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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG011558 | XP_013459055.1 | 94.086 | 372 | 15 | 1 | 2 | 366 | 22 | 393 | 0.0 | 707 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG011558 | sp|Q8AVN9|ZN346_XENLA | 23.846 | 260 | 144 | 6 | 95 | 354 | 219 | 424 | 1.19e-11 | 69.3 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG011558 | tr|A0A072UVJ5|A0A072UVJ5_MEDTR | 94.086 | 372 | 15 | 1 | 2 | 366 | 22 | 393 | 0.0 | 707 |
| Gene ID | Type | Classification |
|---|---|---|
| MsaG011558 | TF | C2H2 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsaG000273 | MsaG011558 | 0.886325 | 8.169777e-72 | 1.997368e-68 |
| MsaG004802 | MsaG011558 | 0.803031 | 7.117270e-49 | 1.030916e-46 |
| MsaG005680 | MsaG011558 | 0.817591 | 5.303311e-52 | 1.095289e-49 |
| MsaG006203 | MsaG011558 | 0.841768 | 7.221292e-58 | 2.980750e-55 |
| MsaG007183 | MsaG011558 | 0.849536 | 5.768545e-60 | 3.077723e-57 |
| MsaG007411 | MsaG011558 | 0.835862 | 2.392736e-56 | 8.224285e-54 |
| MsaG009081 | MsaG011558 | 0.818247 | 3.775142e-52 | 7.929924e-50 |
| MsaG010102 | MsaG011558 | 0.838949 | 3.908871e-57 | 1.476601e-54 |
| MsaG011287 | MsaG011558 | 0.809062 | 3.884649e-50 | 6.485584e-48 |
| MsaG011558 | MsaG012418 | 0.819757 | 1.718712e-52 | 3.755573e-50 |
| MsaG011558 | MsaG017173 | 0.849324 | 6.605217e-60 | 3.498328e-57 |
| MsaG011558 | MsaG017896 | 0.801405 | 1.532454e-48 | 2.138779e-46 |
| MsaG011558 | MsaG018218 | 0.835861 | 2.394513e-56 | 8.230061e-54 |
| MsaG011558 | MsaG018834 | 0.844702 | 1.201849e-58 | 5.453423e-56 |
| MsaG011558 | MsaG019797 | 0.819380 | 2.093100e-52 | 4.528929e-50 |
| MsaG011558 | MsaG019930 | 0.817082 | 6.893492e-52 | 1.405247e-49 |
| MsaG011558 | MsaG021043 | 0.808496 | 5.125844e-50 | 8.441838e-48 |
| MsaG011558 | MsaG028046 | 0.825428 | 8.369099e-54 | 2.130134e-51 |
| MsaG011558 | MsaG029540 | 0.828929 | 1.225420e-54 | 3.439470e-52 |
| MsaG011558 | MsaG032285 | 0.880263 | 1.339034e-69 | 2.446184e-66 |
| MsaG011558 | MsaG034072 | 0.812407 | 7.403495e-51 | 1.341152e-48 |
| MsaG011558 | MsaG045452 | 0.803099 | 6.892530e-49 | 9.999462e-47 |
| MsaG011558 | MsaG045863 | 0.813880 | 3.530084e-51 | 6.634558e-49 |
| MsaG011558 | MsaG046539 | 0.804070 | 4.344713e-49 | 6.446589e-47 |
| MsaG011558 | MsaG022111 | 0.808636 | 4.788229e-50 | 7.912237e-48 |
| MsaG011558 | MsaG031338 | 0.832527 | 1.625855e-55 | 5.061885e-53 |
| MsaG011558 | MsaG033321 | 0.855705 | 1.021340e-61 | 6.768208e-59 |
| MsaG011558 | MsaG032753 | 0.839336 | 3.105977e-57 | 1.187384e-54 |
| MsaG011558 | MsaG035340 | 0.804185 | 4.112946e-49 | 6.118745e-47 |
| MsaG011558 | MsaG036985 | 0.831455 | 2.982658e-55 | 9.000759e-53 |
| MsaG011558 | MsaG043094 | 0.845069 | 9.581038e-59 | 4.400635e-56 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG011558 | MtrunA17_Chr3g0086321 | 94.086 | 372 | 15 | 1 | 2 | 366 | 22 | 393 | 0.0 | 707 |
| MsaG011558 | MtrunA17_Chr5g0447971 | 68.559 | 229 | 69 | 1 | 141 | 366 | 304 | 532 | 2.49e-102 | 311 |
| MsaG011558 | MtrunA17_Chr5g0447971 | 70.345 | 145 | 34 | 1 | 31 | 175 | 53 | 188 | 3.57e-57 | 194 |
| MsaG011558 | MtrunA17_Chr5g0447971 | 31.797 | 217 | 119 | 6 | 146 | 360 | 245 | 434 | 4.78e-15 | 76.3 |
| MsaG011558 | MtrunA17_Chr5g0447971 | 29.921 | 127 | 67 | 3 | 100 | 205 | 399 | 524 | 4.66e-11 | 63.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG011558 | AT5G61190.10 | 31.937 | 191 | 102 | 5 | 174 | 364 | 240 | 402 | 5.96e-22 | 98.2 |
| MsaG011558 | AT5G61190.10 | 25.000 | 288 | 155 | 10 | 104 | 356 | 242 | 503 | 5.99e-13 | 70.9 |
| MsaG011558 | AT5G61190.10 | 23.684 | 228 | 108 | 7 | 97 | 269 | 289 | 505 | 2.20e-12 | 68.9 |
| MsaG011558 | AT5G61190.1 | 31.937 | 191 | 102 | 5 | 174 | 364 | 240 | 402 | 6.27e-22 | 98.2 |
| MsaG011558 | AT5G61190.1 | 25.357 | 280 | 156 | 9 | 104 | 356 | 242 | 495 | 4.82e-14 | 74.3 |
| MsaG011558 | AT5G61190.1 | 24.545 | 220 | 108 | 7 | 97 | 269 | 289 | 497 | 2.39e-13 | 72.0 |
| MsaG011558 | AT5G61190.7 | 31.937 | 191 | 102 | 5 | 174 | 364 | 146 | 308 | 6.66e-22 | 97.8 |
| MsaG011558 | AT5G61190.7 | 25.000 | 288 | 155 | 10 | 104 | 356 | 148 | 409 | 7.38e-13 | 70.5 |
| MsaG011558 | AT5G61190.7 | 23.684 | 228 | 108 | 7 | 97 | 269 | 195 | 411 | 2.83e-12 | 68.6 |
| MsaG011558 | AT5G61190.3 | 31.937 | 191 | 102 | 5 | 174 | 364 | 146 | 308 | 6.66e-22 | 97.8 |
| MsaG011558 | AT5G61190.3 | 25.000 | 288 | 155 | 10 | 104 | 356 | 148 | 409 | 7.38e-13 | 70.5 |
| MsaG011558 | AT5G61190.3 | 23.684 | 228 | 108 | 7 | 97 | 269 | 195 | 411 | 2.83e-12 | 68.6 |
| MsaG011558 | AT5G61190.5 | 31.937 | 191 | 102 | 5 | 174 | 364 | 240 | 402 | 7.92e-22 | 97.8 |
| MsaG011558 | AT5G61190.5 | 25.000 | 288 | 155 | 10 | 104 | 356 | 242 | 503 | 6.58e-13 | 70.9 |
| MsaG011558 | AT5G61190.5 | 23.684 | 228 | 108 | 7 | 97 | 269 | 289 | 505 | 2.76e-12 | 68.9 |
| MsaG011558 | AT5G61190.6 | 31.937 | 191 | 102 | 5 | 174 | 364 | 240 | 402 | 8.13e-22 | 97.8 |
| MsaG011558 | AT5G61190.6 | 25.000 | 288 | 155 | 10 | 104 | 356 | 242 | 503 | 6.70e-13 | 70.5 |
| MsaG011558 | AT5G61190.6 | 23.684 | 228 | 108 | 7 | 97 | 269 | 289 | 505 | 2.81e-12 | 68.6 |
| MsaG011558 | AT5G61190.11 | 31.937 | 191 | 102 | 5 | 174 | 364 | 240 | 402 | 8.22e-22 | 97.8 |
| MsaG011558 | AT5G61190.11 | 25.000 | 288 | 155 | 10 | 104 | 356 | 242 | 503 | 6.62e-13 | 70.5 |
| MsaG011558 | AT5G61190.11 | 23.684 | 228 | 108 | 7 | 97 | 269 | 289 | 505 | 2.75e-12 | 68.6 |
| MsaG011558 | AT5G61190.9 | 31.937 | 191 | 102 | 5 | 174 | 364 | 240 | 402 | 8.24e-22 | 97.8 |
| MsaG011558 | AT5G61190.9 | 25.000 | 288 | 155 | 10 | 104 | 356 | 242 | 503 | 6.55e-13 | 70.9 |
| MsaG011558 | AT5G61190.9 | 23.684 | 228 | 108 | 7 | 97 | 269 | 289 | 505 | 2.87e-12 | 68.6 |
| MsaG011558 | AT5G61190.4 | 31.937 | 191 | 102 | 5 | 174 | 364 | 240 | 402 | 1.18e-21 | 97.1 |
| MsaG011558 | AT5G61190.4 | 23.509 | 285 | 163 | 8 | 104 | 356 | 242 | 503 | 5.68e-13 | 70.9 |
| MsaG011558 | AT5G61190.4 | 23.684 | 228 | 108 | 7 | 97 | 269 | 289 | 505 | 2.61e-12 | 68.6 |
| MsaG011558 | AT5G61190.2 | 31.937 | 191 | 102 | 5 | 174 | 364 | 240 | 402 | 1.18e-21 | 97.1 |
| MsaG011558 | AT5G61190.2 | 23.509 | 285 | 163 | 8 | 104 | 356 | 242 | 503 | 5.68e-13 | 70.9 |
| MsaG011558 | AT5G61190.2 | 23.684 | 228 | 108 | 7 | 97 | 269 | 289 | 505 | 2.61e-12 | 68.6 |
| MsaG011558 | AT5G61190.8 | 31.937 | 191 | 102 | 5 | 174 | 364 | 240 | 402 | 1.19e-21 | 97.1 |
| MsaG011558 | AT5G61190.8 | 23.509 | 285 | 163 | 8 | 104 | 356 | 242 | 503 | 5.86e-13 | 70.9 |
| MsaG011558 | AT5G61190.8 | 23.684 | 228 | 108 | 7 | 97 | 269 | 289 | 505 | 2.86e-12 | 68.6 |
Find 82 sgRNAs with CRISPR-Local
Find sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCACCATAGCAGCATGTTTC+TGG | 0.170828 | 3:+6042467 | None:intergenic |
| TCTGATGCCTTCTTTGGTTT+TGG | 0.255884 | 3:+6042616 | None:intergenic |
| TCAAGTTCTGATGCCTTCTT+TGG | 0.279559 | 3:+6042610 | None:intergenic |
| GCCACCGCCAATACTTTAAT+CGG | 0.330296 | 3:-6042667 | MsaT011558.1:CDS |
| GCAGAATCAACCTGTTTCTT+AGG | 0.337690 | 3:+6044731 | None:intergenic |
| TGGGAGGTGTAAAGAGAAAC+AGG | 0.338861 | 3:+6046721 | None:intergenic |
| AACCAACAGATTATCAGAAT+TGG | 0.358398 | 3:-6046699 | MsaT011558.1:CDS |
| CGCTTGAATTCGGCAATAGA+TGG | 0.359328 | 3:+6042877 | None:intergenic |
| AACACCGTTACGCTTGAATT+CGG | 0.361255 | 3:+6042867 | None:intergenic |
| AAGCTTTGGTGACTTTGGTT+TGG | 0.371601 | 3:+6044945 | None:intergenic |
| CACGCAGAAGGTAAACTTGC+AGG | 0.393751 | 3:+6045025 | None:intergenic |
| GGAGGATGAAGTGAAGGATC+AGG | 0.403946 | 3:+6046784 | None:intergenic |
| GCAATCCGAGCCTAAGAAAC+AGG | 0.404268 | 3:-6044741 | MsaT011558.1:CDS |
| TCTCAAAGCTTTGGTGACTT+TGG | 0.404347 | 3:+6044940 | None:intergenic |
| ATACAAGGACAAGCGTTAAT+TGG | 0.404953 | 3:-6044776 | MsaT011558.1:CDS |
| ACATGGCCACCACAAATTTA+CGG | 0.411957 | 3:-6044995 | MsaT011558.1:CDS |
| GCATATATCAAACATCTTGC+TGG | 0.416947 | 3:-6044665 | MsaT011558.1:CDS |
| CACTTCACATCTCAAAGCTT+TGG | 0.420423 | 3:+6044931 | None:intergenic |
| ATCAGGGAATGATGAATAGT+AGG | 0.420683 | 3:+6046801 | None:intergenic |
| GCAAGATTAATTGTAACAGC+AGG | 0.443520 | 3:-6042783 | MsaT011558.1:CDS |
| TGGGAGAAAGCACGCTGCTC+AGG | 0.446737 | 3:-6044645 | MsaT011558.1:intron |
| AATTCTGATAATCTGTTGGT+TGG | 0.449153 | 3:+6046701 | None:intergenic |
| GTCTCATTGCCGTAAATTTG+TGG | 0.452046 | 3:+6044986 | None:intergenic |
| GTTGCCTTGATGTCTAATAA+TGG | 0.452518 | 3:-6042907 | MsaT011558.1:CDS |
| TAAAGTATTGGCGGTGGCGG+TGG | 0.459433 | 3:+6042672 | None:intergenic |
| CTTACAAGATCATATCTGAT+AGG | 0.461948 | 3:+6046658 | None:intergenic |
| ATCAACCTGTTTCTTAGGCT+CGG | 0.472485 | 3:+6044736 | None:intergenic |
| GGTGAAAATTGAAAACTGTC+TGG | 0.474169 | 3:+6042497 | None:intergenic |
| ATTCTGATAATCTGTTGGTT+GGG | 0.474326 | 3:+6046702 | None:intergenic |
| TTGTGGCCCGATTAAAGTAT+TGG | 0.478867 | 3:+6042660 | None:intergenic |
| CTTCTAATATTGCAGGCTGT+TGG | 0.480500 | 3:-6045073 | MsaT011558.1:intron |
| GGCTCGGATTGCTTGACTAC+AGG | 0.482010 | 3:+6044752 | None:intergenic |
| TCAGGGAATGATGAATAGTA+GGG | 0.483312 | 3:+6046802 | None:intergenic |
| TTTGCAAGTGGGTCAGTGCC+AGG | 0.495030 | 3:+6046763 | None:intergenic |
| TTGGTGACTTTGGTTTGGTT+AGG | 0.506602 | 3:+6044950 | None:intergenic |
| CATATATCAAACATCTTGCT+GGG | 0.508931 | 3:-6044664 | MsaT011558.1:CDS |
| TAAGAAACACTTGAAGAACT+TGG | 0.514681 | 3:-6042734 | MsaT011558.1:CDS |
| GAAGGAGGAGCTGCAGTTGA+TGG | 0.516170 | 3:-6042559 | MsaT011558.1:CDS |
| ATCCAATTCTGATAATCTGT+TGG | 0.517632 | 3:+6046697 | None:intergenic |
| TCTTATGAAAGTCACATAGC+TGG | 0.520481 | 3:-6044881 | MsaT011558.1:CDS |
| GAATTCAAGCGTAACGGTGT+TGG | 0.521387 | 3:-6042865 | MsaT011558.1:CDS |
| GATCCTTCACTTCATCCTCC+TGG | 0.522615 | 3:-6046781 | MsaT011558.1:CDS |
| CGATCAACCAAAACCAAAGA+AGG | 0.523246 | 3:-6042623 | MsaT011558.1:CDS |
| ACATGCTGCTATGGTGAAGA+AGG | 0.523999 | 3:-6042461 | MsaT011558.1:CDS |
| TTCGCATGAGATGCAATAGT+AGG | 0.525742 | 3:+6044821 | None:intergenic |
| CCACCGCCAATACTTTAATC+GGG | 0.529234 | 3:-6042666 | MsaT011558.1:CDS |
| CTTCTGCGTGGAATGGTACA+TGG | 0.535273 | 3:-6045012 | MsaT011558.1:CDS |
| AAGAAGGCAGGGTCAGTCAC+TGG | 0.535623 | 3:-6042445 | MsaT011558.1:CDS |
| AATGCCATTATTAGACATCA+AGG | 0.537375 | 3:+6042903 | None:intergenic |
| ATCTACATTACACACTTAGC+TGG | 0.537529 | 3:-6042757 | MsaT011558.1:CDS |
| GCTGCTATGGTGAAGAAGGC+AGG | 0.537781 | 3:-6042457 | MsaT011558.1:CDS |
| AAAAGCTGCTAAGAAAATCA+AGG | 0.540668 | 3:-6042833 | MsaT011558.1:CDS |
| CAGCATGTTTCTGGCCAACA+AGG | 0.542850 | 3:+6042476 | None:intergenic |
| AGTTTACCTTCTGCGTGGAA+TGG | 0.550393 | 3:-6045019 | MsaT011558.1:CDS |
| CAAGATTAATTGTAACAGCA+GGG | 0.550872 | 3:-6042782 | MsaT011558.1:CDS |
| TGGCCCGATTAAAGTATTGG+CGG | 0.561570 | 3:+6042663 | None:intergenic |
| CCCGATTAAAGTATTGGCGG+TGG | 0.562704 | 3:+6042666 | None:intergenic |
| GATTAAAGTATTGGCGGTGG+CGG | 0.568603 | 3:+6042669 | None:intergenic |
| AATTTACGGCAATGAGACTA+CGG | 0.572919 | 3:-6044981 | MsaT011558.1:CDS |
| GAAACAGGTTGATTCTGCAA+CGG | 0.579888 | 3:-6044726 | MsaT011558.1:CDS |
| TTGATGTCTAATAATGGCAT+TGG | 0.582144 | 3:-6042901 | MsaT011558.1:CDS |
| CTGATAATCTGTTGGTTGGG+AGG | 0.583814 | 3:+6046705 | None:intergenic |
| TATCTGATAGGTTCAGATTG+TGG | 0.585811 | 3:+6046670 | None:intergenic |
| GTCAAAGAAACGTAAAGTTG+TGG | 0.587310 | 3:-6042581 | MsaT011558.1:CDS |
| ATCGGGCCACAAGAAAAGCC+AGG | 0.590094 | 3:-6042649 | MsaT011558.1:CDS |
| GTGCCAGGAGGATGAAGTGA+AGG | 0.595047 | 3:+6046778 | None:intergenic |
| ACTGACACAAGTAGTATACA+AGG | 0.597057 | 3:-6044791 | MsaT011558.1:CDS |
| TGGCCAGAAACATGCTGCTA+TGG | 0.598112 | 3:-6042470 | MsaT011558.1:CDS |
| CATGTACCATTCCACGCAGA+AGG | 0.601401 | 3:+6045013 | None:intergenic |
| GAGGATGAAGTGAAGGATCA+GGG | 0.602017 | 3:+6046785 | None:intergenic |
| CTGCTATGGTGAAGAAGGCA+GGG | 0.613128 | 3:-6042456 | MsaT011558.1:CDS |
| TCAAGGTTGCTCAATCTGCA+TGG | 0.613642 | 3:-6042816 | MsaT011558.1:CDS |
| AAGAAACGTAAAGTTGTGGA+AGG | 0.617548 | 3:-6042577 | MsaT011558.1:CDS |
| AAAGATGTTGAATTTGCAAG+TGG | 0.619628 | 3:+6046751 | None:intergenic |
| AAACGTAAAGTTGTGGAAGG+AGG | 0.636655 | 3:-6042574 | MsaT011558.1:CDS |
| TCATTGCCGTAAATTTGTGG+TGG | 0.641593 | 3:+6044989 | None:intergenic |
| AAGATGTTGAATTTGCAAGT+GGG | 0.649561 | 3:+6046752 | None:intergenic |
| CTGCAAGTTTACCTTCTGCG+TGG | 0.655416 | 3:-6045024 | MsaT011558.1:CDS |
| AATGTGCACTTTATGCAATG+TGG | 0.676620 | 3:-6042530 | MsaT011558.1:CDS |
| ATTGCCGAATTCAAGCGTAA+CGG | 0.711887 | 3:-6042871 | MsaT011558.1:CDS |
| GCAAGTGGGTCAGTGCCAGG+AGG | 0.726366 | 3:+6046766 | None:intergenic |
| GAGGTGTAAAGAGAAACAGG+AGG | 0.817855 | 3:+6046724 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr3 | gene | 6042441 | 6048156 | 6042441 | ID=MsaG011558 |
| Chr3 | mRNA | 6042441 | 6048156 | 6042441 | ID=MsaT011558.1;Parent=MsaG011558 |
| Chr3 | exon | 6042441 | 6042929 | 6042441 | ID=MsaT011558.1.exon4;Parent=MsaT011558.1 |
| Chr3 | CDS | 6042441 | 6042929 | 6042441 | ID=cds.MsaT011558.1;Parent=MsaT011558.1 |
| Chr3 | exon | 6044646 | 6045080 | 6044646 | ID=MsaT011558.1.exon3;Parent=MsaT011558.1 |
| Chr3 | CDS | 6044646 | 6045080 | 6044646 | ID=cds.MsaT011558.1;Parent=MsaT011558.1 |
| Chr3 | exon | 6046663 | 6046836 | 6046663 | ID=MsaT011558.1.exon2;Parent=MsaT011558.1 |
| Chr3 | CDS | 6046663 | 6046836 | 6046663 | ID=cds.MsaT011558.1;Parent=MsaT011558.1 |
| Chr3 | exon | 6048154 | 6048156 | 6048154 | ID=MsaT011558.1.exon1;Parent=MsaT011558.1 |
| Chr3 | CDS | 6048154 | 6048156 | 6048154 | ID=cds.MsaT011558.1;Parent=MsaT011558.1 |
| Gene Sequence |
| Protein sequence |
