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.gene84370.t1 | XP_003598239.1 | 97.9 | 187 | 4 | 0 | 1 | 187 | 1 | 187 | 2.10E-93 | 351.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene84370.t1 | P17407 | 55.9 | 188 | 80 | 3 | 3 | 187 | 4 | 191 | 3.9e-51 | 202.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene84370.t1 | G7IYJ3 | 97.9 | 187 | 4 | 0 | 1 | 187 | 1 | 187 | 1.5e-93 | 351.7 |
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.gene72493 | MS.gene84370 | PPI |
| MS.gene77727 | MS.gene84370 | PPI |
| MS.gene045669 | MS.gene84370 | PPI |
| MS.gene045671 | MS.gene84370 | PPI |
| MS.gene84370 | MS.gene77725 | PPI |
| MS.gene78072 | MS.gene84370 | PPI |
| MS.gene84370 | MS.gene72495 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene84370.t1 | MTR_3g008840 | 97.861 | 187 | 4 | 0 | 1 | 187 | 1 | 187 | 6.85e-136 | 377 |
| MS.gene84370.t1 | MTR_3g008820 | 92.442 | 172 | 13 | 0 | 16 | 187 | 15 | 186 | 3.43e-119 | 335 |
| MS.gene84370.t1 | MTR_5g012000 | 50.543 | 184 | 89 | 2 | 5 | 187 | 29 | 211 | 6.95e-66 | 201 |
| MS.gene84370.t1 | MTR_4g101760 | 48.438 | 192 | 90 | 2 | 5 | 187 | 11 | 202 | 4.82e-61 | 188 |
| MS.gene84370.t1 | MTR_4g035905 | 48.466 | 163 | 82 | 1 | 25 | 187 | 36 | 196 | 2.64e-49 | 158 |
| MS.gene84370.t1 | MTR_4g025550 | 41.584 | 202 | 102 | 6 | 1 | 187 | 1 | 201 | 2.87e-44 | 146 |
| MS.gene84370.t1 | MTR_4g035870 | 44.785 | 163 | 88 | 1 | 25 | 187 | 36 | 196 | 1.91e-43 | 144 |
| MS.gene84370.t1 | MTR_4g035880 | 44.785 | 163 | 88 | 1 | 25 | 187 | 36 | 196 | 1.06e-42 | 142 |
| MS.gene84370.t1 | MTR_4g025590 | 42.690 | 171 | 89 | 4 | 25 | 187 | 3 | 172 | 1.36e-40 | 136 |
| MS.gene84370.t1 | MTR_4g025620 | 40.212 | 189 | 104 | 4 | 7 | 187 | 14 | 201 | 1.53e-40 | 137 |
| MS.gene84370.t1 | MTR_4g120825 | 38.835 | 206 | 104 | 5 | 1 | 186 | 1 | 204 | 1.53e-40 | 136 |
| MS.gene84370.t1 | MTR_4g120830 | 38.835 | 206 | 104 | 5 | 1 | 186 | 1 | 204 | 2.50e-40 | 136 |
| MS.gene84370.t1 | MTR_4g025610 | 40.212 | 189 | 104 | 4 | 7 | 187 | 14 | 201 | 8.06e-40 | 135 |
| MS.gene84370.t1 | MTR_8g104765 | 37.674 | 215 | 103 | 6 | 1 | 186 | 1 | 213 | 3.13e-39 | 133 |
| MS.gene84370.t1 | MTR_3g008760 | 37.989 | 179 | 102 | 3 | 12 | 182 | 47 | 224 | 1.15e-32 | 117 |
| MS.gene84370.t1 | MTR_2g043560 | 39.429 | 175 | 90 | 4 | 13 | 182 | 22 | 185 | 3.79e-31 | 112 |
| MS.gene84370.t1 | MTR_7g108790 | 33.929 | 168 | 107 | 3 | 18 | 185 | 26 | 189 | 7.48e-31 | 111 |
| MS.gene84370.t1 | MTR_4g124855 | 31.351 | 185 | 117 | 4 | 5 | 182 | 14 | 195 | 5.11e-25 | 96.7 |
| MS.gene84370.t1 | MTR_1g088540 | 31.507 | 146 | 96 | 2 | 40 | 185 | 1 | 142 | 2.54e-23 | 90.9 |
| MS.gene84370.t1 | MTR_4g035855 | 31.606 | 193 | 116 | 4 | 5 | 184 | 13 | 202 | 1.38e-21 | 87.8 |
| MS.gene84370.t1 | MTR_8g023310 | 31.646 | 158 | 101 | 3 | 26 | 179 | 68 | 222 | 2.39e-15 | 73.6 |
| MS.gene84370.t1 | MTR_1g008140 | 28.070 | 171 | 110 | 4 | 20 | 180 | 76 | 243 | 1.63e-14 | 71.2 |
| MS.gene84370.t1 | MTR_8g023150 | 31.138 | 167 | 102 | 6 | 21 | 182 | 72 | 230 | 1.58e-13 | 68.2 |
| MS.gene84370.t1 | MTR_7g112580 | 32.558 | 129 | 83 | 3 | 54 | 182 | 69 | 193 | 3.57e-13 | 67.4 |
| MS.gene84370.t1 | MTR_3g091380 | 27.647 | 170 | 103 | 3 | 22 | 180 | 74 | 234 | 7.85e-13 | 66.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene84370.t1 | AT5G62350 | 56.471 | 170 | 70 | 2 | 18 | 184 | 31 | 199 | 7.78e-68 | 206 |
| MS.gene84370.t1 | AT3G47380 | 47.449 | 196 | 90 | 4 | 5 | 187 | 7 | 202 | 7.91e-62 | 191 |
| MS.gene84370.t1 | AT4G25260 | 48.259 | 201 | 90 | 3 | 1 | 187 | 1 | 201 | 6.43e-61 | 188 |
| MS.gene84370.t1 | AT1G62770 | 50.000 | 194 | 88 | 4 | 3 | 187 | 6 | 199 | 9.05e-59 | 183 |
| MS.gene84370.t1 | AT4G12390 | 50.898 | 167 | 79 | 1 | 24 | 187 | 38 | 204 | 2.89e-51 | 164 |
| MS.gene84370.t1 | AT5G62360 | 42.331 | 163 | 91 | 2 | 25 | 187 | 43 | 202 | 5.40e-48 | 155 |
| MS.gene84370.t1 | AT5G20740 | 40.526 | 190 | 103 | 3 | 2 | 182 | 4 | 192 | 1.60e-40 | 136 |
| MS.gene84370.t1 | AT5G20740 | 40.526 | 190 | 103 | 3 | 2 | 182 | 38 | 226 | 6.36e-40 | 136 |
| MS.gene84370.t1 | AT4G00080 | 39.267 | 191 | 102 | 7 | 5 | 182 | 9 | 198 | 1.48e-38 | 131 |
| MS.gene84370.t1 | AT1G14890 | 37.234 | 188 | 104 | 3 | 6 | 184 | 33 | 215 | 1.80e-38 | 131 |
| MS.gene84370.t1 | AT2G01610 | 37.234 | 188 | 104 | 3 | 11 | 184 | 30 | 217 | 5.96e-37 | 128 |
| MS.gene84370.t1 | AT1G62760 | 44.643 | 168 | 86 | 3 | 21 | 185 | 143 | 306 | 6.35e-37 | 130 |
| MS.gene84370.t1 | AT4G25250 | 36.420 | 162 | 102 | 1 | 23 | 183 | 35 | 196 | 1.71e-35 | 123 |
| MS.gene84370.t1 | AT1G70720 | 39.412 | 170 | 96 | 3 | 20 | 186 | 31 | 196 | 2.88e-33 | 117 |
| MS.gene84370.t1 | AT1G70720 | 39.412 | 170 | 96 | 3 | 20 | 186 | 43 | 208 | 4.63e-33 | 117 |
| MS.gene84370.t1 | AT5G51520 | 38.415 | 164 | 92 | 3 | 25 | 180 | 37 | 199 | 5.24e-31 | 112 |
| MS.gene84370.t1 | AT1G23205 | 36.022 | 186 | 107 | 4 | 10 | 186 | 20 | 202 | 1.23e-30 | 111 |
| MS.gene84370.t1 | AT3G62820 | 31.016 | 187 | 115 | 6 | 5 | 184 | 11 | 190 | 5.36e-23 | 91.3 |
| MS.gene84370.t1 | AT5G62340 | 32.524 | 206 | 105 | 8 | 5 | 187 | 12 | 206 | 7.15e-23 | 91.3 |
| MS.gene84370.t1 | AT3G14310 | 30.769 | 156 | 106 | 2 | 26 | 180 | 59 | 213 | 1.02e-20 | 89.4 |
| MS.gene84370.t1 | AT1G53830 | 31.138 | 167 | 113 | 2 | 15 | 180 | 51 | 216 | 9.37e-20 | 86.3 |
| MS.gene84370.t1 | AT2G47670 | 28.750 | 160 | 111 | 2 | 25 | 184 | 48 | 204 | 1.34e-17 | 77.4 |
| MS.gene84370.t1 | AT5G53370 | 28.834 | 163 | 109 | 4 | 19 | 180 | 104 | 260 | 2.53e-17 | 79.3 |
| MS.gene84370.t1 | AT5G53370 | 28.834 | 163 | 109 | 4 | 19 | 180 | 68 | 224 | 3.19e-17 | 79.0 |
| MS.gene84370.t1 | AT3G49220 | 30.625 | 160 | 101 | 4 | 22 | 180 | 128 | 278 | 7.92e-17 | 77.8 |
| MS.gene84370.t1 | AT3G49220 | 30.625 | 160 | 101 | 4 | 22 | 180 | 128 | 278 | 1.01e-16 | 77.8 |
| MS.gene84370.t1 | AT3G49220 | 30.625 | 160 | 101 | 4 | 22 | 180 | 83 | 233 | 1.15e-16 | 77.4 |
| MS.gene84370.t1 | AT3G14300 | 27.907 | 172 | 114 | 4 | 21 | 186 | 454 | 621 | 4.42e-12 | 64.3 |
| MS.gene84370.t1 | AT3G14300 | 26.111 | 180 | 123 | 4 | 13 | 184 | 258 | 435 | 6.16e-12 | 63.9 |
| MS.gene84370.t1 | AT3G47670 | 29.268 | 164 | 100 | 6 | 26 | 182 | 113 | 267 | 9.92e-11 | 59.7 |
Find 36 sgRNAs with CRISPR-Local
Find 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGCAGTAGAGAGGATAGTT+AGG | 0.334051 | 3.1:+4374183 | None:intergenic |
| GGCTAAGTGATAAAGCTGTT+TGG | 0.397613 | 3.1:+4374042 | None:intergenic |
| AACCATTCTTGATCTAATAG+AGG | 0.404018 | 3.1:+4373737 | None:intergenic |
| TTTGGTGGAAAGGCACTTGA+TGG | 0.433230 | 3.1:-4373771 | MS.gene84370:CDS |
| CCAACAGGACCCTCATCAAT+TGG | 0.460706 | 3.1:-4374066 | MS.gene84370:CDS |
| AACAAAACTCAATCCACAAA+AGG | 0.469923 | 3.1:-4374017 | MS.gene84370:CDS |
| TGAAGAGCAGCATATTCTCT+TGG | 0.472801 | 3.1:+4373957 | None:intergenic |
| TAGAGAGGATAGTTAGGAGA+AGG | 0.482937 | 3.1:+4374189 | None:intergenic |
| GAGATTCAACACAAAGTGTT+GGG | 0.484787 | 3.1:+4374111 | None:intergenic |
| GTGTTGAAGTTGCAGTAGAG+AGG | 0.489493 | 3.1:+4374174 | None:intergenic |
| AAATCACTGATAGTGTTGAT+AGG | 0.490237 | 3.1:-4373920 | MS.gene84370:CDS |
| CTATGCAACAACAATCCAAC+AGG | 0.491970 | 3.1:-4374081 | MS.gene84370:CDS |
| AGCACTTGTAGTGATGGATT+TGG | 0.492192 | 3.1:-4373789 | MS.gene84370:CDS |
| ACATGAGGATTTGATGAAGT+TGG | 0.508239 | 3.1:+4374148 | None:intergenic |
| TGTTGAGACATGGGTTAGCT+CGG | 0.519545 | 3.1:-4373826 | MS.gene84370:CDS |
| TAGTTAGGAGAAGGAAAACA+AGG | 0.521328 | 3.1:+4374198 | None:intergenic |
| AGCCTCTATTAGATCAAGAA+TGG | 0.523764 | 3.1:-4373739 | MS.gene84370:CDS |
| TCAATATGCTACTAAGCACT+AGG | 0.528472 | 3.1:-4373673 | None:intergenic |
| AGAGATTCAACACAAAGTGT+TGG | 0.533099 | 3.1:+4374110 | None:intergenic |
| CCAATTGATGAGGGTCCTGT+TGG | 0.535009 | 3.1:+4374066 | None:intergenic |
| ACAAAGTGCAAAAGTTTCAA+AGG | 0.542895 | 3.1:-4373987 | MS.gene84370:CDS |
| GCCAGCTGAAATCCTCACCT+TGG | 0.553087 | 3.1:+4373859 | None:intergenic |
| CAATATGCTACTAAGCACTA+GGG | 0.562055 | 3.1:-4373672 | None:intergenic |
| TCCAAGGTGAGGATTTCAGC+TGG | 0.570424 | 3.1:-4373860 | MS.gene84370:CDS |
| CTTAAACTTTGCAAGATCCA+AGG | 0.575402 | 3.1:-4373876 | MS.gene84370:CDS |
| GATGAAAGCACTTGTAGTGA+TGG | 0.588649 | 3.1:-4373795 | MS.gene84370:CDS |
| CTGTTTGGACCAATTGATGA+GGG | 0.593037 | 3.1:+4374057 | None:intergenic |
| GAGGATTTGATGAAGTTGGT+TGG | 0.593523 | 3.1:+4374152 | None:intergenic |
| TATAAGCAATGTTGAGACAT+GGG | 0.604136 | 3.1:-4373835 | MS.gene84370:CDS |
| ACTTGTAGTGATGGATTTGG+TGG | 0.605401 | 3.1:-4373786 | MS.gene84370:CDS |
| ACTTTGCAAGATCCAAGGTG+AGG | 0.631587 | 3.1:-4373871 | MS.gene84370:CDS |
| GCTGTTTGGACCAATTGATG+AGG | 0.633670 | 3.1:+4374056 | None:intergenic |
| TAGTGATGGATTTGGTGGAA+AGG | 0.647596 | 3.1:-4373781 | MS.gene84370:CDS |
| ATATAAGCAATGTTGAGACA+TGG | 0.650361 | 3.1:-4373836 | MS.gene84370:CDS |
| AGTTAGGAGAAGGAAAACAA+GGG | 0.657859 | 3.1:+4374199 | None:intergenic |
| GTATGATGTTGTGCTACATG+AGG | 0.681149 | 3.1:+4374133 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AACAAAACTCAATCCACAAA+AGG | - | chr3.1:4373872-4373891 | MS.gene84370:CDS | 30.0% | |
| AACCATTCTTGATCTAATAG+AGG | + | chr3.1:4374155-4374174 | None:intergenic | 30.0% | |
| ACAAAGTGCAAAAGTTTCAA+AGG | - | chr3.1:4373902-4373921 | MS.gene84370:CDS | 30.0% | |
| ATATAAGCAATGTTGAGACA+TGG | - | chr3.1:4374053-4374072 | MS.gene84370:CDS | 30.0% | |
| TATAAGCAATGTTGAGACAT+GGG | - | chr3.1:4374054-4374073 | MS.gene84370:CDS | 30.0% | |
| ! | GTTTAAGCTCTTTTAGTGAA+CGG | + | chr3.1:4374000-4374019 | None:intergenic | 30.0% |
| !! | AAATCACTGATAGTGTTGAT+AGG | - | chr3.1:4373969-4373988 | MS.gene84370:CDS | 30.0% |
| !!! | TTGTGGATTGAGTTTTGTTT+AGG | + | chr3.1:4373871-4373890 | None:intergenic | 30.0% |
| ACATGAGGATTTGATGAAGT+TGG | + | chr3.1:4373744-4373763 | None:intergenic | 35.0% | |
| AGAGATTCAACACAAAGTGT+TGG | + | chr3.1:4373782-4373801 | None:intergenic | 35.0% | |
| AGCCTCTATTAGATCAAGAA+TGG | - | chr3.1:4374150-4374169 | MS.gene84370:CDS | 35.0% | |
| AGTTAGGAGAAGGAAAACAA+GGG | + | chr3.1:4373693-4373712 | None:intergenic | 35.0% | |
| CTTAAACTTTGCAAGATCCA+AGG | - | chr3.1:4374013-4374032 | MS.gene84370:CDS | 35.0% | |
| TAGTTAGGAGAAGGAAAACA+AGG | + | chr3.1:4373694-4373713 | None:intergenic | 35.0% | |
| ! | CTTTGTTACAAAGCCTTTTG+TGG | + | chr3.1:4373888-4373907 | None:intergenic | 35.0% |
| ! | GAGATTCAACACAAAGTGTT+GGG | + | chr3.1:4373781-4373800 | None:intergenic | 35.0% |
| CTATGCAACAACAATCCAAC+AGG | - | chr3.1:4373808-4373827 | MS.gene84370:CDS | 40.0% | |
| CTGTTTGGACCAATTGATGA+GGG | + | chr3.1:4373835-4373854 | None:intergenic | 40.0% | |
| GGCTAAGTGATAAAGCTGTT+TGG | + | chr3.1:4373850-4373869 | None:intergenic | 40.0% | |
| GTATGATGTTGTGCTACATG+AGG | + | chr3.1:4373759-4373778 | None:intergenic | 40.0% | |
| TAGAGAGGATAGTTAGGAGA+AGG | + | chr3.1:4373703-4373722 | None:intergenic | 40.0% | |
| TGAAGAGCAGCATATTCTCT+TGG | + | chr3.1:4373935-4373954 | None:intergenic | 40.0% | |
| TTGCAGTAGAGAGGATAGTT+AGG | + | chr3.1:4373709-4373728 | None:intergenic | 40.0% | |
| ! | GAGGATTTGATGAAGTTGGT+TGG | + | chr3.1:4373740-4373759 | None:intergenic | 40.0% |
| !! | ACTTGTAGTGATGGATTTGG+TGG | - | chr3.1:4374103-4374122 | MS.gene84370:CDS | 40.0% |
| !! | AGCACTTGTAGTGATGGATT+TGG | - | chr3.1:4374100-4374119 | MS.gene84370:CDS | 40.0% |
| !! | GATGAAAGCACTTGTAGTGA+TGG | - | chr3.1:4374094-4374113 | MS.gene84370:CDS | 40.0% |
| !! | TAGTGATGGATTTGGTGGAA+AGG | - | chr3.1:4374108-4374127 | MS.gene84370:CDS | 40.0% |
| ACTTTGCAAGATCCAAGGTG+AGG | - | chr3.1:4374018-4374037 | MS.gene84370:CDS | 45.0% | |
| GCTGTTTGGACCAATTGATG+AGG | + | chr3.1:4373836-4373855 | None:intergenic | 45.0% | |
| GTGTTGAAGTTGCAGTAGAG+AGG | + | chr3.1:4373718-4373737 | None:intergenic | 45.0% | |
| !! | TGTTGAGACATGGGTTAGCT+CGG | - | chr3.1:4374063-4374082 | MS.gene84370:CDS | 45.0% |
| !! | TTTGGTGGAAAGGCACTTGA+TGG | - | chr3.1:4374118-4374137 | MS.gene84370:CDS | 45.0% |
| CCAACAGGACCCTCATCAAT+TGG | - | chr3.1:4373823-4373842 | MS.gene84370:CDS | 50.0% | |
| CCAATTGATGAGGGTCCTGT+TGG | + | chr3.1:4373826-4373845 | None:intergenic | 50.0% | |
| TCCAAGGTGAGGATTTCAGC+TGG | - | chr3.1:4374029-4374048 | MS.gene84370:CDS | 50.0% | |
| GCCAGCTGAAATCCTCACCT+TGG | + | chr3.1:4374033-4374052 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 4373674 | 4374237 | 4373674 | ID=MS.gene84370 |
| chr3.1 | mRNA | 4373674 | 4374237 | 4373674 | ID=MS.gene84370.t1;Parent=MS.gene84370 |
| chr3.1 | exon | 4373674 | 4374237 | 4373674 | ID=MS.gene84370.t1.exon1;Parent=MS.gene84370.t1 |
| chr3.1 | CDS | 4373674 | 4374237 | 4373674 | ID=cds.MS.gene84370.t1;Parent=MS.gene84370.t1 |
| Gene Sequence |
| Protein sequence |
