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.gene068143.t1 | RHN78231.1 | 89 | 154 | 17 | 0 | 3 | 156 | 144 | 297 | 3.00E-69 | 271.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene068143.t1 | A0A396JNG9 | 89.0 | 154 | 17 | 0 | 3 | 156 | 144 | 297 | 2.2e-69 | 271.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene068143.t1 | TF | B3 |
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.gene068143.t1 | MTR_1g035640 | 51.020 | 196 | 87 | 4 | 1 | 195 | 143 | 330 | 2.36e-52 | 174 |
| MS.gene068143.t1 | MTR_1g035620 | 51.872 | 187 | 58 | 9 | 8 | 188 | 149 | 309 | 8.43e-44 | 151 |
| MS.gene068143.t1 | MTR_1g035490 | 43.684 | 190 | 80 | 4 | 1 | 188 | 67 | 231 | 4.73e-41 | 142 |
| MS.gene068143.t1 | MTR_1g035570 | 44.845 | 194 | 94 | 4 | 9 | 200 | 156 | 338 | 1.20e-40 | 142 |
| MS.gene068143.t1 | MTR_1g050845 | 52.910 | 189 | 61 | 7 | 8 | 190 | 136 | 302 | 3.67e-40 | 145 |
| MS.gene068143.t1 | MTR_6g061070 | 40.000 | 200 | 103 | 5 | 4 | 189 | 175 | 371 | 9.94e-36 | 130 |
| MS.gene068143.t1 | MTR_1g035650 | 90.323 | 62 | 6 | 0 | 1 | 62 | 142 | 203 | 5.30e-33 | 117 |
| MS.gene068143.t1 | MTR_5g044670 | 31.875 | 160 | 94 | 5 | 9 | 156 | 161 | 317 | 7.69e-18 | 80.5 |
| MS.gene068143.t1 | MTR_1g035540 | 57.447 | 47 | 20 | 0 | 107 | 153 | 31 | 77 | 1.62e-12 | 62.4 |
| MS.gene068143.t1 | MTR_8g103940 | 35.433 | 127 | 72 | 5 | 36 | 162 | 232 | 348 | 1.10e-11 | 63.2 |
| MS.gene068143.t1 | MTR_1g108780 | 31.333 | 150 | 81 | 6 | 21 | 156 | 163 | 304 | 3.50e-11 | 62.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 29 sgRNAs with CRISPR-Local
Find 55 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTACGCCAAAGGTCTTTATT+TGG | 0.224792 | 1.4:+37045916 | MS.gene068143:CDS |
| TGACATTTCAACTTCAAAAC+TGG | 0.262282 | 1.4:-37045888 | None:intergenic |
| TTAAAGGAACTTCCAGTTCT+AGG | 0.280821 | 1.4:+37046758 | MS.gene068143:CDS |
| GCTAAGAGCAAAGACATTAA+AGG | 0.303545 | 1.4:+37046742 | MS.gene068143:CDS |
| AGCAAGAAATTATCATCCTT+TGG | 0.369605 | 1.4:+37045859 | MS.gene068143:CDS |
| ATTTATAGTTGGTGAAGATA+TGG | 0.400385 | 1.4:+37046387 | MS.gene068143:CDS |
| ACATACCAAATAAAGACCTT+TGG | 0.466172 | 1.4:-37045921 | None:intergenic |
| GAGACAGCAAGATTTATAGT+TGG | 0.496722 | 1.4:+37046376 | MS.gene068143:CDS |
| CCTCTTTACATAAATTCCAT+TGG | 0.501711 | 1.4:-37046970 | None:intergenic |
| GGTCACAGTAGATGATTTAG+TGG | 0.504279 | 1.4:-37046440 | None:intergenic |
| CCTTGACTAGGTTATAAAGA+AGG | 0.508003 | 1.4:+37046697 | MS.gene068143:intron |
| ATGATAATAGTGAATAAAAG+TGG | 0.508803 | 1.4:-37046541 | None:intergenic |
| TGTAACTTTGCAGGTAGTAA+TGG | 0.513785 | 1.4:+37045779 | MS.gene068143:intron |
| CCAATGGAATTTATGTAAAG+AGG | 0.514803 | 1.4:+37046970 | MS.gene068143:CDS |
| GACATTTCAACTTCAAAACT+GGG | 0.528604 | 1.4:-37045887 | None:intergenic |
| CATCTACTGTGACCACTGGT+TGG | 0.552617 | 1.4:+37046449 | MS.gene068143:CDS |
| AAATCATCTACTGTGACCAC+TGG | 0.561649 | 1.4:+37046445 | MS.gene068143:CDS |
| TGGAGGAGGTATGATTAAGA+AGG | 0.562815 | 1.4:+37045799 | MS.gene068143:CDS |
| CTTGACTAGGTTATAAAGAA+GGG | 0.564516 | 1.4:+37046698 | MS.gene068143:intron |
| TCTAAGAAGTTGAAAATGCA+AGG | 0.567006 | 1.4:+37046589 | MS.gene068143:CDS |
| TAATAGTGAATAAAAGTGGT+TGG | 0.584021 | 1.4:-37046537 | None:intergenic |
| TATCATTACTCGAGCAAGAG+AGG | 0.588412 | 1.4:+37046558 | MS.gene068143:CDS |
| GCTAAATGTCTTCCAACCAG+TGG | 0.593840 | 1.4:-37046461 | None:intergenic |
| ATATATACAGGATGTACCAA+TGG | 0.596542 | 1.4:+37046954 | MS.gene068143:intron |
| AACTTTGCAGGTAGTAATGG+AGG | 0.609546 | 1.4:+37045782 | MS.gene068143:intron |
| ATGTCACAATCTTACGCCAA+AGG | 0.623356 | 1.4:+37045905 | MS.gene068143:CDS |
| TTTGCAGGTAGTAATGGAGG+AGG | 0.632526 | 1.4:+37045785 | MS.gene068143:intron |
| TATTGAAACAGAGGATACCA+AGG | 0.654958 | 1.4:+37046320 | MS.gene068143:intron |
| ATTGAAACAGAGGATACCAA+GGG | 0.683744 | 1.4:+37046321 | MS.gene068143:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTAAACTTTTATATATAC+AGG | + | chr1.4:37046942-37046961 | MS.gene068143:intron | 10.0% |
| !! | TATAAAACAAAATCTAATGA+AGG | - | chr1.4:37046227-37046246 | None:intergenic | 15.0% |
| !!! | AAAAAATATAATTTGCAAGT+TGG | + | chr1.4:37046484-37046503 | MS.gene068143:CDS | 15.0% |
| !!! | TTTTATAAAAGTGTAACAAA+TGG | + | chr1.4:37046240-37046259 | MS.gene068143:intron | 15.0% |
| !! | ATGATAATAGTGAATAAAAG+TGG | - | chr1.4:37046544-37046563 | None:intergenic | 20.0% |
| !! | TAAGAGAAAATTGTCAAAAT+AGG | + | chr1.4:37046187-37046206 | MS.gene068143:intron | 20.0% |
| !!! | TCTATCAAAATTCTCTATTT+TGG | + | chr1.4:37045946-37045965 | MS.gene068143:intron | 20.0% |
| !!! | TTTTATATATGTAACTTTGC+AGG | + | chr1.4:37045770-37045789 | MS.gene068143:intron | 20.0% |
| ! | TAATAGTGAATAAAAGTGGT+TGG | - | chr1.4:37046540-37046559 | None:intergenic | 25.0% |
| !! | ATTTTCAACTTCTTAGAGTT+AGG | - | chr1.4:37046586-37046605 | None:intergenic | 25.0% |
| !!! | ATTTATAGTTGGTGAAGATA+TGG | + | chr1.4:37046387-37046406 | MS.gene068143:CDS | 25.0% |
| !!! | TTTGAACATTGTTTTTCCTT+TGG | + | chr1.4:37046863-37046882 | MS.gene068143:intron | 25.0% |
| AATTTATTTGACCCTTGACT+AGG | + | chr1.4:37046685-37046704 | MS.gene068143:intron | 30.0% | |
| ACAAACTGATATTGAAACAG+AGG | + | chr1.4:37046311-37046330 | MS.gene068143:intron | 30.0% | |
| ACATACCAAATAAAGACCTT+TGG | - | chr1.4:37045924-37045943 | None:intergenic | 30.0% | |
| AGCAAGAAATTATCATCCTT+TGG | + | chr1.4:37045859-37045878 | MS.gene068143:CDS | 30.0% | |
| ATATATACAGGATGTACCAA+TGG | + | chr1.4:37046954-37046973 | MS.gene068143:intron | 30.0% | |
| CAAGGGTCAAATAAATTAAG+TGG | - | chr1.4:37046682-37046701 | None:intergenic | 30.0% | |
| CCAATGGAATTTATGTAAAG+AGG | + | chr1.4:37046970-37046989 | MS.gene068143:CDS | 30.0% | |
| CCTCTTTACATAAATTCCAT+TGG | - | chr1.4:37046973-37046992 | None:intergenic | 30.0% | |
| CTTCTTTATAACCTAGTCAA+GGG | - | chr1.4:37046699-37046718 | None:intergenic | 30.0% | |
| CTTGACTAGGTTATAAAGAA+GGG | + | chr1.4:37046698-37046717 | MS.gene068143:intron | 30.0% | |
| GACATTTCAACTTCAAAACT+GGG | - | chr1.4:37045890-37045909 | None:intergenic | 30.0% | |
| GAGAGAATACTTGAAAAAGT+TGG | + | chr1.4:37046351-37046370 | MS.gene068143:CDS | 30.0% | |
| GCTAATCAGAAAAAAATCTC+AGG | + | chr1.4:37045659-37045678 | MS.gene068143:CDS | 30.0% | |
| TCTAAGAAGTTGAAAATGCA+AGG | + | chr1.4:37046589-37046608 | MS.gene068143:CDS | 30.0% | |
| TGACATTTCAACTTCAAAAC+TGG | - | chr1.4:37045891-37045910 | None:intergenic | 30.0% | |
| TTGAGAAATTCAAGTACCAA+AGG | - | chr1.4:37046882-37046901 | None:intergenic | 30.0% | |
| ATTGAAACAGAGGATACCAA+GGG | + | chr1.4:37046321-37046340 | MS.gene068143:intron | 35.0% | |
| CCAAAAATACATCTACTCAG+GGG | + | chr1.4:37046787-37046806 | MS.gene068143:CDS | 35.0% | |
| CCCAAAAATACATCTACTCA+GGG | + | chr1.4:37046786-37046805 | MS.gene068143:CDS | 35.0% | |
| CCTTCTTTATAACCTAGTCA+AGG | - | chr1.4:37046700-37046719 | None:intergenic | 35.0% | |
| CCTTGACTAGGTTATAAAGA+AGG | + | chr1.4:37046697-37046716 | MS.gene068143:intron | 35.0% | |
| GAGACAGCAAGATTTATAGT+TGG | + | chr1.4:37046376-37046395 | MS.gene068143:CDS | 35.0% | |
| GCTAAGAGCAAAGACATTAA+AGG | + | chr1.4:37046742-37046761 | MS.gene068143:CDS | 35.0% | |
| TATTCTCTCGAAAAATCCCT+TGG | - | chr1.4:37046340-37046359 | None:intergenic | 35.0% | |
| TATTGAAACAGAGGATACCA+AGG | + | chr1.4:37046320-37046339 | MS.gene068143:intron | 35.0% | |
| TGTAACTTTGCAGGTAGTAA+TGG | + | chr1.4:37045779-37045798 | MS.gene068143:intron | 35.0% | |
| TTAAAGGAACTTCCAGTTCT+AGG | + | chr1.4:37046758-37046777 | MS.gene068143:CDS | 35.0% | |
| TTACGCCAAAGGTCTTTATT+TGG | + | chr1.4:37045916-37045935 | MS.gene068143:CDS | 35.0% | |
| ! | CCCTGAGTAGATGTATTTTT+GGG | - | chr1.4:37046789-37046808 | None:intergenic | 35.0% |
| ! | TCAAAACTGGGATTTTCCAA+AGG | - | chr1.4:37045878-37045897 | None:intergenic | 35.0% |
| AAATCATCTACTGTGACCAC+TGG | + | chr1.4:37046445-37046464 | MS.gene068143:CDS | 40.0% | |
| AACTTTGCAGGTAGTAATGG+AGG | + | chr1.4:37045782-37045801 | MS.gene068143:intron | 40.0% | |
| ATGTCACAATCTTACGCCAA+AGG | + | chr1.4:37045905-37045924 | MS.gene068143:CDS | 40.0% | |
| GCCCAAAAATACATCTACTC+AGG | + | chr1.4:37046785-37046804 | MS.gene068143:CDS | 40.0% | |
| GGTCACAGTAGATGATTTAG+TGG | - | chr1.4:37046443-37046462 | None:intergenic | 40.0% | |
| TATCATTACTCGAGCAAGAG+AGG | + | chr1.4:37046558-37046577 | MS.gene068143:CDS | 40.0% | |
| ! | CCCCTGAGTAGATGTATTTT+TGG | - | chr1.4:37046790-37046809 | None:intergenic | 40.0% |
| ! | TGGAGGAGGTATGATTAAGA+AGG | + | chr1.4:37045799-37045818 | MS.gene068143:CDS | 40.0% |
| GCTAAATGTCTTCCAACCAG+TGG | - | chr1.4:37046464-37046483 | None:intergenic | 45.0% | |
| ! | TTTGCAGGTAGTAATGGAGG+AGG | + | chr1.4:37045785-37045804 | MS.gene068143:intron | 45.0% |
| !!! | TAATAATTTCATTTTTTTTA+AGG | + | chr1.4:37045976-37045995 | MS.gene068143:intron | 5.0% |
| CATCTACTGTGACCACTGGT+TGG | + | chr1.4:37046449-37046468 | MS.gene068143:CDS | 50.0% | |
| ! | TTTTGGGCAGCTCCTAGAAC+TGG | - | chr1.4:37046773-37046792 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 37045641 | 37047001 | 37045641 | ID=MS.gene068143 |
| chr1.4 | mRNA | 37045641 | 37047001 | 37045641 | ID=MS.gene068143.t1;Parent=MS.gene068143 |
| chr1.4 | exon | 37045641 | 37045680 | 37045641 | ID=MS.gene068143.t1.exon1;Parent=MS.gene068143.t1 |
| chr1.4 | CDS | 37045641 | 37045680 | 37045641 | ID=cds.MS.gene068143.t1;Parent=MS.gene068143.t1 |
| chr1.4 | exon | 37045792 | 37045937 | 37045792 | ID=MS.gene068143.t1.exon2;Parent=MS.gene068143.t1 |
| chr1.4 | CDS | 37045792 | 37045937 | 37045792 | ID=cds.MS.gene068143.t1;Parent=MS.gene068143.t1 |
| chr1.4 | exon | 37046331 | 37046610 | 37046331 | ID=MS.gene068143.t1.exon3;Parent=MS.gene068143.t1 |
| chr1.4 | CDS | 37046331 | 37046610 | 37046331 | ID=cds.MS.gene068143.t1;Parent=MS.gene068143.t1 |
| chr1.4 | exon | 37046707 | 37046808 | 37046707 | ID=MS.gene068143.t1.exon4;Parent=MS.gene068143.t1 |
| chr1.4 | CDS | 37046707 | 37046808 | 37046707 | ID=cds.MS.gene068143.t1;Parent=MS.gene068143.t1 |
| chr1.4 | exon | 37046964 | 37047001 | 37046964 | ID=MS.gene068143.t1.exon5;Parent=MS.gene068143.t1 |
| chr1.4 | CDS | 37046964 | 37047001 | 37046964 | ID=cds.MS.gene068143.t1;Parent=MS.gene068143.t1 |
| Gene Sequence |
| Protein sequence |
