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.gene51614.t1 | XP_003598238.1 | 93.5 | 186 | 12 | 0 | 1 | 186 | 1 | 186 | 2.90E-90 | 341.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene51614.t1 | P17407 | 50.8 | 179 | 86 | 2 | 10 | 186 | 13 | 191 | 2.9e-46 | 186.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene51614.t1 | G7IYJ2 | 93.5 | 186 | 12 | 0 | 1 | 186 | 1 | 186 | 2.1e-90 | 341.3 |
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.gene045669 | MS.gene51614 | PPI |
| MS.gene72493 | MS.gene51614 | PPI |
| MS.gene77727 | MS.gene51614 | PPI |
| MS.gene51614 | MS.gene77725 | PPI |
| MS.gene045671 | MS.gene51614 | PPI |
| MS.gene51614 | MS.gene72495 | PPI |
| MS.gene78072 | MS.gene51614 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene51614.t1 | MTR_3g008820 | 93.548 | 186 | 12 | 0 | 1 | 186 | 1 | 186 | 4.26e-124 | 347 |
| MS.gene51614.t1 | MTR_3g008840 | 88.372 | 172 | 20 | 0 | 15 | 186 | 16 | 187 | 9.08e-116 | 327 |
| MS.gene51614.t1 | MTR_5g012000 | 46.486 | 185 | 97 | 2 | 4 | 186 | 27 | 211 | 6.39e-62 | 191 |
| MS.gene51614.t1 | MTR_4g101760 | 45.026 | 191 | 96 | 2 | 5 | 186 | 12 | 202 | 5.12e-56 | 176 |
| MS.gene51614.t1 | MTR_4g035905 | 47.273 | 165 | 85 | 1 | 22 | 186 | 34 | 196 | 1.53e-48 | 156 |
| MS.gene51614.t1 | MTR_4g035870 | 44.785 | 163 | 88 | 1 | 24 | 186 | 36 | 196 | 3.42e-43 | 143 |
| MS.gene51614.t1 | MTR_4g035880 | 44.172 | 163 | 89 | 1 | 24 | 186 | 36 | 196 | 4.58e-42 | 140 |
| MS.gene51614.t1 | MTR_4g025550 | 41.270 | 189 | 102 | 5 | 6 | 186 | 14 | 201 | 4.48e-41 | 138 |
| MS.gene51614.t1 | MTR_4g025610 | 39.896 | 193 | 102 | 6 | 7 | 186 | 10 | 201 | 4.16e-39 | 133 |
| MS.gene51614.t1 | MTR_4g025590 | 41.520 | 171 | 91 | 5 | 24 | 186 | 3 | 172 | 9.09e-38 | 129 |
| MS.gene51614.t1 | MTR_4g025620 | 39.683 | 189 | 105 | 5 | 6 | 186 | 14 | 201 | 9.20e-38 | 129 |
| MS.gene51614.t1 | MTR_4g120825 | 35.714 | 196 | 104 | 5 | 8 | 183 | 9 | 202 | 3.78e-35 | 122 |
| MS.gene51614.t1 | MTR_4g120830 | 35.714 | 196 | 104 | 5 | 8 | 183 | 9 | 202 | 4.89e-35 | 122 |
| MS.gene51614.t1 | MTR_8g104765 | 36.932 | 176 | 99 | 4 | 18 | 183 | 38 | 211 | 2.11e-34 | 121 |
| MS.gene51614.t1 | MTR_3g008760 | 36.264 | 182 | 102 | 4 | 12 | 181 | 45 | 224 | 9.62e-32 | 114 |
| MS.gene51614.t1 | MTR_2g043560 | 36.158 | 177 | 97 | 4 | 12 | 183 | 22 | 187 | 6.25e-30 | 109 |
| MS.gene51614.t1 | MTR_7g108790 | 32.121 | 165 | 108 | 3 | 17 | 181 | 26 | 186 | 1.79e-27 | 102 |
| MS.gene51614.t1 | MTR_4g124855 | 33.511 | 188 | 111 | 6 | 5 | 183 | 15 | 197 | 1.45e-24 | 95.5 |
| MS.gene51614.t1 | MTR_1g088540 | 30.822 | 146 | 97 | 2 | 39 | 184 | 1 | 142 | 5.33e-22 | 87.4 |
| MS.gene51614.t1 | MTR_4g035855 | 30.723 | 166 | 103 | 5 | 24 | 183 | 43 | 202 | 5.13e-18 | 78.2 |
| MS.gene51614.t1 | MTR_1g008140 | 28.889 | 180 | 109 | 5 | 19 | 185 | 76 | 249 | 2.14e-14 | 70.9 |
| MS.gene51614.t1 | MTR_8g023310 | 31.288 | 163 | 95 | 6 | 25 | 178 | 68 | 222 | 2.57e-14 | 70.5 |
| MS.gene51614.t1 | MTR_8g023150 | 28.916 | 166 | 107 | 5 | 20 | 181 | 72 | 230 | 4.33e-13 | 67.0 |
| MS.gene51614.t1 | MTR_3g091380 | 28.144 | 167 | 114 | 3 | 21 | 183 | 74 | 238 | 2.05e-12 | 65.1 |
| MS.gene51614.t1 | MTR_4g005170 | 25.000 | 160 | 114 | 4 | 25 | 183 | 63 | 217 | 3.45e-11 | 61.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene51614.t1 | AT5G62350 | 53.488 | 172 | 78 | 2 | 17 | 186 | 31 | 202 | 1.50e-64 | 197 |
| MS.gene51614.t1 | AT4G25260 | 46.766 | 201 | 92 | 2 | 1 | 186 | 1 | 201 | 1.17e-60 | 187 |
| MS.gene51614.t1 | AT3G47380 | 45.545 | 202 | 94 | 4 | 1 | 186 | 1 | 202 | 1.31e-59 | 185 |
| MS.gene51614.t1 | AT1G62770 | 46.809 | 188 | 91 | 4 | 5 | 183 | 9 | 196 | 2.23e-53 | 169 |
| MS.gene51614.t1 | AT4G12390 | 46.707 | 167 | 86 | 1 | 23 | 186 | 38 | 204 | 1.43e-48 | 157 |
| MS.gene51614.t1 | AT5G62360 | 42.683 | 164 | 91 | 2 | 23 | 186 | 42 | 202 | 4.57e-48 | 155 |
| MS.gene51614.t1 | AT5G20740 | 43.827 | 162 | 87 | 2 | 23 | 181 | 32 | 192 | 4.14e-41 | 138 |
| MS.gene51614.t1 | AT5G20740 | 43.827 | 162 | 87 | 2 | 23 | 181 | 66 | 226 | 1.09e-40 | 138 |
| MS.gene51614.t1 | AT1G14890 | 38.554 | 166 | 94 | 2 | 23 | 185 | 57 | 217 | 9.92e-39 | 132 |
| MS.gene51614.t1 | AT4G00080 | 37.563 | 197 | 105 | 8 | 2 | 181 | 3 | 198 | 2.88e-37 | 128 |
| MS.gene51614.t1 | AT2G01610 | 36.458 | 192 | 101 | 5 | 13 | 185 | 30 | 219 | 1.56e-35 | 124 |
| MS.gene51614.t1 | AT1G62760 | 42.262 | 168 | 90 | 3 | 20 | 184 | 143 | 306 | 1.83e-35 | 126 |
| MS.gene51614.t1 | AT4G25250 | 35.185 | 162 | 104 | 1 | 22 | 182 | 35 | 196 | 1.31e-34 | 121 |
| MS.gene51614.t1 | AT1G70720 | 35.052 | 194 | 111 | 4 | 1 | 183 | 5 | 194 | 6.54e-33 | 117 |
| MS.gene51614.t1 | AT1G70720 | 35.052 | 194 | 111 | 4 | 1 | 183 | 17 | 206 | 8.36e-33 | 117 |
| MS.gene51614.t1 | AT1G23205 | 36.216 | 185 | 106 | 5 | 6 | 181 | 17 | 198 | 1.29e-29 | 108 |
| MS.gene51614.t1 | AT5G51520 | 35.976 | 164 | 96 | 3 | 24 | 179 | 37 | 199 | 4.14e-28 | 104 |
| MS.gene51614.t1 | AT3G62820 | 27.225 | 191 | 130 | 5 | 1 | 185 | 5 | 192 | 1.14e-20 | 85.1 |
| MS.gene51614.t1 | AT3G14310 | 33.544 | 158 | 99 | 4 | 25 | 179 | 59 | 213 | 4.52e-20 | 87.4 |
| MS.gene51614.t1 | AT5G53370 | 31.902 | 163 | 104 | 4 | 18 | 179 | 104 | 260 | 3.63e-19 | 84.7 |
| MS.gene51614.t1 | AT5G53370 | 31.902 | 163 | 104 | 4 | 18 | 179 | 68 | 224 | 4.12e-19 | 84.3 |
| MS.gene51614.t1 | AT3G49220 | 31.875 | 160 | 99 | 4 | 21 | 179 | 128 | 278 | 1.31e-18 | 82.8 |
| MS.gene51614.t1 | AT3G49220 | 31.875 | 160 | 99 | 4 | 21 | 179 | 128 | 278 | 2.29e-18 | 82.4 |
| MS.gene51614.t1 | AT3G49220 | 31.875 | 160 | 99 | 4 | 21 | 179 | 83 | 233 | 2.55e-18 | 82.4 |
| MS.gene51614.t1 | AT5G62340 | 29.412 | 204 | 110 | 8 | 6 | 186 | 14 | 206 | 8.84e-18 | 77.8 |
| MS.gene51614.t1 | AT2G47670 | 26.875 | 160 | 114 | 2 | 24 | 183 | 48 | 204 | 1.43e-16 | 74.7 |
| MS.gene51614.t1 | AT1G53830 | 28.221 | 163 | 115 | 2 | 18 | 179 | 55 | 216 | 2.66e-16 | 76.3 |
| MS.gene51614.t1 | AT3G47670 | 28.205 | 195 | 113 | 8 | 5 | 181 | 82 | 267 | 1.30e-12 | 64.7 |
| MS.gene51614.t1 | AT3G14300 | 28.994 | 169 | 108 | 5 | 20 | 181 | 454 | 617 | 2.32e-12 | 65.1 |
| MS.gene51614.t1 | AT3G14300 | 25.140 | 179 | 124 | 4 | 12 | 182 | 258 | 434 | 2.05e-11 | 62.4 |
Find 31 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTTCACTCATTAATCAATA+TGG | 0.298645 | 3.4:-3971663 | MS.gene51614:CDS |
| CCAACAAGACCCTCATAAAT+TGG | 0.341835 | 3.4:-3972042 | MS.gene51614:CDS |
| CCAATTTATGAGGGTCTTGT+TGG | 0.370214 | 3.4:+3972042 | None:intergenic |
| TCTCTTAACCCTCCTATCTA+TGG | 0.375762 | 3.4:-3972162 | MS.gene51614:CDS |
| GGCTAATTGATAAAGCTGTT+TGG | 0.400503 | 3.4:+3972018 | None:intergenic |
| TAGGCTTAGCCGTTCACTTA+AGG | 0.410233 | 3.4:-3971877 | MS.gene51614:CDS |
| GAGGATTTGATGAAATTTGT+TGG | 0.419280 | 3.4:+3972128 | None:intergenic |
| TCAATGGTCAAGATTTCAAT+TGG | 0.421550 | 3.4:-3971836 | MS.gene51614:CDS |
| AAATTACTGATAGTGTTGAT+AGG | 0.448838 | 3.4:-3971896 | MS.gene51614:CDS |
| CTTAAACTTTGCAAGATCAA+TGG | 0.453176 | 3.4:-3971852 | MS.gene51614:CDS |
| TTTGGTGGAAAAGCACTTGA+TGG | 0.453873 | 3.4:-3971747 | MS.gene51614:CDS |
| AACAAAACTCAATCCACAAA+AGG | 0.469923 | 3.4:-3971993 | MS.gene51614:CDS |
| TGAATAGCAGCATATTCTCT+TGG | 0.472801 | 3.4:+3971933 | None:intergenic |
| AACTTCTATTAGATCAAGAA+TGG | 0.475846 | 3.4:-3971715 | MS.gene51614:CDS |
| AGTACTTGTAGTGATGGATT+TGG | 0.488408 | 3.4:-3971765 | MS.gene51614:CDS |
| GAGTTGAAGTTGCCATAGAT+AGG | 0.492110 | 3.4:+3972150 | None:intergenic |
| GCTGTTTGGACCAATTTATG+AGG | 0.493258 | 3.4:+3972032 | None:intergenic |
| GAGATTCAACACAAAGTGTT+GGG | 0.500666 | 3.4:+3972087 | None:intergenic |
| AAGAAGGACATTTGTTGCCA+TGG | 0.510677 | 3.4:+3972190 | None:intergenic |
| GTTTAAGCTCCTTAAGTGAA+CGG | 0.545857 | 3.4:+3971868 | None:intergenic |
| AGAGATTCAACACAAAGTGT+TGG | 0.548978 | 3.4:+3972086 | None:intergenic |
| ACTTGTAGTGATGGATTTGG+TGG | 0.550252 | 3.4:-3971762 | MS.gene51614:CDS |
| GGGTTAAGAGAAGTAAAAGA+AGG | 0.553192 | 3.4:+3972174 | None:intergenic |
| CTGTTTGGACCAATTTATGA+GGG | 0.561937 | 3.4:+3972033 | None:intergenic |
| TTGAAGTTGCCATAGATAGG+AGG | 0.561966 | 3.4:+3972153 | None:intergenic |
| ATATAAGTAATGTTCAAACA+TGG | 0.577147 | 3.4:-3971812 | MS.gene51614:CDS |
| GATGCAAGTACTTGTAGTGA+TGG | 0.592136 | 3.4:-3971771 | MS.gene51614:CDS |
| TGAAGTTGCCATAGATAGGA+GGG | 0.594934 | 3.4:+3972154 | None:intergenic |
| TATAAGTAATGTTCAAACAT+GGG | 0.606584 | 3.4:-3971811 | MS.gene51614:CDS |
| GGTGGAAAAGCACTTGATGG+AGG | 0.622229 | 3.4:-3971744 | MS.gene51614:CDS |
| GTATGATGTTGTGCTACATG+AGG | 0.681149 | 3.4:+3972109 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ACAATGTGCAAAAATTATAA+AGG | - | chr3.4:3971875-3971894 | MS.gene51614:CDS | 20.0% |
| !! | ATATAAGTAATGTTCAAACA+TGG | - | chr3.4:3972026-3972045 | MS.gene51614:CDS | 20.0% |
| !! | TATAAGTAATGTTCAAACAT+GGG | - | chr3.4:3972027-3972046 | MS.gene51614:CDS | 20.0% |
| ! | AACTTCTATTAGATCAAGAA+TGG | - | chr3.4:3972123-3972142 | MS.gene51614:CDS | 25.0% |
| ! | CTTTCACTCATTAATCAATA+TGG | - | chr3.4:3972175-3972194 | MS.gene51614:CDS | 25.0% |
| !!! | AAATTACTGATAGTGTTGAT+AGG | - | chr3.4:3971942-3971961 | MS.gene51614:CDS | 25.0% |
| AACAAAACTCAATCCACAAA+AGG | - | chr3.4:3971845-3971864 | MS.gene51614:CDS | 30.0% | |
| CTTAAACTTTGCAAGATCAA+TGG | - | chr3.4:3971986-3972005 | MS.gene51614:CDS | 30.0% | |
| GAGGATTTGATGAAATTTGT+TGG | + | chr3.4:3971713-3971732 | None:intergenic | 30.0% | |
| TCAATGGTCAAGATTTCAAT+TGG | - | chr3.4:3972002-3972021 | MS.gene51614:CDS | 30.0% | |
| !!! | TTGTGGATTGAGTTTTGTTT+AGG | + | chr3.4:3971844-3971863 | None:intergenic | 30.0% |
| AGAGATTCAACACAAAGTGT+TGG | + | chr3.4:3971755-3971774 | None:intergenic | 35.0% | |
| CTGTTTGGACCAATTTATGA+GGG | + | chr3.4:3971808-3971827 | None:intergenic | 35.0% | |
| GGCTAATTGATAAAGCTGTT+TGG | + | chr3.4:3971823-3971842 | None:intergenic | 35.0% | |
| GGGTTAAGAGAAGTAAAAGA+AGG | + | chr3.4:3971667-3971686 | None:intergenic | 35.0% | |
| GTTTAAGCTCCTTAAGTGAA+CGG | + | chr3.4:3971973-3971992 | None:intergenic | 35.0% | |
| TGAATAGCAGCATATTCTCT+TGG | + | chr3.4:3971908-3971927 | None:intergenic | 35.0% | |
| ! | CATTGTAACATAGCCTTTTG+TGG | + | chr3.4:3971861-3971880 | None:intergenic | 35.0% |
| ! | GAGATTCAACACAAAGTGTT+GGG | + | chr3.4:3971754-3971773 | None:intergenic | 35.0% |
| !! | AGTACTTGTAGTGATGGATT+TGG | - | chr3.4:3972073-3972092 | MS.gene51614:CDS | 35.0% |
| CCAACAAGACCCTCATAAAT+TGG | - | chr3.4:3971796-3971815 | MS.gene51614:CDS | 40.0% | |
| GAGTTGAAGTTGCCATAGAT+AGG | + | chr3.4:3971691-3971710 | None:intergenic | 40.0% | |
| GATGCAAGTACTTGTAGTGA+TGG | - | chr3.4:3972067-3972086 | MS.gene51614:CDS | 40.0% | |
| GCTGTTTGGACCAATTTATG+AGG | + | chr3.4:3971809-3971828 | None:intergenic | 40.0% | |
| GTATGATGTTGTGCTACATG+AGG | + | chr3.4:3971732-3971751 | None:intergenic | 40.0% | |
| TCTCTTAACCCTCCTATCTA+TGG | - | chr3.4:3971676-3971695 | MS.gene51614:CDS | 40.0% | |
| TGAAGTTGCCATAGATAGGA+GGG | + | chr3.4:3971687-3971706 | None:intergenic | 40.0% | |
| TTGAAGTTGCCATAGATAGG+AGG | + | chr3.4:3971688-3971707 | None:intergenic | 40.0% | |
| ! | CCAATTTATGAGGGTCTTGT+TGG | + | chr3.4:3971799-3971818 | None:intergenic | 40.0% |
| !! | ACTTGTAGTGATGGATTTGG+TGG | - | chr3.4:3972076-3972095 | MS.gene51614:CDS | 40.0% |
| !! | TTTGGTGGAAAAGCACTTGA+TGG | - | chr3.4:3972091-3972110 | MS.gene51614:CDS | 40.0% |
| TAGGCTTAGCCGTTCACTTA+AGG | - | chr3.4:3971961-3971980 | MS.gene51614:CDS | 45.0% | |
| !! | GGTGGAAAAGCACTTGATGG+AGG | - | chr3.4:3972094-3972113 | MS.gene51614:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 3971650 | 3972210 | 3971650 | ID=MS.gene51614 |
| chr3.4 | mRNA | 3971650 | 3972210 | 3971650 | ID=MS.gene51614.t1;Parent=MS.gene51614 |
| chr3.4 | exon | 3971650 | 3972210 | 3971650 | ID=MS.gene51614.t1.exon1;Parent=MS.gene51614.t1 |
| chr3.4 | CDS | 3971650 | 3972210 | 3971650 | ID=cds.MS.gene51614.t1;Parent=MS.gene51614.t1 |
| Gene Sequence |
| Protein sequence |
