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.gene41269.t1 | RHN49639.1 | 67.9 | 159 | 29 | 3 | 54 | 191 | 10 | 167 | 1.50E-49 | 206.1 |
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.gene41269.t1 | A0A396H8N5 | 67.9 | 159 | 29 | 3 | 54 | 191 | 10 | 167 | 1.1e-49 | 206.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene41269.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.gene41269.t1 | MTR_7g117590 | 68.590 | 156 | 28 | 3 | 56 | 191 | 18 | 172 | 3.39e-67 | 203 |
| MS.gene41269.t1 | MTR_1g054470 | 48.108 | 185 | 37 | 5 | 1 | 180 | 3 | 133 | 2.90e-47 | 152 |
| MS.gene41269.t1 | MTR_2g012700 | 36.364 | 110 | 69 | 1 | 83 | 191 | 11 | 120 | 3.70e-27 | 100 |
| MS.gene41269.t1 | MTR_2g062330 | 38.462 | 117 | 67 | 3 | 76 | 191 | 27 | 139 | 5.40e-26 | 97.8 |
| MS.gene41269.t1 | MTR_5g071400 | 68.085 | 47 | 9 | 2 | 56 | 97 | 14 | 59 | 1.20e-13 | 64.3 |
| MS.gene41269.t1 | MTR_6g477950 | 37.255 | 102 | 60 | 3 | 90 | 190 | 46 | 144 | 8.04e-13 | 65.9 |
| MS.gene41269.t1 | MTR_0010s0310 | 31.111 | 90 | 59 | 1 | 95 | 181 | 151 | 240 | 2.34e-12 | 63.9 |
| MS.gene41269.t1 | MTR_6g087720 | 29.915 | 117 | 81 | 1 | 63 | 178 | 182 | 298 | 1.10e-11 | 62.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 36 sgRNAs with CRISPR-Local
Find 64 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCATCAACAATTCGAATTT+TGG | 0.069208 | 1.4:-34684615 | None:intergenic |
| CCATCGACTTCTTCTTCATT+TGG | 0.249648 | 1.4:-34684340 | None:intergenic |
| GTGGATGGTTTGAGTTTGTT+AGG | 0.273672 | 1.4:+34684705 | MS.gene41269:CDS |
| TGAAGATCGGGTCATTTGAT+TGG | 0.360270 | 1.4:+34684020 | MS.gene41269:CDS |
| CGAATTGTTGATGATGAAAC+TGG | 0.373851 | 1.4:+34684623 | MS.gene41269:CDS |
| GAATGTGAAGTTCGTGATAA+AGG | 0.381874 | 1.4:+34684656 | MS.gene41269:CDS |
| AAGTTCGTGATAAAGGAAAT+TGG | 0.388847 | 1.4:+34684663 | MS.gene41269:CDS |
| TTTGAAATTGTGCAAATACT+TGG | 0.402550 | 1.4:-34684363 | None:intergenic |
| GACTGCTGGACGGAGAGTTC+TGG | 0.423731 | 1.4:+34684438 | MS.gene41269:CDS |
| GAAGATCGGGTCATTTGATT+GGG | 0.427759 | 1.4:+34684021 | MS.gene41269:CDS |
| ATTAGTTCTGCTACGACTGC+TGG | 0.447896 | 1.4:+34684424 | MS.gene41269:CDS |
| ATGAAATGTGCGGCGGATGC+AGG | 0.449012 | 1.4:+34683957 | MS.gene41269:CDS |
| CGAAGAAGAAGATGAAGATC+GGG | 0.478220 | 1.4:+34684008 | MS.gene41269:CDS |
| CAATTTCAAAATTTGCAAAA+CGG | 0.482026 | 1.4:+34684376 | MS.gene41269:CDS |
| TGGATGGTTTGAGTTTGTTA+GGG | 0.484898 | 1.4:+34684706 | MS.gene41269:CDS |
| CTTTGAATTGCAATCTTCTG+AGG | 0.503662 | 1.4:-34684575 | None:intergenic |
| CTGCAGCGATGTAATTGATC+CGG | 0.509939 | 1.4:+34684285 | MS.gene41269:intron |
| CTTCTTCGTCCATCTCAAAA+CGG | 0.536060 | 1.4:-34683993 | None:intergenic |
| ACGAAGAAGAAGATGAAGAT+CGG | 0.540825 | 1.4:+34684007 | MS.gene41269:CDS |
| CGATGTAATTGATCCGGAGT+TGG | 0.544205 | 1.4:+34684291 | MS.gene41269:CDS |
| CAATCTTATTGCCGTCAAAA+CGG | 0.544280 | 1.4:-34684053 | None:intergenic |
| TTATTGCCGTCAAAACGGTT+CGG | 0.545486 | 1.4:-34684048 | None:intergenic |
| TCGTGATAAAGGAAATTGGA+TGG | 0.565929 | 1.4:+34684667 | MS.gene41269:CDS |
| AGAAATACGTTGGAAGTGGA+TGG | 0.575514 | 1.4:+34684690 | MS.gene41269:CDS |
| ATGGAGAAATACGTTGGAAG+TGG | 0.576439 | 1.4:+34684686 | MS.gene41269:CDS |
| AATTGGATGGAGAAATACGT+TGG | 0.583531 | 1.4:+34684680 | MS.gene41269:CDS |
| CCATCTCAAAACGGCGACGA+TGG | 0.584489 | 1.4:-34683984 | None:intergenic |
| AGGGCAAAAGAACTCAAAGA+AGG | 0.584629 | 1.4:+34684725 | MS.gene41269:CDS |
| GCATCCGCCGCACATTTCAT+CGG | 0.590420 | 1.4:-34683954 | None:intergenic |
| GGTATCAATTCGTCCAACTC+CGG | 0.591453 | 1.4:-34684304 | None:intergenic |
| GATACAAATAATTTGTGTGG+AGG | 0.593345 | 1.4:-34684776 | None:intergenic |
| ACTGATACAAATAATTTGTG+TGG | 0.607437 | 1.4:-34684779 | None:intergenic |
| CCAAATGAAGAAGAAGTCGA+TGG | 0.658231 | 1.4:+34684340 | MS.gene41269:CDS |
| GTTCTGCTACGACTGCTGGA+CGG | 0.667156 | 1.4:+34684428 | MS.gene41269:CDS |
| ATGGCGACCGATGAAATGTG+CGG | 0.726557 | 1.4:+34683947 | MS.gene41269:CDS |
| GCGACCGATGAAATGTGCGG+CGG | 0.753822 | 1.4:+34683950 | MS.gene41269:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GTTTTTTATTTTATTTTTGC+TGG | + | chr1.4:34684482-34684501 | MS.gene41269:intron | 15.0% |
| !!! | TTGTTTTTTTTTTAATCATC+TGG | + | chr1.4:34684239-34684258 | MS.gene41269:intron | 15.0% |
| !! | CAATTTCAAAATTTGCAAAA+CGG | + | chr1.4:34684376-34684395 | MS.gene41269:CDS | 20.0% |
| ! | CTTAAAATAGCCTTCTAAAT+GGG | - | chr1.4:34684121-34684140 | None:intergenic | 25.0% |
| !! | ACTGATACAAATAATTTGTG+TGG | - | chr1.4:34684782-34684801 | None:intergenic | 25.0% |
| !! | ATCATCAACAATTCGAATTT+TGG | - | chr1.4:34684618-34684637 | None:intergenic | 25.0% |
| !! | TTTGAAATTGTGCAAATACT+TGG | - | chr1.4:34684366-34684385 | None:intergenic | 25.0% |
| !!! | CATTTAGAAGGCTATTTTAA+GGG | + | chr1.4:34684120-34684139 | MS.gene41269:intron | 25.0% |
| AAGTTCGTGATAAAGGAAAT+TGG | + | chr1.4:34684663-34684682 | MS.gene41269:CDS | 30.0% | |
| CCTTAAAATAGCCTTCTAAA+TGG | - | chr1.4:34684122-34684141 | None:intergenic | 30.0% | |
| ! | AAAACGGTGATCATACTTTT+TGG | + | chr1.4:34684392-34684411 | MS.gene41269:CDS | 30.0% |
| ! | GATACAAATAATTTGTGTGG+AGG | - | chr1.4:34684779-34684798 | None:intergenic | 30.0% |
| !! | CCATTTAGAAGGCTATTTTA+AGG | + | chr1.4:34684119-34684138 | MS.gene41269:intron | 30.0% |
| !!! | AAGATTGGGCTTTTTAGTTA+TGG | + | chr1.4:34684069-34684088 | MS.gene41269:CDS | 30.0% |
| AATTGGATGGAGAAATACGT+TGG | + | chr1.4:34684680-34684699 | MS.gene41269:CDS | 35.0% | |
| ACGAAGAAGAAGATGAAGAT+CGG | + | chr1.4:34684007-34684026 | MS.gene41269:CDS | 35.0% | |
| ACGTCTGAGAAGAAAATTCT+AGG | + | chr1.4:34684167-34684186 | MS.gene41269:intron | 35.0% | |
| CAATCTTATTGCCGTCAAAA+CGG | - | chr1.4:34684056-34684075 | None:intergenic | 35.0% | |
| CGTCTGAGAAGAAAATTCTA+GGG | + | chr1.4:34684168-34684187 | MS.gene41269:intron | 35.0% | |
| CTTTGAATTGCAATCTTCTG+AGG | - | chr1.4:34684578-34684597 | None:intergenic | 35.0% | |
| GAATGTGAAGTTCGTGATAA+AGG | + | chr1.4:34684656-34684675 | MS.gene41269:CDS | 35.0% | |
| TCGTGATAAAGGAAATTGGA+TGG | + | chr1.4:34684667-34684686 | MS.gene41269:CDS | 35.0% | |
| TGAAAATGTCTTCTTCTAGC+AGG | + | chr1.4:34684199-34684218 | MS.gene41269:intron | 35.0% | |
| TTAAGGGTTGTTGTGAATCT+TGG | + | chr1.4:34684136-34684155 | MS.gene41269:intron | 35.0% | |
| ! | TCATTTGGATTTTCGTCTAC+AGG | - | chr1.4:34684328-34684347 | None:intergenic | 35.0% |
| !! | CGAATTGTTGATGATGAAAC+TGG | + | chr1.4:34684623-34684642 | MS.gene41269:CDS | 35.0% |
| !! | GTTTTGACGGCAATAAGATT+GGG | + | chr1.4:34684055-34684074 | MS.gene41269:CDS | 35.0% |
| !! | TGGATGGTTTGAGTTTGTTA+GGG | + | chr1.4:34684706-34684725 | MS.gene41269:CDS | 35.0% |
| !!! | TGGGCTTTTTAGTTATGGAT+CGG | + | chr1.4:34684074-34684093 | MS.gene41269:CDS | 35.0% |
| AGAAATACGTTGGAAGTGGA+TGG | + | chr1.4:34684690-34684709 | MS.gene41269:CDS | 40.0% | |
| AGGGCAAAAGAACTCAAAGA+AGG | + | chr1.4:34684725-34684744 | MS.gene41269:CDS | 40.0% | |
| ATGGAGAAATACGTTGGAAG+TGG | + | chr1.4:34684686-34684705 | MS.gene41269:CDS | 40.0% | |
| ATGGATCGGGCAAAAATGAA+TGG | + | chr1.4:34684088-34684107 | MS.gene41269:CDS | 40.0% | |
| CCAAATGAAGAAGAAGTCGA+TGG | + | chr1.4:34684340-34684359 | MS.gene41269:CDS | 40.0% | |
| CGAAGAAGAAGATGAAGATC+GGG | + | chr1.4:34684008-34684027 | MS.gene41269:CDS | 40.0% | |
| CTTCTTCGTCCATCTCAAAA+CGG | - | chr1.4:34683996-34684015 | None:intergenic | 40.0% | |
| GAAGATCGGGTCATTTGATT+GGG | + | chr1.4:34684021-34684040 | MS.gene41269:CDS | 40.0% | |
| TGAAGATCGGGTCATTTGAT+TGG | + | chr1.4:34684020-34684039 | MS.gene41269:CDS | 40.0% | |
| TGGATCGGGCAAAAATGAAT+GGG | + | chr1.4:34684089-34684108 | MS.gene41269:CDS | 40.0% | |
| TTATTGCCGTCAAAACGGTT+CGG | - | chr1.4:34684051-34684070 | None:intergenic | 40.0% | |
| ! | GTGGATGGTTTGAGTTTGTT+AGG | + | chr1.4:34684705-34684724 | MS.gene41269:CDS | 40.0% |
| ! | TTGCTGGAGTATTTGCACAT+GGG | + | chr1.4:34684498-34684517 | MS.gene41269:intron | 40.0% |
| ! | TTTGCTGGAGTATTTGCACA+TGG | + | chr1.4:34684497-34684516 | MS.gene41269:intron | 40.0% |
| !! | CCATCGACTTCTTCTTCATT+TGG | - | chr1.4:34684343-34684362 | None:intergenic | 40.0% |
| !! | CGTTTTGACGGCAATAAGAT+TGG | + | chr1.4:34684054-34684073 | MS.gene41269:CDS | 40.0% |
| !!! | GGGCTTTTTAGTTATGGATC+GGG | + | chr1.4:34684075-34684094 | MS.gene41269:CDS | 40.0% |
| CGATGTAATTGATCCGGAGT+TGG | + | chr1.4:34684291-34684310 | MS.gene41269:CDS | 45.0% | |
| CTGCAGCGATGTAATTGATC+CGG | + | chr1.4:34684285-34684304 | MS.gene41269:intron | 45.0% | |
| GGGCAAAAATGAATGGGTCA+CGG | + | chr1.4:34684095-34684114 | MS.gene41269:intron | 45.0% | |
| GGTATCAATTCGTCCAACTC+CGG | - | chr1.4:34684307-34684326 | None:intergenic | 45.0% | |
| ! | GGTTTTCCGAACCGTTTTGA+CGG | + | chr1.4:34684042-34684061 | MS.gene41269:CDS | 45.0% |
| !! | ATTAGTTCTGCTACGACTGC+TGG | + | chr1.4:34684424-34684443 | MS.gene41269:CDS | 45.0% |
| ATGGCGACCGATGAAATGTG+CGG | + | chr1.4:34683947-34683966 | MS.gene41269:CDS | 50.0% | |
| GAGTATTTGCACATGGGTGG+TGG | + | chr1.4:34684504-34684523 | MS.gene41269:intron | 50.0% | |
| ! | CTGGAGTATTTGCACATGGG+TGG | + | chr1.4:34684501-34684520 | MS.gene41269:intron | 50.0% |
| ATGAAATGTGCGGCGGATGC+AGG | + | chr1.4:34683957-34683976 | MS.gene41269:CDS | 55.0% | |
| CCATCTCAAAACGGCGACGA+TGG | - | chr1.4:34683987-34684006 | None:intergenic | 55.0% | |
| GCATCCGCCGCACATTTCAT+CGG | - | chr1.4:34683957-34683976 | None:intergenic | 55.0% | |
| GTTCTGCTACGACTGCTGGA+CGG | + | chr1.4:34684428-34684447 | MS.gene41269:CDS | 55.0% | |
| TGGGTCACGGCCCATTTAGA+AGG | + | chr1.4:34684108-34684127 | MS.gene41269:intron | 55.0% | |
| !!! | CCATCGTCGCCGTTTTGAGA+TGG | + | chr1.4:34683984-34684003 | MS.gene41269:CDS | 55.0% |
| GACTGCTGGACGGAGAGTTC+TGG | + | chr1.4:34684438-34684457 | MS.gene41269:CDS | 60.0% | |
| GCGACCGATGAAATGTGCGG+CGG | + | chr1.4:34683950-34683969 | MS.gene41269:CDS | 60.0% | |
| ! | GCTGGACGGAGAGTTCTGGT+TGG | + | chr1.4:34684442-34684461 | MS.gene41269:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 34683947 | 34684811 | 34683947 | ID=MS.gene41269 |
| chr1.4 | mRNA | 34683947 | 34684811 | 34683947 | ID=MS.gene41269.t1;Parent=MS.gene41269 |
| chr1.4 | exon | 34683947 | 34684110 | 34683947 | ID=MS.gene41269.t1.exon1;Parent=MS.gene41269.t1 |
| chr1.4 | CDS | 34683947 | 34684110 | 34683947 | ID=cds.MS.gene41269.t1;Parent=MS.gene41269.t1 |
| chr1.4 | exon | 34684291 | 34684459 | 34684291 | ID=MS.gene41269.t1.exon2;Parent=MS.gene41269.t1 |
| chr1.4 | CDS | 34684291 | 34684459 | 34684291 | ID=cds.MS.gene41269.t1;Parent=MS.gene41269.t1 |
| chr1.4 | exon | 34684569 | 34684811 | 34684569 | ID=MS.gene41269.t1.exon3;Parent=MS.gene41269.t1 |
| chr1.4 | CDS | 34684569 | 34684811 | 34684569 | ID=cds.MS.gene41269.t1;Parent=MS.gene41269.t1 |
| Gene Sequence |
| Protein sequence |
