 79.7
MsaG023956 AT5G60100.3 33.607 122 78 1 18 136 64 185 2.64e-16 79.7
MsaG023956 AT5G60100.1 33.607 122 78 1 18 136 64 185 2.64e-16 79.7
MsaG023956 AT5G60100.7 33.607 122 78 1 18 136 64 185 3.11e-16 79.3
MsaG023956 AT5G60100.6 33.607 122 78 1 18 136 64 185 3.11e-16 79.3
MsaG023956 AT5G60100.4 33.607 122 78 1 18 136 64 185 3.11e-16 79.3
MsaG023956 AT2G46790.1 32.520 123 80 1 18 137 37 159 4.29e-15 76.3
MsaG023956 AT2G46790.3 32.520 123 80 1 18 137 37 159 5.43e-15 75.9
MsaG023956 AT5G24470.1 31.148 122 81 1 18 136 50 171 2.81e-14 73.9
MsaG023956 AT5G59570.2 54.237 59 27 0 160 218 139 197 1.77e-13 70.5
MsaG023956 AT5G59570.1 54.237 59 27 0 160 218 139 197 1.77e-13 70.5
MsaG023956 AT3G46640.2 55.172 58 26 0 161 218 143 200 4.27e-13 69.3
MsaG023956 AT3G46640.1 55.172 58 26 0 161 218 143 200 4.27e-13 69.3
MsaG023956 AT3G46640.3 55.172 58 26 0 161 218 143 200 4.64e-13 69.3
MsaG023956 AT5G07210.1 39.423 104 61 2 132 234 199 301 4.96e-12 67.0
MsaG023956 AT5G02810.1 31.148 122 81 1 18 136 78 199 5.22e-12 67.0
MsaG023956 AT5G07210.2 39.423 104 61 2 132 234 191 293 5.54e-12 67.0
MsaG023956 AT5G44190.1 53.704 54 25 0 159 212 144 197 7.53e-12 66.2
MsaG023956 AT5G44190.2 53.704 54 25 0 159 212 144 197 7.70e-12 65.9
MsaG023956 AT2G40970.1 50.000 58 29 0 161 218 104 161 8.32e-12 64.7
MsaG023956 AT5G05090.1 51.724 58 28 0 161 218 80 137 9.45e-12 64.7
MsaG023956 AT5G61380.1 29.508 122 83 1 18 136 19 140 1.20e-11 65.9
MsaG023956 AT3G10760.1 51.724 58 28 0 161 218 104 161 1.31e-11 65.1
MsaG023956 AT3G04030.1 52.727 55 25 1 162 215 45 99 7.45e-11 63.2
MsaG023956 AT3G04030.3 52.727 55 25 1 162 215 45 99 8.30e-11 63.2

Find 55 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGATTTGATTCTCGATTAA+AGG 0.164354 4:+94083575 None:intergenic
GGAATATGGTATATTCAATT+AGG 0.202842 4:-94082772 None:intergenic
AATTGCATCGACAATTTCTA+AGG 0.211162 4:-94083424 MsaT023956.1:CDS
TGTTTCCATCAAAAGTTTAA+AGG 0.235719 4:+94083892 None:intergenic
CAAACGGGGCTTGCGAATAT+TGG 0.275266 4:-94083604 MsaT023956.1:CDS
TCCAGTTACAACATGTTCTA+AGG 0.282036 4:-94083924 MsaT023956.1:intron
ATCGCTTTATGAATTGCTTT+TGG 0.284723 4:+94083260 None:intergenic
TAAAGAATAGAAAGTCAAAA+AGG 0.285756 4:-94083055 MsaT023956.1:CDS
ATTCTTTAGATGTGTCTCTT+TGG 0.286927 4:+94083070 None:intergenic
ACATTTCCACAACAGCATTA+AGG 0.328612 4:+94084095 None:intergenic
AGAAATTGTCGATGCAATTC+AGG 0.341097 4:+94083428 None:intergenic
GCACAACCTCCATCGGAATA+TGG 0.347834 4:-94082786 MsaT023956.1:CDS
CTCTTAAATCCTCTGGGAAT+TGG 0.352622 4:+94084146 None:intergenic
GCAAGTTGCTAGCCATTTGC+AGG 0.355161 4:-94083213 MsaT023956.1:intron
CTAAGGGTTGTGAATGAACT+TGG 0.358456 4:-94083407 MsaT023956.1:CDS
CATAAAGCGATGAATGTTCC+TGG 0.373937 4:-94083248 MsaT023956.1:CDS
ATATACGATTCTTCTTCGTT+AGG 0.374538 4:+94083459 None:intergenic
TATACGATTCTTCTTCGTTA+GGG 0.386785 4:+94083460 None:intergenic
GAATATGGTATATTCAATTA+GGG 0.387647 4:-94082771 None:intergenic
GAACTCAATTGTGTTTCGTT+AGG 0.423423 4:+94082996 None:intergenic
ACAAGAACTCTTAAATCCTC+TGG 0.429240 4:+94084139 None:intergenic
AACAAACCTTGATAATTGCT+TGG 0.435234 4:+94084067 None:intergenic
AGAGTTGTCGTTGCATTGTA+TGG 0.450449 4:+94082923 None:intergenic
TGACAGGAATATTGATTTGT+TGG 0.454324 4:+94083792 None:intergenic
TAAATCCTCTGGGAATTGGC+TGG 0.455635 4:+94084150 None:intergenic
TGATGAAAGCTGTTGCAAAC+GGG 0.461960 4:-94083619 MsaT023956.1:CDS
ATAAACATAATCAAAGCAAA+AGG 0.469172 4:-94083511 MsaT023956.1:CDS
TCTATTCCAAGCAATTATCA+AGG 0.472629 4:-94084073 MsaT023956.1:intron
AAATCATATGAATCCATGTC+TGG 0.476246 4:+94083830 None:intergenic
TAAACATAATCAAAGCAAAA+GGG 0.478480 4:-94083510 MsaT023956.1:CDS
GTGATGAAAGCTGTTGCAAA+CGG 0.482441 4:-94083620 MsaT023956.1:CDS
TATATATTCTTACTGATGAC+AGG 0.490720 4:+94083776 None:intergenic
GACAGGAATATTGATTTGTT+GGG 0.492437 4:+94083793 None:intergenic
CGAAGAAGAATCGTATATCA+TGG 0.494656 4:-94083454 MsaT023956.1:CDS
TGATTTGTTGGGTAACATGT+CGG 0.535639 4:+94083804 None:intergenic
ATAGTGATGATGAATCATCT+TGG 0.538208 4:+94082814 None:intergenic
AGAGGATTTAAGAGTTCTTG+TGG 0.539349 4:-94084137 MsaT023956.1:CDS
CAAGAACTCTTAAATCCTCT+GGG 0.542866 4:+94084140 None:intergenic
CATCTTGGATCATGTAGGAC+TGG 0.543187 4:+94082829 None:intergenic
TGAAGCTCAAATGCCAGACA+TGG 0.549847 4:-94083843 MsaT023956.1:CDS
TGTGCAGTGATGTGTGATGA+TGG 0.552839 4:-94083656 MsaT023956.1:intron
AAATCCTCTGGGAATTGGCT+GGG 0.555538 4:+94084151 None:intergenic
TGATGTCCTTAATGCTGTTG+TGG 0.557832 4:-94084101 MsaT023956.1:CDS
ATACGAAGCACAACCTCCAT+CGG 0.580105 4:-94082793 MsaT023956.1:CDS
ATACGATTCTTCTTCGTTAG+GGG 0.588904 4:+94083461 None:intergenic
AATATACCATATTCCGATGG+AGG 0.592529 4:+94082780 None:intergenic
ATTGCATCGACAATTTCTAA+GGG 0.597352 4:-94083423 MsaT023956.1:CDS
AGAATCAAATCAAGAACATG+TGG 0.615053 4:-94083565 MsaT023956.1:CDS
GATGAAAGCTGTTGCAAACG+GGG 0.621578 4:-94083618 MsaT023956.1:CDS
AAACATAATCAAAGCAAAAG+GGG 0.630491 4:-94083509 MsaT023956.1:CDS
TGAATCATCTTGGATCATGT+AGG 0.631847 4:+94082824 None:intergenic
TTGAATATACCATATTCCGA+TGG 0.640230 4:+94082777 None:intergenic
AACAAAGGGCTGTGTTGATG+TGG 0.643059 4:-94083873 MsaT023956.1:CDS
ACATGTGGCAGTGTGTTGCA+AGG 0.672995 4:-94083550 MsaT023956.1:CDS
ACTTCCCAGCCAATTCCCAG+AGG 0.715638 4:-94084155 MsaT023956.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 94082773 94084203 94082773 ID=MsaG023956
Chr4 mRNA 94082773 94084203 94082773 ID=MsaT023956.1;Parent=MsaG023956
Chr4 exon 94082773 94083120 94082773 ID=MsaT023956.1.exon5;Parent=MsaT023956.1
Chr4 CDS 94082773 94083120 94082773 ID=cds.MsaT023956.1;Parent=MsaT023956.1
Chr4 exon 94083214 94083290 94083214 ID=MsaT023956.1.exon4;Parent=MsaT023956.1
Chr4 CDS 94083214 94083290 94083214 ID=cds.MsaT023956.1;Parent=MsaT023956.1
Chr4 exon 94083399 94083671 94083399 ID=MsaT023956.1.exon3;Parent=MsaT023956.1
Chr4 CDS 94083399 94083671 94083399 ID=cds.MsaT023956.1;Parent=MsaT023956.1
Chr4 exon 94083789 94083941 94083789 ID=MsaT023956.1.exon2;Parent=MsaT023956.1
Chr4 CDS 94083789 94083941 94083789 ID=cds.MsaT023956.1;Parent=MsaT023956.1
Chr4 exon 94084074 94084203 94084074 ID=MsaT023956.1.exon1;Parent=MsaT023956.1
Chr4 CDS 94084074 94084203 94084074 ID=cds.MsaT023956.1;Parent=MsaT023956.1
Gene Sequence

>MsaT023956.1

ATGGCTCTTTTTAACGATATAGAGTCACTTCCCAGCCAATTCCCAGAGGATTTAAGAGTTCTTGTGGTTGATCATGACACTGATGTCCTTAATGCTGTTGTGGAAATGTCTATTCCAAGCAATTATCAAGTTACAACATGTTCTAAGGCTTCTTTTGCCTTTAAACTTTTGATGGAAACAAAGGGCTGTGTTGATGTGGTACTAATTGAAGCTCAAATGCCAGACATGGATTCATATGATTTTGTCCGACATGTTACCCAACAAATCAATATTCCTGTCATCATGATGTGTGATGATGGATCAACAAGTGCAGTGATGAAAGCTGTTGCAAACGGGGCTTGCGAATATTGGATTAAGCCTTTAATCGAGAATCAAATCAAGAACATGTGGCAGTGTGTTGCAAGGAAATTTTTCAATGAAAATAAACATAATCAAAGCAAAAGGGGAAGAGATGATAATGCTAATTATCAACCCCTAACGAAGAAGAATCGTATATCATGGACACCTGAATTGCATCGACAATTTCTAAGGGTTGTGAATGAACTTGGCCTTGATAAGGCAAAGCCAAAAGCAATTCATAAAGCGATGAATGTTCCTGGTTTGACAAAAGAGCAAGTTGCTAGCCATTTGCAGAGAGTGATACTTGATTTGAAGAGTTCAACCAAAGAGACACATCTAAAGAATAGAAAGTCAAAAAGGGGGCGGAAAAAATCAAAGTTTGATCAATATGATGTTCCTAACGAAACACAATTGAGTTCTGAAGCTGTTCACTCAATACAACAAGACCCAGAAAATTTAATGAACTCAGCCATACAATGCAACGACAACTCTCATGCACAACAAGATCTGATGACATTCAACGATTATGAAGATTTTGACATTATTGCCAACATTTTTACTGACCAGTCCTACATGATCCAAGATGATTCATCATCACTATACGAAGCACAACCTCCATCGGAATATGGTATATTCAATTAG
Protein sequence

>MsaT023956.1

MALFNDIESLPSQFPEDLRVLVVDHDTDVLNAVVEMSIPSNYQVTTCSKASFAFKLLMETKGCVDVVLIEAQMPDMDSYDFVRHVTQQINIPVIMMCDDGSTSAVMKAVANGACEYWIKPLIENQIKNMWQCVARKFFNENKHNQSKRGRDDNANYQPLTKKNRISWTPELHRQFLRVVNELGLDKAKPKAIHKAMNVPGLTKEQVASHLQRVILDLKSSTKETHLKNRKSKRGRKKSKFDQYDVPNETQLSSEAVHSIQQDPENLMNSAIQCNDNSHAQQDLMTFNDYEDFDIIANIFTDQSYMIQDDSSSLYEAQPPSEYGIFN*