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.gene013477.t1 | XP_003602417.1 | 99.5 | 193 | 1 | 0 | 1 | 193 | 1 | 193 | 3.80E-101 | 377.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene013477.t1 | P30707 | 96.9 | 193 | 6 | 0 | 1 | 193 | 1 | 193 | 2.5e-101 | 369.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene013477.t1 | G7J9M6 | 99.5 | 193 | 1 | 0 | 1 | 193 | 1 | 193 | 2.7e-101 | 377.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene057272 | MS.gene013477 | PPI |
| MS.gene013477 | MS.gene06583 | PPI |
| MS.gene82237 | MS.gene013477 | PPI |
| MS.gene48819 | MS.gene013477 | PPI |
| MS.gene43711 | MS.gene013477 | PPI |
| MS.gene06803 | MS.gene013477 | PPI |
| MS.gene76728 | MS.gene013477 | PPI |
| MS.gene06583 | MS.gene013477 | PPI |
| MS.gene06581 | MS.gene013477 | PPI |
| MS.gene013477 | MS.gene057272 | PPI |
| MS.gene42075 | MS.gene013477 | PPI |
| MS.gene87743 | MS.gene013477 | PPI |
| MS.gene87064 | MS.gene013477 | PPI |
| MS.gene77045 | MS.gene013477 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene013477.t1 | MTR_3g093110 | 99.482 | 193 | 1 | 0 | 1 | 193 | 1 | 193 | 7.34e-139 | 385 |
| MS.gene013477.t1 | MTR_5g068780 | 87.500 | 192 | 24 | 0 | 1 | 192 | 1 | 192 | 1.36e-126 | 354 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene013477.t1 | AT1G33140 | 87.113 | 194 | 24 | 1 | 1 | 193 | 1 | 194 | 9.38e-122 | 342 |
| MS.gene013477.t1 | AT1G33120 | 87.113 | 194 | 24 | 1 | 1 | 193 | 1 | 194 | 9.38e-122 | 342 |
| MS.gene013477.t1 | AT4G10450 | 84.536 | 194 | 29 | 1 | 1 | 193 | 1 | 194 | 2.52e-120 | 338 |
| MS.gene013477.t1 | AT4G10450 | 84.337 | 166 | 25 | 1 | 1 | 165 | 1 | 166 | 2.38e-101 | 290 |
Find 54 sgRNAs with CRISPR-Local
Find 74 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTGAGATCCGAAACTTTCT+TGG | 0.230324 | 3.4:+84978800 | MS.gene013477:CDS |
| GGTGAAGGATGAGGTTGTTT+TGG | 0.319250 | 3.4:+84979304 | MS.gene013477:CDS |
| ATGACATTGAGCTTGTTTCT+AGG | 0.326351 | 3.4:+84979333 | MS.gene013477:CDS |
| TCGATGCCTGGTTCGGTTCC+AGG | 0.334604 | 3.4:+84978636 | MS.gene013477:CDS |
| GTCAGGGATGTTCATGGTTT+CGG | 0.351741 | 3.4:-84978480 | None:intergenic |
| TCTTCTCGCCAAGAAAGTTT+CGG | 0.381570 | 3.4:-84978808 | None:intergenic |
| ACCTTGATGCTAACGCCGTC+AGG | 0.384134 | 3.4:-84978497 | None:intergenic |
| CTTCTTCTTGCCTTCTTCAT+CGG | 0.396628 | 3.4:-84978606 | None:intergenic |
| CTCAATCGACTTGTTGTCAT+TGG | 0.397158 | 3.4:-84978783 | None:intergenic |
| GGAAAACCTCCGCCGCCATC+AGG | 0.414368 | 3.4:+84978657 | MS.gene013477:CDS |
| GGTATTTATGTTAGTGAGAA+GGG | 0.433044 | 3.4:+84979515 | MS.gene013477:CDS |
| ATTGGTGATGCTAGCGTTGA+TGG | 0.438976 | 3.4:-84978765 | None:intergenic |
| AGCAGTCCTGATGGCGGCGG+AGG | 0.440333 | 3.4:-84978663 | None:intergenic |
| ATGTTAAGAAGAAGGATATC+AGG | 0.444332 | 3.4:+84979480 | MS.gene013477:CDS |
| CTCAAGATCGATGCCTGGTT+CGG | 0.447724 | 3.4:+84978629 | MS.gene013477:CDS |
| GATATCAGGAAGTTTCTTGA+TGG | 0.450730 | 3.4:+84979494 | MS.gene013477:CDS |
| AGGAAAGTAGATTTGCTTGA+TGG | 0.454716 | 3.4:+84979257 | MS.gene013477:CDS |
| AACGCCGTCAGGGATGTTCA+TGG | 0.489928 | 3.4:-84978486 | None:intergenic |
| GATCTCATCACCGATGAAGA+AGG | 0.495068 | 3.4:+84978596 | MS.gene013477:CDS |
| AAACTTTCTTGGCGAGAAGA+AGG | 0.497144 | 3.4:+84978811 | MS.gene013477:CDS |
| GAAATGCCATGTTAAGAAGA+AGG | 0.499506 | 3.4:+84979472 | MS.gene013477:intron |
| CCCTGACGGCGTTAGCATCA+AGG | 0.507605 | 3.4:+84978496 | MS.gene013477:CDS |
| TGGTATTTATGTTAGTGAGA+AGG | 0.531892 | 3.4:+84979514 | MS.gene013477:CDS |
| TGATATCCTTCTTCTTAACA+TGG | 0.532081 | 3.4:-84979478 | None:intergenic |
| TTCAATTGTTCGCTCTGAGA+AGG | 0.532558 | 3.4:+84979283 | MS.gene013477:CDS |
| CATGGTTTCGGAGGAGAGGA+TGG | 0.534778 | 3.4:-84978468 | None:intergenic |
| TTGGTGATGCTAGCGTTGAT+GGG | 0.543746 | 3.4:-84978764 | None:intergenic |
| TTATGTTAGTGAGAAGGGAT+CGG | 0.552761 | 3.4:+84979520 | MS.gene013477:CDS |
| CACGTTGAGAATCTCATCAC+TGG | 0.554104 | 3.4:+84978692 | MS.gene013477:CDS |
| CATCTTGTAGCGGAAACCCT+TGG | 0.556289 | 3.4:-84978720 | None:intergenic |
| CTCTGAGAAGGTGAAGGATG+AGG | 0.561820 | 3.4:+84979295 | MS.gene013477:CDS |
| AGGGTTTCCGCTACAAGATG+AGG | 0.564650 | 3.4:+84978723 | MS.gene013477:CDS |
| GAGAGCAGTCCTGATGGCGG+CGG | 0.568624 | 3.4:-84978666 | None:intergenic |
| CTCATCACTGGTGTCACCAA+GGG | 0.576975 | 3.4:+84978704 | MS.gene013477:CDS |
| TGTTCATGGTTTCGGAGGAG+AGG | 0.584113 | 3.4:-84978472 | None:intergenic |
| TAGCATCAAGGTTAACGCTA+AGG | 0.586158 | 3.4:+84978508 | MS.gene013477:CDS |
| GTGGCTGAGAGCAGTCCTGA+TGG | 0.587342 | 3.4:-84978672 | None:intergenic |
| AGAAGCTCAAGATCGATGCC+TGG | 0.588777 | 3.4:+84978624 | MS.gene013477:CDS |
| CCTTGATGCTAACGCCGTCA+GGG | 0.590861 | 3.4:-84978496 | None:intergenic |
| TCGAAGTCGAAGGACCTCGC+GGG | 0.613305 | 3.4:+84978534 | MS.gene013477:CDS |
| AGGGATGTTCATGGTTTCGG+AGG | 0.621327 | 3.4:-84978477 | None:intergenic |
| TCTCATCACTGGTGTCACCA+AGG | 0.623987 | 3.4:+84978703 | MS.gene013477:CDS |
| GTCATGTGCACTTATTAACC+AGG | 0.625933 | 3.4:+84979355 | MS.gene013477:CDS |
| TGTTCGCTCTGAGAAGGTGA+AGG | 0.639131 | 3.4:+84979289 | MS.gene013477:CDS |
| GCTAAGGTCATCGAAGTCGA+AGG | 0.640211 | 3.4:+84978524 | MS.gene013477:CDS |
| TGTTAGTGAGAAGGGATCGG+TGG | 0.651106 | 3.4:+84979523 | MS.gene013477:CDS |
| ATCGAAGTCGAAGGACCTCG+CGG | 0.660265 | 3.4:+84978533 | MS.gene013477:CDS |
| GCTGAGAGCAGTCCTGATGG+CGG | 0.668861 | 3.4:-84978669 | None:intergenic |
| TGGTGATGCTAGCGTTGATG+GGG | 0.676063 | 3.4:-84978763 | None:intergenic |
| CGGTGATGAGATCAAAATCG+AGG | 0.680504 | 3.4:-84978586 | None:intergenic |
| ACACAAACCTCATCTTGTAG+CGG | 0.691692 | 3.4:-84978730 | None:intergenic |
| GAAACCATGAACATCCCTGA+CGG | 0.701649 | 3.4:+84978482 | MS.gene013477:CDS |
| CAGTGATGAGATTCTCAACG+TGG | 0.725921 | 3.4:-84978691 | None:intergenic |
| TCACGAACAAGCTTCCCGCG+AGG | 0.748381 | 3.4:-84978548 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATAAATTAGATTAAAACTA+GGG | - | chr3.4:84978956-84978975 | None:intergenic | 10.0% |
| !! | TTATAAATTAGATTAAAACT+AGG | - | chr3.4:84978957-84978976 | None:intergenic | 10.0% |
| !! | ACAAAAATAAAACATGTTCA+TGG | - | chr3.4:84979399-84979418 | None:intergenic | 20.0% |
| !! | GAGATAATGTCTAATTTATT+TGG | + | chr3.4:84979155-84979174 | MS.gene013477:intron | 20.0% |
| !!! | AATGAGTTAATCTTTTTATC+TGG | + | chr3.4:84979089-84979108 | MS.gene013477:intron | 20.0% |
| ! | GTCTAATTTATTTGGTTATC+TGG | + | chr3.4:84979163-84979182 | MS.gene013477:intron | 25.0% |
| !! | CGAATAATGTTGTTTGTATT+AGG | + | chr3.4:84979232-84979251 | MS.gene013477:intron | 25.0% |
| !!! | TCTTTAGTTTCTTCAGTTTT+AGG | + | chr3.4:84978866-84978885 | MS.gene013477:intron | 25.0% |
| ATGTTAAGAAGAAGGATATC+AGG | + | chr3.4:84979480-84979499 | MS.gene013477:CDS | 30.0% | |
| GGTATTTATGTTAGTGAGAA+GGG | + | chr3.4:84979515-84979534 | MS.gene013477:CDS | 30.0% | |
| TGATATCCTTCTTCTTAACA+TGG | - | chr3.4:84979481-84979500 | None:intergenic | 30.0% | |
| TGGTATTTATGTTAGTGAGA+AGG | + | chr3.4:84979514-84979533 | MS.gene013477:CDS | 30.0% | |
| ! | AATGTTGTTTGTATTAGGTG+AGG | + | chr3.4:84979237-84979256 | MS.gene013477:intron | 30.0% |
| ! | TTTACTAGTTTGAGAATCTG+TGG | + | chr3.4:84979201-84979220 | MS.gene013477:intron | 30.0% |
| !! | GAATGTTGTTGTTGTGTTTT+TGG | + | chr3.4:84979445-84979464 | MS.gene013477:intron | 30.0% |
| ATGTTCATGGACCATGTTAA+GGG | - | chr3.4:84979386-84979405 | None:intergenic | 35.0% | |
| ATTGAGATCCGAAACTTTCT+TGG | + | chr3.4:84978800-84978819 | MS.gene013477:CDS | 35.0% | |
| CACAAACTAGAGTGAAACTA+AGG | - | chr3.4:84978900-84978919 | None:intergenic | 35.0% | |
| GAAATGCCATGTTAAGAAGA+AGG | + | chr3.4:84979472-84979491 | MS.gene013477:intron | 35.0% | |
| GATATCAGGAAGTTTCTTGA+TGG | + | chr3.4:84979494-84979513 | MS.gene013477:CDS | 35.0% | |
| TTATGTTAGTGAGAAGGGAT+CGG | + | chr3.4:84979520-84979539 | MS.gene013477:CDS | 35.0% | |
| ! | AGGAAAGTAGATTTGCTTGA+TGG | + | chr3.4:84979257-84979276 | MS.gene013477:CDS | 35.0% |
| ! | ATGACATTGAGCTTGTTTCT+AGG | + | chr3.4:84979333-84979352 | MS.gene013477:CDS | 35.0% |
| AAACTTTCTTGGCGAGAAGA+AGG | + | chr3.4:84978811-84978830 | MS.gene013477:CDS | 40.0% | |
| ACACAAACCTCATCTTGTAG+CGG | - | chr3.4:84978733-84978752 | None:intergenic | 40.0% | |
| CATGTTCATGGACCATGTTA+AGG | - | chr3.4:84979387-84979406 | None:intergenic | 40.0% | |
| CTTCTTCTTGCCTTCTTCAT+CGG | - | chr3.4:84978609-84978628 | None:intergenic | 40.0% | |
| GTCATGTGCACTTATTAACC+AGG | + | chr3.4:84979355-84979374 | MS.gene013477:CDS | 40.0% | |
| TAGCATCAAGGTTAACGCTA+AGG | + | chr3.4:84978508-84978527 | MS.gene013477:CDS | 40.0% | |
| TCTTCTCGCCAAGAAAGTTT+CGG | - | chr3.4:84978811-84978830 | None:intergenic | 40.0% | |
| TGTTCATGGACCATGTTAAG+GGG | - | chr3.4:84979385-84979404 | None:intergenic | 40.0% | |
| !! | CTCAATCGACTTGTTGTCAT+TGG | - | chr3.4:84978786-84978805 | None:intergenic | 40.0% |
| !! | TTCAATTGTTCGCTCTGAGA+AGG | + | chr3.4:84979283-84979302 | MS.gene013477:CDS | 40.0% |
| !!! | AAGGATGAGGTTGTTTTGGA+TGG | + | chr3.4:84979308-84979327 | MS.gene013477:CDS | 40.0% |
| CACGTTGAGAATCTCATCAC+TGG | + | chr3.4:84978692-84978711 | MS.gene013477:CDS | 45.0% | |
| CAGTGATGAGATTCTCAACG+TGG | - | chr3.4:84978694-84978713 | None:intergenic | 45.0% | |
| CGGTGATGAGATCAAAATCG+AGG | - | chr3.4:84978589-84978608 | None:intergenic | 45.0% | |
| GAAACCATGAACATCCCTGA+CGG | + | chr3.4:84978482-84978501 | MS.gene013477:CDS | 45.0% | |
| GATCTCATCACCGATGAAGA+AGG | + | chr3.4:84978596-84978615 | MS.gene013477:CDS | 45.0% | |
| GTCAGGGATGTTCATGGTTT+CGG | - | chr3.4:84978483-84978502 | None:intergenic | 45.0% | |
| ! | GGTGAAGGATGAGGTTGTTT+TGG | + | chr3.4:84979304-84979323 | MS.gene013477:CDS | 45.0% |
| !! | ATTGGTGATGCTAGCGTTGA+TGG | - | chr3.4:84978768-84978787 | None:intergenic | 45.0% |
| !! | TTGGTGATGCTAGCGTTGAT+GGG | - | chr3.4:84978767-84978786 | None:intergenic | 45.0% |
| ACCAGGTACACCCCTTAACA+TGG | + | chr3.4:84979372-84979391 | MS.gene013477:intron | 50.0% | |
| AGAAGCTCAAGATCGATGCC+TGG | + | chr3.4:84978624-84978643 | MS.gene013477:CDS | 50.0% | |
| AGGGATGTTCATGGTTTCGG+AGG | - | chr3.4:84978480-84978499 | None:intergenic | 50.0% | |
| AGGGTTTCCGCTACAAGATG+AGG | + | chr3.4:84978723-84978742 | MS.gene013477:CDS | 50.0% | |
| CTCAAGATCGATGCCTGGTT+CGG | + | chr3.4:84978629-84978648 | MS.gene013477:CDS | 50.0% | |
| GCTAAGGTCATCGAAGTCGA+AGG | + | chr3.4:84978524-84978543 | MS.gene013477:CDS | 50.0% | |
| TGTTAGTGAGAAGGGATCGG+TGG | + | chr3.4:84979523-84979542 | MS.gene013477:CDS | 50.0% | |
| TGTTCATGGTTTCGGAGGAG+AGG | - | chr3.4:84978475-84978494 | None:intergenic | 50.0% | |
| ! | ACCATGTTAAGGGGTGTACC+TGG | - | chr3.4:84979376-84979395 | None:intergenic | 50.0% |
| ! | CATCTTGTAGCGGAAACCCT+TGG | - | chr3.4:84978723-84978742 | None:intergenic | 50.0% |
| ! | CTCTGAGAAGGTGAAGGATG+AGG | + | chr3.4:84979295-84979314 | MS.gene013477:CDS | 50.0% |
| !! | CTCATCACTGGTGTCACCAA+GGG | + | chr3.4:84978704-84978723 | MS.gene013477:CDS | 50.0% |
| !! | TCTCATCACTGGTGTCACCA+AGG | + | chr3.4:84978703-84978722 | MS.gene013477:CDS | 50.0% |
| !! | TGGTGATGCTAGCGTTGATG+GGG | - | chr3.4:84978766-84978785 | None:intergenic | 50.0% |
| !! | TGTTCGCTCTGAGAAGGTGA+AGG | + | chr3.4:84979289-84979308 | MS.gene013477:CDS | 50.0% |
| AACGCCGTCAGGGATGTTCA+TGG | - | chr3.4:84978489-84978508 | None:intergenic | 55.0% | |
| ACCTTGATGCTAACGCCGTC+AGG | - | chr3.4:84978500-84978519 | None:intergenic | 55.0% | |
| ATCGAAGTCGAAGGACCTCG+CGG | + | chr3.4:84978533-84978552 | MS.gene013477:CDS | 55.0% | |
| CATGGTTTCGGAGGAGAGGA+TGG | - | chr3.4:84978471-84978490 | None:intergenic | 55.0% | |
| CCTTGATGCTAACGCCGTCA+GGG | - | chr3.4:84978499-84978518 | None:intergenic | 55.0% | |
| ! | GGTTTTCCTGGAACCGAACC+AGG | - | chr3.4:84978645-84978664 | None:intergenic | 55.0% |
| CCCTGACGGCGTTAGCATCA+AGG | + | chr3.4:84978496-84978515 | MS.gene013477:CDS | 60.0% | |
| GCTGAGAGCAGTCCTGATGG+CGG | - | chr3.4:84978672-84978691 | None:intergenic | 60.0% | |
| GTGGCTGAGAGCAGTCCTGA+TGG | - | chr3.4:84978675-84978694 | None:intergenic | 60.0% | |
| TCACGAACAAGCTTCCCGCG+AGG | - | chr3.4:84978551-84978570 | None:intergenic | 60.0% | |
| TCGAAGTCGAAGGACCTCGC+GGG | + | chr3.4:84978534-84978553 | MS.gene013477:CDS | 60.0% | |
| !! | TCGATGCCTGGTTCGGTTCC+AGG | + | chr3.4:84978636-84978655 | MS.gene013477:CDS | 60.0% |
| GGAAAACCTCCGCCGCCATC+AGG | + | chr3.4:84978657-84978676 | MS.gene013477:CDS | 65.0% | |
| !! | GAGAGCAGTCCTGATGGCGG+CGG | - | chr3.4:84978669-84978688 | None:intergenic | 65.0% |
| !! | GATGGCGGCGGAGGTTTTCC+TGG | - | chr3.4:84978657-84978676 | None:intergenic | 65.0% |
| !! | AGCAGTCCTGATGGCGGCGG+AGG | - | chr3.4:84978666-84978685 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 84978461 | 84979559 | 84978461 | ID=MS.gene013477 |
| chr3.4 | mRNA | 84978461 | 84979559 | 84978461 | ID=MS.gene013477.t1;Parent=MS.gene013477 |
| chr3.4 | exon | 84978461 | 84978832 | 84978461 | ID=MS.gene013477.t1.exon1;Parent=MS.gene013477.t1 |
| chr3.4 | CDS | 84978461 | 84978832 | 84978461 | ID=cds.MS.gene013477.t1;Parent=MS.gene013477.t1 |
| chr3.4 | exon | 84979254 | 84979376 | 84979254 | ID=MS.gene013477.t1.exon2;Parent=MS.gene013477.t1 |
| chr3.4 | CDS | 84979254 | 84979376 | 84979254 | ID=cds.MS.gene013477.t1;Parent=MS.gene013477.t1 |
| chr3.4 | exon | 84979473 | 84979559 | 84979473 | ID=MS.gene013477.t1.exon3;Parent=MS.gene013477.t1 |
| chr3.4 | CDS | 84979473 | 84979559 | 84979473 | ID=cds.MS.gene013477.t1;Parent=MS.gene013477.t1 |
| Gene Sequence |
| Protein sequence |
