Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene40048.t1 | RHN80254.1 | 92.4 | 264 | 18 | 1 | 1 | 264 | 321 | 582 | 3.90E-125 | 457.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene40048.t1 | Q9LDD4 | 48.0 | 200 | 97 | 3 | 67 | 264 | 374 | 568 | 1.4e-46 | 188.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene40048.t1 | A0A396JSL4 | 92.4 | 264 | 18 | 1 | 1 | 264 | 321 | 582 | 2.8e-125 | 457.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050156 | MS.gene40048 | 0.804903 | 1.73E-49 | -1.69E-46 |
| MS.gene050787 | MS.gene40048 | 0.814392 | 1.58E-51 | -1.69E-46 |
| MS.gene052190 | MS.gene40048 | 0.806605 | 7.59E-50 | -1.69E-46 |
| MS.gene052333 | MS.gene40048 | 0.805182 | 1.51E-49 | -1.69E-46 |
| MS.gene053953 | MS.gene40048 | 0.804013 | 2.65E-49 | -1.69E-46 |
| MS.gene05415 | MS.gene40048 | 0.807011 | 6.22E-50 | -1.69E-46 |
| MS.gene054468 | MS.gene40048 | 0.805712 | 1.17E-49 | -1.69E-46 |
| MS.gene054559 | MS.gene40048 | 0.827156 | 1.83E-54 | -1.69E-46 |
| MS.gene055356 | MS.gene40048 | 0.800504 | 1.40E-48 | -1.69E-46 |
| MS.gene055818 | MS.gene40048 | 0.826948 | 2.05E-54 | -1.69E-46 |
| MS.gene057026 | MS.gene40048 | 0.815245 | 1.02E-51 | -1.69E-46 |
| MS.gene058625 | MS.gene40048 | 0.801196 | 1.01E-48 | -1.69E-46 |
| MS.gene058829 | MS.gene40048 | 0.810729 | 9.98E-51 | -1.69E-46 |
| MS.gene060572 | MS.gene40048 | 0.826407 | 2.76E-54 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene40048.t1 | MTR_1g073380 | 94.697 | 264 | 14 | 0 | 1 | 264 | 329 | 592 | 0.0 | 519 |
| MS.gene40048.t1 | MTR_1g073530 | 91.667 | 264 | 20 | 1 | 1 | 264 | 321 | 582 | 1.12e-172 | 489 |
| MS.gene40048.t1 | MTR_1g073590 | 91.571 | 261 | 20 | 1 | 4 | 264 | 321 | 579 | 1.09e-169 | 481 |
| MS.gene40048.t1 | MTR_8g098645 | 74.717 | 265 | 63 | 2 | 4 | 264 | 76 | 340 | 5.20e-144 | 407 |
| MS.gene40048.t1 | MTR_8g098605 | 70.037 | 267 | 53 | 2 | 1 | 264 | 348 | 590 | 1.42e-127 | 374 |
| MS.gene40048.t1 | MTR_8g098635 | 81.250 | 192 | 36 | 0 | 72 | 263 | 99 | 290 | 7.84e-114 | 329 |
| MS.gene40048.t1 | MTR_8g098635 | 81.250 | 192 | 36 | 0 | 72 | 263 | 182 | 373 | 1.90e-112 | 328 |
| MS.gene40048.t1 | MTR_0259s0060 | 65.746 | 181 | 15 | 1 | 65 | 245 | 14 | 147 | 4.50e-76 | 228 |
| MS.gene40048.t1 | MTR_7g078120 | 47.644 | 191 | 100 | 0 | 67 | 257 | 387 | 577 | 2.93e-58 | 195 |
| MS.gene40048.t1 | MTR_7g078120 | 47.644 | 191 | 100 | 0 | 67 | 257 | 387 | 577 | 7.44e-58 | 195 |
| MS.gene40048.t1 | MTR_8g028905 | 48.000 | 175 | 87 | 3 | 67 | 237 | 408 | 582 | 1.90e-49 | 171 |
| MS.gene40048.t1 | MTR_6g071350 | 76.471 | 102 | 24 | 0 | 68 | 169 | 273 | 374 | 1.04e-48 | 166 |
| MS.gene40048.t1 | MTR_1g073420 | 95.714 | 70 | 3 | 0 | 195 | 264 | 59 | 128 | 8.53e-43 | 142 |
| MS.gene40048.t1 | MTR_1g073420 | 73.469 | 49 | 1 | 1 | 11 | 59 | 19 | 55 | 3.11e-13 | 65.5 |
| MS.gene40048.t1 | MTR_5g048010 | 63.000 | 100 | 22 | 1 | 70 | 169 | 205 | 289 | 4.42e-32 | 120 |
| MS.gene40048.t1 | MTR_6g071355 | 60.825 | 97 | 19 | 1 | 158 | 254 | 1 | 78 | 1.08e-30 | 109 |
| MS.gene40048.t1 | MTR_3g023780 | 38.806 | 201 | 106 | 5 | 48 | 235 | 130 | 326 | 1.32e-29 | 116 |
| MS.gene40048.t1 | MTR_7g066890 | 36.471 | 170 | 100 | 3 | 67 | 230 | 194 | 361 | 4.73e-28 | 110 |
| MS.gene40048.t1 | MTR_7g066890 | 36.471 | 170 | 100 | 3 | 67 | 230 | 296 | 463 | 2.51e-27 | 110 |
| MS.gene40048.t1 | MTR_7g066880 | 30.588 | 170 | 110 | 3 | 67 | 230 | 186 | 353 | 8.44e-19 | 85.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene40048.t1 | AT4G11400 | 47.525 | 202 | 99 | 3 | 65 | 264 | 372 | 568 | 3.44e-55 | 187 |
| MS.gene40048.t1 | AT4G11400 | 47.525 | 202 | 99 | 3 | 65 | 264 | 372 | 568 | 3.44e-55 | 187 |
| MS.gene40048.t1 | AT2G46040 | 41.989 | 181 | 101 | 2 | 59 | 236 | 352 | 531 | 3.79e-37 | 138 |
| MS.gene40048.t1 | AT2G46040 | 41.989 | 181 | 101 | 2 | 59 | 236 | 352 | 531 | 3.79e-37 | 138 |
| MS.gene40048.t1 | AT2G46040 | 41.989 | 181 | 101 | 2 | 59 | 236 | 366 | 545 | 4.03e-37 | 138 |
| MS.gene40048.t1 | AT5G04110 | 37.888 | 161 | 88 | 4 | 67 | 216 | 361 | 520 | 9.41e-29 | 114 |
| MS.gene40048.t1 | AT5G04110 | 37.888 | 161 | 88 | 4 | 67 | 216 | 361 | 520 | 9.41e-29 | 114 |
| MS.gene40048.t1 | AT5G04110 | 37.888 | 161 | 88 | 4 | 67 | 216 | 362 | 521 | 9.46e-29 | 114 |
| MS.gene40048.t1 | AT1G13880 | 36.757 | 185 | 103 | 5 | 65 | 239 | 127 | 307 | 5.32e-25 | 103 |
| MS.gene40048.t1 | AT1G13880 | 36.757 | 185 | 103 | 5 | 65 | 239 | 126 | 306 | 5.44e-25 | 103 |
| MS.gene40048.t1 | AT1G13880 | 36.757 | 185 | 103 | 5 | 65 | 239 | 136 | 316 | 5.75e-25 | 103 |
| MS.gene40048.t1 | AT1G26580 | 31.746 | 189 | 110 | 3 | 65 | 235 | 67 | 254 | 3.11e-24 | 100 |
| MS.gene40048.t1 | AT1G26580 | 31.746 | 189 | 110 | 3 | 65 | 235 | 133 | 320 | 3.54e-24 | 101 |
| MS.gene40048.t1 | AT1G26580 | 31.746 | 189 | 110 | 3 | 65 | 235 | 133 | 320 | 3.54e-24 | 101 |
| MS.gene40048.t1 | AT2G03470 | 40.876 | 137 | 79 | 2 | 105 | 239 | 164 | 300 | 4.12e-24 | 100 |
| MS.gene40048.t1 | AT2G03470 | 40.876 | 137 | 79 | 2 | 105 | 239 | 163 | 299 | 4.18e-24 | 100 |
| MS.gene40048.t1 | AT5G04110 | 37.671 | 146 | 78 | 5 | 67 | 200 | 361 | 505 | 1.69e-20 | 90.9 |
Find 39 sgRNAs with CRISPR-Local
Find 58 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCATTGGGGATTTGATAAAA+TGG | 0.180493 | 1.4:-60090057 | MS.gene40048:CDS |
| CAATGGACTGGTGTAGTTTA+TGG | 0.202655 | 1.4:-60090275 | MS.gene40048:CDS |
| TCACGAGAATCATCACTAAA+TGG | 0.231296 | 1.4:+60090341 | None:intergenic |
| TGATGAAGAAAAGAGATTTA+AGG | 0.274155 | 1.4:-60090006 | MS.gene40048:CDS |
| GAAATCGAATTTGAATCTTT+TGG | 0.318595 | 1.4:-60089807 | MS.gene40048:CDS |
| GATGAAGCTGAAGTTTGAAT+TGG | 0.326776 | 1.4:-60090093 | MS.gene40048:CDS |
| GGGAGTGACTCTAAATCTTT+AGG | 0.346781 | 1.4:-60090254 | MS.gene40048:CDS |
| AATCTTTAGGCACACAAGTA+TGG | 0.348104 | 1.4:-60090241 | MS.gene40048:CDS |
| TTCTTCTTGATCACAACATC+TGG | 0.358660 | 1.4:+60090446 | None:intergenic |
| CACTCCTTGAATTCAATTGA+TGG | 0.369411 | 1.4:+60089753 | None:intergenic |
| CGTGATAAGTTTGTTTCTGT+TGG | 0.390129 | 1.4:-60090323 | MS.gene40048:CDS |
| AATGGACTGGTGTAGTTTAT+GGG | 0.405764 | 1.4:-60090274 | MS.gene40048:CDS |
| CATTGGGGATTTGATAAAAT+GGG | 0.415280 | 1.4:-60090056 | MS.gene40048:CDS |
| GGTCTTGAATCATCTCTAAC+AGG | 0.423225 | 1.4:+60090218 | None:intergenic |
| CTATCAGAATCGAGTGACTT+TGG | 0.424774 | 1.4:-60089853 | MS.gene40048:CDS |
| AAACTACACCAGTCCATTGC+GGG | 0.425596 | 1.4:+60090279 | None:intergenic |
| GCGAGGAAGTTTCACTTCAA+TGG | 0.427344 | 1.4:-60090034 | MS.gene40048:CDS |
| GCGTCCATCAATTGAATTCA+AGG | 0.427623 | 1.4:-60089757 | MS.gene40048:CDS |
| CTCTTCAGTCACAGCTGCAT+TGG | 0.432193 | 1.4:+60090376 | None:intergenic |
| GTCTCTTAAGTTGCATGGTA+TGG | 0.438652 | 1.4:-60090507 | MS.gene40048:CDS |
| GACTTCATATTGCTGCAAAC+AGG | 0.440302 | 1.4:-60090115 | MS.gene40048:CDS |
| CATCCAGTTACTTTCAAAAG+AGG | 0.442116 | 1.4:-60089932 | MS.gene40048:CDS |
| ATGAAGCTGAAGTTTGAATT+GGG | 0.447468 | 1.4:-60090092 | MS.gene40048:CDS |
| ACAAGATCTGTTTCTGTAGT+AGG | 0.465747 | 1.4:+60090197 | None:intergenic |
| AGTCCTATGGAGAAAACAAC+TGG | 0.476468 | 1.4:-60090473 | MS.gene40048:CDS |
| AAGTGTAGCTGCATTGTTCA+AGG | 0.486119 | 1.4:-60090155 | MS.gene40048:CDS |
| CACGAGAATCATCACTAAAT+GGG | 0.488835 | 1.4:+60090342 | None:intergenic |
| TCCATTGCGGGACTTCCACT+TGG | 0.490081 | 1.4:+60090291 | None:intergenic |
| ACTACAGAAACAGATCTTGT+TGG | 0.490540 | 1.4:-60090194 | MS.gene40048:CDS |
| GGGACTTCCACTTGGAAAAG+AGG | 0.495364 | 1.4:+60090299 | None:intergenic |
| GTGGAAGTCCCGCAATGGAC+TGG | 0.500938 | 1.4:-60090287 | MS.gene40048:CDS |
| TCTATGTCTCTTAAGTTGCA+TGG | 0.539525 | 1.4:-60090512 | MS.gene40048:CDS |
| GAAGTTTCACTTCAATGGAC+AGG | 0.549438 | 1.4:-60090029 | MS.gene40048:CDS |
| GGGATTTGATAAAATGGGCG+AGG | 0.561801 | 1.4:-60090051 | MS.gene40048:CDS |
| GAAACAGATCTTGTTGGTCG+AGG | 0.567313 | 1.4:-60090188 | MS.gene40048:CDS |
| TCCAAGTGGAAGTCCCGCAA+TGG | 0.584534 | 1.4:-60090292 | MS.gene40048:CDS |
| CTTGTTGGTCGAGGAAGACG+AGG | 0.596465 | 1.4:-60090179 | MS.gene40048:CDS |
| TAAACTACACCAGTCCATTG+CGG | 0.655876 | 1.4:+60090278 | None:intergenic |
| AAAGAGGACAAGAAAAGACA+TGG | 0.658301 | 1.4:-60089916 | MS.gene40048:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TGATGAAGAAAAGAGATTTA+AGG | - | chr1.4:60090240-60090259 | MS.gene40048:CDS | 25.0% |
| !! | GAAATCGAATTTGAATCTTT+TGG | - | chr1.4:60090439-60090458 | MS.gene40048:CDS | 25.0% |
| ATGAAGCTGAAGTTTGAATT+GGG | - | chr1.4:60090154-60090173 | MS.gene40048:CDS | 30.0% | |
| CATTGGGGATTTGATAAAAT+GGG | - | chr1.4:60090190-60090209 | MS.gene40048:CDS | 30.0% | |
| ! | GAATTTGAATCTTTTGGTGA+TGG | - | chr1.4:60090445-60090464 | MS.gene40048:CDS | 30.0% |
| !! | GTTCCAAAAAGACTTGTTTT+GGG | + | chr1.4:60090290-60090309 | None:intergenic | 30.0% |
| !! | TGTTCCAAAAAGACTTGTTT+TGG | + | chr1.4:60090291-60090310 | None:intergenic | 30.0% |
| AAAGAGGACAAGAAAAGACA+TGG | - | chr1.4:60090330-60090349 | MS.gene40048:CDS | 35.0% | |
| AATCTTTAGGCACACAAGTA+TGG | - | chr1.4:60090005-60090024 | MS.gene40048:CDS | 35.0% | |
| ACTACAGAAACAGATCTTGT+TGG | - | chr1.4:60090052-60090071 | MS.gene40048:CDS | 35.0% | |
| CACGAGAATCATCACTAAAT+GGG | + | chr1.4:60089907-60089926 | None:intergenic | 35.0% | |
| CACTCCTTGAATTCAATTGA+TGG | + | chr1.4:60090496-60090515 | None:intergenic | 35.0% | |
| CCATTGGGGATTTGATAAAA+TGG | - | chr1.4:60090189-60090208 | MS.gene40048:CDS | 35.0% | |
| GATGAAGCTGAAGTTTGAAT+TGG | - | chr1.4:60090153-60090172 | MS.gene40048:CDS | 35.0% | |
| GGAATCAGAAAAAAGTCCTA+TGG | - | chr1.4:60089760-60089779 | MS.gene40048:CDS | 35.0% | |
| TCACGAGAATCATCACTAAA+TGG | + | chr1.4:60089908-60089927 | None:intergenic | 35.0% | |
| TTCTTCTTGATCACAACATC+TGG | + | chr1.4:60089803-60089822 | None:intergenic | 35.0% | |
| ! | CATCCAGTTACTTTCAAAAG+AGG | - | chr1.4:60090314-60090333 | MS.gene40048:CDS | 35.0% |
| ! | CCATTTTATCAAATCCCCAA+TGG | + | chr1.4:60090192-60090211 | None:intergenic | 35.0% |
| !! | AATGGACTGGTGTAGTTTAT+GGG | - | chr1.4:60089972-60089991 | MS.gene40048:CDS | 35.0% |
| !! | ACAAGATCTGTTTCTGTAGT+AGG | + | chr1.4:60090052-60090071 | None:intergenic | 35.0% |
| !! | CGTGATAAGTTTGTTTCTGT+TGG | - | chr1.4:60089923-60089942 | MS.gene40048:CDS | 35.0% |
| !! | CTCTTTTGAAAGTAACTGGA+TGG | + | chr1.4:60090316-60090335 | None:intergenic | 35.0% |
| !! | TGTCCTCTTTTGAAAGTAAC+TGG | + | chr1.4:60090320-60090339 | None:intergenic | 35.0% |
| !!! | AAAAAGACTTGTTTTGGGAG+GGG | + | chr1.4:60090285-60090304 | None:intergenic | 35.0% |
| !!! | AATCTTTTGGTGATGGTTTC+GGG | - | chr1.4:60090452-60090471 | MS.gene40048:CDS | 35.0% |
| !!! | CAAAAAGACTTGTTTTGGGA+GGG | + | chr1.4:60090286-60090305 | None:intergenic | 35.0% |
| !!! | GAATCTTTTGGTGATGGTTT+CGG | - | chr1.4:60090451-60090470 | MS.gene40048:CDS | 35.0% |
| AAGTGTAGCTGCATTGTTCA+AGG | - | chr1.4:60090091-60090110 | MS.gene40048:CDS | 40.0% | |
| AGTCCTATGGAGAAAACAAC+TGG | - | chr1.4:60089773-60089792 | MS.gene40048:CDS | 40.0% | |
| CTATCAGAATCGAGTGACTT+TGG | - | chr1.4:60090393-60090412 | MS.gene40048:CDS | 40.0% | |
| GAAGTTTCACTTCAATGGAC+AGG | - | chr1.4:60090217-60090236 | MS.gene40048:CDS | 40.0% | |
| GACTTCATATTGCTGCAAAC+AGG | - | chr1.4:60090131-60090150 | MS.gene40048:CDS | 40.0% | |
| GCGTCCATCAATTGAATTCA+AGG | - | chr1.4:60090489-60090508 | MS.gene40048:CDS | 40.0% | |
| GGGAGTGACTCTAAATCTTT+AGG | - | chr1.4:60089992-60090011 | MS.gene40048:CDS | 40.0% | |
| GGTCTTGAATCATCTCTAAC+AGG | + | chr1.4:60090031-60090050 | None:intergenic | 40.0% | |
| TAAACTACACCAGTCCATTG+CGG | + | chr1.4:60089971-60089990 | None:intergenic | 40.0% | |
| ! | CCTCCCAAAACAAGTCTTTT+TGG | - | chr1.4:60090284-60090303 | MS.gene40048:CDS | 40.0% |
| ! | GGGTTCTGCATTTTACCATT+GGG | - | chr1.4:60090174-60090193 | MS.gene40048:CDS | 40.0% |
| ! | GGTTCTGCATTTTACCATTG+GGG | - | chr1.4:60090175-60090194 | MS.gene40048:CDS | 40.0% |
| ! | GTCTCTTAAGTTGCATGGTA+TGG | - | chr1.4:60089739-60089758 | MS.gene40048:CDS | 40.0% |
| ! | TGGGTTCTGCATTTTACCAT+TGG | - | chr1.4:60090173-60090192 | MS.gene40048:CDS | 40.0% |
| !! | CAATGGACTGGTGTAGTTTA+TGG | - | chr1.4:60089971-60089990 | MS.gene40048:CDS | 40.0% |
| !! | TTGCCAGTTGTTTTCTCCAT+AGG | + | chr1.4:60089779-60089798 | None:intergenic | 40.0% |
| !!! | CCAAAAAGACTTGTTTTGGG+AGG | + | chr1.4:60090287-60090306 | None:intergenic | 40.0% |
| !!! | CTTTTTTCTCACAGCTGCTT+TGG | + | chr1.4:60089837-60089856 | None:intergenic | 40.0% |
| AAACTACACCAGTCCATTGC+GGG | + | chr1.4:60089970-60089989 | None:intergenic | 45.0% | |
| GAAACAGATCTTGTTGGTCG+AGG | - | chr1.4:60090058-60090077 | MS.gene40048:CDS | 45.0% | |
| GCGAGGAAGTTTCACTTCAA+TGG | - | chr1.4:60090212-60090231 | MS.gene40048:CDS | 45.0% | |
| GGGATTTGATAAAATGGGCG+AGG | - | chr1.4:60090195-60090214 | MS.gene40048:CDS | 45.0% | |
| ! | TGTTGGTCCTCTTTTCCAAG+TGG | - | chr1.4:60089940-60089959 | MS.gene40048:CDS | 45.0% |
| CTCTTCAGTCACAGCTGCAT+TGG | + | chr1.4:60089873-60089892 | None:intergenic | 50.0% | |
| GGGACTTCCACTTGGAAAAG+AGG | + | chr1.4:60089950-60089969 | None:intergenic | 50.0% | |
| !!! | CTTTTGGTGATGGTTTCGGG+AGG | - | chr1.4:60090455-60090474 | MS.gene40048:CDS | 50.0% |
| CTTGTTGGTCGAGGAAGACG+AGG | - | chr1.4:60090067-60090086 | MS.gene40048:CDS | 55.0% | |
| TCCAAGTGGAAGTCCCGCAA+TGG | - | chr1.4:60089954-60089973 | MS.gene40048:CDS | 55.0% | |
| TCCATTGCGGGACTTCCACT+TGG | + | chr1.4:60089958-60089977 | None:intergenic | 55.0% | |
| GTGGAAGTCCCGCAATGGAC+TGG | - | chr1.4:60089959-60089978 | MS.gene40048:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 60089737 | 60090531 | 60089737 | ID=MS.gene40048 |
| chr1.4 | mRNA | 60089737 | 60090531 | 60089737 | ID=MS.gene40048.t1;Parent=MS.gene40048 |
| chr1.4 | exon | 60089737 | 60090531 | 60089737 | ID=MS.gene40048.t1.exon1;Parent=MS.gene40048.t1 |
| chr1.4 | CDS | 60089737 | 60090531 | 60089737 | ID=cds.MS.gene40048.t1;Parent=MS.gene40048.t1 |
| Gene Sequence |
| Protein sequence |
