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.gene006842.t1 | RHN62036.1 | 92.7 | 399 | 25 | 4 | 1 | 396 | 101 | 498 | 1.30E-100 | 376.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene006842.t1 | Q9M202 | 52.6 | 57 | 27 | 0 | 340 | 396 | 224 | 280 | 1.3e-08 | 62.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene006842.t1 | A0A396I8U1 | 92.7 | 399 | 25 | 4 | 1 | 396 | 101 | 498 | 9.5e-101 | 376.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene006842.t1 | TF | C2H2 |
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.gene006842.t1 | MTR_4g082980 | 82.957 | 399 | 16 | 6 | 1 | 396 | 101 | 450 | 4.46e-172 | 488 |
| MS.gene006842.t1 | MTR_5g043930 | 43.459 | 451 | 161 | 21 | 1 | 396 | 103 | 514 | 6.71e-62 | 207 |
| MS.gene006842.t1 | MTR_4g109340 | 30.536 | 429 | 230 | 19 | 3 | 396 | 95 | 490 | 3.73e-36 | 138 |
| MS.gene006842.t1 | MTR_0160s0030 | 50.847 | 59 | 28 | 1 | 338 | 396 | 284 | 341 | 2.35e-14 | 74.3 |
| MS.gene006842.t1 | MTR_4g100860 | 48.387 | 62 | 29 | 1 | 338 | 396 | 244 | 305 | 1.63e-11 | 65.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene006842.t1 | AT1G26610 | 36.364 | 418 | 189 | 18 | 2 | 396 | 92 | 455 | 2.62e-49 | 173 |
| MS.gene006842.t1 | AT1G26590 | 29.442 | 394 | 169 | 16 | 5 | 392 | 66 | 356 | 1.27e-17 | 84.0 |
| MS.gene006842.t1 | AT1G26590 | 29.442 | 394 | 169 | 16 | 5 | 392 | 66 | 356 | 1.27e-17 | 84.0 |
| MS.gene006842.t1 | AT1G26590 | 29.442 | 394 | 169 | 16 | 5 | 392 | 66 | 356 | 1.27e-17 | 84.0 |
| MS.gene006842.t1 | AT1G26590 | 29.442 | 394 | 169 | 16 | 5 | 392 | 84 | 374 | 1.31e-17 | 84.0 |
| MS.gene006842.t1 | AT1G02030 | 55.000 | 60 | 21 | 2 | 337 | 396 | 206 | 259 | 1.69e-12 | 67.8 |
| MS.gene006842.t1 | AT3G60580 | 52.632 | 57 | 27 | 0 | 340 | 396 | 224 | 280 | 3.85e-12 | 67.0 |
| MS.gene006842.t1 | AT2G45120 | 47.143 | 70 | 32 | 2 | 332 | 396 | 235 | 304 | 7.40e-11 | 63.2 |
Find 45 sgRNAs with CRISPR-Local
Find 59 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTTCTTCTTCTTCTGTTAA+TGG | 0.176069 | 4.1:+24635192 | MS.gene006842:CDS |
| CTTTCTATTCACAGCTTTAC+TGG | 0.265058 | 4.1:-24635889 | None:intergenic |
| CCTGCTCCTGTGGATGAATA+AGG | 0.307720 | 4.1:+24636125 | MS.gene006842:CDS |
| CTGCTACAACAATGAATCTA+AGG | 0.340412 | 4.1:+24635118 | MS.gene006842:CDS |
| GATTCGAGGGATTTCAGATA+TGG | 0.370754 | 4.1:+24635483 | MS.gene006842:CDS |
| TCGAAGATTGTTATCAGAAA+TGG | 0.375407 | 4.1:+24635366 | MS.gene006842:CDS |
| ATCTGTTTCTGAGATGGAAC+AGG | 0.383756 | 4.1:+24635224 | MS.gene006842:CDS |
| CCTTCATTGAAAGCACTTTG+TGG | 0.392261 | 4.1:+24634991 | MS.gene006842:CDS |
| AGGTACGATGGATAAGGATT+TGG | 0.397075 | 4.1:+24635644 | MS.gene006842:CDS |
| AGAAAGAAAGCAAACTTTGA+AGG | 0.397607 | 4.1:+24635690 | MS.gene006842:CDS |
| GATTTATCTGCTTCCACCTT+AGG | 0.403922 | 4.1:-24635561 | None:intergenic |
| TTCAGGTCAGGACAAGCATT+AGG | 0.413798 | 4.1:+24635999 | MS.gene006842:CDS |
| TTCTTCATCTGTTTCTGAGA+TGG | 0.422661 | 4.1:+24635218 | MS.gene006842:CDS |
| ACAACTATGTTTAAGAAATC+AGG | 0.422976 | 4.1:+24635624 | MS.gene006842:CDS |
| GGAAATCTAAGAGAAGGATT+AGG | 0.438686 | 4.1:+24635139 | MS.gene006842:CDS |
| GAAGATCAACAAGGCTATGA+TGG | 0.459880 | 4.1:+24635044 | MS.gene006842:CDS |
| AAGAAGAAGCTGAAGATGGT+TGG | 0.469191 | 4.1:+24635438 | MS.gene006842:CDS |
| CCTTATTCATCCACAGGAGC+AGG | 0.473629 | 4.1:-24636125 | None:intergenic |
| AGAAGAAGCTGAAGATGGTT+GGG | 0.477085 | 4.1:+24635439 | MS.gene006842:CDS |
| GAAATCAGGTACGATGGATA+AGG | 0.482279 | 4.1:+24635638 | MS.gene006842:CDS |
| AATGAAGAAATCTATGAGAA+TGG | 0.504427 | 4.1:+24635732 | MS.gene006842:CDS |
| GAAGAAGAAGAAGCTGAAGA+TGG | 0.505492 | 4.1:+24635434 | MS.gene006842:CDS |
| CCACAAAGTGCTTTCAATGA+AGG | 0.507655 | 4.1:-24634991 | None:intergenic |
| AGCAGATAAATCTGGATTTG+AGG | 0.507748 | 4.1:+24635572 | MS.gene006842:CDS |
| AAGGTGGAAGCAGATAAATC+TGG | 0.519283 | 4.1:+24635564 | MS.gene006842:CDS |
| TCTTCTTCTTCTGTTAATGG+TGG | 0.530303 | 4.1:+24635195 | MS.gene006842:CDS |
| GAAAGCACTTTGTGGTCACA+TGG | 0.555106 | 4.1:+24634999 | MS.gene006842:CDS |
| TCTCAATCTACCTGCTCCTG+TGG | 0.555313 | 4.1:+24636115 | MS.gene006842:CDS |
| TTTGAATAATTCGGATTCGA+GGG | 0.562179 | 4.1:+24635470 | MS.gene006842:CDS |
| TTTCAAGCTATGAATTCAAG+AGG | 0.573385 | 4.1:+24635538 | MS.gene006842:CDS |
| CAACAAGGCTATGATGGAGG+AGG | 0.578283 | 4.1:+24635050 | MS.gene006842:CDS |
| ATCTAAGGAAATCTAAGAGA+AGG | 0.581198 | 4.1:+24635133 | MS.gene006842:CDS |
| CTATGAATTCAAGAGGCCTA+AGG | 0.586326 | 4.1:+24635545 | MS.gene006842:CDS |
| TAATGCTCGTGAGTTTGTTG+CGG | 0.608198 | 4.1:+24635407 | MS.gene006842:CDS |
| TGAATTCAAGAGGCCTAAGG+TGG | 0.609568 | 4.1:+24635548 | MS.gene006842:CDS |
| AGGTCAGGACAAGCATTAGG+AGG | 0.611093 | 4.1:+24636002 | MS.gene006842:CDS |
| AAGAAATTATCAAGCAACAA+GGG | 0.615423 | 4.1:+24635909 | MS.gene006842:CDS |
| AAGCTGAAGATGGTTGGGAT+CGG | 0.620650 | 4.1:+24635444 | MS.gene006842:CDS |
| CCATTAACAGAAGAAGAAGA+AGG | 0.621252 | 4.1:-24635192 | None:intergenic |
| GTTTAAGAAATCAGGTACGA+TGG | 0.632267 | 4.1:+24635632 | MS.gene006842:CDS |
| AACAACAAGAAGAAGTTGCT+AGG | 0.632715 | 4.1:+24635247 | MS.gene006842:CDS |
| AAAGAAATTATCAAGCAACA+AGG | 0.646880 | 4.1:+24635908 | MS.gene006842:CDS |
| GATCAACAAGGCTATGATGG+AGG | 0.660663 | 4.1:+24635047 | MS.gene006842:CDS |
| AGATTGAGATCAATCAAACA+AGG | 0.701265 | 4.1:-24636101 | None:intergenic |
| GAAAGAGAAGAAGATCAACA+AGG | 0.702925 | 4.1:+24635035 | MS.gene006842:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AGTATGAAATATGAGTTTTT+TGG | + | chr4.1:24635762-24635781 | MS.gene006842:CDS | 20.0% |
| ! | AAAGAAATTATCAAGCAACA+AGG | + | chr4.1:24635908-24635927 | MS.gene006842:CDS | 25.0% |
| ! | AAGAAATTATCAAGCAACAA+GGG | + | chr4.1:24635909-24635928 | MS.gene006842:CDS | 25.0% |
| ! | AATGAAGAAATCTATGAGAA+TGG | + | chr4.1:24635732-24635751 | MS.gene006842:CDS | 25.0% |
| ! | ACAACTATGTTTAAGAAATC+AGG | + | chr4.1:24635624-24635643 | MS.gene006842:CDS | 25.0% |
| !! | ATCAAATTTTGCAAAGAATG+TGG | + | chr4.1:24634958-24634977 | MS.gene006842:CDS | 25.0% |
| !! | CATAAAAGATCACATTTTGT+TGG | + | chr4.1:24636026-24636045 | MS.gene006842:CDS | 25.0% |
| !! | CTGAAAATTTTGTAGCAAAT+TGG | - | chr4.1:24635984-24636003 | None:intergenic | 25.0% |
| !! | TCAAATTTTGCAAAGAATGT+GGG | + | chr4.1:24634959-24634978 | MS.gene006842:CDS | 25.0% |
| !!! | AGAGATTTTTTTGGTCATAA+GGG | + | chr4.1:24635288-24635307 | MS.gene006842:CDS | 25.0% |
| !!! | CAATTTGCTACAAAATTTTC+AGG | + | chr4.1:24635982-24636001 | MS.gene006842:CDS | 25.0% |
| !!! | TAGAGATTTTTTTGGTCATA+AGG | + | chr4.1:24635287-24635306 | MS.gene006842:CDS | 25.0% |
| !!! | TGAGTTTTTTGGTTATGAAA+AGG | + | chr4.1:24635773-24635792 | MS.gene006842:CDS | 25.0% |
| !!! | TTGTTGTCTAGAGATTTTTT+TGG | + | chr4.1:24635279-24635298 | MS.gene006842:CDS | 25.0% |
| AGAAAGAAAGCAAACTTTGA+AGG | + | chr4.1:24635690-24635709 | MS.gene006842:CDS | 30.0% | |
| AGATTGAGATCAATCAAACA+AGG | - | chr4.1:24636104-24636123 | None:intergenic | 30.0% | |
| ATCTAAGGAAATCTAAGAGA+AGG | + | chr4.1:24635133-24635152 | MS.gene006842:CDS | 30.0% | |
| TCGAAGATTGTTATCAGAAA+TGG | + | chr4.1:24635366-24635385 | MS.gene006842:CDS | 30.0% | |
| TTTCAAGCTATGAATTCAAG+AGG | + | chr4.1:24635538-24635557 | MS.gene006842:CDS | 30.0% | |
| TTTGAATAATTCGGATTCGA+GGG | + | chr4.1:24635470-24635489 | MS.gene006842:CDS | 30.0% | |
| ! | AAAAGATCACATTTTGTTGG+AGG | + | chr4.1:24636029-24636048 | MS.gene006842:CDS | 30.0% |
| ! | TTTTGAATAATTCGGATTCG+AGG | + | chr4.1:24635469-24635488 | MS.gene006842:CDS | 30.0% |
| !! | GATCGGTGTTTTGAATAATT+CGG | + | chr4.1:24635461-24635480 | MS.gene006842:CDS | 30.0% |
| AACAACAAGAAGAAGTTGCT+AGG | + | chr4.1:24635247-24635266 | MS.gene006842:CDS | 35.0% | |
| AGCAGATAAATCTGGATTTG+AGG | + | chr4.1:24635572-24635591 | MS.gene006842:CDS | 35.0% | |
| CCATTAACAGAAGAAGAAGA+AGG | - | chr4.1:24635195-24635214 | None:intergenic | 35.0% | |
| CCTTCTTCTTCTTCTGTTAA+TGG | + | chr4.1:24635192-24635211 | MS.gene006842:CDS | 35.0% | |
| CTGCTACAACAATGAATCTA+AGG | + | chr4.1:24635118-24635137 | MS.gene006842:CDS | 35.0% | |
| CTTTCTATTCACAGCTTTAC+TGG | - | chr4.1:24635892-24635911 | None:intergenic | 35.0% | |
| GAAAGAGAAGAAGATCAACA+AGG | + | chr4.1:24635035-24635054 | MS.gene006842:CDS | 35.0% | |
| GGAAATCTAAGAGAAGGATT+AGG | + | chr4.1:24635139-24635158 | MS.gene006842:CDS | 35.0% | |
| GTTTAAGAAATCAGGTACGA+TGG | + | chr4.1:24635632-24635651 | MS.gene006842:CDS | 35.0% | |
| TCTTCTTCTTCTGTTAATGG+TGG | + | chr4.1:24635195-24635214 | MS.gene006842:CDS | 35.0% | |
| ! | TTTTGCAAAGAATGTGGGAA+AGG | + | chr4.1:24634964-24634983 | MS.gene006842:CDS | 35.0% |
| !! | TTCTTCATCTGTTTCTGAGA+TGG | + | chr4.1:24635218-24635237 | MS.gene006842:CDS | 35.0% |
| !!! | TGCTACAAAATTTTCAGGTC+AGG | + | chr4.1:24635987-24636006 | MS.gene006842:CDS | 35.0% |
| AAGAAGAAGCTGAAGATGGT+TGG | + | chr4.1:24635438-24635457 | MS.gene006842:CDS | 40.0% | |
| AAGGTGGAAGCAGATAAATC+TGG | + | chr4.1:24635564-24635583 | MS.gene006842:CDS | 40.0% | |
| AGAAGAAGCTGAAGATGGTT+GGG | + | chr4.1:24635439-24635458 | MS.gene006842:CDS | 40.0% | |
| AGGTACGATGGATAAGGATT+TGG | + | chr4.1:24635644-24635663 | MS.gene006842:CDS | 40.0% | |
| CTATGAATTCAAGAGGCCTA+AGG | + | chr4.1:24635545-24635564 | MS.gene006842:CDS | 40.0% | |
| GAAATCAGGTACGATGGATA+AGG | + | chr4.1:24635638-24635657 | MS.gene006842:CDS | 40.0% | |
| GAAGAAGAAGAAGCTGAAGA+TGG | + | chr4.1:24635434-24635453 | MS.gene006842:CDS | 40.0% | |
| GAAGATCAACAAGGCTATGA+TGG | + | chr4.1:24635044-24635063 | MS.gene006842:CDS | 40.0% | |
| GATTCGAGGGATTTCAGATA+TGG | + | chr4.1:24635483-24635502 | MS.gene006842:CDS | 40.0% | |
| GATTTATCTGCTTCCACCTT+AGG | - | chr4.1:24635564-24635583 | None:intergenic | 40.0% | |
| ! | CCACAAAGTGCTTTCAATGA+AGG | - | chr4.1:24634994-24635013 | None:intergenic | 40.0% |
| !! | ATCTGTTTCTGAGATGGAAC+AGG | + | chr4.1:24635224-24635243 | MS.gene006842:CDS | 40.0% |
| !! | CCTTCATTGAAAGCACTTTG+TGG | + | chr4.1:24634991-24635010 | MS.gene006842:CDS | 40.0% |
| !! | TAATGCTCGTGAGTTTGTTG+CGG | + | chr4.1:24635407-24635426 | MS.gene006842:CDS | 40.0% |
| AAGCTGAAGATGGTTGGGAT+CGG | + | chr4.1:24635444-24635463 | MS.gene006842:CDS | 45.0% | |
| GATCAACAAGGCTATGATGG+AGG | + | chr4.1:24635047-24635066 | MS.gene006842:CDS | 45.0% | |
| TGAATTCAAGAGGCCTAAGG+TGG | + | chr4.1:24635548-24635567 | MS.gene006842:CDS | 45.0% | |
| TTCAGGTCAGGACAAGCATT+AGG | + | chr4.1:24635999-24636018 | MS.gene006842:CDS | 45.0% | |
| ! | CTGGTATGAGATTTTGCAGC+AGG | - | chr4.1:24635873-24635892 | None:intergenic | 45.0% |
| !! | GAAAGCACTTTGTGGTCACA+TGG | + | chr4.1:24634999-24635018 | MS.gene006842:CDS | 45.0% |
| AGGTCAGGACAAGCATTAGG+AGG | + | chr4.1:24636002-24636021 | MS.gene006842:CDS | 50.0% | |
| TCTCAATCTACCTGCTCCTG+TGG | + | chr4.1:24636115-24636134 | MS.gene006842:CDS | 50.0% | |
| ! | CAACAAGGCTATGATGGAGG+AGG | + | chr4.1:24635050-24635069 | MS.gene006842:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.1 | gene | 24634955 | 24636145 | 24634955 | ID=MS.gene006842 |
| chr4.1 | mRNA | 24634955 | 24636145 | 24634955 | ID=MS.gene006842.t1;Parent=MS.gene006842 |
| chr4.1 | exon | 24634955 | 24636145 | 24634955 | ID=MS.gene006842.t1.exon1;Parent=MS.gene006842.t1 |
| chr4.1 | CDS | 24634955 | 24636145 | 24634955 | ID=cds.MS.gene006842.t1;Parent=MS.gene006842.t1 |
| Gene Sequence |
| Protein sequence |
