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.gene32796.t1 | KEH35976.1 | 79.5 | 166 | 34 | 0 | 25 | 190 | 10 | 175 | 6.20E-64 | 253.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene32796.t1 | Q9FKK2 | 26.9 | 160 | 112 | 1 | 11 | 165 | 1 | 160 | 1.6e-12 | 74.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene32796.t1 | A0A072V2S9 | 79.5 | 166 | 34 | 0 | 25 | 190 | 10 | 175 | 4.4e-64 | 253.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene32796.t1 | TF | MADS-M-type |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene32796.t1 | MTR_3g109930 | 79.518 | 166 | 34 | 0 | 25 | 190 | 10 | 175 | 8.30e-92 | 266 |
| MS.gene32796.t1 | MTR_8g022970 | 69.189 | 185 | 55 | 2 | 1 | 183 | 1 | 185 | 5.16e-83 | 244 |
| MS.gene32796.t1 | MTR_3g437790 | 47.651 | 149 | 73 | 4 | 35 | 179 | 31 | 178 | 3.26e-38 | 130 |
| MS.gene32796.t1 | MTR_2g045020 | 44.706 | 170 | 81 | 5 | 14 | 179 | 19 | 179 | 1.32e-30 | 110 |
| MS.gene32796.t1 | MTR_2g105290 | 35.220 | 159 | 97 | 3 | 13 | 169 | 8 | 162 | 1.49e-23 | 92.0 |
| MS.gene32796.t1 | MTR_7g028448 | 36.879 | 141 | 78 | 3 | 28 | 168 | 24 | 153 | 1.81e-21 | 86.7 |
| MS.gene32796.t1 | MTR_4g036915 | 36.879 | 141 | 78 | 3 | 28 | 168 | 24 | 153 | 1.81e-21 | 86.7 |
| MS.gene32796.t1 | MTR_8g086290 | 30.636 | 173 | 98 | 4 | 7 | 169 | 2 | 162 | 8.76e-18 | 77.0 |
| MS.gene32796.t1 | MTR_1g012570 | 33.333 | 165 | 97 | 5 | 13 | 170 | 5 | 163 | 5.09e-17 | 76.3 |
| MS.gene32796.t1 | MTR_5g053390 | 33.974 | 156 | 98 | 3 | 18 | 170 | 10 | 163 | 2.22e-16 | 74.7 |
| MS.gene32796.t1 | MTR_1g106070 | 31.515 | 165 | 100 | 4 | 13 | 170 | 5 | 163 | 2.14e-15 | 70.9 |
| MS.gene32796.t1 | MTR_8g079502 | 34.513 | 113 | 67 | 2 | 18 | 126 | 3 | 112 | 2.79e-15 | 70.5 |
| MS.gene32796.t1 | MTR_2g030740 | 32.335 | 167 | 96 | 6 | 13 | 170 | 5 | 163 | 9.11e-15 | 70.5 |
| MS.gene32796.t1 | MTR_1g047550 | 31.333 | 150 | 89 | 4 | 18 | 165 | 3 | 140 | 2.82e-14 | 67.8 |
| MS.gene32796.t1 | MTR_3g052920 | 32.716 | 162 | 93 | 4 | 13 | 165 | 5 | 159 | 4.17e-14 | 68.6 |
| MS.gene32796.t1 | MTR_5g055100 | 31.183 | 186 | 98 | 7 | 18 | 189 | 10 | 179 | 6.19e-14 | 68.2 |
| MS.gene32796.t1 | MTR_4g127140 | 30.405 | 148 | 93 | 2 | 31 | 169 | 26 | 172 | 1.01e-13 | 66.6 |
| MS.gene32796.t1 | MTR_8g043650 | 28.662 | 157 | 106 | 3 | 13 | 165 | 5 | 159 | 1.06e-13 | 67.4 |
| MS.gene32796.t1 | MTR_1g105910 | 28.846 | 156 | 107 | 2 | 13 | 165 | 5 | 159 | 1.21e-13 | 67.4 |
| MS.gene32796.t1 | MTR_1g105920 | 28.931 | 159 | 103 | 3 | 13 | 165 | 5 | 159 | 3.20e-13 | 66.2 |
| MS.gene32796.t1 | MTR_1g108580 | 28.042 | 189 | 120 | 4 | 10 | 189 | 2 | 183 | 3.33e-13 | 65.9 |
| MS.gene32796.t1 | MTR_1g108510 | 28.333 | 180 | 115 | 5 | 18 | 189 | 10 | 183 | 4.29e-13 | 65.5 |
| MS.gene32796.t1 | MTR_3g030770 | 27.374 | 179 | 118 | 3 | 18 | 189 | 10 | 183 | 5.26e-13 | 65.5 |
| MS.gene32796.t1 | MTR_2g093190 | 27.841 | 176 | 121 | 3 | 18 | 189 | 10 | 183 | 1.34e-12 | 64.3 |
| MS.gene32796.t1 | MTR_4g131030 | 37.895 | 95 | 58 | 1 | 18 | 111 | 3 | 97 | 2.23e-12 | 63.5 |
| MS.gene32796.t1 | MTR_5g045560 | 30.435 | 161 | 107 | 3 | 18 | 175 | 10 | 168 | 2.75e-12 | 63.5 |
| MS.gene32796.t1 | MTR_3g080940 | 26.966 | 178 | 118 | 5 | 18 | 189 | 10 | 181 | 3.12e-12 | 63.2 |
| MS.gene32796.t1 | MTR_2g085250 | 30.128 | 156 | 95 | 4 | 18 | 165 | 10 | 159 | 4.32e-12 | 63.2 |
| MS.gene32796.t1 | MTR_2g085280 | 30.128 | 156 | 95 | 4 | 18 | 165 | 10 | 159 | 4.54e-12 | 63.2 |
| MS.gene32796.t1 | MTR_1g063160 | 29.333 | 150 | 92 | 3 | 18 | 165 | 3 | 140 | 1.10e-11 | 60.8 |
| MS.gene32796.t1 | MTR_1g105905 | 29.104 | 134 | 89 | 3 | 35 | 164 | 10 | 141 | 1.14e-11 | 61.6 |
| MS.gene32796.t1 | MTR_4g094632 | 31.613 | 155 | 89 | 4 | 18 | 171 | 3 | 141 | 1.85e-11 | 60.1 |
| MS.gene32796.t1 | MTR_8g046350 | 31.538 | 130 | 86 | 2 | 18 | 146 | 3 | 130 | 4.76e-11 | 58.9 |
| MS.gene32796.t1 | MTR_1g054265 | 33.036 | 112 | 70 | 2 | 18 | 124 | 3 | 114 | 5.78e-11 | 58.9 |
| MS.gene32796.t1 | MTR_5g032520 | 31.707 | 164 | 94 | 4 | 18 | 180 | 3 | 149 | 8.67e-11 | 59.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene32796.t1 | AT5G60440 | 26.875 | 160 | 112 | 1 | 11 | 165 | 1 | 160 | 5.87e-16 | 74.3 |
| MS.gene32796.t1 | AT2G24840 | 27.215 | 158 | 112 | 2 | 18 | 172 | 64 | 221 | 8.70e-16 | 73.6 |
| MS.gene32796.t1 | AT1G01530 | 29.348 | 184 | 116 | 4 | 11 | 185 | 1 | 179 | 1.84e-14 | 69.7 |
| MS.gene32796.t1 | AT1G65360 | 28.302 | 159 | 107 | 2 | 11 | 165 | 1 | 156 | 3.03e-14 | 68.9 |
| MS.gene32796.t1 | AT2G34440 | 30.667 | 150 | 94 | 3 | 18 | 162 | 3 | 147 | 4.26e-14 | 67.4 |
| MS.gene32796.t1 | AT3G66656 | 40.299 | 67 | 40 | 0 | 18 | 84 | 3 | 69 | 1.98e-12 | 63.2 |
| MS.gene32796.t1 | AT1G72350 | 27.097 | 155 | 82 | 4 | 18 | 172 | 44 | 167 | 4.06e-11 | 60.1 |
| MS.gene32796.t1 | AT3G04100 | 25.134 | 187 | 126 | 3 | 13 | 189 | 10 | 192 | 4.81e-11 | 59.7 |
| MS.gene32796.t1 | AT5G13790 | 36.082 | 97 | 60 | 1 | 21 | 117 | 6 | 100 | 8.47e-11 | 59.7 |
Find 27 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCAGCTATCGACGCTGAAAA+AGG | 0.238437 | 3.1:+82610393 | MS.gene32796:CDS |
| AAGTGTTTAATGACGATGTT+AGG | 0.253299 | 3.1:-82610354 | None:intergenic |
| ATAGTTCATGTCTTCCTTCT+TGG | 0.278512 | 3.1:+82610526 | MS.gene32796:CDS |
| ATTGAATGGTTATATAATAT+TGG | 0.279123 | 3.1:-82610685 | None:intergenic |
| CTCTGCTTTCTTGATTTCAA+TGG | 0.286601 | 3.1:-82610184 | None:intergenic |
| TGTCTCAAGTTGAAGCCTTA+AGG | 0.358087 | 3.1:-82610442 | None:intergenic |
| GCTTAATTTAGTTGCTTCCT+TGG | 0.408024 | 3.1:+82610620 | MS.gene32796:CDS |
| TAATGACGATGTTAGGGTTA+GGG | 0.414307 | 3.1:-82610347 | None:intergenic |
| AGGACACAATTGAAACCTTA+AGG | 0.422757 | 3.1:+82610427 | MS.gene32796:CDS |
| TTAATGACGATGTTAGGGTT+AGG | 0.425753 | 3.1:-82610348 | None:intergenic |
| GTTCATGTCTTCCTTCTTGG+TGG | 0.441280 | 3.1:+82610529 | MS.gene32796:CDS |
| TTCTATTGATGATATCACTT+TGG | 0.454976 | 3.1:+82610557 | MS.gene32796:CDS |
| AATTTAGTTGCTTCCTTGGA+AGG | 0.461652 | 3.1:+82610624 | MS.gene32796:CDS |
| TTCATGTCTTCCTTCTTGGT+GGG | 0.465660 | 3.1:+82610530 | MS.gene32796:CDS |
| AGTGTTTAATGACGATGTTA+GGG | 0.483491 | 3.1:-82610353 | None:intergenic |
| TTTCCATCTGAAGAAGCCAT+TGG | 0.494665 | 3.1:-82610123 | None:intergenic |
| GATCCAATGGCTTCTTCAGA+TGG | 0.507351 | 3.1:+82610120 | None:intergenic |
| GTTAATCTCTTTCCCTTCCA+AGG | 0.512290 | 3.1:-82610637 | None:intergenic |
| ATTTAGTTGCTTCCTTGGAA+GGG | 0.542159 | 3.1:+82610625 | MS.gene32796:CDS |
| ACTTTCTCAAAGCTCAAACT+AGG | 0.549629 | 3.1:+82610228 | MS.gene32796:CDS |
| TCAAGAACGACTGAAAGAAG+AGG | 0.586071 | 3.1:+82610467 | MS.gene32796:CDS |
| ATAGAATGATCCCACCAAGA+AGG | 0.601023 | 3.1:-82610540 | None:intergenic |
| GAAGAGGAGAACAATTTACA+AGG | 0.654527 | 3.1:+82610483 | MS.gene32796:CDS |
| TATAATATTGGAAGTTGACG+AGG | 0.657533 | 3.1:-82610673 | None:intergenic |
| GGAAGGGAAAGAGATTAACA+TGG | 0.658441 | 3.1:+82610641 | MS.gene32796:CDS |
| CATTGAAATCAAGAAAGCAG+AGG | 0.666407 | 3.1:+82610185 | MS.gene32796:CDS |
| GCATAGAATAGATAATTCTG+TGG | 0.670141 | 3.1:-82610265 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTCTATTGATGATATCACTT+TGG | + | chr3.1:82610557-82610576 | MS.gene32796:CDS | 25.0% |
| !!! | ATCGTCATTAAACACTTTTT+CGG | + | chr3.1:82610360-82610379 | MS.gene32796:CDS | 25.0% |
| AAGTGTTTAATGACGATGTT+AGG | - | chr3.1:82610357-82610376 | None:intergenic | 30.0% | |
| AGTGTTTAATGACGATGTTA+GGG | - | chr3.1:82610356-82610375 | None:intergenic | 30.0% | |
| GCATAGAATAGATAATTCTG+TGG | - | chr3.1:82610268-82610287 | None:intergenic | 30.0% | |
| TATAATATTGGAAGTTGACG+AGG | - | chr3.1:82610676-82610695 | None:intergenic | 30.0% | |
| !!! | CATTAAACACTTTTTCGGTA+AGG | + | chr3.1:82610365-82610384 | MS.gene32796:CDS | 30.0% |
| AATTTAGTTGCTTCCTTGGA+AGG | + | chr3.1:82610624-82610643 | MS.gene32796:CDS | 35.0% | |
| ACTTTCTCAAAGCTCAAACT+AGG | + | chr3.1:82610228-82610247 | MS.gene32796:CDS | 35.0% | |
| AGGACACAATTGAAACCTTA+AGG | + | chr3.1:82610427-82610446 | MS.gene32796:CDS | 35.0% | |
| ATAGTTCATGTCTTCCTTCT+TGG | + | chr3.1:82610526-82610545 | MS.gene32796:CDS | 35.0% | |
| ATTTAGTTGCTTCCTTGGAA+GGG | + | chr3.1:82610625-82610644 | MS.gene32796:CDS | 35.0% | |
| CATTGAAATCAAGAAAGCAG+AGG | + | chr3.1:82610185-82610204 | MS.gene32796:CDS | 35.0% | |
| CTCTGCTTTCTTGATTTCAA+TGG | - | chr3.1:82610187-82610206 | None:intergenic | 35.0% | |
| GAAGAGGAGAACAATTTACA+AGG | + | chr3.1:82610483-82610502 | MS.gene32796:CDS | 35.0% | |
| GACAAAAAACTCTATGCATG+TGG | + | chr3.1:82610321-82610340 | MS.gene32796:CDS | 35.0% | |
| GCTTAATTTAGTTGCTTCCT+TGG | + | chr3.1:82610620-82610639 | MS.gene32796:CDS | 35.0% | |
| TAATGACGATGTTAGGGTTA+GGG | - | chr3.1:82610350-82610369 | None:intergenic | 35.0% | |
| TTAATGACGATGTTAGGGTT+AGG | - | chr3.1:82610351-82610370 | None:intergenic | 35.0% | |
| ATAGAATGATCCCACCAAGA+AGG | - | chr3.1:82610543-82610562 | None:intergenic | 40.0% | |
| GGAAGGGAAAGAGATTAACA+TGG | + | chr3.1:82610641-82610660 | MS.gene32796:CDS | 40.0% | |
| GTTAATCTCTTTCCCTTCCA+AGG | - | chr3.1:82610640-82610659 | None:intergenic | 40.0% | |
| TCAAGAACGACTGAAAGAAG+AGG | + | chr3.1:82610467-82610486 | MS.gene32796:CDS | 40.0% | |
| TGAAAAAGGGAAACAGGATG+AGG | + | chr3.1:82610407-82610426 | MS.gene32796:CDS | 40.0% | |
| TTCATGTCTTCCTTCTTGGT+GGG | + | chr3.1:82610530-82610549 | MS.gene32796:CDS | 40.0% | |
| !! | TGTCTCAAGTTGAAGCCTTA+AGG | - | chr3.1:82610445-82610464 | None:intergenic | 40.0% |
| CAGCTATCGACGCTGAAAAA+GGG | + | chr3.1:82610394-82610413 | MS.gene32796:CDS | 45.0% | |
| GTTCATGTCTTCCTTCTTGG+TGG | + | chr3.1:82610529-82610548 | MS.gene32796:CDS | 45.0% | |
| TCAGCTATCGACGCTGAAAA+AGG | + | chr3.1:82610393-82610412 | MS.gene32796:CDS | 45.0% | |
| CGACGCTGAAAAAGGGAAAC+AGG | + | chr3.1:82610401-82610420 | MS.gene32796:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 82610126 | 82610698 | 82610126 | ID=MS.gene32796 |
| chr3.1 | mRNA | 82610126 | 82610698 | 82610126 | ID=MS.gene32796.t1;Parent=MS.gene32796 |
| chr3.1 | exon | 82610126 | 82610698 | 82610126 | ID=MS.gene32796.t1.exon1;Parent=MS.gene32796.t1 |
| chr3.1 | CDS | 82610126 | 82610698 | 82610126 | ID=cds.MS.gene32796.t1;Parent=MS.gene32796.t1 |
| Gene Sequence |
| Protein sequence |
