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.gene41160.t1 | RHN49639.1 | 67.7 | 158 | 28 | 4 | 38 | 173 | 11 | 167 | 9.60E-48 | 199.9 |
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.gene41160.t1 | A0A396H8N5 | 67.7 | 158 | 28 | 4 | 38 | 173 | 11 | 167 | 6.9e-48 | 199.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene41160.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.gene41160.t1 | MTR_7g117590 | 68.153 | 157 | 28 | 4 | 38 | 173 | 17 | 172 | 8.18e-65 | 196 |
| MS.gene41160.t1 | MTR_1g054470 | 54.167 | 168 | 36 | 6 | 1 | 162 | 1 | 133 | 2.01e-50 | 159 |
| MS.gene41160.t1 | MTR_2g012700 | 36.364 | 110 | 69 | 1 | 65 | 173 | 11 | 120 | 5.14e-27 | 99.0 |
| MS.gene41160.t1 | MTR_2g062330 | 38.462 | 117 | 67 | 3 | 58 | 173 | 27 | 139 | 1.25e-25 | 96.3 |
| MS.gene41160.t1 | MTR_5g071400 | 49.412 | 85 | 11 | 4 | 1 | 79 | 1 | 59 | 1.66e-15 | 68.6 |
| MS.gene41160.t1 | MTR_0010s0310 | 33.333 | 90 | 57 | 1 | 77 | 163 | 151 | 240 | 2.52e-13 | 66.2 |
| MS.gene41160.t1 | MTR_6g477950 | 36.275 | 102 | 61 | 3 | 72 | 172 | 46 | 144 | 7.12e-12 | 62.8 |
| MS.gene41160.t1 | MTR_6g087720 | 32.039 | 103 | 66 | 3 | 62 | 160 | 196 | 298 | 4.68e-11 | 60.5 |
| MS.gene41160.t1 | MTR_5g078270 | 31.461 | 89 | 58 | 1 | 78 | 163 | 210 | 298 | 7.38e-11 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 35 sgRNAs with CRISPR-Local
Find 66 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTGGATGGTTTGAGTTTGTT+AGG | 0.273672 | 4.1:-36407408 | MS.gene41160:CDS |
| TGAAGATCGGGTCATTTGAT+TGG | 0.369943 | 4.1:-36408089 | MS.gene41160:CDS |
| CGAATTGTTGATGATGAAAC+TGG | 0.373851 | 4.1:-36407490 | MS.gene41160:CDS |
| AGAACGAAGAACGATGAAAA+TGG | 0.379867 | 4.1:-36408181 | None:intergenic |
| GAATGTGAAGTTCGTGATAA+AGG | 0.381874 | 4.1:-36407457 | MS.gene41160:CDS |
| GGCTGCTGGACGGAGAGTTC+TGG | 0.386406 | 4.1:-36407675 | MS.gene41160:intron |
| TGGCCATCGACTTCTTCATT+TGG | 0.387700 | 4.1:+36407770 | None:intergenic |
| AAGTTCGTGATAAAGGAAAT+TGG | 0.388847 | 4.1:-36407450 | MS.gene41160:CDS |
| TTTGAAATTGTGCAAATACT+TGG | 0.402550 | 4.1:+36407750 | None:intergenic |
| ATTAGTTCTGCTACGGCTGC+TGG | 0.408831 | 4.1:-36407689 | MS.gene41160:CDS |
| GAAGATCGGGTCATTTGATT+GGG | 0.425740 | 4.1:-36408088 | MS.gene41160:CDS |
| CGAAGAAGAAGTTGAAGATC+GGG | 0.445939 | 4.1:-36408101 | MS.gene41160:CDS |
| ATGAAATGTGCGGCGGATGC+AGG | 0.449012 | 4.1:-36408152 | MS.gene41160:CDS |
| TGGATGGTTTGAGTTTGTTA+GGG | 0.484898 | 4.1:-36407407 | MS.gene41160:CDS |
| CTGCAGCGATGTAATTGATC+CGG | 0.509939 | 4.1:-36407825 | MS.gene41160:intron |
| CTTCTTCGTCCATCTCAAAA+CGG | 0.535091 | 4.1:+36408116 | None:intergenic |
| ACGAAGAAGAAGTTGAAGAT+CGG | 0.540825 | 4.1:-36408102 | MS.gene41160:CDS |
| CGATGTAATTGATCCGGAGT+TGG | 0.544205 | 4.1:-36407819 | MS.gene41160:CDS |
| CTTTGAATTGCAATCTTCCG+AGG | 0.557056 | 4.1:+36407538 | None:intergenic |
| TCGTGATAAAGGAAATTGGA+TGG | 0.565929 | 4.1:-36407446 | MS.gene41160:CDS |
| GGTTTCAATTCGTCCAACTC+CGG | 0.567151 | 4.1:+36407806 | None:intergenic |
| AGAAATACGTTGGAAGTGGA+TGG | 0.575514 | 4.1:-36407423 | MS.gene41160:CDS |
| ATGGAGAAATACGTTGGAAG+TGG | 0.576439 | 4.1:-36407427 | MS.gene41160:CDS |
| GCATAGTATTAGTTCTGCTA+CGG | 0.580120 | 4.1:-36407696 | MS.gene41160:CDS |
| AATTGGATGGAGAAATACGT+TGG | 0.583531 | 4.1:-36407433 | MS.gene41160:CDS |
| CCATCTCAAAACGGCGACGA+TGG | 0.584489 | 4.1:+36408125 | None:intergenic |
| AGGGCAAAAGAACTCAAAGA+AGG | 0.584629 | 4.1:-36407388 | MS.gene41160:CDS |
| TTAATGTGTAGCGTATTCCT+CGG | 0.586314 | 4.1:-36407555 | MS.gene41160:intron |
| GCATCCGCCGCACATTTCAT+CGG | 0.590420 | 4.1:+36408155 | None:intergenic |
| GATACAAATAATTTGTGTGG+AGG | 0.593345 | 4.1:+36407337 | None:intergenic |
| ACTGATACAAATAATTTGTG+TGG | 0.607437 | 4.1:+36407334 | None:intergenic |
| GTTCTGCTACGGCTGCTGGA+CGG | 0.628877 | 4.1:-36407685 | MS.gene41160:CDS |
| AATCCAAATGAAGAAGTCGA+TGG | 0.671453 | 4.1:-36407773 | MS.gene41160:CDS |
| ATGGCGACCGATGAAATGTG+CGG | 0.726557 | 4.1:-36408162 | MS.gene41160:CDS |
| GCGACCGATGAAATGTGCGG+CGG | 0.753822 | 4.1:-36408159 | MS.gene41160:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CAATTTCAAAATTTTCAAAA+CGG | - | chr4.1:36407755-36407774 | MS.gene41160:CDS | 15.0% |
| !!! | GTTTTTTATTTTATTTTTGC+TGG | - | chr4.1:36407861-36407880 | MS.gene41160:intron | 15.0% |
| !!! | TTGTTTTTTTTTTAATCATC+TGG | - | chr4.1:36407621-36407640 | MS.gene41160:intron | 15.0% |
| ! | CTTAAAATAGCCTTCTAAAT+GGG | + | chr4.1:36407503-36407522 | None:intergenic | 25.0% |
| !! | ACTGATACAAATAATTTGTG+TGG | + | chr4.1:36408161-36408180 | None:intergenic | 25.0% |
| !! | TTTGAAATTGTGCAAATACT+TGG | + | chr4.1:36407745-36407764 | None:intergenic | 25.0% |
| !!! | CATTTAGAAGGCTATTTTAA+GGG | - | chr4.1:36407502-36407521 | MS.gene41160:CDS | 25.0% |
| AAGTTCGTGATAAAGGAAAT+TGG | - | chr4.1:36408042-36408061 | MS.gene41160:intron | 30.0% | |
| CCTTAAAATAGCCTTCTAAA+TGG | + | chr4.1:36407504-36407523 | None:intergenic | 30.0% | |
| ! | AAAACGGTGATCATACTTTT+TGG | - | chr4.1:36407771-36407790 | MS.gene41160:CDS | 30.0% |
| ! | GATACAAATAATTTGTGTGG+AGG | + | chr4.1:36408158-36408177 | None:intergenic | 30.0% |
| !! | CCATTTAGAAGGCTATTTTA+AGG | - | chr4.1:36407501-36407520 | MS.gene41160:CDS | 30.0% |
| !!! | AAGATTGGGCTTTTTAGTTA+TGG | - | chr4.1:36407451-36407470 | MS.gene41160:CDS | 30.0% |
| AATCCAAATGAAGAAGTCGA+TGG | - | chr4.1:36407719-36407738 | MS.gene41160:CDS | 35.0% | |
| AATTGGATGGAGAAATACGT+TGG | - | chr4.1:36408059-36408078 | MS.gene41160:intron | 35.0% | |
| ACGAAGAAGAAGTTGAAGAT+CGG | - | chr4.1:36407390-36407409 | MS.gene41160:CDS | 35.0% | |
| ACGTCTGAGAAGAAAATTCT+AGG | - | chr4.1:36407549-36407568 | MS.gene41160:intron | 35.0% | |
| CGTCTGAGAAGAAAATTCTA+GGG | - | chr4.1:36407550-36407569 | MS.gene41160:intron | 35.0% | |
| GAATGTGAAGTTCGTGATAA+AGG | - | chr4.1:36408035-36408054 | MS.gene41160:intron | 35.0% | |
| TCGTGATAAAGGAAATTGGA+TGG | - | chr4.1:36408046-36408065 | MS.gene41160:intron | 35.0% | |
| TGAAAATGTCTTCTTCTAGC+AGG | - | chr4.1:36407581-36407600 | MS.gene41160:intron | 35.0% | |
| TTAAGGGTTGTTGTCAATCT+TGG | - | chr4.1:36407518-36407537 | MS.gene41160:CDS | 35.0% | |
| TTAATGTGTAGCGTATTCCT+CGG | - | chr4.1:36407937-36407956 | MS.gene41160:intron | 35.0% | |
| ! | TCATTTGGATTTTCGTCTAC+AGG | + | chr4.1:36407710-36407729 | None:intergenic | 35.0% |
| !! | CGAATTGTTGATGATGAAAC+TGG | - | chr4.1:36408002-36408021 | MS.gene41160:intron | 35.0% |
| !! | GCATAGTATTAGTTCTGCTA+CGG | - | chr4.1:36407796-36407815 | MS.gene41160:CDS | 35.0% |
| !! | GTTTTGACGGCAATAAGATT+GGG | - | chr4.1:36407437-36407456 | MS.gene41160:CDS | 35.0% |
| !! | TGGATGGTTTGAGTTTGTTA+GGG | - | chr4.1:36408085-36408104 | MS.gene41160:CDS | 35.0% |
| AGAAATACGTTGGAAGTGGA+TGG | - | chr4.1:36408069-36408088 | MS.gene41160:intron | 40.0% | |
| AGGGCAAAAGAACTCAAAGA+AGG | - | chr4.1:36408104-36408123 | MS.gene41160:CDS | 40.0% | |
| ATGGAGAAATACGTTGGAAG+TGG | - | chr4.1:36408065-36408084 | MS.gene41160:intron | 40.0% | |
| CGAAGAAGAAGTTGAAGATC+GGG | - | chr4.1:36407391-36407410 | MS.gene41160:CDS | 40.0% | |
| CTTATTGCCGTCAAAACGTT+CGG | + | chr4.1:36407434-36407453 | None:intergenic | 40.0% | |
| CTTCTTCGTCCATCTCAAAA+CGG | + | chr4.1:36407379-36407398 | None:intergenic | 40.0% | |
| CTTTGAATTGCAATCTTCCG+AGG | + | chr4.1:36407957-36407976 | None:intergenic | 40.0% | |
| GAAGATCGGGTCATTTGATT+GGG | - | chr4.1:36407404-36407423 | MS.gene41160:CDS | 40.0% | |
| TGAAGATCGGGTCATTTGAT+TGG | - | chr4.1:36407403-36407422 | MS.gene41160:CDS | 40.0% | |
| ! | GTGGATGGTTTGAGTTTGTT+AGG | - | chr4.1:36408084-36408103 | MS.gene41160:CDS | 40.0% |
| ! | TTGCTGGAGTATTTGCACAT+GGG | - | chr4.1:36407877-36407896 | MS.gene41160:intron | 40.0% |
| ! | TTTGCTGGAGTATTTGCACA+TGG | - | chr4.1:36407876-36407895 | MS.gene41160:intron | 40.0% |
| !! | CGTTTTGACGGCAATAAGAT+TGG | - | chr4.1:36407436-36407455 | MS.gene41160:CDS | 40.0% |
| !!! | TGGGCTTTTTAGTTATGGAC+CGG | - | chr4.1:36407456-36407475 | MS.gene41160:CDS | 40.0% |
| ATGGACCGGGCAAAAATGAA+TGG | - | chr4.1:36407470-36407489 | MS.gene41160:CDS | 45.0% | |
| CGATGTAATTGATCCGGAGT+TGG | - | chr4.1:36407673-36407692 | MS.gene41160:intron | 45.0% | |
| CTGCAGCGATGTAATTGATC+CGG | - | chr4.1:36407667-36407686 | MS.gene41160:intron | 45.0% | |
| GGGCAAAAATGAATGGGTCA+CGG | - | chr4.1:36407477-36407496 | MS.gene41160:CDS | 45.0% | |
| GGTTTCAATTCGTCCAACTC+CGG | + | chr4.1:36407689-36407708 | None:intergenic | 45.0% | |
| TGGACCGGGCAAAAATGAAT+GGG | - | chr4.1:36407471-36407490 | MS.gene41160:CDS | 45.0% | |
| ! | GGGTTTTCCGAACGTTTTGA+CGG | - | chr4.1:36407424-36407443 | MS.gene41160:CDS | 45.0% |
| !! | GTGACCCATTCATTTTTGCC+CGG | + | chr4.1:36407478-36407497 | None:intergenic | 45.0% |
| !! | TGGCCATCGACTTCTTCATT+TGG | + | chr4.1:36407725-36407744 | None:intergenic | 45.0% |
| !!! | GGGCTTTTTAGTTATGGACC+GGG | - | chr4.1:36407457-36407476 | MS.gene41160:CDS | 45.0% |
| ATGGCGACCGATGAAATGTG+CGG | - | chr4.1:36407330-36407349 | MS.gene41160:CDS | 50.0% | |
| GAGTATTTGCACATGGGTGG+TGG | - | chr4.1:36407883-36407902 | MS.gene41160:intron | 50.0% | |
| ! | CTGGAGTATTTGCACATGGG+TGG | - | chr4.1:36407880-36407899 | MS.gene41160:intron | 50.0% |
| !! | ATTAGTTCTGCTACGGCTGC+TGG | - | chr4.1:36407803-36407822 | MS.gene41160:CDS | 50.0% |
| ATGAAATGTGCGGCGGATGC+AGG | - | chr4.1:36407340-36407359 | MS.gene41160:CDS | 55.0% | |
| CCATCTCAAAACGGCGACGA+TGG | + | chr4.1:36407370-36407389 | None:intergenic | 55.0% | |
| GCATCCGCCGCACATTTCAT+CGG | + | chr4.1:36407340-36407359 | None:intergenic | 55.0% | |
| TGGGTCACGGCCCATTTAGA+AGG | - | chr4.1:36407490-36407509 | MS.gene41160:CDS | 55.0% | |
| !!! | CCATCGTCGCCGTTTTGAGA+TGG | - | chr4.1:36407367-36407386 | MS.gene41160:CDS | 55.0% |
| GCGACCGATGAAATGTGCGG+CGG | - | chr4.1:36407333-36407352 | MS.gene41160:CDS | 60.0% | |
| GTTCTGCTACGGCTGCTGGA+CGG | - | chr4.1:36407807-36407826 | MS.gene41160:CDS | 60.0% | |
| ! | GCACATGGGTGGTGGCTTTC+TGG | - | chr4.1:36407891-36407910 | MS.gene41160:intron | 60.0% |
| ! | GCTGGACGGAGAGTTCTGGT+TGG | - | chr4.1:36407821-36407840 | MS.gene41160:CDS | 60.0% |
| GGCTGCTGGACGGAGAGTTC+TGG | - | chr4.1:36407817-36407836 | MS.gene41160:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.1 | gene | 36407324 | 36408190 | 36407324 | ID=MS.gene41160 |
| chr4.1 | mRNA | 36407324 | 36408190 | 36407324 | ID=MS.gene41160.t1;Parent=MS.gene41160 |
| chr4.1 | exon | 36408078 | 36408190 | 36408078 | ID=MS.gene41160.t1.exon1;Parent=MS.gene41160.t1 |
| chr4.1 | CDS | 36408078 | 36408190 | 36408078 | ID=cds.MS.gene41160.t1;Parent=MS.gene41160.t1 |
| chr4.1 | exon | 36407676 | 36407841 | 36407676 | ID=MS.gene41160.t1.exon2;Parent=MS.gene41160.t1 |
| chr4.1 | CDS | 36407676 | 36407841 | 36407676 | ID=cds.MS.gene41160.t1;Parent=MS.gene41160.t1 |
| chr4.1 | exon | 36407324 | 36407566 | 36407324 | ID=MS.gene41160.t1.exon3;Parent=MS.gene41160.t1 |
| chr4.1 | CDS | 36407324 | 36407566 | 36407324 | ID=cds.MS.gene41160.t1;Parent=MS.gene41160.t1 |
| Gene Sequence |
| Protein sequence |
