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.gene29871.t1 | RHN66872.1 | 97.3 | 149 | 4 | 0 | 1 | 149 | 381 | 529 | 4.50E-78 | 300.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29871.t1 | Q9SHJ5 | 74.7 | 146 | 37 | 0 | 1 | 146 | 440 | 585 | 5.6e-61 | 235.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29871.t1 | G7IY00 | 97.3 | 149 | 4 | 0 | 1 | 149 | 129 | 277 | 3.2e-78 | 300.4 |
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.gene29871 | 0.802337 | 5.89E-49 | -1.69E-46 |
| MS.gene052255 | MS.gene29871 | 0.817403 | 3.36E-52 | -1.69E-46 |
| MS.gene057750 | MS.gene29871 | 0.809072 | 2.27E-50 | -1.69E-46 |
| MS.gene059124 | MS.gene29871 | 0.804321 | 2.29E-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.gene29871.t1 | MTR_3g048330 | 97.315 | 149 | 4 | 0 | 1 | 149 | 129 | 277 | 3.06e-107 | 306 |
| MS.gene29871.t1 | MTR_3g448430 | 91.724 | 145 | 12 | 0 | 1 | 145 | 367 | 511 | 1.28e-94 | 282 |
| MS.gene29871.t1 | MTR_5g091660 | 84.138 | 145 | 23 | 0 | 3 | 147 | 387 | 531 | 2.75e-85 | 259 |
| MS.gene29871.t1 | MTR_5g061520 | 64.865 | 148 | 51 | 1 | 3 | 149 | 338 | 485 | 1.19e-66 | 210 |
| MS.gene29871.t1 | MTR_4g415290 | 60.403 | 149 | 59 | 0 | 1 | 149 | 345 | 493 | 3.36e-64 | 204 |
| MS.gene29871.t1 | MTR_7g067380 | 61.745 | 149 | 57 | 0 | 1 | 149 | 347 | 495 | 1.36e-63 | 202 |
| MS.gene29871.t1 | MTR_1g040500 | 60.274 | 146 | 58 | 0 | 3 | 148 | 349 | 494 | 2.42e-59 | 192 |
| MS.gene29871.t1 | MTR_1g086650 | 58.940 | 151 | 58 | 2 | 3 | 149 | 383 | 533 | 4.22e-59 | 191 |
| MS.gene29871.t1 | MTR_5g080360 | 61.111 | 144 | 56 | 0 | 3 | 146 | 330 | 473 | 5.24e-59 | 190 |
| MS.gene29871.t1 | MTR_8g030620 | 57.823 | 147 | 61 | 1 | 1 | 146 | 352 | 498 | 3.93e-58 | 188 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29871.t1 | AT1G06520 | 74.658 | 146 | 37 | 0 | 1 | 146 | 440 | 585 | 2.08e-76 | 238 |
| MS.gene29871.t1 | AT2G38110 | 64.430 | 149 | 53 | 0 | 1 | 149 | 350 | 498 | 1.05e-65 | 208 |
| MS.gene29871.t1 | AT1G02390 | 62.338 | 154 | 52 | 2 | 1 | 148 | 377 | 530 | 9.85e-65 | 206 |
| MS.gene29871.t1 | AT1G01610 | 60.544 | 147 | 57 | 1 | 1 | 146 | 348 | 494 | 4.15e-61 | 196 |
| MS.gene29871.t1 | AT4G00400 | 59.184 | 147 | 59 | 1 | 1 | 146 | 347 | 493 | 4.79e-59 | 191 |
| MS.gene29871.t1 | AT3G11430 | 60.690 | 145 | 57 | 0 | 1 | 145 | 337 | 481 | 5.04e-59 | 191 |
| MS.gene29871.t1 | AT4G01950 | 60.403 | 149 | 56 | 2 | 1 | 147 | 372 | 519 | 5.12e-59 | 191 |
| MS.gene29871.t1 | AT4G01950 | 60.403 | 149 | 56 | 2 | 1 | 147 | 400 | 547 | 9.40e-59 | 191 |
| MS.gene29871.t1 | AT5G06090 | 60.140 | 143 | 57 | 0 | 3 | 145 | 337 | 479 | 1.39e-57 | 187 |
| MS.gene29871.t1 | AT3G11325 | 56.800 | 125 | 54 | 0 | 22 | 146 | 249 | 373 | 6.22e-51 | 167 |
| MS.gene29871.t1 | AT3G11325 | 56.800 | 125 | 54 | 0 | 22 | 146 | 246 | 370 | 7.21e-51 | 167 |
Find 27 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCAGCACAAGTGAGTTCTTT+TGG | 0.209499 | 3.3:+38497245 | None:intergenic |
| AAAAGAGTTGGGTGATGCTT+TGG | 0.317799 | 3.3:-38497186 | MS.gene29871:CDS |
| TCCCTACAAGTTGTTCCTTC+AGG | 0.358949 | 3.3:+38497452 | None:intergenic |
| GATAAATATATGATGTTAGC+TGG | 0.365163 | 3.3:-38497134 | MS.gene29871:CDS |
| AGCTAGTGGATTAAAATGTT+TGG | 0.371794 | 3.3:-38497330 | MS.gene29871:CDS |
| AAAGAGTTGGGTGATGCTTT+GGG | 0.380680 | 3.3:-38497185 | MS.gene29871:CDS |
| TAGTATTGAAGTACTTGAAA+AGG | 0.439082 | 3.3:-38497270 | MS.gene29871:CDS |
| ATATAATTAGCCACTTCAAA+AGG | 0.492994 | 3.3:+38497212 | None:intergenic |
| CCAAAAGAACTCACTTGTGC+TGG | 0.501281 | 3.3:-38497245 | MS.gene29871:CDS |
| GTCCTGAAGGAACAACTTGT+AGG | 0.502469 | 3.3:-38497454 | MS.gene29871:CDS |
| GAACTAAATCTCAATAGATA+AGG | 0.509333 | 3.3:+38497428 | None:intergenic |
| AAAGAACTCACTTGTGCTGG+TGG | 0.522091 | 3.3:-38497242 | MS.gene29871:CDS |
| ATAAATATATGATGTTAGCT+GGG | 0.539552 | 3.3:-38497133 | MS.gene29871:CDS |
| TCCTGAAGGAACAACTTGTA+GGG | 0.557385 | 3.3:-38497453 | MS.gene29871:CDS |
| ATGATGTTAGCTGGGAATGA+AGG | 0.571083 | 3.3:-38497125 | MS.gene29871:CDS |
| TGCTGATGAGATTGTTCCTG+TGG | 0.580570 | 3.3:-38497390 | MS.gene29871:CDS |
| ATGCAAAGGTTGTTAAGTGA+AGG | 0.581573 | 3.3:-38497491 | MS.gene29871:CDS |
| GATTTAGTTGTGTGTCCTGA+AGG | 0.591518 | 3.3:-38497467 | MS.gene29871:CDS |
| ACATTAGCATTCATAGCCAC+AGG | 0.592352 | 3.3:+38497374 | None:intergenic |
| AGTACTTCAATACTATAACT+AGG | 0.596445 | 3.3:+38497278 | None:intergenic |
| TCAATACTATAACTAGGCCA+TGG | 0.601201 | 3.3:+38497284 | None:intergenic |
| TTGAGTGTACAAATATTACA+AGG | 0.604181 | 3.3:-38497160 | MS.gene29871:CDS |
| AAGATAGAGAAACAATGCAA+AGG | 0.634514 | 3.3:-38497505 | MS.gene29871:CDS |
| GTGTACAAATATTACAAGGA+GGG | 0.638648 | 3.3:-38497156 | MS.gene29871:CDS |
| TAAAGACAATGAGTTTAACA+AGG | 0.642663 | 3.3:-38497538 | None:intergenic |
| AGTGTACAAATATTACAAGG+AGG | 0.666630 | 3.3:-38497157 | MS.gene29871:CDS |
| AAAGACAATGAGTTTAACAA+GGG | 0.667075 | 3.3:-38497537 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATTATATACAAAAAGAGTT+GGG | - | chr3.3:38497436-38497455 | MS.gene29871:CDS | 15.0% |
| !! | TAATTATATACAAAAAGAGT+TGG | - | chr3.3:38497435-38497454 | MS.gene29871:CDS | 15.0% |
| !! | ATAAATATATGATGTTAGCT+GGG | - | chr3.3:38497500-38497519 | MS.gene29871:CDS | 20.0% |
| ! | AGTACTTCAATACTATAACT+AGG | + | chr3.3:38497358-38497377 | None:intergenic | 25.0% |
| ! | ATATAATTAGCCACTTCAAA+AGG | + | chr3.3:38497424-38497443 | None:intergenic | 25.0% |
| ! | GAACTAAATCTCAATAGATA+AGG | + | chr3.3:38497208-38497227 | None:intergenic | 25.0% |
| ! | GATAAATATATGATGTTAGC+TGG | - | chr3.3:38497499-38497518 | MS.gene29871:CDS | 25.0% |
| ! | TTGAGTGTACAAATATTACA+AGG | - | chr3.3:38497473-38497492 | MS.gene29871:CDS | 25.0% |
| !! | TAGTATTGAAGTACTTGAAA+AGG | - | chr3.3:38497363-38497382 | MS.gene29871:CDS | 25.0% |
| !!! | TTCTATTTTTGATGAATCCA+TGG | - | chr3.3:38497332-38497351 | MS.gene29871:CDS | 25.0% |
| AAGATAGAGAAACAATGCAA+AGG | - | chr3.3:38497128-38497147 | MS.gene29871:CDS | 30.0% | |
| AGTGTACAAATATTACAAGG+AGG | - | chr3.3:38497476-38497495 | MS.gene29871:CDS | 30.0% | |
| GTGTACAAATATTACAAGGA+GGG | - | chr3.3:38497477-38497496 | MS.gene29871:CDS | 30.0% | |
| ! | GCTAATGTGAGTATGTTTTA+TGG | - | chr3.3:38497274-38497293 | MS.gene29871:CDS | 30.0% |
| !! | AGCTAGTGGATTAAAATGTT+TGG | - | chr3.3:38497303-38497322 | MS.gene29871:CDS | 30.0% |
| ATGCAAAGGTTGTTAAGTGA+AGG | - | chr3.3:38497142-38497161 | MS.gene29871:CDS | 35.0% | |
| TCAATACTATAACTAGGCCA+TGG | + | chr3.3:38497352-38497371 | None:intergenic | 35.0% | |
| ! | TTTTATGGTACAACAGCTAG+TGG | - | chr3.3:38497289-38497308 | MS.gene29871:CDS | 35.0% |
| AAAAGAGTTGGGTGATGCTT+TGG | - | chr3.3:38497447-38497466 | MS.gene29871:CDS | 40.0% | |
| AAAGAGTTGGGTGATGCTTT+GGG | - | chr3.3:38497448-38497467 | MS.gene29871:CDS | 40.0% | |
| ACATTAGCATTCATAGCCAC+AGG | + | chr3.3:38497262-38497281 | None:intergenic | 40.0% | |
| ATGATGTTAGCTGGGAATGA+AGG | - | chr3.3:38497508-38497527 | MS.gene29871:CDS | 40.0% | |
| GATTTAGTTGTGTGTCCTGA+AGG | - | chr3.3:38497166-38497185 | MS.gene29871:CDS | 40.0% | |
| TCCTGAAGGAACAACTTGTA+GGG | - | chr3.3:38497180-38497199 | MS.gene29871:CDS | 40.0% | |
| !! | TGGAAAGTCTCCTTTTGAAG+TGG | - | chr3.3:38497411-38497430 | MS.gene29871:CDS | 40.0% |
| AAAGAACTCACTTGTGCTGG+TGG | - | chr3.3:38497391-38497410 | MS.gene29871:CDS | 45.0% | |
| CCAAAAGAACTCACTTGTGC+TGG | - | chr3.3:38497388-38497407 | MS.gene29871:CDS | 45.0% | |
| GTCCTGAAGGAACAACTTGT+AGG | - | chr3.3:38497179-38497198 | MS.gene29871:CDS | 45.0% | |
| TCCCTACAAGTTGTTCCTTC+AGG | + | chr3.3:38497184-38497203 | None:intergenic | 45.0% | |
| TGCTGATGAGATTGTTCCTG+TGG | - | chr3.3:38497243-38497262 | MS.gene29871:CDS | 45.0% | |
| ! | CCAGCACAAGTGAGTTCTTT+TGG | + | chr3.3:38497391-38497410 | None:intergenic | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 38497103 | 38497552 | 38497103 | ID=MS.gene29871 |
| chr3.3 | mRNA | 38497103 | 38497552 | 38497103 | ID=MS.gene29871.t1;Parent=MS.gene29871 |
| chr3.3 | exon | 38497103 | 38497552 | 38497103 | ID=MS.gene29871.t1.exon1;Parent=MS.gene29871.t1 |
| chr3.3 | CDS | 38497103 | 38497552 | 38497103 | ID=cds.MS.gene29871.t1;Parent=MS.gene29871.t1 |
| Gene Sequence |
| Protein sequence |
