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.gene002811.t1 | XP_003594049.2 | 99.3 | 153 | 1 | 0 | 1 | 153 | 1 | 153 | 1.20E-78 | 302.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene002811.t1 | Q9ZNV9 | 71.1 | 152 | 44 | 0 | 1 | 152 | 1 | 152 | 3.0e-57 | 222.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene002811.t1 | B7FGU6 | 99.3 | 153 | 1 | 0 | 1 | 153 | 1 | 153 | 8.8e-79 | 302.4 |
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.gene60023 | MS.gene002811 | PPI |
| MS.gene067406 | MS.gene002811 | PPI |
| MS.gene002811 | MS.gene83535 | PPI |
| MS.gene89014 | MS.gene002811 | PPI |
| MS.gene75348 | MS.gene002811 | PPI |
| MS.gene026751 | MS.gene002811 | PPI |
| MS.gene034089 | MS.gene002811 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene002811.t1 | MTR_2g020770 | 99.346 | 153 | 1 | 0 | 1 | 153 | 1 | 153 | 5.93e-111 | 311 |
| MS.gene002811.t1 | MTR_2g020770 | 96.429 | 140 | 5 | 0 | 1 | 140 | 1 | 140 | 2.35e-97 | 277 |
| MS.gene002811.t1 | MTR_1g082290 | 56.835 | 139 | 60 | 0 | 5 | 143 | 6 | 144 | 1.09e-59 | 182 |
| MS.gene002811.t1 | MTR_7g114020 | 60.993 | 141 | 54 | 1 | 9 | 148 | 6 | 146 | 4.28e-59 | 180 |
| MS.gene002811.t1 | MTR_1g089130 | 55.944 | 143 | 63 | 0 | 5 | 147 | 3 | 145 | 1.06e-56 | 174 |
| MS.gene002811.t1 | MTR_2g100880 | 42.446 | 139 | 80 | 0 | 1 | 139 | 1 | 139 | 5.20e-39 | 129 |
| MS.gene002811.t1 | MTR_2g100900 | 42.446 | 139 | 80 | 0 | 1 | 139 | 1 | 139 | 9.47e-39 | 129 |
| MS.gene002811.t1 | MTR_2g103870 | 46.207 | 145 | 73 | 3 | 10 | 149 | 10 | 154 | 1.79e-31 | 110 |
| MS.gene002811.t1 | MTR_4g010160 | 43.478 | 115 | 63 | 2 | 37 | 149 | 28 | 142 | 7.56e-28 | 101 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene002811.t1 | AT3G21510 | 70.588 | 153 | 45 | 0 | 1 | 153 | 1 | 153 | 6.73e-71 | 210 |
| MS.gene002811.t1 | AT1G03430 | 52.632 | 152 | 71 | 1 | 3 | 153 | 6 | 157 | 7.81e-56 | 172 |
| MS.gene002811.t1 | AT5G39340 | 50.331 | 151 | 74 | 1 | 3 | 152 | 5 | 155 | 3.76e-51 | 160 |
| MS.gene002811.t1 | AT3G29350 | 48.026 | 152 | 78 | 1 | 3 | 153 | 5 | 156 | 4.67e-51 | 160 |
| MS.gene002811.t1 | AT5G39340 | 50.331 | 151 | 74 | 1 | 3 | 152 | 38 | 188 | 1.44e-50 | 160 |
| MS.gene002811.t1 | AT5G39340 | 50.331 | 151 | 74 | 1 | 3 | 152 | 54 | 204 | 3.23e-50 | 160 |
| MS.gene002811.t1 | AT5G39340 | 50.331 | 151 | 74 | 1 | 3 | 152 | 54 | 204 | 3.23e-50 | 160 |
| MS.gene002811.t1 | AT1G03430 | 51.852 | 135 | 64 | 1 | 3 | 136 | 6 | 140 | 1.82e-46 | 149 |
| MS.gene002811.t1 | AT3G16360 | 44.030 | 134 | 75 | 0 | 6 | 139 | 1 | 134 | 8.65e-39 | 129 |
| MS.gene002811.t1 | AT3G16360 | 45.000 | 120 | 66 | 0 | 19 | 138 | 8 | 127 | 1.04e-36 | 123 |
| MS.gene002811.t1 | AT3G29350 | 47.273 | 110 | 57 | 1 | 3 | 111 | 5 | 114 | 6.43e-34 | 115 |
| MS.gene002811.t1 | AT1G80100 | 49.275 | 138 | 68 | 2 | 14 | 149 | 17 | 154 | 2.32e-27 | 100 |
| MS.gene002811.t1 | AT1G80100 | 47.778 | 90 | 46 | 1 | 61 | 149 | 43 | 132 | 1.21e-21 | 84.7 |
| MS.gene002811.t1 | AT4G04402 | 33.750 | 160 | 94 | 4 | 6 | 153 | 8 | 167 | 1.32e-21 | 85.9 |
| MS.gene002811.t1 | AT1G80100 | 46.774 | 124 | 65 | 1 | 14 | 136 | 17 | 140 | 1.51e-21 | 85.5 |
Find 29 sgRNAs with CRISPR-Local
Find 79 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGCACATGTTCACCAGTTTA+AGG | 0.220882 | 2.1:+66822916 | MS.gene002811:CDS |
| ACTCAGTTCAGTTCCATCAT+AGG | 0.355461 | 2.1:-66823641 | None:intergenic |
| GTGTTGAGAAAAGGGTTTCT+TGG | 0.384266 | 2.1:+66822448 | MS.gene002811:intron |
| GCTGCTGAAGTTGCAGAAAC+TGG | 0.419928 | 2.1:-66822475 | None:intergenic |
| TTGCACTGCTACCCTTAAAC+TGG | 0.425560 | 2.1:-66822928 | None:intergenic |
| GCACATGTTCACCAGTTTAA+GGG | 0.428803 | 2.1:+66822917 | MS.gene002811:CDS |
| CTACATCAAATCCATGTTCA+TGG | 0.459422 | 2.1:+66822298 | MS.gene002811:CDS |
| CTAATTTATGCAGGTGCCGC+AGG | 0.459692 | 2.1:+66823424 | MS.gene002811:intron |
| GCAGCTTGAGCAGCAGATAG+TGG | 0.473916 | 2.1:+66823601 | MS.gene002811:intron |
| CTCAGTTCAGTTCCATCATA+GGG | 0.476361 | 2.1:-66823640 | None:intergenic |
| TGAGAAAAGGGTTTCTTGGA+TGG | 0.497354 | 2.1:+66822452 | MS.gene002811:intron |
| GGGTCAGATGCGGAGACAGT+GGG | 0.506261 | 2.1:+66822271 | MS.gene002811:CDS |
| TAAGCTTGAAACATTGTTGA+GGG | 0.522076 | 2.1:+66823488 | MS.gene002811:CDS |
| TGACAGCATAGGTGCACAAA+GGG | 0.524943 | 2.1:+66823175 | MS.gene002811:intron |
| GAGCAGCAGATAGTGGCAGC+TGG | 0.537850 | 2.1:+66823608 | MS.gene002811:CDS |
| TGGTCTAACCTCCATGAACA+TGG | 0.544818 | 2.1:-66822309 | None:intergenic |
| TGGTGGCTCAATCCCTATGA+TGG | 0.558041 | 2.1:+66823628 | MS.gene002811:CDS |
| TTTGTAGAGAAACATGGAGG+TGG | 0.564605 | 2.1:+66822250 | None:intergenic |
| ATAAGCTTGAAACATTGTTG+AGG | 0.584829 | 2.1:+66823487 | MS.gene002811:CDS |
| TGGGTCAGATGCGGAGACAG+TGG | 0.592973 | 2.1:+66822270 | MS.gene002811:CDS |
| TCAGATGCGGAGACAGTGGG+TGG | 0.608143 | 2.1:+66822274 | MS.gene002811:CDS |
| TTGTAGAGAAACATGGAGGT+GGG | 0.611758 | 2.1:+66822251 | None:intergenic |
| AGTTTAAGGGTAGCAGTGCA+AGG | 0.619461 | 2.1:+66822930 | MS.gene002811:CDS |
| TCACTTGCTGCAAACACCTG+CGG | 0.622315 | 2.1:-66823440 | None:intergenic |
| CAGCAGATAGTGGCAGCTGG+TGG | 0.634128 | 2.1:+66823611 | MS.gene002811:CDS |
| GAAATTGCGAAAAGCAACGC+AGG | 0.637314 | 2.1:-66823207 | None:intergenic |
| ACATGGAGGTGGGTCAGATG+CGG | 0.639294 | 2.1:+66822261 | None:intergenic |
| TTGACAGCATAGGTGCACAA+AGG | 0.666337 | 2.1:+66823174 | MS.gene002811:intron |
| CATCAAATCCATGTTCATGG+AGG | 0.716249 | 2.1:+66822301 | MS.gene002811:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATTTATATGATTTCTTTTA+TGG | + | chr2.1:66823569-66823588 | MS.gene002811:intron | 10.0% |
| !! | AAATCCATAAGTTTAATATA+AGG | - | chr2.1:66823547-66823566 | None:intergenic | 15.0% |
| !! | ATTAGAGAATATAATGAATT+TGG | + | chr2.1:66822645-66822664 | MS.gene002811:intron | 15.0% |
| !!! | ACTATGCTATTATATTATTT+TGG | + | chr2.1:66823124-66823143 | MS.gene002811:intron | 15.0% |
| !! | AAATAGTCTGTTATGAAATT+CGG | - | chr2.1:66823084-66823103 | None:intergenic | 20.0% |
| !! | AGAACCTTATATTAAACTTA+TGG | + | chr2.1:66823540-66823559 | MS.gene002811:intron | 20.0% |
| !!! | CATGATTTTTAATGTTGTTT+GGG | + | chr2.1:66822846-66822865 | MS.gene002811:intron | 20.0% |
| !!! | CTGTAGCATTTATAAATTTT+AGG | - | chr2.1:66822978-66822997 | None:intergenic | 20.0% |
| !!! | TTTTCAATTGTTGATTTTGT+TGG | + | chr2.1:66822404-66822423 | MS.gene002811:intron | 20.0% |
| !!! | TTTTGCTTTTGTTTTTGTTT+AGG | + | chr2.1:66822371-66822390 | MS.gene002811:intron | 20.0% |
| ! | AACATGAGAGAAATGAAAAA+AGG | - | chr2.1:66822621-66822640 | None:intergenic | 25.0% |
| ! | ACAACTTCAAAAACAAATTC+AGG | - | chr2.1:66822518-66822537 | None:intergenic | 25.0% |
| ! | AGTAAAGTATAACCAAGAAT+TGG | - | chr2.1:66822739-66822758 | None:intergenic | 25.0% |
| ! | CAACTTCAAAAACAAATTCA+GGG | - | chr2.1:66822517-66822536 | None:intergenic | 25.0% |
| ! | GTGAAATTTCTAATTTATGC+AGG | + | chr2.1:66823415-66823434 | MS.gene002811:intron | 25.0% |
| !! | AGCATTTATAAATTTTAGGC+TGG | - | chr2.1:66822974-66822993 | None:intergenic | 25.0% |
| !! | GCATGATTTTTAATGTTGTT+TGG | + | chr2.1:66822845-66822864 | MS.gene002811:intron | 25.0% |
| !!! | GACTAGTTGTTTAATAGTTT+TGG | + | chr2.1:66823271-66823290 | MS.gene002811:intron | 25.0% |
| !!! | TTTTGTTTGTGTTGAGAAAA+GGG | + | chr2.1:66822440-66822459 | MS.gene002811:intron | 25.0% |
| !!! | TTTTTTTGCTATTAATGACC+CGG | - | chr2.1:66822807-66822826 | None:intergenic | 25.0% |
| ATAAGCTTGAAACATTGTTG+AGG | + | chr2.1:66823487-66823506 | MS.gene002811:CDS | 30.0% | |
| GCTACAGAATCTGAATAAAT+GGG | + | chr2.1:66822991-66823010 | MS.gene002811:intron | 30.0% | |
| TAAGCTTGAAACATTGTTGA+GGG | + | chr2.1:66823488-66823507 | MS.gene002811:CDS | 30.0% | |
| TGCTACAGAATCTGAATAAA+TGG | + | chr2.1:66822990-66823009 | MS.gene002811:intron | 30.0% | |
| ! | ACACATTAATTGACTCTTCT+GGG | + | chr2.1:66822338-66822357 | MS.gene002811:intron | 30.0% |
| ! | GTCAATTAATGTGTGTTTTG+TGG | - | chr2.1:66822332-66822351 | None:intergenic | 30.0% |
| ! | TGGATTTTTCGCTAATTTCA+TGG | + | chr2.1:66823383-66823402 | MS.gene002811:intron | 30.0% |
| !! | TTTTCTTTGATGATTCTGAG+AGG | + | chr2.1:66822543-66822562 | MS.gene002811:CDS | 30.0% |
| !!! | GTTTTGTTTGTGTTGAGAAA+AGG | + | chr2.1:66822439-66822458 | MS.gene002811:intron | 30.0% |
| AATAGCTACACAAGAATTGC+AGG | - | chr2.1:66823033-66823052 | None:intergenic | 35.0% | |
| CTACATCAAATCCATGTTCA+TGG | + | chr2.1:66822298-66822317 | MS.gene002811:CDS | 35.0% | |
| GTATGTTTGATTGACAGCAT+AGG | + | chr2.1:66823164-66823183 | MS.gene002811:intron | 35.0% | |
| ! | CACACATTAATTGACTCTTC+TGG | + | chr2.1:66822337-66822356 | MS.gene002811:intron | 35.0% |
| AGATGCTAGAGGAATCAACA+TGG | + | chr2.1:66823363-66823382 | MS.gene002811:intron | 40.0% | |
| CAGCTAGTGCAATAGTTTGA+AGG | + | chr2.1:66823310-66823329 | MS.gene002811:intron | 40.0% | |
| CATCAAATCCATGTTCATGG+AGG | + | chr2.1:66822301-66822320 | MS.gene002811:CDS | 40.0% | |
| CTTAACTGCTTAGATGCTAG+AGG | + | chr2.1:66823352-66823371 | MS.gene002811:intron | 40.0% | |
| CTTACCTCTCAAGTGAACTT+CGG | + | chr2.1:66822757-66822776 | MS.gene002811:intron | 40.0% | |
| GCACATGTTCACCAGTTTAA+GGG | + | chr2.1:66822917-66822936 | MS.gene002811:CDS | 40.0% | |
| GTGTTGAGAAAAGGGTTTCT+TGG | + | chr2.1:66822448-66822467 | MS.gene002811:intron | 40.0% | |
| TAATCCGAAGTTCACTTGAG+AGG | - | chr2.1:66822764-66822783 | None:intergenic | 40.0% | |
| TATTAATGACCCGGTTCCTA+GGG | - | chr2.1:66822798-66822817 | None:intergenic | 40.0% | |
| TGAGAAAAGGGTTTCTTGGA+TGG | + | chr2.1:66822452-66822471 | MS.gene002811:intron | 40.0% | |
| TGCACATGTTCACCAGTTTA+AGG | + | chr2.1:66822916-66822935 | MS.gene002811:CDS | 40.0% | |
| !! | GTTTGGGTTTTACATGTGCA+GGG | + | chr2.1:66822862-66822881 | MS.gene002811:intron | 40.0% |
| !! | TGTTTGGGTTTTACATGTGC+AGG | + | chr2.1:66822861-66822880 | MS.gene002811:intron | 40.0% |
| AGTTTAAGGGTAGCAGTGCA+AGG | + | chr2.1:66822930-66822949 | MS.gene002811:CDS | 45.0% | |
| CAAGTGAACTTCGGATTACC+AGG | + | chr2.1:66822766-66822785 | MS.gene002811:intron | 45.0% | |
| CTATTAATGACCCGGTTCCT+AGG | - | chr2.1:66822799-66822818 | None:intergenic | 45.0% | |
| GAAATTGCGAAAAGCAACGC+AGG | - | chr2.1:66823210-66823229 | None:intergenic | 45.0% | |
| TGACAGCATAGGTGCACAAA+GGG | + | chr2.1:66823175-66823194 | MS.gene002811:intron | 45.0% | |
| TGGTCTAACCTCCATGAACA+TGG | - | chr2.1:66822312-66822331 | None:intergenic | 45.0% | |
| TTGACAGCATAGGTGCACAA+AGG | + | chr2.1:66823174-66823193 | MS.gene002811:intron | 45.0% | |
| TTGCACTGCTACCCTTAAAC+TGG | - | chr2.1:66822931-66822950 | None:intergenic | 45.0% | |
| AACCAAGAATTGGTCCACCG+AGG | - | chr2.1:66822729-66822748 | None:intergenic | 50.0% | |
| ATCCTCGGTGGACCAATTCT+TGG | + | chr2.1:66822724-66822743 | MS.gene002811:intron | 50.0% | |
| CCGAGGATAGTTCTCCTGAA+CGG | - | chr2.1:66822712-66822731 | None:intergenic | 50.0% | |
| CCGTTCAGGAGAACTATCCT+CGG | + | chr2.1:66822709-66822728 | MS.gene002811:intron | 50.0% | |
| GCTGCTGAAGTTGCAGAAAC+TGG | - | chr2.1:66822478-66822497 | None:intergenic | 50.0% | |
| TCTCCTGAACGGTTCGTTCT+AGG | - | chr2.1:66822701-66822720 | None:intergenic | 50.0% | |
| TGGTGGCTCAATCCCTATGA+TGG | + | chr2.1:66823628-66823647 | MS.gene002811:CDS | 50.0% | |
| TTCAGGAGAACTATCCTCGG+TGG | + | chr2.1:66822712-66822731 | MS.gene002811:intron | 50.0% | |
| ! | CTAATTTATGCAGGTGCCGC+AGG | + | chr2.1:66823424-66823443 | MS.gene002811:intron | 50.0% |
| ! | TCACTTGCTGCAAACACCTG+CGG | - | chr2.1:66823443-66823462 | None:intergenic | 50.0% |
| AATGACCCGGTTCCTAGGGA+AGG | - | chr2.1:66822794-66822813 | None:intergenic | 55.0% | |
| ATGACCCGGTTCCTAGGGAA+GGG | - | chr2.1:66822793-66822812 | None:intergenic | 55.0% | |
| CCACCTAGAACGAACCGTTC+AGG | + | chr2.1:66822695-66822714 | MS.gene002811:intron | 55.0% | |
| GCAGCTTGAGCAGCAGATAG+TGG | + | chr2.1:66823601-66823620 | MS.gene002811:intron | 55.0% | |
| ! | CCTGAACGGTTCGTTCTAGG+TGG | - | chr2.1:66822698-66822717 | None:intergenic | 55.0% |
| GATTACCAGGCCCCTTCCCT+AGG | + | chr2.1:66822779-66822798 | MS.gene002811:intron | 60.0% | |
| GGGTCAGATGCGGAGACAGT+GGG | + | chr2.1:66822271-66822290 | MS.gene002811:CDS | 60.0% | |
| TCAGATGCGGAGACAGTGGG+TGG | + | chr2.1:66822274-66822293 | MS.gene002811:CDS | 60.0% | |
| TGACCCGGTTCCTAGGGAAG+GGG | - | chr2.1:66822792-66822811 | None:intergenic | 60.0% | |
| TGGGTCAGATGCGGAGACAG+TGG | + | chr2.1:66822270-66822289 | MS.gene002811:CDS | 60.0% | |
| ! | CAGCAGATAGTGGCAGCTGG+TGG | + | chr2.1:66823611-66823630 | MS.gene002811:CDS | 60.0% |
| ! | GAGCAGCAGATAGTGGCAGC+TGG | + | chr2.1:66823608-66823627 | MS.gene002811:CDS | 60.0% |
| AGGCCCCTTCCCTAGGAACC+GGG | + | chr2.1:66822786-66822805 | MS.gene002811:intron | 65.0% | |
| CAGGCCCCTTCCCTAGGAAC+CGG | + | chr2.1:66822785-66822804 | MS.gene002811:intron | 65.0% | |
| CGGTTCCTAGGGAAGGGGCC+TGG | - | chr2.1:66822787-66822806 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2.1 | gene | 66822263 | 66823661 | 66822263 | ID=MS.gene002811 |
| chr2.1 | mRNA | 66822263 | 66823661 | 66822263 | ID=MS.gene002811.t1;Parent=MS.gene002811 |
| chr2.1 | exon | 66822263 | 66822322 | 66822263 | ID=MS.gene002811.t1.exon1;Parent=MS.gene002811.t1 |
| chr2.1 | CDS | 66822263 | 66822322 | 66822263 | ID=cds.MS.gene002811.t1;Parent=MS.gene002811.t1 |
| chr2.1 | exon | 66822461 | 66822591 | 66822461 | ID=MS.gene002811.t1.exon2;Parent=MS.gene002811.t1 |
| chr2.1 | CDS | 66822461 | 66822591 | 66822461 | ID=cds.MS.gene002811.t1;Parent=MS.gene002811.t1 |
| chr2.1 | exon | 66822883 | 66822951 | 66822883 | ID=MS.gene002811.t1.exon3;Parent=MS.gene002811.t1 |
| chr2.1 | CDS | 66822883 | 66822951 | 66822883 | ID=cds.MS.gene002811.t1;Parent=MS.gene002811.t1 |
| chr2.1 | exon | 66823181 | 66823252 | 66823181 | ID=MS.gene002811.t1.exon4;Parent=MS.gene002811.t1 |
| chr2.1 | CDS | 66823181 | 66823252 | 66823181 | ID=cds.MS.gene002811.t1;Parent=MS.gene002811.t1 |
| chr2.1 | exon | 66823437 | 66823509 | 66823437 | ID=MS.gene002811.t1.exon5;Parent=MS.gene002811.t1 |
| chr2.1 | CDS | 66823437 | 66823509 | 66823437 | ID=cds.MS.gene002811.t1;Parent=MS.gene002811.t1 |
| chr2.1 | exon | 66823605 | 66823661 | 66823605 | ID=MS.gene002811.t1.exon6;Parent=MS.gene002811.t1 |
| chr2.1 | CDS | 66823605 | 66823661 | 66823605 | ID=cds.MS.gene002811.t1;Parent=MS.gene002811.t1 |
| Gene Sequence |
| Protein sequence |
