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.gene39697.t1 | XP_003626766.1 | 100 | 115 | 0 | 0 | 1 | 115 | 1 | 115 | 1.70E-56 | 228.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene39697.t1 | Q8VZM9 | 48.2 | 110 | 48 | 2 | 15 | 115 | 50 | 159 | 1.1e-19 | 97.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene39697.t1 | G7LCJ1 | 100.0 | 115 | 0 | 0 | 1 | 115 | 1 | 115 | 1.2e-56 | 228.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049190 | MS.gene39697 | 0.837439 | 5.20E-57 | -1.69E-46 |
| MS.gene049341 | MS.gene39697 | 0.838022 | 3.68E-57 | -1.69E-46 |
| MS.gene049404 | MS.gene39697 | 0.818416 | 1.98E-52 | -1.69E-46 |
| MS.gene049807 | MS.gene39697 | 0.806956 | 6.39E-50 | -1.69E-46 |
| MS.gene049824 | MS.gene39697 | 0.807535 | 4.82E-50 | -1.69E-46 |
| MS.gene049825 | MS.gene39697 | 0.801398 | 9.18E-49 | -1.69E-46 |
| MS.gene05016 | MS.gene39697 | 0.805659 | 1.20E-49 | -1.69E-46 |
| MS.gene050807 | MS.gene39697 | 0.83295 | 7.05E-56 | -1.69E-46 |
| MS.gene050808 | MS.gene39697 | 0.80175 | 7.77E-49 | -1.69E-46 |
| MS.gene050959 | MS.gene39697 | 0.800353 | 1.50E-48 | -1.69E-46 |
| MS.gene051247 | MS.gene39697 | 0.830776 | 2.43E-55 | -1.69E-46 |
| MS.gene05157 | MS.gene39697 | 0.802096 | 6.60E-49 | -1.69E-46 |
| MS.gene051700 | MS.gene39697 | 0.808913 | 2.45E-50 | -1.69E-46 |
| MS.gene051719 | MS.gene39697 | 0.847615 | 1.03E-59 | -1.69E-46 |
| MS.gene051720 | MS.gene39697 | 0.849362 | 3.39E-60 | -1.69E-46 |
| MS.gene051744 | MS.gene39697 | 0.824538 | 7.65E-54 | -1.69E-46 |
| MS.gene051957 | MS.gene39697 | 0.80866 | 2.78E-50 | -1.69E-46 |
| MS.gene052133 | MS.gene39697 | 0.813025 | 3.15E-51 | -1.69E-46 |
| MS.gene052516 | MS.gene39697 | 0.842783 | 2.09E-58 | -1.69E-46 |
| MS.gene052732 | MS.gene39697 | 0.812733 | 3.65E-51 | -1.69E-46 |
| MS.gene052879 | MS.gene39697 | 0.814661 | 1.37E-51 | -1.69E-46 |
| MS.gene053144 | MS.gene39697 | 0.874732 | 5.37E-68 | -1.69E-46 |
| MS.gene053174 | MS.gene39697 | 0.818325 | 2.08E-52 | -1.69E-46 |
| MS.gene053226 | MS.gene39697 | 0.823204 | 1.57E-53 | -1.69E-46 |
| MS.gene053581 | MS.gene39697 | 0.827082 | 1.90E-54 | -1.69E-46 |
| MS.gene053599 | MS.gene39697 | 0.81921 | 1.31E-52 | -1.69E-46 |
| MS.gene054550 | MS.gene39697 | 0.827696 | 1.36E-54 | -1.69E-46 |
| MS.gene054584 | MS.gene39697 | 0.865762 | 4.67E-65 | -1.69E-46 |
| MS.gene055465 | MS.gene39697 | 0.834993 | 2.17E-56 | -1.69E-46 |
| MS.gene055466 | MS.gene39697 | 0.846229 | 2.48E-59 | -1.69E-46 |
| MS.gene055468 | MS.gene39697 | 0.82404 | 1.00E-53 | -1.69E-46 |
| MS.gene055512 | MS.gene39697 | 0.835581 | 1.54E-56 | -1.69E-46 |
| MS.gene055537 | MS.gene39697 | 0.841738 | 3.96E-58 | -1.69E-46 |
| MS.gene055580 | MS.gene39697 | -0.84495 | 5.50E-59 | -1.69E-46 |
| MS.gene055778 | MS.gene39697 | 0.803111 | 4.08E-49 | -1.69E-46 |
| MS.gene055890 | MS.gene39697 | 0.851862 | 6.73E-61 | -1.69E-46 |
| MS.gene055891 | MS.gene39697 | 0.859357 | 4.37E-63 | -1.69E-46 |
| MS.gene056005 | MS.gene39697 | 0.830515 | 2.81E-55 | -1.69E-46 |
| MS.gene056043 | MS.gene39697 | -0.824671 | 7.11E-54 | -1.69E-46 |
| MS.gene056050 | MS.gene39697 | 0.802112 | 6.55E-49 | -1.69E-46 |
| MS.gene056366 | MS.gene39697 | 0.816477 | 5.42E-52 | -1.69E-46 |
| MS.gene056553 | MS.gene39697 | 0.811331 | 7.39E-51 | -1.69E-46 |
| MS.gene058339 | MS.gene39697 | 0.805211 | 1.49E-49 | -1.69E-46 |
| MS.gene058625 | MS.gene39697 | 0.805553 | 1.26E-49 | -1.69E-46 |
| MS.gene05894 | MS.gene39697 | 0.800546 | 1.37E-48 | -1.69E-46 |
| MS.gene059015 | MS.gene39697 | 0.837101 | 6.34E-57 | -1.69E-46 |
| MS.gene059154 | MS.gene39697 | 0.815766 | 7.82E-52 | -1.69E-46 |
| MS.gene059937 | MS.gene39697 | 0.803986 | 2.68E-49 | -1.69E-46 |
| MS.gene060519 | MS.gene39697 | 0.813519 | 2.46E-51 | -1.69E-46 |
| MS.gene060587 | MS.gene39697 | 0.857285 | 1.81E-62 | -1.69E-46 |
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.gene39697.t1 | MTR_8g008840 | 100.000 | 115 | 0 | 0 | 1 | 115 | 1 | 115 | 3.65e-83 | 238 |
| MS.gene39697.t1 | MTR_4g099050 | 52.830 | 106 | 47 | 2 | 1 | 105 | 38 | 141 | 4.78e-32 | 110 |
| MS.gene39697.t1 | MTR_5g013770 | 56.311 | 103 | 37 | 4 | 18 | 115 | 66 | 165 | 6.80e-31 | 107 |
| MS.gene39697.t1 | MTR_3g087700 | 53.571 | 56 | 25 | 1 | 32 | 87 | 118 | 172 | 1.07e-15 | 69.7 |
| MS.gene39697.t1 | MTR_8g022950 | 57.143 | 56 | 22 | 1 | 38 | 93 | 39 | 92 | 2.77e-15 | 67.0 |
| MS.gene39697.t1 | MTR_3g073960 | 48.148 | 54 | 28 | 0 | 29 | 82 | 81 | 134 | 2.97e-14 | 65.1 |
| MS.gene39697.t1 | MTR_2g042970 | 57.407 | 54 | 22 | 1 | 29 | 82 | 177 | 229 | 1.48e-13 | 64.7 |
| MS.gene39697.t1 | MTR_2g436020 | 44.444 | 72 | 31 | 2 | 14 | 78 | 35 | 104 | 2.81e-12 | 59.7 |
| MS.gene39697.t1 | MTR_2g436250 | 44.444 | 72 | 31 | 2 | 14 | 78 | 35 | 104 | 2.81e-12 | 59.7 |
| MS.gene39697.t1 | MTR_7g095170 | 53.659 | 41 | 19 | 0 | 37 | 77 | 223 | 263 | 7.15e-11 | 57.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene39697.t1 | AT2G44670 | 54.878 | 82 | 37 | 0 | 34 | 115 | 12 | 93 | 2.43e-29 | 102 |
| MS.gene39697.t1 | AT4G17670 | 47.368 | 114 | 41 | 4 | 16 | 115 | 51 | 159 | 4.78e-27 | 98.2 |
| MS.gene39697.t1 | AT5G47060 | 53.571 | 84 | 36 | 2 | 35 | 115 | 94 | 177 | 1.07e-25 | 95.1 |
| MS.gene39697.t1 | AT5G47060 | 53.571 | 84 | 36 | 2 | 35 | 115 | 94 | 177 | 1.07e-25 | 95.1 |
| MS.gene39697.t1 | AT1G78020 | 48.529 | 68 | 33 | 1 | 15 | 82 | 68 | 133 | 1.04e-17 | 74.3 |
| MS.gene39697.t1 | AT5G65040 | 47.541 | 61 | 30 | 1 | 33 | 93 | 54 | 112 | 1.97e-16 | 69.7 |
| MS.gene39697.t1 | AT1G22160 | 44.118 | 68 | 34 | 2 | 15 | 82 | 59 | 122 | 7.32e-15 | 66.6 |
| MS.gene39697.t1 | AT1G53885 | 55.319 | 47 | 21 | 0 | 35 | 81 | 39 | 85 | 3.55e-14 | 64.3 |
| MS.gene39697.t1 | AT1G53903 | 55.319 | 47 | 21 | 0 | 35 | 81 | 39 | 85 | 3.55e-14 | 64.3 |
| MS.gene39697.t1 | AT5G49120 | 50.000 | 46 | 23 | 0 | 33 | 78 | 63 | 108 | 3.40e-11 | 57.0 |
| MS.gene39697.t1 | AT5G20700 | 57.778 | 45 | 18 | 1 | 38 | 82 | 182 | 225 | 4.92e-11 | 58.2 |
Find 17 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAATAAAACATGCTAGATTT+TGG | 0.214267 | 8.3:-80088583 | None:intergenic |
| AGAATTTCTAACACCTCTTT+TGG | 0.295222 | 8.3:-80089124 | None:intergenic |
| ACATAAAGATGTCTTTGTTT+TGG | 0.307802 | 8.3:-80088678 | None:intergenic |
| TCAGAATTCTTCAAACAATA+AGG | 0.335402 | 8.3:+80089155 | MS.gene39697:CDS |
| ATTGTTTGAAGAATTCTGAT+TGG | 0.437983 | 8.3:-80089151 | None:intergenic |
| ATGAATCCAAAGAGAAAAGT+TGG | 0.445108 | 8.3:+80089091 | MS.gene39697:CDS |
| TTCTACAAAGATAACAAGCT+TGG | 0.448464 | 8.3:-80088645 | None:intergenic |
| GGAGAAGGGATTGAAGAAGA+TGG | 0.454187 | 8.3:-80088562 | None:intergenic |
| TGGAAGATTTCAACCAAAAG+AGG | 0.483181 | 8.3:+80089111 | MS.gene39697:CDS |
| AAAGAATAGTTAGCAGCCAT+TGG | 0.486211 | 8.3:-80088526 | None:intergenic |
| ACAAAGACATCTTTATGTAC+AGG | 0.489194 | 8.3:+80088683 | MS.gene39697:CDS |
| TACAAAGATAACAAGCTTGG+AGG | 0.501824 | 8.3:-80088642 | None:intergenic |
| TATCTTTGTAGAAAACCTCT+TGG | 0.507181 | 8.3:+80088655 | MS.gene39697:CDS |
| CTGCACTCATTGCTACAGAA+TGG | 0.599412 | 8.3:-80089048 | None:intergenic |
| CATTCTGTAGCAATGAGTGC+AGG | 0.607408 | 8.3:+80089049 | MS.gene39697:CDS |
| AAGATCAGAATCAGTTGCAG+TGG | 0.640103 | 8.3:+80089182 | MS.gene39697:CDS |
| TAACAAGCTTGGAGGAAGTG+AGG | 0.645660 | 8.3:-80088634 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTGATGTAAAATAATTATT+TGG | + | chr8.3:80088930-80088949 | MS.gene39697:intron | 10.0% |
| !!! | AGAGAACTTTTTTAATTATT+TGG | + | chr8.3:80088959-80088978 | MS.gene39697:intron | 15.0% |
| !! | AAAGTATAAATATTCATCTG+GGG | - | chr8.3:80088756-80088775 | None:intergenic | 20.0% |
| !! | ACAAAGTATAAATATTCATC+TGG | - | chr8.3:80088758-80088777 | None:intergenic | 20.0% |
| !! | CAAAGTATAAATATTCATCT+GGG | - | chr8.3:80088757-80088776 | None:intergenic | 20.0% |
| !!! | AAATCTAGCATGTTTTATTA+TGG | + | chr8.3:80088586-80088605 | MS.gene39697:CDS | 20.0% |
| !!! | TAATAAAACATGCTAGATTT+TGG | - | chr8.3:80088586-80088605 | None:intergenic | 20.0% |
| !!! | TATAATTGTGATTTTTCAGA+GGG | + | chr8.3:80089019-80089038 | MS.gene39697:intron | 20.0% |
| !!! | TTATAATTGTGATTTTTCAG+AGG | + | chr8.3:80089018-80089037 | MS.gene39697:intron | 20.0% |
| !!! | TTTACACTTAATTTTCATGT+AGG | + | chr8.3:80088778-80088797 | MS.gene39697:intron | 20.0% |
| ! | AAAAAGATGAAGGAAAATTG+AGG | - | chr8.3:80088727-80088746 | None:intergenic | 25.0% |
| ! | ATTGTTTGAAGAATTCTGAT+TGG | - | chr8.3:80089154-80089173 | None:intergenic | 25.0% |
| ! | TCAGAATTCTTCAAACAATA+AGG | + | chr8.3:80089155-80089174 | MS.gene39697:CDS | 25.0% |
| !!! | ACATAAAGATGTCTTTGTTT+TGG | - | chr8.3:80088681-80088700 | None:intergenic | 25.0% |
| ACAAAGACATCTTTATGTAC+AGG | + | chr8.3:80088683-80088702 | MS.gene39697:CDS | 30.0% | |
| ATGAATCCAAAGAGAAAAGT+TGG | + | chr8.3:80089091-80089110 | MS.gene39697:CDS | 30.0% | |
| GTAGGTCATAACTCATAATA+AGG | + | chr8.3:80088796-80088815 | MS.gene39697:intron | 30.0% | |
| TATCTTTGTAGAAAACCTCT+TGG | + | chr8.3:80088655-80088674 | MS.gene39697:CDS | 30.0% | |
| TTCTACAAAGATAACAAGCT+TGG | - | chr8.3:80088648-80088667 | None:intergenic | 30.0% | |
| ! | AATCTTCCAACTTTTCTCTT+TGG | - | chr8.3:80089100-80089119 | None:intergenic | 30.0% |
| ! | AGAATTTCTAACACCTCTTT+TGG | - | chr8.3:80089127-80089146 | None:intergenic | 30.0% |
| !! | TCTAGCATGTTTTATTATGG+TGG | + | chr8.3:80088589-80088608 | MS.gene39697:CDS | 30.0% |
| TACAAAGATAACAAGCTTGG+AGG | - | chr8.3:80088645-80088664 | None:intergenic | 35.0% | |
| TGGAAGATTTCAACCAAAAG+AGG | + | chr8.3:80089111-80089130 | MS.gene39697:CDS | 35.0% | |
| !! | AACATGCTAGATTTTGGAGA+AGG | - | chr8.3:80088580-80088599 | None:intergenic | 35.0% |
| !! | ACATGCTAGATTTTGGAGAA+GGG | - | chr8.3:80088579-80088598 | None:intergenic | 35.0% |
| AAGATCAGAATCAGTTGCAG+TGG | + | chr8.3:80089182-80089201 | MS.gene39697:CDS | 40.0% | |
| !!! | ATGTCTTTGTTTTGGCCAAG+AGG | - | chr8.3:80088673-80088692 | None:intergenic | 40.0% |
| CATTCTGTAGCAATGAGTGC+AGG | + | chr8.3:80089049-80089068 | MS.gene39697:CDS | 45.0% | |
| CTGCACTCATTGCTACAGAA+TGG | - | chr8.3:80089051-80089070 | None:intergenic | 45.0% | |
| GGAGAAGGGATTGAAGAAGA+TGG | - | chr8.3:80088565-80088584 | None:intergenic | 45.0% | |
| GGGGTGTGACAAAAAGATGA+AGG | - | chr8.3:80088737-80088756 | None:intergenic | 45.0% | |
| TAACAAGCTTGGAGGAAGTG+AGG | - | chr8.3:80088637-80088656 | None:intergenic | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8.3 | gene | 80088529 | 80089209 | 80088529 | ID=MS.gene39697 |
| chr8.3 | mRNA | 80088529 | 80089209 | 80088529 | ID=MS.gene39697.t1;Parent=MS.gene39697 |
| chr8.3 | exon | 80088529 | 80088704 | 80088529 | ID=MS.gene39697.t1.exon1;Parent=MS.gene39697.t1 |
| chr8.3 | CDS | 80088529 | 80088704 | 80088529 | ID=cds.MS.gene39697.t1;Parent=MS.gene39697.t1 |
| chr8.3 | exon | 80089038 | 80089209 | 80089038 | ID=MS.gene39697.t1.exon2;Parent=MS.gene39697.t1 |
| chr8.3 | CDS | 80089038 | 80089209 | 80089038 | ID=cds.MS.gene39697.t1;Parent=MS.gene39697.t1 |
| Gene Sequence |
| Protein sequence |
