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.gene22136.t1 | RHN66872.1 | 97.4 | 155 | 4 | 0 | 1 | 155 | 375 | 529 | 2.00E-81 | 311.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene22136.t1 | Q9SHJ5 | 73.7 | 152 | 40 | 0 | 1 | 152 | 434 | 585 | 2.8e-63 | 242.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene22136.t1 | G7IY00 | 97.4 | 155 | 4 | 0 | 1 | 155 | 123 | 277 | 1.5e-81 | 311.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049346 | MS.gene22136 | 0.801222 | 9.97E-49 | -1.69E-46 |
| MS.gene049915 | MS.gene22136 | 0.817174 | 3.78E-52 | -1.69E-46 |
| MS.gene050820 | MS.gene22136 | 0.806109 | 9.65E-50 | -1.69E-46 |
| MS.gene052255 | MS.gene22136 | 0.81379 | 2.14E-51 | -1.69E-46 |
| MS.gene054542 | MS.gene22136 | 0.800869 | 1.18E-48 | -1.69E-46 |
| MS.gene057750 | MS.gene22136 | 0.805492 | 1.30E-49 | -1.69E-46 |
| MS.gene057754 | MS.gene22136 | 0.813144 | 2.97E-51 | -1.69E-46 |
| MS.gene058168 | MS.gene22136 | 0.80276 | 4.82E-49 | -1.69E-46 |
| MS.gene059124 | MS.gene22136 | 0.827691 | 1.36E-54 | -1.69E-46 |
| MS.gene061049 | MS.gene22136 | 0.802094 | 6.60E-49 | -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.gene22136.t1 | MTR_3g048330 | 97.419 | 155 | 4 | 0 | 1 | 155 | 123 | 277 | 1.05e-111 | 318 |
| MS.gene22136.t1 | MTR_3g448430 | 90.066 | 151 | 15 | 0 | 1 | 151 | 361 | 511 | 8.61e-98 | 291 |
| MS.gene22136.t1 | MTR_5g091660 | 82.353 | 153 | 27 | 0 | 1 | 153 | 379 | 531 | 7.43e-89 | 269 |
| MS.gene22136.t1 | MTR_5g061520 | 64.744 | 156 | 54 | 1 | 1 | 155 | 330 | 485 | 3.04e-70 | 219 |
| MS.gene22136.t1 | MTR_4g415290 | 60.645 | 155 | 61 | 0 | 1 | 155 | 339 | 493 | 2.08e-67 | 212 |
| MS.gene22136.t1 | MTR_7g067380 | 61.935 | 155 | 59 | 0 | 1 | 155 | 341 | 495 | 1.00e-66 | 211 |
| MS.gene22136.t1 | MTR_1g040500 | 60.390 | 154 | 61 | 0 | 1 | 154 | 341 | 494 | 3.65e-63 | 203 |
| MS.gene22136.t1 | MTR_1g086650 | 58.491 | 159 | 62 | 2 | 1 | 155 | 375 | 533 | 1.50e-62 | 201 |
| MS.gene22136.t1 | MTR_5g080360 | 60.526 | 152 | 60 | 0 | 1 | 152 | 322 | 473 | 3.46e-62 | 199 |
| MS.gene22136.t1 | MTR_8g030620 | 57.516 | 153 | 64 | 1 | 1 | 152 | 346 | 498 | 1.04e-60 | 195 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene22136.t1 | AT1G06520 | 73.684 | 152 | 40 | 0 | 1 | 152 | 434 | 585 | 1.11e-79 | 246 |
| MS.gene22136.t1 | AT2G38110 | 64.516 | 155 | 55 | 0 | 1 | 155 | 344 | 498 | 6.89e-69 | 216 |
| MS.gene22136.t1 | AT1G02390 | 62.500 | 160 | 54 | 2 | 1 | 154 | 371 | 530 | 1.99e-68 | 216 |
| MS.gene22136.t1 | AT1G01610 | 60.131 | 153 | 60 | 1 | 1 | 152 | 342 | 494 | 1.38e-63 | 202 |
| MS.gene22136.t1 | AT4G01950 | 60.645 | 155 | 58 | 2 | 1 | 153 | 366 | 519 | 1.23e-62 | 201 |
| MS.gene22136.t1 | AT4G01950 | 60.645 | 155 | 58 | 2 | 1 | 153 | 394 | 547 | 2.99e-62 | 200 |
| MS.gene22136.t1 | AT3G11430 | 60.927 | 151 | 59 | 0 | 1 | 151 | 331 | 481 | 3.12e-62 | 199 |
| MS.gene22136.t1 | AT4G00400 | 58.824 | 153 | 62 | 1 | 1 | 152 | 341 | 493 | 1.43e-61 | 197 |
| MS.gene22136.t1 | AT5G06090 | 59.603 | 151 | 61 | 0 | 1 | 151 | 329 | 479 | 2.41e-60 | 194 |
| MS.gene22136.t1 | AT3G11325 | 56.800 | 125 | 54 | 0 | 28 | 152 | 249 | 373 | 6.38e-51 | 167 |
| MS.gene22136.t1 | AT3G11325 | 56.800 | 125 | 54 | 0 | 28 | 152 | 246 | 370 | 7.08e-51 | 167 |
Find 28 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTAAACTCATTGTCTTTAT+AGG | 0.150817 | 3.4:+42675629 | None:intergenic |
| CCAGCACAAGTGAGTTCTTT+TGG | 0.209499 | 3.4:+42675332 | None:intergenic |
| AAAAGAGTTGGGTGATGCTT+TGG | 0.317799 | 3.4:-42675273 | MS.gene22136:CDS |
| TCCCTACAAGTTGTTCCTTC+AGG | 0.358949 | 3.4:+42675539 | None:intergenic |
| GATAAATATATGATGTTAGC+TGG | 0.365163 | 3.4:-42675221 | MS.gene22136:CDS |
| AGCTAGTGGATTAAAATGTT+TGG | 0.371794 | 3.4:-42675417 | MS.gene22136:CDS |
| AAAGAGTTGGGTGATGCTTT+GGG | 0.380680 | 3.4:-42675272 | MS.gene22136:CDS |
| TAGTATTGAAGTACTTGAAA+AGG | 0.439082 | 3.4:-42675357 | MS.gene22136:CDS |
| ATATAATTAGCCACTTCAAA+AGG | 0.492994 | 3.4:+42675299 | None:intergenic |
| CCAAAAGAACTCACTTGTGC+TGG | 0.501281 | 3.4:-42675332 | MS.gene22136:CDS |
| GTCCTGAAGGAACAACTTGT+AGG | 0.502469 | 3.4:-42675541 | MS.gene22136:CDS |
| GAACTAAATCTCAATAGATA+AGG | 0.509333 | 3.4:+42675515 | None:intergenic |
| AAAGAACTCACTTGTGCTGG+TGG | 0.522091 | 3.4:-42675329 | MS.gene22136:CDS |
| ATAAATATATGATGTTAGCT+GGG | 0.539552 | 3.4:-42675220 | MS.gene22136:CDS |
| TCCTGAAGGAACAACTTGTA+GGG | 0.557385 | 3.4:-42675540 | MS.gene22136:CDS |
| ATGATGTTAGCTGGGAATGA+AGG | 0.571083 | 3.4:-42675212 | MS.gene22136:CDS |
| TGCTGATGAGATTGTTCCTG+TGG | 0.580570 | 3.4:-42675477 | MS.gene22136:CDS |
| ATGCAAAGGTTGTTAAGTGA+AGG | 0.581573 | 3.4:-42675578 | MS.gene22136:CDS |
| GATTTAGTTGTGTGTCCTGA+AGG | 0.591518 | 3.4:-42675554 | MS.gene22136:CDS |
| ACATTAGCATTCATAGCCAC+AGG | 0.592352 | 3.4:+42675461 | None:intergenic |
| AGTACTTCAATACTATAACT+AGG | 0.596445 | 3.4:+42675365 | None:intergenic |
| TCAATACTATAACTAGGCCA+TGG | 0.601201 | 3.4:+42675371 | None:intergenic |
| TTGAGTGTACAAATATTACA+AGG | 0.604181 | 3.4:-42675247 | MS.gene22136:CDS |
| AAGATAGAGAAACAATGCAA+AGG | 0.634514 | 3.4:-42675592 | MS.gene22136:CDS |
| GTGTACAAATATTACAAGGA+GGG | 0.638648 | 3.4:-42675243 | MS.gene22136:CDS |
| TAAAGACAATGAGTTTAACA+AGG | 0.642663 | 3.4:-42675625 | MS.gene22136:CDS |
| AGTGTACAAATATTACAAGG+AGG | 0.666630 | 3.4:-42675244 | MS.gene22136:CDS |
| AAAGACAATGAGTTTAACAA+GGG | 0.667075 | 3.4:-42675624 | MS.gene22136:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATTATATACAAAAAGAGTT+GGG | - | chr3.4:42675541-42675560 | MS.gene22136:CDS | 15.0% |
| !! | TAATTATATACAAAAAGAGT+TGG | - | chr3.4:42675540-42675559 | MS.gene22136:CDS | 15.0% |
| !! | ATAAATATATGATGTTAGCT+GGG | - | chr3.4:42675605-42675624 | MS.gene22136:CDS | 20.0% |
| ! | AAAGACAATGAGTTTAACAA+GGG | - | chr3.4:42675201-42675220 | MS.gene22136:CDS | 25.0% |
| ! | AGTACTTCAATACTATAACT+AGG | + | chr3.4:42675463-42675482 | None:intergenic | 25.0% |
| ! | ATATAATTAGCCACTTCAAA+AGG | + | chr3.4:42675529-42675548 | None:intergenic | 25.0% |
| ! | GAACTAAATCTCAATAGATA+AGG | + | chr3.4:42675313-42675332 | None:intergenic | 25.0% |
| ! | GATAAATATATGATGTTAGC+TGG | - | chr3.4:42675604-42675623 | MS.gene22136:CDS | 25.0% |
| ! | GTTAAACTCATTGTCTTTAT+AGG | + | chr3.4:42675199-42675218 | None:intergenic | 25.0% |
| ! | TAAAGACAATGAGTTTAACA+AGG | - | chr3.4:42675200-42675219 | MS.gene22136:CDS | 25.0% |
| ! | TTGAGTGTACAAATATTACA+AGG | - | chr3.4:42675578-42675597 | MS.gene22136:CDS | 25.0% |
| !! | TAGTATTGAAGTACTTGAAA+AGG | - | chr3.4:42675468-42675487 | MS.gene22136:CDS | 25.0% |
| !!! | TTCTATTTTTGATGAATCCA+TGG | - | chr3.4:42675437-42675456 | MS.gene22136:CDS | 25.0% |
| AAGATAGAGAAACAATGCAA+AGG | - | chr3.4:42675233-42675252 | MS.gene22136:CDS | 30.0% | |
| AGTGTACAAATATTACAAGG+AGG | - | chr3.4:42675581-42675600 | MS.gene22136:CDS | 30.0% | |
| GTGTACAAATATTACAAGGA+GGG | - | chr3.4:42675582-42675601 | MS.gene22136:CDS | 30.0% | |
| ! | GCTAATGTGAGTATGTTTTA+TGG | - | chr3.4:42675379-42675398 | MS.gene22136:CDS | 30.0% |
| !! | AGCTAGTGGATTAAAATGTT+TGG | - | chr3.4:42675408-42675427 | MS.gene22136:CDS | 30.0% |
| ATGCAAAGGTTGTTAAGTGA+AGG | - | chr3.4:42675247-42675266 | MS.gene22136:CDS | 35.0% | |
| TCAATACTATAACTAGGCCA+TGG | + | chr3.4:42675457-42675476 | None:intergenic | 35.0% | |
| ! | TTTTATGGTACAACAGCTAG+TGG | - | chr3.4:42675394-42675413 | MS.gene22136:CDS | 35.0% |
| AAAAGAGTTGGGTGATGCTT+TGG | - | chr3.4:42675552-42675571 | MS.gene22136:CDS | 40.0% | |
| AAAGAGTTGGGTGATGCTTT+GGG | - | chr3.4:42675553-42675572 | MS.gene22136:CDS | 40.0% | |
| ACATTAGCATTCATAGCCAC+AGG | + | chr3.4:42675367-42675386 | None:intergenic | 40.0% | |
| ATGATGTTAGCTGGGAATGA+AGG | - | chr3.4:42675613-42675632 | MS.gene22136:CDS | 40.0% | |
| GATTTAGTTGTGTGTCCTGA+AGG | - | chr3.4:42675271-42675290 | MS.gene22136:CDS | 40.0% | |
| TCCTGAAGGAACAACTTGTA+GGG | - | chr3.4:42675285-42675304 | MS.gene22136:CDS | 40.0% | |
| !! | TGGAAAGTCTCCTTTTGAAG+TGG | - | chr3.4:42675516-42675535 | MS.gene22136:CDS | 40.0% |
| AAAGAACTCACTTGTGCTGG+TGG | - | chr3.4:42675496-42675515 | MS.gene22136:CDS | 45.0% | |
| CCAAAAGAACTCACTTGTGC+TGG | - | chr3.4:42675493-42675512 | MS.gene22136:CDS | 45.0% | |
| GTCCTGAAGGAACAACTTGT+AGG | - | chr3.4:42675284-42675303 | MS.gene22136:CDS | 45.0% | |
| TCCCTACAAGTTGTTCCTTC+AGG | + | chr3.4:42675289-42675308 | None:intergenic | 45.0% | |
| TGCTGATGAGATTGTTCCTG+TGG | - | chr3.4:42675348-42675367 | MS.gene22136:CDS | 45.0% | |
| ! | CCAGCACAAGTGAGTTCTTT+TGG | + | chr3.4:42675496-42675515 | None:intergenic | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 42675190 | 42675657 | 42675190 | ID=MS.gene22136 |
| chr3.4 | mRNA | 42675190 | 42675657 | 42675190 | ID=MS.gene22136.t1;Parent=MS.gene22136 |
| chr3.4 | exon | 42675190 | 42675657 | 42675190 | ID=MS.gene22136.t1.exon1;Parent=MS.gene22136.t1 |
| chr3.4 | CDS | 42675190 | 42675657 | 42675190 | ID=cds.MS.gene22136.t1;Parent=MS.gene22136.t1 |
| Gene Sequence |
| Protein sequence |
