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.gene56242.t1 | XP_003598238.1 | 96.8 | 186 | 6 | 0 | 1 | 186 | 1 | 186 | 7.30E-94 | 353.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56242.t1 | P17407 | 52.4 | 189 | 87 | 3 | 1 | 186 | 3 | 191 | 1.4e-48 | 194.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56242.t1 | G7IYJ2 | 96.8 | 186 | 6 | 0 | 1 | 186 | 1 | 186 | 5.3e-94 | 353.2 |
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.gene045671 | MS.gene56242 | PPI |
| MS.gene77725 | MS.gene56242 | PPI |
| MS.gene78072 | MS.gene56242 | PPI |
| MS.gene72493 | MS.gene56242 | PPI |
| MS.gene77727 | MS.gene56242 | PPI |
| MS.gene72495 | MS.gene56242 | PPI |
| MS.gene045669 | MS.gene56242 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56242.t1 | MTR_3g008820 | 96.774 | 186 | 6 | 0 | 1 | 186 | 1 | 186 | 1.53e-135 | 376 |
| MS.gene56242.t1 | MTR_3g008840 | 90.698 | 172 | 16 | 0 | 15 | 186 | 16 | 187 | 2.11e-118 | 333 |
| MS.gene56242.t1 | MTR_5g012000 | 49.730 | 185 | 91 | 2 | 4 | 186 | 27 | 211 | 1.85e-65 | 200 |
| MS.gene56242.t1 | MTR_4g101760 | 47.644 | 191 | 91 | 2 | 5 | 186 | 12 | 202 | 4.06e-59 | 184 |
| MS.gene56242.t1 | MTR_4g035905 | 49.091 | 165 | 82 | 1 | 22 | 186 | 34 | 196 | 2.18e-50 | 161 |
| MS.gene56242.t1 | MTR_4g035870 | 46.626 | 163 | 85 | 1 | 24 | 186 | 36 | 196 | 2.95e-45 | 148 |
| MS.gene56242.t1 | MTR_4g035880 | 46.012 | 163 | 86 | 1 | 24 | 186 | 36 | 196 | 4.36e-44 | 145 |
| MS.gene56242.t1 | MTR_4g025550 | 42.051 | 195 | 101 | 6 | 3 | 186 | 8 | 201 | 3.70e-43 | 143 |
| MS.gene56242.t1 | MTR_4g025590 | 42.690 | 171 | 89 | 5 | 24 | 186 | 3 | 172 | 1.84e-39 | 133 |
| MS.gene56242.t1 | MTR_4g025620 | 39.109 | 202 | 106 | 6 | 1 | 186 | 1 | 201 | 7.42e-39 | 132 |
| MS.gene56242.t1 | MTR_4g025610 | 40.000 | 195 | 105 | 6 | 3 | 186 | 8 | 201 | 1.20e-38 | 132 |
| MS.gene56242.t1 | MTR_4g120825 | 36.735 | 196 | 102 | 5 | 8 | 183 | 9 | 202 | 2.29e-36 | 125 |
| MS.gene56242.t1 | MTR_4g120830 | 36.735 | 196 | 102 | 5 | 8 | 183 | 9 | 202 | 3.96e-36 | 125 |
| MS.gene56242.t1 | MTR_8g104765 | 37.500 | 176 | 98 | 4 | 18 | 183 | 38 | 211 | 1.06e-34 | 122 |
| MS.gene56242.t1 | MTR_3g008760 | 35.714 | 182 | 103 | 4 | 12 | 181 | 45 | 224 | 1.19e-31 | 114 |
| MS.gene56242.t1 | MTR_7g108790 | 33.333 | 165 | 106 | 3 | 17 | 181 | 26 | 186 | 4.18e-30 | 109 |
| MS.gene56242.t1 | MTR_2g043560 | 38.554 | 166 | 86 | 4 | 23 | 183 | 33 | 187 | 1.23e-29 | 108 |
| MS.gene56242.t1 | MTR_4g124855 | 33.511 | 188 | 111 | 5 | 5 | 183 | 15 | 197 | 3.46e-26 | 99.8 |
| MS.gene56242.t1 | MTR_1g088540 | 30.822 | 146 | 97 | 2 | 39 | 184 | 1 | 142 | 4.12e-23 | 90.1 |
| MS.gene56242.t1 | MTR_4g035855 | 32.335 | 167 | 99 | 5 | 24 | 183 | 43 | 202 | 1.78e-19 | 82.0 |
| MS.gene56242.t1 | MTR_1g008140 | 30.000 | 180 | 107 | 5 | 19 | 185 | 76 | 249 | 1.06e-15 | 74.7 |
| MS.gene56242.t1 | MTR_8g023310 | 28.205 | 156 | 109 | 2 | 25 | 178 | 68 | 222 | 1.39e-14 | 71.2 |
| MS.gene56242.t1 | MTR_8g023150 | 30.723 | 166 | 104 | 5 | 20 | 181 | 72 | 230 | 1.85e-14 | 70.9 |
| MS.gene56242.t1 | MTR_3g091380 | 29.341 | 167 | 112 | 3 | 21 | 183 | 74 | 238 | 1.83e-13 | 68.2 |
| MS.gene56242.t1 | MTR_4g005170 | 25.926 | 162 | 110 | 5 | 25 | 183 | 63 | 217 | 4.12e-12 | 64.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56242.t1 | AT5G62350 | 54.651 | 172 | 76 | 2 | 17 | 186 | 31 | 202 | 3.31e-67 | 204 |
| MS.gene56242.t1 | AT3G47380 | 48.969 | 194 | 87 | 4 | 5 | 186 | 9 | 202 | 2.01e-63 | 194 |
| MS.gene56242.t1 | AT4G25260 | 45.771 | 201 | 94 | 2 | 1 | 186 | 1 | 201 | 2.47e-59 | 184 |
| MS.gene56242.t1 | AT1G62770 | 48.936 | 188 | 87 | 4 | 5 | 183 | 9 | 196 | 7.89e-55 | 173 |
| MS.gene56242.t1 | AT4G12390 | 49.701 | 167 | 81 | 1 | 23 | 186 | 38 | 204 | 6.23e-51 | 163 |
| MS.gene56242.t1 | AT5G62360 | 43.293 | 164 | 90 | 2 | 23 | 186 | 42 | 202 | 3.02e-49 | 159 |
| MS.gene56242.t1 | AT5G20740 | 40.933 | 193 | 101 | 3 | 1 | 181 | 1 | 192 | 4.18e-41 | 138 |
| MS.gene56242.t1 | AT5G20740 | 45.062 | 162 | 85 | 2 | 23 | 181 | 66 | 226 | 1.05e-40 | 138 |
| MS.gene56242.t1 | AT1G14890 | 37.037 | 189 | 105 | 3 | 6 | 185 | 34 | 217 | 1.42e-40 | 137 |
| MS.gene56242.t1 | AT4G00080 | 39.086 | 197 | 102 | 8 | 2 | 181 | 3 | 198 | 1.91e-39 | 134 |
| MS.gene56242.t1 | AT2G01610 | 37.500 | 192 | 102 | 4 | 10 | 185 | 30 | 219 | 3.93e-38 | 130 |
| MS.gene56242.t1 | AT1G62760 | 43.452 | 168 | 88 | 3 | 20 | 184 | 143 | 306 | 1.80e-36 | 129 |
| MS.gene56242.t1 | AT4G25250 | 35.185 | 162 | 104 | 1 | 22 | 182 | 35 | 196 | 2.69e-35 | 123 |
| MS.gene56242.t1 | AT1G70720 | 35.567 | 194 | 110 | 5 | 1 | 183 | 5 | 194 | 1.67e-31 | 113 |
| MS.gene56242.t1 | AT1G70720 | 35.567 | 194 | 110 | 5 | 1 | 183 | 17 | 206 | 2.03e-31 | 113 |
| MS.gene56242.t1 | AT1G23205 | 34.031 | 191 | 111 | 4 | 5 | 181 | 9 | 198 | 2.06e-30 | 110 |
| MS.gene56242.t1 | AT5G51520 | 35.976 | 164 | 96 | 2 | 24 | 179 | 37 | 199 | 1.56e-29 | 108 |
| MS.gene56242.t1 | AT3G62820 | 28.877 | 187 | 125 | 5 | 3 | 185 | 10 | 192 | 4.26e-21 | 86.3 |
| MS.gene56242.t1 | AT3G14310 | 29.487 | 156 | 108 | 2 | 25 | 179 | 59 | 213 | 4.07e-20 | 87.4 |
| MS.gene56242.t1 | AT5G62340 | 29.902 | 204 | 109 | 8 | 6 | 186 | 14 | 206 | 4.36e-19 | 81.3 |
| MS.gene56242.t1 | AT2G47670 | 28.750 | 160 | 111 | 2 | 24 | 183 | 48 | 204 | 2.26e-18 | 79.3 |
| MS.gene56242.t1 | AT5G53370 | 30.061 | 163 | 107 | 4 | 18 | 179 | 104 | 260 | 3.85e-18 | 81.6 |
| MS.gene56242.t1 | AT5G53370 | 30.061 | 163 | 107 | 4 | 18 | 179 | 68 | 224 | 4.82e-18 | 81.3 |
| MS.gene56242.t1 | AT1G53830 | 29.448 | 163 | 113 | 2 | 18 | 179 | 55 | 216 | 4.91e-18 | 81.3 |
| MS.gene56242.t1 | AT3G49220 | 31.677 | 161 | 100 | 4 | 21 | 180 | 128 | 279 | 1.56e-17 | 79.7 |
| MS.gene56242.t1 | AT3G49220 | 31.875 | 160 | 99 | 4 | 21 | 179 | 128 | 278 | 1.98e-17 | 79.7 |
| MS.gene56242.t1 | AT3G49220 | 31.875 | 160 | 99 | 4 | 21 | 179 | 83 | 233 | 2.19e-17 | 79.7 |
| MS.gene56242.t1 | AT3G14300 | 27.933 | 179 | 119 | 5 | 12 | 182 | 258 | 434 | 1.50e-13 | 68.6 |
| MS.gene56242.t1 | AT3G14300 | 28.994 | 169 | 108 | 5 | 20 | 181 | 454 | 617 | 4.24e-13 | 67.4 |
| MS.gene56242.t1 | AT3G47670 | 29.851 | 201 | 112 | 8 | 1 | 181 | 76 | 267 | 2.91e-13 | 66.6 |
Find 29 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTGCACTCATTAATCAATA+TGG | 0.347778 | 3.3:-4413621 | MS.gene56242:CDS |
| CCAATTGATGAGGGTCTTGT+TGG | 0.397480 | 3.3:+4414000 | None:intergenic |
| GGCTAATTGATAAAGCTGTT+TGG | 0.400503 | 3.3:+4413976 | None:intergenic |
| TAGGCTTAGCCGTTCACTTA+AGG | 0.410233 | 3.3:-4413835 | MS.gene56242:CDS |
| TCAATGGTCAAGATTTCAAT+TGG | 0.421550 | 3.3:-4413794 | MS.gene56242:CDS |
| AACCATTCTTGATCTAATAG+AGG | 0.423736 | 3.3:+4413671 | None:intergenic |
| AAATTACTGATAGTGTTGAT+AGG | 0.448838 | 3.3:-4413854 | MS.gene56242:CDS |
| CTTAAACTTTGCAAGATCAA+TGG | 0.453176 | 3.3:-4413810 | MS.gene56242:CDS |
| CCAACAAGACCCTCATCAAT+TGG | 0.458410 | 3.3:-4414000 | MS.gene56242:CDS |
| GAGGATTTGATGAAATTTGT+TGG | 0.467582 | 3.3:+4414086 | None:intergenic |
| AACAAAACTCAATCCACAAA+AGG | 0.469923 | 3.3:-4413951 | MS.gene56242:CDS |
| TGAATAGCAGCATATTCTCT+TGG | 0.472801 | 3.3:+4413891 | None:intergenic |
| GAGATTCAACACAAAGTGTT+GGG | 0.484787 | 3.3:+4414045 | None:intergenic |
| AGTACTTGTAGTGATGGATT+TGG | 0.488408 | 3.3:-4413723 | MS.gene56242:CDS |
| GTGTTGAAGTTGCAATAGAT+AGG | 0.495548 | 3.3:+4414108 | None:intergenic |
| AACCTCTATTAGATCAAGAA+TGG | 0.496455 | 3.3:-4413673 | MS.gene56242:CDS |
| AAGAATGGTTAATCTTGCTC+AGG | 0.503787 | 3.3:-4413658 | MS.gene56242:CDS |
| AGAGATTCAACACAAAGTGT+TGG | 0.533099 | 3.3:+4414044 | None:intergenic |
| TAGATAGGAGAGTTAAGAGA+AGG | 0.542534 | 3.3:+4414123 | None:intergenic |
| GTTTAAGCTCCTTAAGTGAA+CGG | 0.545857 | 3.3:+4413826 | None:intergenic |
| ACTTGTAGTGATGGATTTGG+TGG | 0.550252 | 3.3:-4413720 | MS.gene56242:CDS |
| TCAATATGGTACTAATCACT+AGG | 0.554200 | 3.3:-4413607 | None:intergenic |
| ATATAAGTAATGTTCAAACA+TGG | 0.577147 | 3.3:-4413770 | MS.gene56242:CDS |
| CTGTTTGGACCAATTGATGA+GGG | 0.590554 | 3.3:+4413991 | None:intergenic |
| GATGCAAGTACTTGTAGTGA+TGG | 0.592136 | 3.3:-4413729 | MS.gene56242:CDS |
| CAATATGGTACTAATCACTA+GGG | 0.596788 | 3.3:-4413606 | None:intergenic |
| TATAAGTAATGTTCAAACAT+GGG | 0.606584 | 3.3:-4413769 | MS.gene56242:CDS |
| GCTGTTTGGACCAATTGATG+AGG | 0.633670 | 3.3:+4413990 | None:intergenic |
| GTATGATGTTGTGCTACATG+AGG | 0.681149 | 3.3:+4414067 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATATAAGTAATGTTCAAACA+TGG | - | chr3.3:4413984-4414003 | MS.gene56242:CDS | 20.0% |
| !! | TATAAGTAATGTTCAAACAT+GGG | - | chr3.3:4413985-4414004 | MS.gene56242:CDS | 20.0% |
| ! | ACAAAGTGCAAAAAGTTTAA+AGG | - | chr3.3:4413833-4413852 | MS.gene56242:CDS | 25.0% |
| !!! | AAATTACTGATAGTGTTGAT+AGG | - | chr3.3:4413900-4413919 | MS.gene56242:CDS | 25.0% |
| AACAAAACTCAATCCACAAA+AGG | - | chr3.3:4413803-4413822 | MS.gene56242:CDS | 30.0% | |
| AACCATTCTTGATCTAATAG+AGG | + | chr3.3:4414086-4414105 | None:intergenic | 30.0% | |
| AACCTCTATTAGATCAAGAA+TGG | - | chr3.3:4414081-4414100 | MS.gene56242:CDS | 30.0% | |
| CTTAAACTTTGCAAGATCAA+TGG | - | chr3.3:4413944-4413963 | MS.gene56242:CDS | 30.0% | |
| CTTGCACTCATTAATCAATA+TGG | - | chr3.3:4414133-4414152 | MS.gene56242:CDS | 30.0% | |
| GAGGATTTGATGAAATTTGT+TGG | + | chr3.3:4413671-4413690 | None:intergenic | 30.0% | |
| TCAATGGTCAAGATTTCAAT+TGG | - | chr3.3:4413960-4413979 | MS.gene56242:CDS | 30.0% | |
| !!! | TTGTGGATTGAGTTTTGTTT+AGG | + | chr3.3:4413802-4413821 | None:intergenic | 30.0% |
| AAGAATGGTTAATCTTGCTC+AGG | - | chr3.3:4414096-4414115 | MS.gene56242:CDS | 35.0% | |
| AGAGATTCAACACAAAGTGT+TGG | + | chr3.3:4413713-4413732 | None:intergenic | 35.0% | |
| GGCTAATTGATAAAGCTGTT+TGG | + | chr3.3:4413781-4413800 | None:intergenic | 35.0% | |
| GTGTTGAAGTTGCAATAGAT+AGG | + | chr3.3:4413649-4413668 | None:intergenic | 35.0% | |
| GTTTAAGCTCCTTAAGTGAA+CGG | + | chr3.3:4413931-4413950 | None:intergenic | 35.0% | |
| TAGATAGGAGAGTTAAGAGA+AGG | + | chr3.3:4413634-4413653 | None:intergenic | 35.0% | |
| TGAATAGCAGCATATTCTCT+TGG | + | chr3.3:4413866-4413885 | None:intergenic | 35.0% | |
| TTGGTGGAAAAACACTTGAT+GGG | - | chr3.3:4414050-4414069 | MS.gene56242:CDS | 35.0% | |
| TTTGGTGGAAAAACACTTGA+TGG | - | chr3.3:4414049-4414068 | MS.gene56242:CDS | 35.0% | |
| ! | CTTTGTAACAAAGCCTTTTG+TGG | + | chr3.3:4413819-4413838 | None:intergenic | 35.0% |
| ! | GAGATTCAACACAAAGTGTT+GGG | + | chr3.3:4413712-4413731 | None:intergenic | 35.0% |
| !! | AGTACTTGTAGTGATGGATT+TGG | - | chr3.3:4414031-4414050 | MS.gene56242:CDS | 35.0% |
| CTGTTTGGACCAATTGATGA+GGG | + | chr3.3:4413766-4413785 | None:intergenic | 40.0% | |
| GATGCAAGTACTTGTAGTGA+TGG | - | chr3.3:4414025-4414044 | MS.gene56242:CDS | 40.0% | |
| GTATGATGTTGTGCTACATG+AGG | + | chr3.3:4413690-4413709 | None:intergenic | 40.0% | |
| !! | ACTTGTAGTGATGGATTTGG+TGG | - | chr3.3:4414034-4414053 | MS.gene56242:CDS | 40.0% |
| CCAACAAGACCCTCATCAAT+TGG | - | chr3.3:4413754-4413773 | MS.gene56242:CDS | 45.0% | |
| GCTGTTTGGACCAATTGATG+AGG | + | chr3.3:4413767-4413786 | None:intergenic | 45.0% | |
| TAGGCTTAGCCGTTCACTTA+AGG | - | chr3.3:4413919-4413938 | MS.gene56242:CDS | 45.0% | |
| ! | CCAATTGATGAGGGTCTTGT+TGG | + | chr3.3:4413757-4413776 | None:intergenic | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 4413608 | 4414168 | 4413608 | ID=MS.gene56242 |
| chr3.3 | mRNA | 4413608 | 4414168 | 4413608 | ID=MS.gene56242.t1;Parent=MS.gene56242 |
| chr3.3 | exon | 4413608 | 4414168 | 4413608 | ID=MS.gene56242.t1.exon1;Parent=MS.gene56242.t1 |
| chr3.3 | CDS | 4413608 | 4414168 | 4413608 | ID=cds.MS.gene56242.t1;Parent=MS.gene56242.t1 |
| Gene Sequence |
| Protein sequence |
