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.gene08901.t1 | XP_013446514.1 | 89.5 | 361 | 12 | 1 | 1 | 335 | 76 | 436 | 1.20E-179 | 639 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene08901.t1 | A0A2P1GIW7 | 30.5 | 347 | 175 | 11 | 7 | 315 | 86 | 404 | 1.1e-32 | 142.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene08901.t1 | A0A072TTM6 | 89.5 | 361 | 12 | 1 | 1 | 335 | 76 | 436 | 8.7e-180 | 639.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene04927 | MS.gene08901 | 0.816315 | 5.89E-52 | -1.69E-46 |
| MS.gene049549 | MS.gene08901 | 0.807869 | 4.09E-50 | -1.69E-46 |
| MS.gene050096 | MS.gene08901 | 0.814037 | 1.89E-51 | -1.69E-46 |
| MS.gene05240 | MS.gene08901 | 0.823101 | 1.66E-53 | -1.69E-46 |
| MS.gene053406 | MS.gene08901 | 0.822866 | 1.88E-53 | -1.69E-46 |
| MS.gene054146 | MS.gene08901 | 0.813928 | 2.00E-51 | -1.69E-46 |
| MS.gene054421 | MS.gene08901 | 0.812979 | 3.23E-51 | -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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 69 sgRNAs with CRISPR-Local
Find 81 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACTCACATTCTGGGAAATT+TGG | 0.164798 | 4.4:-16541950 | None:intergenic |
| CCAATGTATGAAGCTGATTT+TGG | 0.192287 | 4.4:+16542445 | MS.gene08901:CDS |
| TCTATTACAAACTCACATTC+TGG | 0.246799 | 4.4:-16541959 | None:intergenic |
| TTCTCCTTCGCTATTCAATT+TGG | 0.251393 | 4.4:-16541849 | None:intergenic |
| TCTTTCCCTGCAAATTTCTT+TGG | 0.253467 | 4.4:-16542316 | None:intergenic |
| ATTTGTGTTTGAAGCTTCTA+AGG | 0.271551 | 4.4:+16542003 | MS.gene08901:CDS |
| AGCTTCAAACACAAATCTTT+TGG | 0.272043 | 4.4:-16541996 | None:intergenic |
| CTTTCAACTTCATGAATGAT+TGG | 0.304970 | 4.4:+16541825 | MS.gene08901:CDS |
| TTGGATGGGGAAAACCGATA+TGG | 0.308270 | 4.4:+16542464 | MS.gene08901:CDS |
| TTCTTCCATTGTAATTCATC+AGG | 0.324345 | 4.4:-16541695 | None:intergenic |
| AATACCAAGTCATGTAGTTC+CGG | 0.332848 | 4.4:-16542253 | None:intergenic |
| ACAAGTTACTACACCGGTTT+CGG | 0.350311 | 4.4:+16542372 | MS.gene08901:CDS |
| GTTTATCCAAAGAAATTTGC+AGG | 0.360964 | 4.4:+16542310 | MS.gene08901:CDS |
| TAAGTCCATGATGGTAAATC+TGG | 0.361121 | 4.4:+16542036 | MS.gene08901:CDS |
| AGTGTGTAGGGAACATAGTT+TGG | 0.402810 | 4.4:+16542212 | MS.gene08901:CDS |
| TTTCAACTTCATGAATGATT+GGG | 0.416199 | 4.4:+16541826 | MS.gene08901:CDS |
| ATACCAAGTCATGTAGTTCC+GGG | 0.423875 | 4.4:-16542252 | None:intergenic |
| GTTTGATTGTTTATGCTAGT+TGG | 0.451953 | 4.4:+16542413 | MS.gene08901:CDS |
| CTATTACAAACTCACATTCT+GGG | 0.456233 | 4.4:-16541958 | None:intergenic |
| TGGATGGGGAAAACCGATAT+GGG | 0.462617 | 4.4:+16542465 | MS.gene08901:CDS |
| TCCTGCATGAAGTAAATTGT+AGG | 0.464671 | 4.4:-16541900 | None:intergenic |
| TACAATGGAAGAACATGGAT+TGG | 0.478008 | 4.4:+16541705 | MS.gene08901:CDS |
| AAAACTATTGCATTCTTCAC+AGG | 0.486117 | 4.4:-16542505 | None:intergenic |
| GAAATTTGCAGGGAAAGAAA+AGG | 0.492493 | 4.4:+16542321 | MS.gene08901:CDS |
| CACTGTCTGATAAGTGTGTA+GGG | 0.492717 | 4.4:+16542200 | MS.gene08901:CDS |
| TTATAATCACTCTCCGAAAC+CGG | 0.495695 | 4.4:-16542385 | None:intergenic |
| CCAAAATCAGCTTCATACAT+TGG | 0.497579 | 4.4:-16542445 | None:intergenic |
| GTAATTCATCAGGGAACAAA+GGG | 0.498617 | 4.4:-16541685 | None:intergenic |
| GTACTCGTTGTCACCCATAT+CGG | 0.503047 | 4.4:-16542478 | None:intergenic |
| TAAGTGTGTGGTTTCTGCAT+TGG | 0.503085 | 4.4:+16542114 | MS.gene08901:CDS |
| CCCTACAATTTACTTCATGC+AGG | 0.509113 | 4.4:+16541899 | MS.gene08901:CDS |
| CAACCCGGAACTACATGACT+TGG | 0.515523 | 4.4:+16542249 | MS.gene08901:CDS |
| CAAAACGACATCGCTTCGCA+TGG | 0.522509 | 4.4:+16542147 | MS.gene08901:CDS |
| GGTTAGATTTGAACGAGAAG+TGG | 0.532468 | 4.4:+16542588 | MS.gene08901:CDS |
| TTTCTAGTTGCAAATATCGC+AGG | 0.535623 | 4.4:+16541614 | MS.gene08901:CDS |
| ATGGATACAAGAAATGGAGA+TGG | 0.538458 | 4.4:+16542529 | MS.gene08901:CDS |
| TGTAATTCATCAGGGAACAA+AGG | 0.542689 | 4.4:-16541686 | None:intergenic |
| GACATCGCTTCGCATGGCTG+TGG | 0.547958 | 4.4:+16542153 | MS.gene08901:CDS |
| ACCTTGATCGTTACATTCGA+TGG | 0.556319 | 4.4:-16541585 | None:intergenic |
| CCTGCATGAAGTAAATTGTA+GGG | 0.557210 | 4.4:-16541899 | None:intergenic |
| CAAAATTATAGACGCTGCAA+CGG | 0.559345 | 4.4:+16541802 | MS.gene08901:intron |
| TGTGGATCTTCGTAGAAGAA+TGG | 0.565376 | 4.4:+16542171 | MS.gene08901:CDS |
| CCACTGTCTGATAAGTGTGT+AGG | 0.568598 | 4.4:+16542199 | MS.gene08901:CDS |
| TGAATCCAGATTTACCATCA+TGG | 0.569462 | 4.4:-16542041 | None:intergenic |
| CTTAAAACAAGTTACTACAC+CGG | 0.579115 | 4.4:+16542366 | MS.gene08901:CDS |
| AAAGTTACTTAAGTCCATGA+TGG | 0.580203 | 4.4:+16542027 | MS.gene08901:CDS |
| TCCATCGAATGTAACGATCA+AGG | 0.583886 | 4.4:+16541584 | MS.gene08901:CDS |
| TCTTCCATTGTAATTCATCA+GGG | 0.587466 | 4.4:-16541694 | None:intergenic |
| TTTATCCAAAGAAATTTGCA+GGG | 0.591630 | 4.4:+16542311 | MS.gene08901:CDS |
| ACATCATATCAAACAATACT+CGG | 0.595620 | 4.4:-16542637 | None:intergenic |
| TGCAATGATTTATAAGTGTG+TGG | 0.599319 | 4.4:+16542102 | MS.gene08901:CDS |
| AGTGACAACTTCTACACGTG+TGG | 0.613702 | 4.4:-16542080 | None:intergenic |
| GTTCTTGTTTGTTATCAACC+CGG | 0.616177 | 4.4:+16542234 | MS.gene08901:CDS |
| AACAATACTCGGATTAAGAG+AGG | 0.618426 | 4.4:-16542626 | None:intergenic |
| TGGGCCAAATTGAATAGCGA+AGG | 0.623888 | 4.4:+16541845 | MS.gene08901:CDS |
| TGAATTACAATGGAAGAACA+TGG | 0.628831 | 4.4:+16541700 | MS.gene08901:CDS |
| TTGGTATTCAAAATTAGACA+AGG | 0.635078 | 4.4:+16542268 | MS.gene08901:CDS |
| AAATTTGGCAAACTCCCTCG+TGG | 0.644808 | 4.4:-16541935 | None:intergenic |
| AATTTGGCAAACTCCCTCGT+GGG | 0.645915 | 4.4:-16541934 | None:intergenic |
| TGTTCCCTGATGAATTACAA+TGG | 0.646300 | 4.4:+16541690 | MS.gene08901:CDS |
| GTGACAACTTCTACACGTGT+GGG | 0.646828 | 4.4:-16542079 | None:intergenic |
| TGGTATTCAAAATTAGACAA+GGG | 0.652202 | 4.4:+16542269 | MS.gene08901:CDS |
| GATTAAGAGAGGCATACTGA+AGG | 0.662777 | 4.4:-16542615 | None:intergenic |
| CCTACACACTTATCAGACAG+TGG | 0.701128 | 4.4:-16542199 | None:intergenic |
| GGTAAATCTGGATTCACATG+AGG | 0.704642 | 4.4:+16542048 | MS.gene08901:CDS |
| GAGATACAATATTCCCACGA+GGG | 0.719170 | 4.4:+16541921 | MS.gene08901:CDS |
| ACACACTTATCAGACAGTGG+AGG | 0.730201 | 4.4:-16542196 | None:intergenic |
| GGAGATACAATATTCCCACG+AGG | 0.760478 | 4.4:+16541920 | MS.gene08901:CDS |
| GAATATGAAAGAGAGTGACA+TGG | 0.783909 | 4.4:+16542567 | MS.gene08901:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TGGTATTCAAAATTAGACAA+GGG | + | chr4.4:16542269-16542288 | MS.gene08901:CDS | 25.0% |
| ! | TTGGTATTCAAAATTAGACA+AGG | + | chr4.4:16542268-16542287 | MS.gene08901:CDS | 25.0% |
| ! | TTTATCCAAAGAAATTTGCA+GGG | + | chr4.4:16542311-16542330 | MS.gene08901:CDS | 25.0% |
| ! | TTTCAACTTCATGAATGATT+GGG | + | chr4.4:16541826-16541845 | MS.gene08901:CDS | 25.0% |
| AAAACTATTGCATTCTTCAC+AGG | - | chr4.4:16542508-16542527 | None:intergenic | 30.0% | |
| AAAGTTACTTAAGTCCATGA+TGG | + | chr4.4:16542027-16542046 | MS.gene08901:CDS | 30.0% | |
| CTATTACAAACTCACATTCT+GGG | - | chr4.4:16541961-16541980 | None:intergenic | 30.0% | |
| CTTAAAACAAGTTACTACAC+CGG | + | chr4.4:16542366-16542385 | MS.gene08901:CDS | 30.0% | |
| CTTTCAACTTCATGAATGAT+TGG | + | chr4.4:16541825-16541844 | MS.gene08901:CDS | 30.0% | |
| GTTTATCCAAAGAAATTTGC+AGG | + | chr4.4:16542310-16542329 | MS.gene08901:CDS | 30.0% | |
| GTTTGATTGTTTATGCTAGT+TGG | + | chr4.4:16542413-16542432 | MS.gene08901:CDS | 30.0% | |
| TCTATTACAAACTCACATTC+TGG | - | chr4.4:16541962-16541981 | None:intergenic | 30.0% | |
| TCTTCCATTGTAATTCATCA+GGG | - | chr4.4:16541697-16541716 | None:intergenic | 30.0% | |
| TGAATTACAATGGAAGAACA+TGG | + | chr4.4:16541700-16541719 | MS.gene08901:CDS | 30.0% | |
| TGCAATGATTTATAAGTGTG+TGG | + | chr4.4:16542102-16542121 | MS.gene08901:CDS | 30.0% | |
| TTCTTCCATTGTAATTCATC+AGG | - | chr4.4:16541698-16541717 | None:intergenic | 30.0% | |
| ! | AGCTTCAAACACAAATCTTT+TGG | - | chr4.4:16541999-16542018 | None:intergenic | 30.0% |
| ! | ATTTGTGTTTGAAGCTTCTA+AGG | + | chr4.4:16542003-16542022 | MS.gene08901:CDS | 30.0% |
| ! | CAAAGGGTTAAGCAAATTTT+CGG | - | chr4.4:16541672-16541691 | None:intergenic | 30.0% |
| !! | CAAATCAATTGTTTTGCATG+TGG | + | chr4.4:16541749-16541768 | MS.gene08901:intron | 30.0% |
| !! | GTTTTGATGGATACAAGAAA+TGG | + | chr4.4:16542523-16542542 | MS.gene08901:CDS | 30.0% |
| !!! | GAAGAATGCAATAGTTTTGA+TGG | + | chr4.4:16542510-16542529 | MS.gene08901:CDS | 30.0% |
| AACAATACTCGGATTAAGAG+AGG | - | chr4.4:16542629-16542648 | None:intergenic | 35.0% | |
| AATACCAAGTCATGTAGTTC+CGG | - | chr4.4:16542256-16542275 | None:intergenic | 35.0% | |
| ATGGATACAAGAAATGGAGA+TGG | + | chr4.4:16542529-16542548 | MS.gene08901:CDS | 35.0% | |
| CAAAATTATAGACGCTGCAA+CGG | + | chr4.4:16541802-16541821 | MS.gene08901:intron | 35.0% | |
| CCAAAATCAGCTTCATACAT+TGG | - | chr4.4:16542448-16542467 | None:intergenic | 35.0% | |
| CCTGCATGAAGTAAATTGTA+GGG | - | chr4.4:16541902-16541921 | None:intergenic | 35.0% | |
| GAAATTTGCAGGGAAAGAAA+AGG | + | chr4.4:16542321-16542340 | MS.gene08901:CDS | 35.0% | |
| GAATATGAAAGAGAGTGACA+TGG | + | chr4.4:16542567-16542586 | MS.gene08901:CDS | 35.0% | |
| GTAATTCATCAGGGAACAAA+GGG | - | chr4.4:16541688-16541707 | None:intergenic | 35.0% | |
| TAAGTCCATGATGGTAAATC+TGG | + | chr4.4:16542036-16542055 | MS.gene08901:CDS | 35.0% | |
| TACAATGGAAGAACATGGAT+TGG | + | chr4.4:16541705-16541724 | MS.gene08901:CDS | 35.0% | |
| TCCTGCATGAAGTAAATTGT+AGG | - | chr4.4:16541903-16541922 | None:intergenic | 35.0% | |
| TCTTTCCCTGCAAATTTCTT+TGG | - | chr4.4:16542319-16542338 | None:intergenic | 35.0% | |
| TGAATCCAGATTTACCATCA+TGG | - | chr4.4:16542044-16542063 | None:intergenic | 35.0% | |
| TGTAATTCATCAGGGAACAA+AGG | - | chr4.4:16541689-16541708 | None:intergenic | 35.0% | |
| TGTTCCCTGATGAATTACAA+TGG | + | chr4.4:16541690-16541709 | MS.gene08901:CDS | 35.0% | |
| TTATAATCACTCTCCGAAAC+CGG | - | chr4.4:16542388-16542407 | None:intergenic | 35.0% | |
| TTCTCCTTCGCTATTCAATT+TGG | - | chr4.4:16541852-16541871 | None:intergenic | 35.0% | |
| ! | AACTCACATTCTGGGAAATT+TGG | - | chr4.4:16541953-16541972 | None:intergenic | 35.0% |
| !! | ATCAATTGTTTTGCATGTGG+AGG | + | chr4.4:16541752-16541771 | MS.gene08901:intron | 35.0% |
| !! | CCAATGTATGAAGCTGATTT+TGG | + | chr4.4:16542445-16542464 | MS.gene08901:CDS | 35.0% |
| !! | GTATGAAGCTGATTTTGGAT+GGG | + | chr4.4:16542450-16542469 | MS.gene08901:CDS | 35.0% |
| !! | GTTCTTGTTTGTTATCAACC+CGG | + | chr4.4:16542234-16542253 | MS.gene08901:CDS | 35.0% |
| !! | TATGAAGCTGATTTTGGATG+GGG | + | chr4.4:16542451-16542470 | MS.gene08901:CDS | 35.0% |
| !! | TGTATGAAGCTGATTTTGGA+TGG | + | chr4.4:16542449-16542468 | MS.gene08901:CDS | 35.0% |
| !! | TTTCTAGTTGCAAATATCGC+AGG | + | chr4.4:16541614-16541633 | MS.gene08901:CDS | 35.0% |
| ACCTTGATCGTTACATTCGA+TGG | - | chr4.4:16541588-16541607 | None:intergenic | 40.0% | |
| AGTGTGTAGGGAACATAGTT+TGG | + | chr4.4:16542212-16542231 | MS.gene08901:CDS | 40.0% | |
| ATACCAAGTCATGTAGTTCC+GGG | - | chr4.4:16542255-16542274 | None:intergenic | 40.0% | |
| CACTGTCTGATAAGTGTGTA+GGG | + | chr4.4:16542200-16542219 | MS.gene08901:CDS | 40.0% | |
| CCCTACAATTTACTTCATGC+AGG | + | chr4.4:16541899-16541918 | MS.gene08901:CDS | 40.0% | |
| GAGATACAATATTCCCACGA+GGG | + | chr4.4:16541921-16541940 | MS.gene08901:CDS | 40.0% | |
| GGTAAATCTGGATTCACATG+AGG | + | chr4.4:16542048-16542067 | MS.gene08901:CDS | 40.0% | |
| GGTTAGATTTGAACGAGAAG+TGG | + | chr4.4:16542588-16542607 | MS.gene08901:CDS | 40.0% | |
| TAAGTGTGTGGTTTCTGCAT+TGG | + | chr4.4:16542114-16542133 | MS.gene08901:CDS | 40.0% | |
| TCCATCGAATGTAACGATCA+AGG | + | chr4.4:16541584-16541603 | MS.gene08901:CDS | 40.0% | |
| TGTGGATCTTCGTAGAAGAA+TGG | + | chr4.4:16542171-16542190 | MS.gene08901:CDS | 40.0% | |
| ! | AATTTTCGGTGGGGTTTTTG+AGG | - | chr4.4:16541658-16541677 | None:intergenic | 40.0% |
| ! | AGGGTTAAGCAAATTTTCGG+TGG | - | chr4.4:16541669-16541688 | None:intergenic | 40.0% |
| ! | GATTAAGAGAGGCATACTGA+AGG | - | chr4.4:16542618-16542637 | None:intergenic | 40.0% |
| ! | GGGTTAAGCAAATTTTCGGT+GGG | - | chr4.4:16541668-16541687 | None:intergenic | 40.0% |
| ! | GGTTAAGCAAATTTTCGGTG+GGG | - | chr4.4:16541667-16541686 | None:intergenic | 40.0% |
| !! | ACAAGTTACTACACCGGTTT+CGG | + | chr4.4:16542372-16542391 | MS.gene08901:CDS | 40.0% |
| AAATTTGGCAAACTCCCTCG+TGG | - | chr4.4:16541938-16541957 | None:intergenic | 45.0% | |
| AATTTGGCAAACTCCCTCGT+GGG | - | chr4.4:16541937-16541956 | None:intergenic | 45.0% | |
| ACACACTTATCAGACAGTGG+AGG | - | chr4.4:16542199-16542218 | None:intergenic | 45.0% | |
| AGTGACAACTTCTACACGTG+TGG | - | chr4.4:16542083-16542102 | None:intergenic | 45.0% | |
| CCACTGTCTGATAAGTGTGT+AGG | + | chr4.4:16542199-16542218 | MS.gene08901:CDS | 45.0% | |
| CCTACACACTTATCAGACAG+TGG | - | chr4.4:16542202-16542221 | None:intergenic | 45.0% | |
| GGAGATACAATATTCCCACG+AGG | + | chr4.4:16541920-16541939 | MS.gene08901:CDS | 45.0% | |
| GTACTCGTTGTCACCCATAT+CGG | - | chr4.4:16542481-16542500 | None:intergenic | 45.0% | |
| GTGACAACTTCTACACGTGT+GGG | - | chr4.4:16542082-16542101 | None:intergenic | 45.0% | |
| TGGATGGGGAAAACCGATAT+GGG | + | chr4.4:16542465-16542484 | MS.gene08901:CDS | 45.0% | |
| TGGGCCAAATTGAATAGCGA+AGG | + | chr4.4:16541845-16541864 | MS.gene08901:CDS | 45.0% | |
| TTGGATGGGGAAAACCGATA+TGG | + | chr4.4:16542464-16542483 | MS.gene08901:CDS | 45.0% | |
| !! | AGGGTTGTGTGAGTTTTGTG+AGG | + | chr4.4:16542288-16542307 | MS.gene08901:CDS | 45.0% |
| CAAAACGACATCGCTTCGCA+TGG | + | chr4.4:16542147-16542166 | MS.gene08901:CDS | 50.0% | |
| CAACCCGGAACTACATGACT+TGG | + | chr4.4:16542249-16542268 | MS.gene08901:CDS | 50.0% | |
| GACATCGCTTCGCATGGCTG+TGG | + | chr4.4:16542153-16542172 | MS.gene08901:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 16541564 | 16542651 | 16541564 | ID=MS.gene08901 |
| chr4.4 | mRNA | 16541564 | 16542651 | 16541564 | ID=MS.gene08901.t1;Parent=MS.gene08901 |
| chr4.4 | exon | 16541564 | 16541734 | 16541564 | ID=MS.gene08901.t1.exon1;Parent=MS.gene08901.t1 |
| chr4.4 | CDS | 16541564 | 16541734 | 16541564 | ID=cds.MS.gene08901.t1;Parent=MS.gene08901.t1 |
| chr4.4 | exon | 16541813 | 16542651 | 16541813 | ID=MS.gene08901.t1.exon2;Parent=MS.gene08901.t1 |
| chr4.4 | CDS | 16541813 | 16542651 | 16541813 | ID=cds.MS.gene08901.t1;Parent=MS.gene08901.t1 |
| Gene Sequence |
| Protein sequence |
