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.gene029835.t1 | XP_024632961.1 | 95.2 | 310 | 15 | 0 | 1 | 310 | 1 | 310 | 3.40E-152 | 547.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene029835.t1 | Q9SZL8 | 28.8 | 257 | 165 | 6 | 52 | 308 | 74 | 312 | 3.5e-25 | 117.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene029835.t1 | A0A072TE13 | 86.5 | 310 | 27 | 1 | 1 | 310 | 1 | 295 | 3.6e-148 | 533.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene029835.t1 | TF | FAR1 |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene029835.t1 | MTR_0558s0020 | 88.710 | 310 | 20 | 1 | 1 | 310 | 1 | 295 | 0.0 | 571 |
| MS.gene029835.t1 | MTR_1g083640 | 94.406 | 286 | 16 | 0 | 1 | 286 | 1 | 286 | 0.0 | 565 |
| MS.gene029835.t1 | MTR_8g446020 | 76.452 | 310 | 18 | 3 | 1 | 310 | 1 | 255 | 1.94e-166 | 462 |
| MS.gene029835.t1 | MTR_2g014100 | 86.561 | 253 | 25 | 2 | 1 | 252 | 1 | 245 | 5.29e-159 | 444 |
| MS.gene029835.t1 | MTR_6g090505 | 91.304 | 230 | 20 | 0 | 81 | 310 | 1 | 230 | 1.95e-157 | 444 |
| MS.gene029835.t1 | MTR_0337s0040 | 73.913 | 276 | 18 | 2 | 1 | 276 | 1 | 222 | 1.49e-139 | 394 |
| MS.gene029835.t1 | MTR_3g008240 | 84.404 | 218 | 19 | 1 | 1 | 218 | 1 | 203 | 3.37e-131 | 371 |
| MS.gene029835.t1 | MTR_4g040430 | 84.404 | 218 | 14 | 3 | 1 | 218 | 1 | 198 | 3.52e-128 | 363 |
| MS.gene029835.t1 | MTR_5g071590 | 87.432 | 183 | 20 | 1 | 1 | 183 | 1 | 180 | 9.60e-117 | 334 |
| MS.gene029835.t1 | MTR_0019s0290 | 89.474 | 152 | 16 | 0 | 98 | 249 | 9 | 160 | 2.57e-98 | 286 |
| MS.gene029835.t1 | MTR_1g055240 | 93.706 | 143 | 9 | 0 | 106 | 248 | 2 | 144 | 7.95e-98 | 285 |
| MS.gene029835.t1 | MTR_1281s0010 | 92.661 | 109 | 8 | 0 | 35 | 143 | 1 | 109 | 2.28e-69 | 211 |
| MS.gene029835.t1 | MTR_8g046060 | 77.083 | 96 | 13 | 2 | 1 | 95 | 91 | 178 | 2.53e-37 | 132 |
| MS.gene029835.t1 | MTR_4g008820 | 74.737 | 95 | 9 | 1 | 1 | 95 | 125 | 204 | 8.57e-36 | 136 |
| MS.gene029835.t1 | MTR_6g051425 | 31.250 | 256 | 147 | 6 | 56 | 304 | 22 | 255 | 1.08e-30 | 118 |
| MS.gene029835.t1 | MTR_1g070355 | 28.458 | 253 | 158 | 6 | 57 | 307 | 80 | 311 | 8.03e-22 | 95.9 |
| MS.gene029835.t1 | MTR_0337s0050 | 83.333 | 36 | 6 | 0 | 275 | 310 | 14 | 49 | 1.06e-15 | 71.2 |
| MS.gene029835.t1 | MTR_1g013060 | 29.032 | 217 | 133 | 8 | 56 | 269 | 29 | 227 | 1.54e-13 | 69.3 |
| MS.gene029835.t1 | MTR_0402s0040 | 27.419 | 186 | 114 | 5 | 65 | 249 | 40 | 205 | 2.15e-13 | 70.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene029835.t1 | AT4G38180 | 29.008 | 262 | 158 | 7 | 52 | 308 | 74 | 312 | 2.28e-26 | 109 |
| MS.gene029835.t1 | AT5G28530 | 25.769 | 260 | 163 | 7 | 56 | 303 | 60 | 301 | 2.62e-15 | 77.0 |
| MS.gene029835.t1 | AT5G28530 | 25.769 | 260 | 163 | 7 | 56 | 303 | 60 | 301 | 2.62e-15 | 77.0 |
| MS.gene029835.t1 | AT5G28530 | 25.769 | 260 | 163 | 7 | 56 | 303 | 60 | 301 | 2.62e-15 | 77.0 |
| MS.gene029835.t1 | AT1G10240 | 22.556 | 266 | 186 | 7 | 48 | 310 | 45 | 293 | 8.38e-13 | 69.3 |
| MS.gene029835.t1 | AT1G10240 | 22.556 | 266 | 186 | 7 | 48 | 310 | 45 | 293 | 8.38e-13 | 69.3 |
Find 37 sgRNAs with CRISPR-Local
Find 51 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTGATGTTGTCCTGTTGTT+AGG | 0.288908 | 1.4:+52904662 | None:intergenic |
| GGTAATTATGCATATAAAAC+TGG | 0.302948 | 1.4:-52904806 | MS.gene029835:CDS |
| TTACTTCTCGAAATGATCTA+AGG | 0.311482 | 1.4:+52904471 | None:intergenic |
| CAACTAGATTATTCTCTATT+CGG | 0.323831 | 1.4:-52904155 | MS.gene029835:CDS |
| GCCGATATTTATTGTTTGTT+CGG | 0.341758 | 1.4:+52904105 | None:intergenic |
| AACAATAAATATCGGCCATT+AGG | 0.388497 | 1.4:-52904098 | None:intergenic |
| ACCGAACAAACAATAAATAT+CGG | 0.389395 | 1.4:-52904106 | MS.gene029835:CDS |
| GAGAACGTCTTATGAAGTTA+TGG | 0.394356 | 1.4:-52904396 | MS.gene029835:CDS |
| ATGTGTATAAGATATATAGA+TGG | 0.407680 | 1.4:-52904541 | MS.gene029835:CDS |
| GAAGTTATGGGTCAAGGAGT+TGG | 0.428685 | 1.4:-52904383 | MS.gene029835:CDS |
| CGAGAAGTAAATGAAGTTCA+AGG | 0.430014 | 1.4:-52904458 | MS.gene029835:CDS |
| ACAAAATAAGAAATTTGATA+AGG | 0.431852 | 1.4:-52904744 | MS.gene029835:CDS |
| GAAAGGGTTGGTTGTAAAGC+TGG | 0.447509 | 1.4:-52904593 | MS.gene029835:CDS |
| GCTCTTATAAATTCTAAAGC+TGG | 0.462891 | 1.4:-52904428 | MS.gene029835:CDS |
| TCCATGATACTTTATTGCTA+GGG | 0.464004 | 1.4:+52904873 | None:intergenic |
| AGAACGTCTTATGAAGTTAT+GGG | 0.466325 | 1.4:-52904395 | MS.gene029835:CDS |
| GTTTGCTTAATCCTAACAAC+AGG | 0.467124 | 1.4:-52904673 | MS.gene029835:CDS |
| TTTAAGTCTGAAAACCGAAA+AGG | 0.483010 | 1.4:+52904344 | None:intergenic |
| TTCCATGATACTTTATTGCT+AGG | 0.489989 | 1.4:+52904872 | None:intergenic |
| CGTTATGTTTGTAACAAACA+AGG | 0.494754 | 1.4:-52904710 | MS.gene029835:CDS |
| AGCTGGAATATCTTTGAAGC+TGG | 0.496270 | 1.4:-52904576 | MS.gene029835:CDS |
| CCCCTAGCAATAAAGTATCA+TGG | 0.498381 | 1.4:-52904874 | MS.gene029835:CDS |
| CTAAGGTAACATGAATGCTC+TGG | 0.504903 | 1.4:+52904488 | None:intergenic |
| TAACAAACAAGGTTTCAAGA+AGG | 0.511682 | 1.4:-52904699 | MS.gene029835:CDS |
| GAATGCTCTGGTTTATGTAA+TGG | 0.517705 | 1.4:+52904500 | None:intergenic |
| TTACAACCAACCCTTTCCTC+CGG | 0.518116 | 1.4:+52904599 | None:intergenic |
| TGTCTTCTGTAGCATCAACT+TGG | 0.520245 | 1.4:+52904210 | None:intergenic |
| TGTGTATAAGATATATAGAT+GGG | 0.523615 | 1.4:-52904540 | MS.gene029835:CDS |
| AACAAACAAGGTTTCAAGAA+GGG | 0.554561 | 1.4:-52904698 | MS.gene029835:CDS |
| TTCACAAACTCAATAACCAA+TGG | 0.554620 | 1.4:+52904635 | None:intergenic |
| GGAGTAACATTGAGAACTAT+CGG | 0.556951 | 1.4:+52904895 | None:intergenic |
| CCATGATACTTTATTGCTAG+GGG | 0.563054 | 1.4:+52904874 | None:intergenic |
| GTTATGGGTCAAGGAGTTGG+AGG | 0.578191 | 1.4:-52904380 | MS.gene029835:CDS |
| TTACTGATTCATGCTGAGAG+TGG | 0.579535 | 1.4:-52904953 | MS.gene029835:CDS |
| TCTTATGAAGTTATGGGTCA+AGG | 0.580120 | 1.4:-52904389 | MS.gene029835:CDS |
| GACAACATCAGACAGTCCAT+TGG | 0.604607 | 1.4:-52904651 | MS.gene029835:CDS |
| ATATCAACTTCATCTGAGAG+TGG | 0.614980 | 1.4:-52904998 | MS.gene029835:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ACAAAATAAGAAATTTGATA+AGG | - | chr1.4:52904362-52904381 | MS.gene029835:CDS | 15.0% |
| !! | ATGTGTATAAGATATATAGA+TGG | - | chr1.4:52904565-52904584 | MS.gene029835:CDS | 20.0% |
| !! | TGTGTATAAGATATATAGAT+GGG | - | chr1.4:52904566-52904585 | MS.gene029835:CDS | 20.0% |
| !!! | AAAGAGATTGAAGATTTTTA+TGG | - | chr1.4:52904279-52904298 | MS.gene029835:CDS | 20.0% |
| !!! | ATAAAACTGGATTTTCTATT+AGG | - | chr1.4:52904313-52904332 | MS.gene029835:CDS | 20.0% |
| ! | ACCGAACAAACAATAAATAT+CGG | - | chr1.4:52905000-52905019 | MS.gene029835:CDS | 25.0% |
| ! | CAACTAGATTATTCTCTATT+CGG | - | chr1.4:52904951-52904970 | MS.gene029835:CDS | 25.0% |
| ! | GGTAATTATGCATATAAAAC+TGG | - | chr1.4:52904300-52904319 | MS.gene029835:CDS | 25.0% |
| ! | TGGATATCATAGTAAAAAGA+TGG | + | chr1.4:52904879-52904898 | None:intergenic | 25.0% |
| !!! | AAGACATAGCTAGTATTTTT+TGG | - | chr1.4:52904913-52904932 | MS.gene029835:CDS | 25.0% |
| !!! | AGACATAGCTAGTATTTTTT+GGG | - | chr1.4:52904914-52904933 | MS.gene029835:CDS | 25.0% |
| AACAAACAAGGTTTCAAGAA+GGG | - | chr1.4:52904408-52904427 | MS.gene029835:CDS | 30.0% | |
| AGAACGTCTTATGAAGTTAT+GGG | - | chr1.4:52904711-52904730 | MS.gene029835:CDS | 30.0% | |
| CGTTATGTTTGTAACAAACA+AGG | - | chr1.4:52904396-52904415 | MS.gene029835:CDS | 30.0% | |
| GCCGATATTTATTGTTTGTT+CGG | + | chr1.4:52905004-52905023 | None:intergenic | 30.0% | |
| TAACAAACAAGGTTTCAAGA+AGG | - | chr1.4:52904407-52904426 | MS.gene029835:CDS | 30.0% | |
| TCCATGATACTTTATTGCTA+GGG | + | chr1.4:52904236-52904255 | None:intergenic | 30.0% | |
| TGTGAAAGTGAAAGAAAAAC+CGG | - | chr1.4:52904488-52904507 | MS.gene029835:CDS | 30.0% | |
| TTACTTCTCGAAATGATCTA+AGG | + | chr1.4:52904638-52904657 | None:intergenic | 30.0% | |
| TTCACAAACTCAATAACCAA+TGG | + | chr1.4:52904474-52904493 | None:intergenic | 30.0% | |
| TTCCATGATACTTTATTGCT+AGG | + | chr1.4:52904237-52904256 | None:intergenic | 30.0% | |
| TTTAAGTCTGAAAACCGAAA+AGG | + | chr1.4:52904765-52904784 | None:intergenic | 30.0% | |
| !! | GCTCTTATAAATTCTAAAGC+TGG | - | chr1.4:52904678-52904697 | MS.gene029835:CDS | 30.0% |
| AATTCGTCAAAAAGAGATGG+TGG | - | chr1.4:52904800-52904819 | MS.gene029835:CDS | 35.0% | |
| ATATCAACTTCATCTGAGAG+TGG | - | chr1.4:52904108-52904127 | MS.gene029835:CDS | 35.0% | |
| CCATGATACTTTATTGCTAG+GGG | + | chr1.4:52904235-52904254 | None:intergenic | 35.0% | |
| CGAGAAGTAAATGAAGTTCA+AGG | - | chr1.4:52904648-52904667 | MS.gene029835:CDS | 35.0% | |
| GACAATTCGTCAAAAAGAGA+TGG | - | chr1.4:52904797-52904816 | MS.gene029835:CDS | 35.0% | |
| GAGAACGTCTTATGAAGTTA+TGG | - | chr1.4:52904710-52904729 | MS.gene029835:CDS | 35.0% | |
| GGAGTAACATTGAGAACTAT+CGG | + | chr1.4:52904214-52904233 | None:intergenic | 35.0% | |
| GTTTGCTTAATCCTAACAAC+AGG | - | chr1.4:52904433-52904452 | MS.gene029835:CDS | 35.0% | |
| TCTTATGAAGTTATGGGTCA+AGG | - | chr1.4:52904717-52904736 | MS.gene029835:CDS | 35.0% | |
| ! | GAATGCTCTGGTTTATGTAA+TGG | + | chr1.4:52904609-52904628 | None:intergenic | 35.0% |
| CTAAGGTAACATGAATGCTC+TGG | + | chr1.4:52904621-52904640 | None:intergenic | 40.0% | |
| GAAAGAAAAACCGGAGGAAA+GGG | - | chr1.4:52904497-52904516 | MS.gene029835:CDS | 40.0% | |
| GAAAGTGAAAGAAAAACCGG+AGG | - | chr1.4:52904491-52904510 | MS.gene029835:CDS | 40.0% | |
| TCTGATGTTGTCCTGTTGTT+AGG | + | chr1.4:52904447-52904466 | None:intergenic | 40.0% | |
| TGAAAGAAAAACCGGAGGAA+AGG | - | chr1.4:52904496-52904515 | MS.gene029835:CDS | 40.0% | |
| TGTCTTCTGTAGCATCAACT+TGG | + | chr1.4:52904899-52904918 | None:intergenic | 40.0% | |
| ! | CCCCTAGCAATAAAGTATCA+TGG | - | chr1.4:52904232-52904251 | MS.gene029835:CDS | 40.0% |
| ! | GCACGAAGAATCTTCCTTTT+CGG | - | chr1.4:52904748-52904767 | MS.gene029835:CDS | 40.0% |
| !! | AGCTGGAATATCTTTGAAGC+TGG | - | chr1.4:52904530-52904549 | MS.gene029835:CDS | 40.0% |
| !! | TTACTGATTCATGCTGAGAG+TGG | - | chr1.4:52904153-52904172 | MS.gene029835:CDS | 40.0% |
| !!! | GCTAGTATTTTTTGGGCAGA+TGG | - | chr1.4:52904921-52904940 | MS.gene029835:CDS | 40.0% |
| GAAGTTATGGGTCAAGGAGT+TGG | - | chr1.4:52904723-52904742 | MS.gene029835:CDS | 45.0% | |
| GACAACATCAGACAGTCCAT+TGG | - | chr1.4:52904455-52904474 | MS.gene029835:CDS | 45.0% | |
| TTACAACCAACCCTTTCCTC+CGG | + | chr1.4:52904510-52904529 | None:intergenic | 45.0% | |
| ! | CGTCAAAAAGAGATGGTGGT+TGG | - | chr1.4:52904804-52904823 | MS.gene029835:CDS | 45.0% |
| !! | GAAAGGGTTGGTTGTAAAGC+TGG | - | chr1.4:52904513-52904532 | MS.gene029835:CDS | 45.0% |
| GAAAAACCGGAGGAAAGGGT+TGG | - | chr1.4:52904501-52904520 | MS.gene029835:CDS | 50.0% | |
| GTTATGGGTCAAGGAGTTGG+AGG | - | chr1.4:52904726-52904745 | MS.gene029835:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 52904099 | 52905029 | 52904099 | ID=MS.gene029835 |
| chr1.4 | mRNA | 52904099 | 52905029 | 52904099 | ID=MS.gene029835.t1;Parent=MS.gene029835 |
| chr1.4 | exon | 52904099 | 52905029 | 52904099 | ID=MS.gene029835.t1.exon1;Parent=MS.gene029835.t1 |
| chr1.4 | CDS | 52904099 | 52905029 | 52904099 | ID=cds.MS.gene029835.t1;Parent=MS.gene029835.t1 |
| Gene Sequence |
| Protein sequence |
