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.gene28156.t1 | XP_003630118.1 | 81.1 | 127 | 23 | 1 | 1 | 126 | 1 | 127 | 3.00E-49 | 204.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28156.t1 | Q93WU9 | 32.5 | 126 | 79 | 3 | 6 | 125 | 3 | 128 | 5.9e-09 | 62.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28156.t1 | A0A072TVK6 | 81.1 | 127 | 23 | 1 | 1 | 126 | 1 | 127 | 2.2e-49 | 204.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene28156.t1 | TF | WRKY |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049409 | MS.gene28156 | 0.834328 | 3.19E-56 | -1.69E-46 |
| MS.gene049567 | MS.gene28156 | 0.817556 | 3.10E-52 | -1.69E-46 |
| MS.gene050780 | MS.gene28156 | 0.841325 | 5.09E-58 | -1.69E-46 |
| MS.gene051492 | MS.gene28156 | 0.842899 | 1.95E-58 | -1.69E-46 |
| MS.gene051493 | MS.gene28156 | 0.821516 | 3.87E-53 | -1.69E-46 |
| MS.gene051494 | MS.gene28156 | 0.808477 | 3.04E-50 | -1.69E-46 |
| MS.gene051744 | MS.gene28156 | 0.809763 | 1.61E-50 | -1.69E-46 |
| MS.gene052208 | MS.gene28156 | 0.803476 | 3.42E-49 | -1.69E-46 |
| MS.gene053094 | MS.gene28156 | 0.809136 | 2.20E-50 | -1.69E-46 |
| MS.gene053643 | MS.gene28156 | 0.822765 | 1.99E-53 | -1.69E-46 |
| MS.gene05410 | MS.gene28156 | 0.850388 | 1.75E-60 | -1.69E-46 |
| MS.gene05414 | MS.gene28156 | 0.813483 | 2.50E-51 | -1.69E-46 |
| MS.gene054968 | MS.gene28156 | 0.801138 | 1.04E-48 | -1.69E-46 |
| MS.gene058477 | MS.gene28156 | 0.83956 | 1.47E-57 | -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.gene28156.t1 | MTR_8g092010 | 93.701 | 127 | 7 | 1 | 1 | 126 | 1 | 127 | 8.58e-86 | 246 |
| MS.gene28156.t1 | MTR_8g092010 | 93.701 | 127 | 7 | 1 | 1 | 126 | 1 | 127 | 5.08e-85 | 246 |
| MS.gene28156.t1 | MTR_3g095040 | 50.000 | 140 | 49 | 8 | 1 | 124 | 1 | 135 | 1.00e-26 | 99.4 |
| MS.gene28156.t1 | MTR_1g015140 | 39.048 | 105 | 48 | 3 | 28 | 125 | 25 | 120 | 6.49e-13 | 62.4 |
| MS.gene28156.t1 | MTR_5g029850 | 50.877 | 57 | 22 | 1 | 74 | 124 | 12 | 68 | 2.20e-12 | 58.9 |
| MS.gene28156.t1 | MTR_3g104750 | 75.000 | 32 | 8 | 0 | 94 | 125 | 91 | 122 | 5.03e-12 | 60.1 |
| MS.gene28156.t1 | MTR_4g013260 | 32.967 | 91 | 59 | 1 | 35 | 125 | 266 | 354 | 6.14e-11 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28156.t1 | AT5G64810 | 69.444 | 36 | 11 | 0 | 90 | 125 | 93 | 128 | 1.20e-12 | 62.4 |
| MS.gene28156.t1 | AT5G26170 | 71.875 | 32 | 9 | 0 | 94 | 125 | 100 | 131 | 6.01e-12 | 60.1 |
| MS.gene28156.t1 | AT2G46130 | 60.526 | 38 | 15 | 0 | 86 | 123 | 9 | 46 | 2.17e-11 | 57.0 |
| MS.gene28156.t1 | AT2G46130 | 46.154 | 52 | 26 | 1 | 86 | 135 | 9 | 60 | 2.22e-11 | 57.0 |
Find 28 sgRNAs with CRISPR-Local
Find 58 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTTGAACAAAGTAGCTTTA+AGG | 0.256918 | 4.4:+9706573 | MS.gene28156:intron |
| AAGATCAGAGCTTGAGATTA+TGG | 0.274000 | 4.4:+9706430 | MS.gene28156:CDS |
| CTTGTTCTAAAGGCTATCTT+TGG | 0.312484 | 4.4:-9706410 | None:intergenic |
| TGAGTAGAGTGAGCAAAATT+TGG | 0.322485 | 4.4:-9705772 | None:intergenic |
| TGCATCATTGAATTCTTGAT+TGG | 0.365316 | 4.4:-9705929 | None:intergenic |
| AAATGGGATTAAGCGAAATA+AGG | 0.381517 | 4.4:+9706376 | MS.gene28156:CDS |
| TTACATATTATTGTTCTTTG+AGG | 0.400718 | 4.4:-9705953 | None:intergenic |
| TTGCTTGATGATATTTGTAT+TGG | 0.407278 | 4.4:+9705841 | MS.gene28156:CDS |
| TGTTACCTTCTCTAATGATT+CGG | 0.455426 | 4.4:-9705896 | None:intergenic |
| ATAAACTCAGAAGAGGGATT+AGG | 0.455505 | 4.4:-9705802 | None:intergenic |
| GGATACAAGTGGAGGAAGTA+CGG | 0.474552 | 4.4:+9706458 | MS.gene28156:CDS |
| AAGCTCTGATCTTGTTCTAA+AGG | 0.476991 | 4.4:-9706420 | None:intergenic |
| GAGCTTGAGATTATGGATGA+TGG | 0.492012 | 4.4:+9706437 | MS.gene28156:CDS |
| GTGACCGAGATTCTTGATCA+AGG | 0.501478 | 4.4:-9705867 | None:intergenic |
| AAGCGAAATAAGGTAGAAGC+GGG | 0.536791 | 4.4:+9706386 | MS.gene28156:CDS |
| CAAAATTTGGAGTAGCATGA+GGG | 0.551934 | 4.4:-9705759 | None:intergenic |
| GATACAAGTGGAGGAAGTAC+GGG | 0.554483 | 4.4:+9706459 | MS.gene28156:CDS |
| TGAAGAACAGTCCTAACCTA+AGG | 0.563814 | 4.4:+9706492 | MS.gene28156:CDS |
| GTCACCTTGATCAAGAATCT+CGG | 0.568789 | 4.4:+9705863 | MS.gene28156:CDS |
| TGAACAAAGTAGCTTTAAGG+TGG | 0.569106 | 4.4:+9706576 | MS.gene28156:intron |
| GCAAAATTTGGAGTAGCATG+AGG | 0.589246 | 4.4:-9705760 | None:intergenic |
| TTATGGATGATGGATACAAG+TGG | 0.599156 | 4.4:+9706447 | MS.gene28156:CDS |
| GATAGTATAAACTCAGAAGA+GGG | 0.603484 | 4.4:-9705808 | None:intergenic |
| AGATAGTATAAACTCAGAAG+AGG | 0.605793 | 4.4:-9705809 | None:intergenic |
| AAGTACCGAATCATTAGAGA+AGG | 0.606756 | 4.4:+9705891 | MS.gene28156:CDS |
| TAAGCGAAATAAGGTAGAAG+CGG | 0.616655 | 4.4:+9706385 | MS.gene28156:CDS |
| TGGATGATGGATACAAGTGG+AGG | 0.653822 | 4.4:+9706450 | MS.gene28156:CDS |
| AGCGAAATAAGGTAGAAGCG+GGG | 0.727454 | 4.4:+9706387 | MS.gene28156:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTCATTTAAAATTAAGAAAA+GGG | + | chr4.4:9706007-9706026 | MS.gene28156:intron | 10.0% |
| !! | CAAATACAAAATGAAATTTA+AGG | - | chr4.4:9706558-9706577 | None:intergenic | 15.0% |
| !!! | GTTCATTTAAAATTAAGAAA+AGG | + | chr4.4:9706006-9706025 | MS.gene28156:intron | 15.0% |
| !! | TTACATATTATTGTTCTTTG+AGG | - | chr4.4:9705956-9705975 | None:intergenic | 20.0% |
| !! | TTTGCAGAAAATACAAAAAT+GGG | + | chr4.4:9706360-9706379 | MS.gene28156:intron | 20.0% |
| !!! | CTAATAAAGTGTACATATTT+TGG | + | chr4.4:9706319-9706338 | MS.gene28156:intron | 20.0% |
| !!! | TTTTGCAGAAAATACAAAAA+TGG | + | chr4.4:9706359-9706378 | MS.gene28156:intron | 20.0% |
| ! | AACAAGAGCAATACAAATTA+AGG | - | chr4.4:9705989-9706008 | None:intergenic | 25.0% |
| ! | ACAAGAGCAATACAAATTAA+GGG | - | chr4.4:9705988-9706007 | None:intergenic | 25.0% |
| ! | ATTAATGAAGCATATACCAT+CGG | + | chr4.4:9706251-9706270 | MS.gene28156:intron | 25.0% |
| !! | ATTTGAACAAAGTAGCTTTA+AGG | + | chr4.4:9706573-9706592 | MS.gene28156:intron | 25.0% |
| !! | GTATTTCCTTTTATTACCTT+AGG | - | chr4.4:9706511-9706530 | None:intergenic | 25.0% |
| !! | TCAAAAGTGTACTTCTAAAT+GGG | - | chr4.4:9706069-9706088 | None:intergenic | 25.0% |
| !! | TTCAAAAGTGTACTTCTAAA+TGG | - | chr4.4:9706070-9706089 | None:intergenic | 25.0% |
| !! | TTGCTTGATGATATTTGTAT+TGG | + | chr4.4:9705841-9705860 | MS.gene28156:CDS | 25.0% |
| !!! | TCTAAAAGTGTACATTTTGA+GGG | + | chr4.4:9706139-9706158 | MS.gene28156:intron | 25.0% |
| AAATGGGATTAAGCGAAATA+AGG | + | chr4.4:9706376-9706395 | MS.gene28156:CDS | 30.0% | |
| AGATAGTATAAACTCAGAAG+AGG | - | chr4.4:9705812-9705831 | None:intergenic | 30.0% | |
| GATAGTATAAACTCAGAAGA+GGG | - | chr4.4:9705811-9705830 | None:intergenic | 30.0% | |
| TCCTAACCTAAGGTAATAAA+AGG | + | chr4.4:9706502-9706521 | MS.gene28156:intron | 30.0% | |
| TGCATCATTGAATTCTTGAT+TGG | - | chr4.4:9705932-9705951 | None:intergenic | 30.0% | |
| TGTTACCTTCTCTAATGATT+CGG | - | chr4.4:9705899-9705918 | None:intergenic | 30.0% | |
| ! | TCCTTTTATTACCTTAGGTT+AGG | - | chr4.4:9706506-9706525 | None:intergenic | 30.0% |
| !! | AGTGTACATATTTTGGATTG+TGG | + | chr4.4:9706326-9706345 | MS.gene28156:intron | 30.0% |
| !! | ATCGGTTTTTAAGAAACTAC+GGG | - | chr4.4:9706046-9706065 | None:intergenic | 30.0% |
| !! | GATCGGTTTTTAAGAAACTA+CGG | - | chr4.4:9706047-9706066 | None:intergenic | 30.0% |
| !! | GTCTAAAAGTGTACATTTTG+AGG | + | chr4.4:9706138-9706157 | MS.gene28156:intron | 30.0% |
| !! | GTGTACATATTTTGGATTGT+GGG | + | chr4.4:9706327-9706346 | MS.gene28156:intron | 30.0% |
| !! | TGTACATATTTTGGATTGTG+GGG | + | chr4.4:9706328-9706347 | MS.gene28156:intron | 30.0% |
| AAGATCAGAGCTTGAGATTA+TGG | + | chr4.4:9706430-9706449 | MS.gene28156:CDS | 35.0% | |
| AGAGCAATACAAATTAAGGG+AGG | - | chr4.4:9705985-9706004 | None:intergenic | 35.0% | |
| AGTGTACTTCTAAATGGGAT+CGG | - | chr4.4:9706064-9706083 | None:intergenic | 35.0% | |
| ATAAACTCAGAAGAGGGATT+AGG | - | chr4.4:9705805-9705824 | None:intergenic | 35.0% | |
| CAAATGAAGTAATGAACCGA+TGG | - | chr4.4:9706270-9706289 | None:intergenic | 35.0% | |
| TAAGCGAAATAAGGTAGAAG+CGG | + | chr4.4:9706385-9706404 | MS.gene28156:CDS | 35.0% | |
| TGAGTAGAGTGAGCAAAATT+TGG | - | chr4.4:9705775-9705794 | None:intergenic | 35.0% | |
| ! | AAGCTCTGATCTTGTTCTAA+AGG | - | chr4.4:9706423-9706442 | None:intergenic | 35.0% |
| ! | CAAAATTTGGAGTAGCATGA+GGG | - | chr4.4:9705762-9705781 | None:intergenic | 35.0% |
| ! | TTTTGCTCACTCTACTCATA+TGG | + | chr4.4:9705777-9705796 | MS.gene28156:CDS | 35.0% |
| !! | AAGTACCGAATCATTAGAGA+AGG | + | chr4.4:9705891-9705910 | MS.gene28156:CDS | 35.0% |
| !! | AAGTGTACATTTTGAGGGAT+CGG | + | chr4.4:9706144-9706163 | MS.gene28156:intron | 35.0% |
| !! | CTTGTTCTAAAGGCTATCTT+TGG | - | chr4.4:9706413-9706432 | None:intergenic | 35.0% |
| !! | GGATCGGTTTTTAGAAATCA+TGG | + | chr4.4:9706160-9706179 | MS.gene28156:intron | 35.0% |
| !! | TCGGTTTTTAAGAAACTACG+GGG | - | chr4.4:9706045-9706064 | None:intergenic | 35.0% |
| !! | TGAACAAAGTAGCTTTAAGG+TGG | + | chr4.4:9706576-9706595 | MS.gene28156:intron | 35.0% |
| !! | TTATGGATGATGGATACAAG+TGG | + | chr4.4:9706447-9706466 | MS.gene28156:CDS | 35.0% |
| !!! | TGCATGATCGCATTTTTTCA+AGG | - | chr4.4:9706200-9706219 | None:intergenic | 35.0% |
| AAGCGAAATAAGGTAGAAGC+GGG | + | chr4.4:9706386-9706405 | MS.gene28156:CDS | 40.0% | |
| GAGCTTGAGATTATGGATGA+TGG | + | chr4.4:9706437-9706456 | MS.gene28156:CDS | 40.0% | |
| GCAATACAAATTAAGGGAGG+AGG | - | chr4.4:9705982-9706001 | None:intergenic | 40.0% | |
| GTCACCTTGATCAAGAATCT+CGG | + | chr4.4:9705863-9705882 | MS.gene28156:CDS | 40.0% | |
| TGAAGAACAGTCCTAACCTA+AGG | + | chr4.4:9706492-9706511 | MS.gene28156:CDS | 40.0% | |
| ! | GCAAAATTTGGAGTAGCATG+AGG | - | chr4.4:9705763-9705782 | None:intergenic | 40.0% |
| AGCGAAATAAGGTAGAAGCG+GGG | + | chr4.4:9706387-9706406 | MS.gene28156:CDS | 45.0% | |
| GGATACAAGTGGAGGAAGTA+CGG | + | chr4.4:9706458-9706477 | MS.gene28156:CDS | 45.0% | |
| GTGACCGAGATTCTTGATCA+AGG | - | chr4.4:9705870-9705889 | None:intergenic | 45.0% | |
| ! | GATACAAGTGGAGGAAGTAC+GGG | + | chr4.4:9706459-9706478 | MS.gene28156:CDS | 45.0% |
| !! | TGGATGATGGATACAAGTGG+AGG | + | chr4.4:9706450-9706469 | MS.gene28156:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 9705739 | 9706615 | 9705739 | ID=MS.gene28156 |
| chr4.4 | mRNA | 9705739 | 9706615 | 9705739 | ID=MS.gene28156.t1;Parent=MS.gene28156 |
| chr4.4 | exon | 9705739 | 9705971 | 9705739 | ID=MS.gene28156.t1.exon1;Parent=MS.gene28156.t1 |
| chr4.4 | CDS | 9705739 | 9705971 | 9705739 | ID=cds.MS.gene28156.t1;Parent=MS.gene28156.t1 |
| chr4.4 | exon | 9706367 | 9706513 | 9706367 | ID=MS.gene28156.t1.exon2;Parent=MS.gene28156.t1 |
| chr4.4 | CDS | 9706367 | 9706513 | 9706367 | ID=cds.MS.gene28156.t1;Parent=MS.gene28156.t1 |
| chr4.4 | exon | 9706588 | 9706615 | 9706588 | ID=MS.gene28156.t1.exon3;Parent=MS.gene28156.t1 |
| chr4.4 | CDS | 9706588 | 9706615 | 9706588 | ID=cds.MS.gene28156.t1;Parent=MS.gene28156.t1 |
| Gene Sequence |
| Protein sequence |
