Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG016885 | XP_003603053.1 | 97.436 | 273 | 4 | 3 | 1 | 272 | 1 | 271 | 0.0 | 534 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG016885 | sp|Q9SND4|HEC2_ARATH | 58.683 | 167 | 49 | 4 | 108 | 254 | 35 | 201 | 7.99e-46 | 156 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG016885 | tr|G7J6E7|G7J6E7_MEDTR | 97.436 | 273 | 4 | 3 | 1 | 272 | 1 | 271 | 0.0 | 534 |
| Gene ID | Type | Classification |
|---|---|---|
| MsaG016885 | TF | bHLH |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsaG001252 | MsaG016885 | 0.813240 | 4.872595e-51 | 9.012028e-49 |
| MsaG003967 | MsaG016885 | 0.802339 | 9.875013e-49 | 1.407867e-46 |
| MsaG004101 | MsaG016885 | 0.805976 | 1.742950e-49 | 2.703214e-47 |
| MsaG005947 | MsaG016885 | 0.802293 | 1.008938e-48 | 1.436924e-46 |
| MsaG006990 | MsaG016885 | 0.805243 | 2.478997e-49 | 3.779611e-47 |
| MsaG007170 | MsaG016885 | 0.816326 | 1.016826e-51 | 2.032861e-49 |
| MsaG008006 | MsaG016885 | 0.805577 | 2.111666e-49 | 3.244565e-47 |
| MsaG008248 | MsaG016885 | 0.813987 | 3.343760e-51 | 6.301292e-49 |
| MsaG008932 | MsaG016885 | 0.807546 | 8.149903e-50 | 1.311872e-47 |
| MsaG041990 | MsaG016885 | 0.805536 | 2.154049e-49 | 3.306508e-47 |
| MsaG044632 | MsaG016885 | 0.819224 | 2.271532e-52 | 4.894802e-50 |
| MsaG046202 | MsaG016885 | 0.808269 | 5.728233e-50 | 9.382586e-48 |
| MsaG000809 | MsaG016885 | 0.810937 | 1.539896e-50 | 2.690486e-48 |
| MsaG001342 | MsaG016885 | 0.806014 | 1.711360e-49 | 2.656572e-47 |
| MsaG016885 | MsaG014392 | 0.825051 | 1.026856e-53 | 2.586666e-51 |
| MsaG016885 | MsaG032292 | 0.801596 | 1.401363e-48 | 1.964298e-46 |
| MsaG013884 | MsaG016885 | 0.808875 | 4.259271e-50 | 7.079045e-48 |
| MsaG023223 | MsaG016885 | 0.837126 | 1.144723e-56 | 4.087569e-54 |
| MsaG025794 | MsaG016885 | 0.816631 | 8.693001e-52 | 1.751515e-49 |
| MsaG028419 | MsaG016885 | 0.809979 | 2.474305e-50 | 4.223198e-48 |
| MsaG028480 | MsaG016885 | 0.807185 | 9.710410e-50 | 1.549724e-47 |
| MsaG028973 | MsaG016885 | 0.841476 | 8.615159e-58 | 3.523334e-55 |
| MsaG028974 | MsaG016885 | 0.845145 | 9.139872e-59 | 4.207906e-56 |
| MsaG029613 | MsaG016885 | 0.817278 | 6.232020e-52 | 1.276851e-49 |
| MsaG031568 | MsaG016885 | 0.820125 | 1.417477e-52 | 3.127970e-50 |
| MsaG032200 | MsaG016885 | 0.800287 | 2.586552e-48 | 3.519792e-46 |
| MsaG036068 | MsaG016885 | 0.820117 | 1.423503e-52 | 3.140608e-50 |
| MsaG039818 | MsaG016885 | 0.800314 | 2.554037e-48 | 3.477722e-46 |
| MsaG039847 | MsaG016885 | 0.804727 | 3.174655e-49 | 4.782531e-47 |
| MsaG040449 | MsaG016885 | 0.805469 | 2.224279e-49 | 3.409021e-47 |
| MsaG040520 | MsaG016885 | 0.812931 | 5.691597e-51 | 1.044576e-48 |
| MsaG040561 | MsaG016885 | 0.802993 | 7.246857e-49 | 1.048787e-46 |
| MsaG040538 | MsaG016885 | 0.804807 | 3.055676e-49 | 4.611890e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG016885 | MtrunA17_Chr3g0134001 | 97.436 | 273 | 4 | 3 | 1 | 272 | 1 | 271 | 0.0 | 534 |
| MsaG016885 | MtrunA17_Chr8g0375121 | 57.561 | 205 | 56 | 8 | 43 | 243 | 23 | 200 | 1.31e-51 | 169 |
| MsaG016885 | MtrunA17_Chr5g0402161 | 61.491 | 161 | 57 | 3 | 91 | 250 | 56 | 212 | 4.55e-48 | 160 |
| MsaG016885 | MtrunA17_Chr8g0384141 | 75.824 | 91 | 22 | 0 | 146 | 236 | 87 | 177 | 3.69e-46 | 155 |
| MsaG016885 | MtrunA17_Chr2g0330641 | 63.441 | 93 | 33 | 1 | 145 | 236 | 261 | 353 | 1.29e-27 | 109 |
| MsaG016885 | MtrunA17_Chr8g0341421 | 55.769 | 104 | 42 | 1 | 145 | 244 | 296 | 399 | 2.52e-27 | 109 |
| MsaG016885 | MtrunA17_Chr7g0243041 | 68.519 | 54 | 17 | 0 | 179 | 232 | 32 | 85 | 1.40e-21 | 88.2 |
| MsaG016885 | MtrunA17_Chr5g0435021 | 62.500 | 56 | 21 | 0 | 180 | 235 | 225 | 280 | 1.26e-18 | 84.0 |
| MsaG016885 | MtrunA17_Chr1g0152651 | 62.963 | 54 | 20 | 0 | 182 | 235 | 283 | 336 | 7.46e-18 | 82.4 |
| MsaG016885 | MtrunA17_Chr1g0207311 | 46.914 | 81 | 43 | 0 | 182 | 262 | 205 | 285 | 1.92e-17 | 80.1 |
| MsaG016885 | MtrunA17_Chr1g0207301 | 50.746 | 67 | 33 | 0 | 169 | 235 | 284 | 350 | 2.97e-17 | 80.5 |
| MsaG016885 | MtrunA17_Chr5g0393721 | 61.111 | 54 | 21 | 0 | 182 | 235 | 233 | 286 | 3.39e-17 | 80.1 |
| MsaG016885 | MtrunA17_Chr3g0134741 | 53.968 | 63 | 29 | 0 | 173 | 235 | 229 | 291 | 3.85e-16 | 77.0 |
| MsaG016885 | MtrunA17_Chr4g0074161 | 54.545 | 66 | 29 | 1 | 180 | 244 | 213 | 278 | 5.58e-15 | 74.3 |
| MsaG016885 | MtrunA17_Chr1g0190731 | 46.250 | 80 | 42 | 1 | 166 | 244 | 186 | 265 | 8.89e-15 | 73.2 |
| MsaG016885 | MtrunA17_Chr1g0179061 | 57.407 | 54 | 23 | 0 | 183 | 236 | 180 | 233 | 2.24e-13 | 68.2 |
| MsaG016885 | MtrunA17_Chr2g0311101 | 49.333 | 75 | 31 | 1 | 169 | 236 | 158 | 232 | 2.56e-13 | 68.9 |
| MsaG016885 | MtrunA17_Chr4g0014771 | 56.140 | 57 | 24 | 1 | 183 | 238 | 128 | 184 | 5.59e-12 | 63.2 |
| MsaG016885 | MtrunA17_Chr1g0174271 | 41.304 | 92 | 49 | 2 | 148 | 238 | 277 | 364 | 7.29e-12 | 65.1 |
| MsaG016885 | MtrunA17_Chr2g0323091 | 51.852 | 54 | 26 | 0 | 183 | 236 | 146 | 199 | 1.33e-11 | 63.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG016885 | AT3G50330.1 | 58.683 | 167 | 49 | 4 | 108 | 254 | 35 | 201 | 8.12e-47 | 156 |
| MsaG016885 | AT5G67060.2 | 86.170 | 94 | 13 | 0 | 146 | 239 | 83 | 176 | 1.51e-45 | 153 |
| MsaG016885 | AT5G67060.1 | 86.170 | 94 | 13 | 0 | 146 | 239 | 95 | 188 | 1.90e-45 | 153 |
| MsaG016885 | AT3G21330.1 | 65.217 | 92 | 32 | 0 | 145 | 236 | 241 | 332 | 8.87e-37 | 134 |
| MsaG016885 | AT4G00120.1 | 68.539 | 89 | 28 | 0 | 148 | 236 | 87 | 175 | 9.40e-37 | 129 |
| MsaG016885 | AT5G09750.1 | 74.444 | 90 | 23 | 0 | 146 | 235 | 92 | 181 | 9.43e-34 | 122 |
| MsaG016885 | AT5G01305.1 | 67.797 | 59 | 19 | 0 | 174 | 232 | 38 | 96 | 3.53e-21 | 88.2 |
| MsaG016885 | AT5G43175.1 | 50.725 | 69 | 34 | 0 | 167 | 235 | 126 | 194 | 1.30e-18 | 82.4 |
| MsaG016885 | AT4G33880.1 | 64.815 | 54 | 19 | 0 | 182 | 235 | 275 | 328 | 1.59e-18 | 84.3 |
| MsaG016885 | AT5G37800.1 | 53.333 | 75 | 28 | 1 | 168 | 235 | 189 | 263 | 3.42e-18 | 82.8 |
| MsaG016885 | AT1G27740.1 | 52.941 | 68 | 32 | 0 | 168 | 235 | 162 | 229 | 4.18e-18 | 82.0 |
| MsaG016885 | AT1G66470.1 | 63.636 | 55 | 20 | 0 | 181 | 235 | 203 | 257 | 6.11e-18 | 82.0 |
| MsaG016885 | AT2G14760.1 | 62.963 | 54 | 20 | 0 | 182 | 235 | 246 | 299 | 1.92e-17 | 81.3 |
| MsaG016885 | AT4G30980.1 | 53.947 | 76 | 34 | 1 | 170 | 244 | 127 | 202 | 2.97e-16 | 77.4 |
| MsaG016885 | AT2G24260.2 | 53.086 | 81 | 30 | 3 | 171 | 244 | 28 | 107 | 3.12e-16 | 76.6 |
| MsaG016885 | AT4G30980.2 | 53.247 | 77 | 35 | 1 | 169 | 244 | 174 | 250 | 5.85e-16 | 77.0 |
| MsaG016885 | AT2G24260.1 | 53.086 | 81 | 30 | 3 | 171 | 244 | 131 | 210 | 8.33e-16 | 76.6 |
| MsaG016885 | AT5G58010.1 | 51.316 | 76 | 36 | 1 | 170 | 244 | 96 | 171 | 6.35e-15 | 73.6 |
| MsaG016885 | AT2G14760.3 | 50.746 | 67 | 20 | 1 | 182 | 235 | 246 | 312 | 3.46e-14 | 72.0 |
Find 54 sgRNAs with CRISPR-Local
Find sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCTTGACGTTTCTTCTCTT+TGG | 0.218574 | 3:-103310541 | None:intergenic |
| ACAGTTGCTGGTTCAGGATT+AGG | 0.247420 | 3:+103310766 | MsaT016885.1:CDS |
| GATTCTGGGTCTATGTAAAT+TGG | 0.284997 | 3:-103310508 | None:intergenic |
| CCGTTAGATGAAGAAAATTC+AGG | 0.301231 | 3:-103310109 | None:intergenic |
| GATCGTAATGTTGATCGTTA+TGG | 0.304956 | 3:+103310820 | MsaT016885.1:CDS |
| TGTTGTTGTTGGAACATTAA+TGG | 0.311513 | 3:-103310346 | None:intergenic |
| AACAGGACAGTTGCTGGTTC+AGG | 0.321831 | 3:+103310760 | MsaT016885.1:CDS |
| CAGTTGCTGGTTCAGGATTA+GGG | 0.322129 | 3:+103310767 | MsaT016885.1:CDS |
| GAAGACCATGGTATTTGATT+AGG | 0.333202 | 3:-103310241 | None:intergenic |
| AGAGATTGTGTTTGTGTTTG+TGG | 0.340639 | 3:-103310299 | None:intergenic |
| TCACTGCAGGAACGTGCTTC+AGG | 0.355705 | 3:+103310727 | MsaT016885.1:CDS |
| CCGTCAGATCAACAATTCTA+TGG | 0.368765 | 3:+103310163 | MsaT016885.1:CDS |
| TAAGGCTTAGGCAATGAAAC+AGG | 0.373028 | 3:-103310793 | None:intergenic |
| CTTCAGGAGCCAACAGTAAC+AGG | 0.378388 | 3:+103310743 | MsaT016885.1:CDS |
| TGGTGTAGCAGAGTTGTTAT+TGG | 0.394604 | 3:-103310326 | None:intergenic |
| GCGGTGTTGTTTGTTGTTGT+TGG | 0.395451 | 3:-103310357 | None:intergenic |
| ATCGTAATGTTGATCGTTAT+GGG | 0.398296 | 3:+103310821 | MsaT016885.1:CDS |
| ATGATGAAGATGACTTTAAC+TGG | 0.403724 | 3:-103310039 | None:intergenic |
| GCTCCGAATGCGAACCATTA+CGG | 0.404632 | 3:+103310409 | MsaT016885.1:CDS |
| TTGACGTTTCTTCTCTTTGG+TGG | 0.422338 | 3:-103310538 | None:intergenic |
| AACGATCAACATTACGATCT+TGG | 0.428866 | 3:-103310816 | None:intergenic |
| CTCGAATTTGAAAACATTAG+CGG | 0.440870 | 3:-103310376 | None:intergenic |
| GACCATGGTATTTGATTAGG+AGG | 0.444146 | 3:-103310238 | None:intergenic |
| AACAGTAACAGGACAGTTGC+TGG | 0.445444 | 3:+103310754 | MsaT016885.1:CDS |
| ATCGAGTTTCGTTTCTCTGA+TGG | 0.446419 | 3:-103310442 | None:intergenic |
| GTACCGTAATGGTTCGCATT+CGG | 0.489297 | 3:-103310412 | None:intergenic |
| CGTTAGATGAAGAAAATTCA+GGG | 0.499125 | 3:-103310108 | None:intergenic |
| AATAAGAATACTGCAAAGAA+TGG | 0.517132 | 3:+103310621 | MsaT016885.1:CDS |
| TGTGTTTGTGGTGGATTGTG+AGG | 0.519086 | 3:-103310287 | None:intergenic |
| GGTACCAGGTGGAACTAAGA+TGG | 0.521420 | 3:+103310642 | MsaT016885.1:CDS |
| GTGTTTGTGGTGGATTGTGA+GGG | 0.523310 | 3:-103310286 | None:intergenic |
| TGACGGTGGAAATTGATTGA+TGG | 0.535291 | 3:-103310146 | None:intergenic |
| GATTGTGTTTGTGTTTGTGG+TGG | 0.537734 | 3:-103310296 | None:intergenic |
| TTACGATCTTGGTAAGGCTT+AGG | 0.545623 | 3:-103310805 | None:intergenic |
| ATGGCGATGCAGTACCGTAA+TGG | 0.554413 | 3:-103310423 | None:intergenic |
| GATGGATACTGCATCAATGT+TGG | 0.564818 | 3:+103310660 | MsaT016885.1:CDS |
| GAAACTCGATGGCGACGATG+AGG | 0.573917 | 3:+103310455 | MsaT016885.1:CDS |
| TCAACATTACGATCTTGGTA+AGG | 0.575828 | 3:-103310811 | None:intergenic |
| GACACAACTTAAGTCACTGC+AGG | 0.578655 | 3:+103310714 | MsaT016885.1:CDS |
| AGCAACTGTCCTGTTACTGT+TGG | 0.580375 | 3:-103310752 | None:intergenic |
| ACCATGGTATTTGATTAGGA+GGG | 0.602997 | 3:-103310237 | None:intergenic |
| AAACTCGATGGCGACGATGA+GGG | 0.604342 | 3:+103310456 | MsaT016885.1:CDS |
| ATCAGAGAAACGAAACTCGA+TGG | 0.615534 | 3:+103310444 | MsaT016885.1:CDS |
| GTCATCTTCATCATCATCAG+AGG | 0.630073 | 3:+103310048 | MsaT016885.1:CDS |
| TGTCTAGCTGCTATACTCTG+AGG | 0.634069 | 3:-103310574 | None:intergenic |
| TTATCTATTAAATCTGCAAG+AGG | 0.636966 | 3:-103310214 | None:intergenic |
| GTATCCATCTTAGTTCCACC+TGG | 0.642640 | 3:-103310646 | None:intergenic |
| CCATAGAATTGTTGATCTGA+CGG | 0.644487 | 3:-103310163 | None:intergenic |
| AAGGCTTAGGCAATGAAACA+GGG | 0.655130 | 3:-103310792 | None:intergenic |
| ACCCTCCTAATCAAATACCA+TGG | 0.671083 | 3:+103310236 | MsaT016885.1:CDS |
| ATACTGCAAAGAATGGTACC+AGG | 0.680757 | 3:+103310628 | MsaT016885.1:CDS |
| CTGCAAAGAATGGTACCAGG+TGG | 0.704915 | 3:+103310631 | MsaT016885.1:CDS |
| TAGAATTGTTGATCTGACGG+TGG | 0.709109 | 3:-103310160 | None:intergenic |
| AATGATGAAGATGAAGACCA+TGG | 0.757666 | 3:-103310253 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr3 | gene | 103310028 | 103310846 | 103310028 | ID=MsaG016885 |
| Chr3 | mRNA | 103310028 | 103310846 | 103310028 | ID=MsaT016885.1;Parent=MsaG016885 |
| Chr3 | exon | 103310028 | 103310846 | 103310028 | ID=MsaT016885.1.exon1;Parent=MsaT016885.1 |
| Chr3 | CDS | 103310028 | 103310846 | 103310028 | ID=cds.MsaT016885.1;Parent=MsaT016885.1 |
| Gene Sequence |
| Protein sequence |
