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.gene25990.t1 | XP_004505282.1 | 95.9 | 97 | 4 | 0 | 1 | 97 | 1 | 97 | 4.70E-44 | 186.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25990.t1 | P34893 | 72.2 | 97 | 27 | 0 | 1 | 97 | 1 | 97 | 5.3e-36 | 151.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25990.t1 | A0A1S2YIG4 | 95.9 | 97 | 4 | 0 | 1 | 97 | 1 | 97 | 3.4e-44 | 186.8 |
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.gene66498 | MS.gene25990 | PPI |
| MS.gene70655 | MS.gene25990 | PPI |
| MS.gene92186 | MS.gene25990 | PPI |
| MS.gene21583 | MS.gene25990 | PPI |
| MS.gene40328 | MS.gene25990 | PPI |
| MS.gene29382 | MS.gene25990 | PPI |
| MS.gene014672 | MS.gene25990 | PPI |
| MS.gene66497 | MS.gene25990 | PPI |
| MS.gene074000 | MS.gene25990 | PPI |
| MS.gene25990 | MS.gene00537 | PPI |
| MS.gene21355 | MS.gene25990 | PPI |
| MS.gene005697 | MS.gene25990 | PPI |
| MS.gene25990 | MS.gene00538 | PPI |
| MS.gene022326 | MS.gene25990 | PPI |
| MS.gene25990 | MS.gene21581 | PPI |
| MS.gene039040 | MS.gene25990 | PPI |
| MS.gene24509 | MS.gene25990 | PPI |
| MS.gene051662 | MS.gene25990 | PPI |
| MS.gene21357 | MS.gene25990 | PPI |
| MS.gene051663 | MS.gene25990 | PPI |
| MS.gene031197 | MS.gene25990 | PPI |
| MS.gene031195 | MS.gene25990 | PPI |
| MS.gene25990 | MS.gene75319 | PPI |
| MS.gene006641 | MS.gene25990 | PPI |
| MS.gene75317 | MS.gene25990 | PPI |
| MS.gene045566 | MS.gene25990 | PPI |
| MS.gene24508 | MS.gene25990 | PPI |
| MS.gene005698 | MS.gene25990 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25990.t1 | MTR_3g110030 | 93.814 | 97 | 6 | 0 | 1 | 97 | 1 | 97 | 4.36e-62 | 184 |
| MS.gene25990.t1 | MTR_7g089300 | 74.227 | 97 | 25 | 0 | 1 | 97 | 1 | 97 | 2.38e-48 | 149 |
| MS.gene25990.t1 | MTR_3g077350 | 83.529 | 85 | 14 | 0 | 1 | 85 | 1 | 85 | 3.75e-46 | 143 |
| MS.gene25990.t1 | MTR_3g089960 | 88.095 | 42 | 5 | 0 | 56 | 97 | 212 | 253 | 2.61e-20 | 82.0 |
| MS.gene25990.t1 | MTR_3g077580 | 86.486 | 37 | 5 | 0 | 1 | 37 | 1 | 37 | 1.64e-15 | 66.2 |
| MS.gene25990.t1 | MTR_2g043230 | 38.947 | 95 | 56 | 2 | 3 | 95 | 159 | 253 | 4.14e-12 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25990.t1 | AT1G23100 | 74.227 | 97 | 25 | 0 | 1 | 97 | 1 | 97 | 9.35e-52 | 157 |
| MS.gene25990.t1 | AT1G14980 | 72.165 | 97 | 27 | 0 | 1 | 97 | 1 | 97 | 1.22e-49 | 152 |
| MS.gene25990.t1 | AT1G14980 | 70.732 | 82 | 24 | 0 | 1 | 82 | 1 | 82 | 1.95e-38 | 123 |
Find 37 sgRNAs with CRISPR-Local
Find 44 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTTGTCATCAAGCTTAATT+TGG | 0.119195 | 3.3:+65666797 | None:intergenic |
| GTTTAGGGATGAGGACATTT+TGG | 0.181417 | 3.3:-65666656 | MS.gene25990:CDS |
| TTTCAGGTTCCATTTGTTTA+GGG | 0.258181 | 3.3:-65666671 | MS.gene25990:intron |
| CCTGGGTTGCGAGACAAATC+TGG | 0.318556 | 3.3:-65666883 | MS.gene25990:CDS |
| AAGGTGGTAGCTGTTGGTCC+TGG | 0.358380 | 3.3:-65666901 | MS.gene25990:CDS |
| ATTTGGGAGCCACCATATTC+CGG | 0.363161 | 3.3:+65666814 | None:intergenic |
| GAGAATACCGGCGCAGGTCT+TGG | 0.385609 | 3.3:+65666957 | None:intergenic |
| TTAAGCTGGGAAGTCTTCTC+TGG | 0.397570 | 3.3:+65666931 | None:intergenic |
| TTTGTCATCAAGCTTAATTT+GGG | 0.416340 | 3.3:+65666798 | None:intergenic |
| CACGTGCTCTTGCCGGAATA+TGG | 0.430635 | 3.3:-65666826 | MS.gene25990:CDS |
| TGTCCTCATCCCTAAACAAA+TGG | 0.441581 | 3.3:+65666662 | None:intergenic |
| AGGTGACCACGTGCTCTTGC+CGG | 0.446397 | 3.3:-65666833 | MS.gene25990:CDS |
| GTTCCATTTGTTTAGGGATG+AGG | 0.449740 | 3.3:-65666665 | MS.gene25990:CDS |
| CCACCTTTGCTGAATTAAGC+TGG | 0.450426 | 3.3:+65666917 | None:intergenic |
| TTCTACGAGGATGCGGTTGA+AGG | 0.455539 | 3.3:+65666996 | None:intergenic |
| ACGAGGATGCGGTTGAAGGT+TGG | 0.500516 | 3.3:+65667000 | None:intergenic |
| CACCTTTGCTGAATTAAGCT+GGG | 0.525240 | 3.3:+65666918 | None:intergenic |
| TGGGCATTCTGCATGATTGA+CGG | 0.526635 | 3.3:-65666636 | None:intergenic |
| AGGTGGTAGCTGTTGGTCCT+GGG | 0.536005 | 3.3:-65666900 | MS.gene25990:CDS |
| CTGGGTTGCGAGACAAATCT+GGG | 0.543620 | 3.3:-65666882 | MS.gene25990:CDS |
| TTTGATTCCATTGTCTGTCA+AGG | 0.556707 | 3.3:-65666857 | MS.gene25990:CDS |
| CTTCTCTGGGAGGAGAATAC+CGG | 0.558003 | 3.3:+65666945 | None:intergenic |
| CCTCCTTCCAAGACCTGCGC+CGG | 0.558865 | 3.3:-65666964 | MS.gene25990:CDS |
| ATTCCATTGTCTGTCAAGGA+AGG | 0.559362 | 3.3:-65666853 | MS.gene25990:CDS |
| CCGGCGCAGGTCTTGGAAGG+AGG | 0.560436 | 3.3:+65666964 | None:intergenic |
| CCAGATTTGTCTCGCAACCC+AGG | 0.568286 | 3.3:+65666883 | None:intergenic |
| CGGCGCAGGTCTTGGAAGGA+GGG | 0.570243 | 3.3:+65666965 | None:intergenic |
| CCAGCTTAATTCAGCAAAGG+TGG | 0.576003 | 3.3:-65666917 | MS.gene25990:CDS |
| TCACCTTCCTTGACAGACAA+TGG | 0.578277 | 3.3:+65666850 | None:intergenic |
| ATACCGGCGCAGGTCTTGGA+AGG | 0.590406 | 3.3:+65666961 | None:intergenic |
| TCAGCAAAGGTGGTAGCTGT+TGG | 0.591051 | 3.3:-65666907 | MS.gene25990:CDS |
| TTCCCAGCTTAATTCAGCAA+AGG | 0.592493 | 3.3:-65666920 | MS.gene25990:CDS |
| TGGGAGGAGAATACCGGCGC+AGG | 0.606954 | 3.3:+65666951 | None:intergenic |
| TAAGCTGGGAAGTCTTCTCT+GGG | 0.609151 | 3.3:+65666932 | None:intergenic |
| GTGCTCTTGCCGGAATATGG+TGG | 0.611791 | 3.3:-65666823 | MS.gene25990:CDS |
| CATATTCCGGCAAGAGCACG+TGG | 0.633716 | 3.3:+65666827 | None:intergenic |
| GCTGGGAAGTCTTCTCTGGG+AGG | 0.712584 | 3.3:+65666935 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TTTGTCATCAAGCTTAATTT+GGG | + | chr3.3:65666862-65666881 | None:intergenic | 25.0% |
| !! | ATGACAAAGAGTATGTAATA+TGG | - | chr3.3:65666874-65666893 | MS.gene25990:CDS | 25.0% |
| !! | TGAATGTGTTTCTTTTTATG+TGG | - | chr3.3:65666919-65666938 | MS.gene25990:CDS | 25.0% |
| !!! | TACAAGTTGCTTTATTTTTC+AGG | - | chr3.3:65666970-65666989 | MS.gene25990:CDS | 25.0% |
| CTTTGTCATCAAGCTTAATT+TGG | + | chr3.3:65666863-65666882 | None:intergenic | 30.0% | |
| ! | TTTTATGTGGAATGCTAACT+TGG | - | chr3.3:65666932-65666951 | MS.gene25990:CDS | 30.0% |
| !! | TTTCAGGTTCCATTTGTTTA+GGG | - | chr3.3:65666986-65667005 | MS.gene25990:CDS | 30.0% |
| !!! | TTTTCAGGTTCCATTTGTTT+AGG | - | chr3.3:65666985-65667004 | MS.gene25990:CDS | 30.0% |
| TTTGATTCCATTGTCTGTCA+AGG | - | chr3.3:65666800-65666819 | MS.gene25990:CDS | 35.0% | |
| ! | TTTAGGGATGAGGACATTTT+GGG | - | chr3.3:65667002-65667021 | MS.gene25990:CDS | 35.0% |
| !!! | CAATTTTTTCTACGAGGATG+CGG | + | chr3.3:65666671-65666690 | None:intergenic | 35.0% |
| ATTCCATTGTCTGTCAAGGA+AGG | - | chr3.3:65666804-65666823 | MS.gene25990:CDS | 40.0% | |
| CACCTTTGCTGAATTAAGCT+GGG | + | chr3.3:65666742-65666761 | None:intergenic | 40.0% | |
| GTTCCATTTGTTTAGGGATG+AGG | - | chr3.3:65666992-65667011 | MS.gene25990:CDS | 40.0% | |
| TGTCCTCATCCCTAAACAAA+TGG | + | chr3.3:65666998-65667017 | None:intergenic | 40.0% | |
| TTCCCAGCTTAATTCAGCAA+AGG | - | chr3.3:65666737-65666756 | MS.gene25990:intron | 40.0% | |
| ! | GTTTAGGGATGAGGACATTT+TGG | - | chr3.3:65667001-65667020 | MS.gene25990:CDS | 40.0% |
| !!! | GAGGGACAATTTTTTCTACG+AGG | + | chr3.3:65666677-65666696 | None:intergenic | 40.0% |
| ATTTGGGAGCCACCATATTC+CGG | + | chr3.3:65666846-65666865 | None:intergenic | 45.0% | |
| CCACCTTTGCTGAATTAAGC+TGG | + | chr3.3:65666743-65666762 | None:intergenic | 45.0% | |
| CCAGCTTAATTCAGCAAAGG+TGG | - | chr3.3:65666740-65666759 | MS.gene25990:intron | 45.0% | |
| TAAGCTGGGAAGTCTTCTCT+GGG | + | chr3.3:65666728-65666747 | None:intergenic | 45.0% | |
| TCACCTTCCTTGACAGACAA+TGG | + | chr3.3:65666810-65666829 | None:intergenic | 45.0% | |
| TTAAGCTGGGAAGTCTTCTC+TGG | + | chr3.3:65666729-65666748 | None:intergenic | 45.0% | |
| CTGGGTTGCGAGACAAATCT+GGG | - | chr3.3:65666775-65666794 | MS.gene25990:intron | 50.0% | |
| TCAGCAAAGGTGGTAGCTGT+TGG | - | chr3.3:65666750-65666769 | MS.gene25990:intron | 50.0% | |
| TTCTACGAGGATGCGGTTGA+AGG | + | chr3.3:65666664-65666683 | None:intergenic | 50.0% | |
| ! | CTTCTCTGGGAGGAGAATAC+CGG | + | chr3.3:65666715-65666734 | None:intergenic | 50.0% |
| AAGGTGGTAGCTGTTGGTCC+TGG | - | chr3.3:65666756-65666775 | MS.gene25990:intron | 55.0% | |
| ACGAGGATGCGGTTGAAGGT+TGG | + | chr3.3:65666660-65666679 | None:intergenic | 55.0% | |
| AGGTGGTAGCTGTTGGTCCT+GGG | - | chr3.3:65666757-65666776 | MS.gene25990:intron | 55.0% | |
| CACGTGCTCTTGCCGGAATA+TGG | - | chr3.3:65666831-65666850 | MS.gene25990:CDS | 55.0% | |
| CCAGATTTGTCTCGCAACCC+AGG | + | chr3.3:65666777-65666796 | None:intergenic | 55.0% | |
| CCTGGGTTGCGAGACAAATC+TGG | - | chr3.3:65666774-65666793 | MS.gene25990:intron | 55.0% | |
| GTGCTCTTGCCGGAATATGG+TGG | - | chr3.3:65666834-65666853 | MS.gene25990:CDS | 55.0% | |
| ! | CATATTCCGGCAAGAGCACG+TGG | + | chr3.3:65666833-65666852 | None:intergenic | 55.0% |
| AGGTGACCACGTGCTCTTGC+CGG | - | chr3.3:65666824-65666843 | MS.gene25990:CDS | 60.0% | |
| ATACCGGCGCAGGTCTTGGA+AGG | + | chr3.3:65666699-65666718 | None:intergenic | 60.0% | |
| GAGAATACCGGCGCAGGTCT+TGG | + | chr3.3:65666703-65666722 | None:intergenic | 60.0% | |
| GCTGGGAAGTCTTCTCTGGG+AGG | + | chr3.3:65666725-65666744 | None:intergenic | 60.0% | |
| CCTCCTTCCAAGACCTGCGC+CGG | - | chr3.3:65666693-65666712 | MS.gene25990:intron | 65.0% | |
| CGGCGCAGGTCTTGGAAGGA+GGG | + | chr3.3:65666695-65666714 | None:intergenic | 65.0% | |
| TGGGAGGAGAATACCGGCGC+AGG | + | chr3.3:65666709-65666728 | None:intergenic | 65.0% | |
| CCGGCGCAGGTCTTGGAAGG+AGG | + | chr3.3:65666696-65666715 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 65666639 | 65667040 | 65666639 | ID=MS.gene25990 |
| chr3.3 | mRNA | 65666639 | 65667040 | 65666639 | ID=MS.gene25990.t1;Parent=MS.gene25990 |
| chr3.3 | exon | 65666796 | 65667040 | 65666796 | ID=MS.gene25990.t1.exon1;Parent=MS.gene25990.t1 |
| chr3.3 | CDS | 65666796 | 65667040 | 65666796 | ID=cds.MS.gene25990.t1;Parent=MS.gene25990.t1 |
| chr3.3 | exon | 65666639 | 65666687 | 65666639 | ID=MS.gene25990.t1.exon2;Parent=MS.gene25990.t1 |
| chr3.3 | CDS | 65666639 | 65666687 | 65666639 | ID=cds.MS.gene25990.t1;Parent=MS.gene25990.t1 |
| Gene Sequence |
| Protein sequence |
