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.gene06123.t1 | XP_013447269.1 | 95.7 | 185 | 7 | 1 | 4 | 187 | 2 | 186 | 9.00E-92 | 346.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene06123.t1 | Q9FMW4 | 55.2 | 163 | 72 | 1 | 24 | 186 | 55 | 216 | 3.5e-44 | 179.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene06123.t1 | A0A072TVV9 | 95.7 | 185 | 7 | 1 | 4 | 187 | 2 | 186 | 6.5e-92 | 346.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene06123 | MS.gene06165 | 0.833551 | 5.00E-56 | -1.69E-46 |
| MS.gene06123 | MS.gene20149 | 0.829166 | 5.99E-55 | -1.69E-46 |
| MS.gene06123 | MS.gene46442 | 0.806935 | 6.46E-50 | -1.69E-46 |
| MS.gene06123 | MS.gene55842 | 0.994533 | 4.90E-208 | -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.gene06123.t1 | MTR_8g100065 | 95.745 | 188 | 5 | 2 | 1 | 187 | 1 | 186 | 2.13e-131 | 366 |
| MS.gene06123.t1 | MTR_8g100065 | 97.093 | 172 | 5 | 0 | 16 | 187 | 37 | 208 | 1.06e-125 | 352 |
| MS.gene06123.t1 | MTR_6g077990 | 76.966 | 178 | 39 | 2 | 10 | 186 | 23 | 199 | 5.76e-95 | 275 |
| MS.gene06123.t1 | MTR_6g077990 | 79.290 | 169 | 33 | 2 | 19 | 186 | 31 | 198 | 1.18e-93 | 271 |
| MS.gene06123.t1 | MTR_6g077990 | 78.846 | 156 | 32 | 1 | 31 | 186 | 2 | 156 | 2.57e-87 | 253 |
| MS.gene06123.t1 | MTR_8g100065 | 93.893 | 131 | 5 | 2 | 1 | 130 | 1 | 129 | 1.79e-84 | 245 |
| MS.gene06123.t1 | MTR_8g100065 | 95.652 | 115 | 5 | 0 | 16 | 130 | 37 | 151 | 6.19e-79 | 232 |
| MS.gene06123.t1 | MTR_1g033750 | 53.261 | 184 | 85 | 1 | 3 | 186 | 41 | 223 | 9.38e-67 | 204 |
| MS.gene06123.t1 | MTR_1g114640 | 60.000 | 160 | 63 | 1 | 24 | 183 | 60 | 218 | 1.65e-63 | 196 |
| MS.gene06123.t1 | MTR_6g077990 | 79.130 | 115 | 22 | 2 | 19 | 132 | 31 | 144 | 1.13e-58 | 181 |
| MS.gene06123.t1 | MTR_1g114690 | 52.071 | 169 | 80 | 1 | 18 | 186 | 51 | 218 | 2.73e-56 | 177 |
| MS.gene06123.t1 | MTR_1g114690 | 51.497 | 167 | 80 | 1 | 18 | 184 | 51 | 216 | 6.94e-56 | 176 |
| MS.gene06123.t1 | MTR_1g114750 | 46.409 | 181 | 96 | 1 | 6 | 186 | 42 | 221 | 1.79e-55 | 175 |
| MS.gene06123.t1 | MTR_1g115130 | 52.667 | 150 | 70 | 1 | 37 | 186 | 46 | 194 | 1.07e-50 | 162 |
| MS.gene06123.t1 | MTR_1g114690 | 43.781 | 201 | 78 | 2 | 18 | 184 | 51 | 250 | 5.32e-49 | 159 |
| MS.gene06123.t1 | MTR_7g083570 | 41.975 | 162 | 93 | 1 | 23 | 184 | 115 | 275 | 4.01e-42 | 143 |
| MS.gene06123.t1 | MTR_3g100750 | 36.538 | 156 | 97 | 1 | 28 | 183 | 102 | 255 | 1.75e-39 | 135 |
| MS.gene06123.t1 | MTR_1g114640 | 60.185 | 108 | 42 | 1 | 24 | 131 | 60 | 166 | 3.51e-39 | 132 |
| MS.gene06123.t1 | MTR_8g069110 | 37.888 | 161 | 98 | 1 | 23 | 183 | 109 | 267 | 6.90e-39 | 134 |
| MS.gene06123.t1 | MTR_1g114680 | 60.000 | 110 | 43 | 1 | 75 | 184 | 53 | 161 | 9.26e-38 | 129 |
| MS.gene06123.t1 | MTR_2g076350 | 35.802 | 162 | 102 | 2 | 23 | 183 | 65 | 225 | 1.85e-31 | 114 |
| MS.gene06123.t1 | MTR_1g114690 | 50.442 | 113 | 55 | 1 | 18 | 130 | 51 | 162 | 6.57e-31 | 112 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene06123.t1 | AT5G23370 | 54.878 | 164 | 73 | 1 | 24 | 187 | 55 | 217 | 1.78e-59 | 185 |
| MS.gene06123.t1 | AT5G08350 | 54.878 | 164 | 73 | 1 | 24 | 187 | 54 | 216 | 1.14e-58 | 183 |
| MS.gene06123.t1 | AT5G23350 | 54.658 | 161 | 72 | 1 | 24 | 184 | 55 | 214 | 8.10e-57 | 178 |
| MS.gene06123.t1 | AT5G23360 | 52.174 | 161 | 76 | 1 | 24 | 184 | 47 | 206 | 7.99e-55 | 173 |
| MS.gene06123.t1 | AT5G13200 | 39.506 | 162 | 97 | 1 | 23 | 184 | 101 | 261 | 1.72e-40 | 138 |
| MS.gene06123.t1 | AT1G28200 | 37.267 | 161 | 99 | 1 | 23 | 183 | 96 | 254 | 1.21e-39 | 135 |
| MS.gene06123.t1 | AT1G28200 | 37.267 | 161 | 99 | 1 | 23 | 183 | 96 | 254 | 1.21e-39 | 135 |
| MS.gene06123.t1 | AT4G01600 | 37.654 | 162 | 101 | 0 | 22 | 183 | 24 | 185 | 9.56e-39 | 131 |
| MS.gene06123.t1 | AT2G22475 | 35.625 | 160 | 101 | 1 | 24 | 183 | 134 | 291 | 1.24e-38 | 134 |
| MS.gene06123.t1 | AT4G01600 | 37.888 | 161 | 100 | 0 | 23 | 183 | 64 | 224 | 2.69e-38 | 131 |
| MS.gene06123.t1 | AT4G01600 | 39.456 | 147 | 89 | 0 | 37 | 183 | 73 | 219 | 1.07e-35 | 125 |
| MS.gene06123.t1 | AT5G13200 | 41.584 | 101 | 59 | 0 | 23 | 123 | 101 | 201 | 4.60e-24 | 94.4 |
| MS.gene06123.t1 | AT2G22475 | 33.333 | 117 | 76 | 1 | 24 | 140 | 134 | 248 | 8.55e-21 | 86.7 |
| MS.gene06123.t1 | AT4G40100 | 31.111 | 135 | 63 | 1 | 49 | 183 | 112 | 216 | 1.30e-19 | 83.2 |
Find 34 sgRNAs with CRISPR-Local
Find 67 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCACGATGATTCTGAATTT+TGG | 0.150158 | 4.2:+3837506 | MS.gene06123:CDS |
| TTTAGCAGTTGCAGTTTCTT+TGG | 0.245252 | 4.2:-3836487 | None:intergenic |
| AGAAACTGCAACTGCTAAAA+TGG | 0.264589 | 4.2:+3836491 | MS.gene06123:CDS |
| CAATGTGCAGTAGGGCTAAA+TGG | 0.279415 | 4.2:-3837590 | None:intergenic |
| GATGCAGAAGAGAAGGTTAT+TGG | 0.316549 | 4.2:-3837123 | None:intergenic |
| TCTGAAGGGTAAGTTGAGTT+TGG | 0.345403 | 4.2:+3836927 | MS.gene06123:CDS |
| AATCCTACATGCAAAACTTC+TGG | 0.347012 | 4.2:-3836541 | None:intergenic |
| TTCAGAGTCTCTGATAGTTT+AGG | 0.396250 | 4.2:-3836910 | None:intergenic |
| CTGAAGGGTAAGTTGAGTTT+GGG | 0.410973 | 4.2:+3836928 | MS.gene06123:CDS |
| ACAACAGCTGGTCCTATTGC+TGG | 0.416930 | 4.2:+3837054 | MS.gene06123:CDS |
| TGAAGGGCAGAATGTGAATC+AGG | 0.430005 | 4.2:+3837456 | MS.gene06123:CDS |
| ACCTTCTCTTCTGCATCAAC+GGG | 0.443671 | 4.2:+3837129 | MS.gene06123:CDS |
| ATGAAAAGAACTCCAGCAAT+AGG | 0.446868 | 4.2:-3837066 | None:intergenic |
| ATGAATTCTTCTACTTCTAC+AGG | 0.454002 | 4.2:+3836339 | MS.gene06123:CDS |
| TAATAATTACGTACCTTGTA+CGG | 0.463291 | 4.2:-3837168 | None:intergenic |
| AACCTTCTCTTCTGCATCAA+CGG | 0.469610 | 4.2:+3837128 | MS.gene06123:CDS |
| GGGCTAAATGGACATTGAAA+TGG | 0.476559 | 4.2:-3837578 | None:intergenic |
| GTAAGTTGAGTTTGGGTGCA+AGG | 0.498584 | 4.2:+3836935 | MS.gene06123:CDS |
| AAGATAAAAGAAGTCAATGA+AGG | 0.502485 | 4.2:+3837439 | MS.gene06123:CDS |
| AGAAGGAGAGAAAGTGTTGA+AGG | 0.521050 | 4.2:+3837011 | MS.gene06123:CDS |
| ATAATACAAGAAGGTGGGAG+AGG | 0.525733 | 4.2:+3836958 | MS.gene06123:CDS |
| TGTTACTTATACACAACAGC+TGG | 0.553623 | 4.2:+3837042 | MS.gene06123:CDS |
| AAATTCATTGCAGTAAAACT+AGG | 0.557356 | 4.2:+3836886 | MS.gene06123:intron |
| TCCCGTTGATGCAGAAGAGA+AGG | 0.582493 | 4.2:-3837130 | None:intergenic |
| AGCACAAGAAAGCAACAACC+AGG | 0.598769 | 4.2:+3836514 | MS.gene06123:CDS |
| GCAAGGATAATACAAGAAGG+TGG | 0.599451 | 4.2:+3836952 | MS.gene06123:CDS |
| TAATACAAGAAGGTGGGAGA+GGG | 0.599558 | 4.2:+3836959 | MS.gene06123:CDS |
| TAAACTATCAGAGACTCTGA+AGG | 0.601920 | 4.2:+3836912 | MS.gene06123:CDS |
| GCATGTAGGATTCATGAACA+TGG | 0.604739 | 4.2:+3836552 | MS.gene06123:CDS |
| CAAGGATAATACAAGAAGGT+GGG | 0.615352 | 4.2:+3836953 | MS.gene06123:CDS |
| AGATAAAAGAAGTCAATGAA+GGG | 0.635091 | 4.2:+3837440 | MS.gene06123:CDS |
| GACGCGCAAGATACCGTACA+AGG | 0.636816 | 4.2:+3837155 | MS.gene06123:CDS |
| AAACTATCAGAGACTCTGAA+GGG | 0.658037 | 4.2:+3836913 | MS.gene06123:CDS |
| GGTGCAAGGATAATACAAGA+AGG | 0.670404 | 4.2:+3836949 | MS.gene06123:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATAATCAATATTTTTTTTAG+GGG | + | chr4.2:3836788-3836807 | MS.gene06123:intron | 10.0% |
| !!! | AACATTTTCAAGAATATTTT+TGG | + | chr4.2:3836982-3837001 | MS.gene06123:CDS | 15.0% |
| !!! | ATAATTTGGTTTATTGATTT+AGG | + | chr4.2:3837260-3837279 | MS.gene06123:intron | 15.0% |
| !!! | TTTTGAATGTAATTAATTGA+AGG | - | chr4.2:3836393-3836412 | None:intergenic | 15.0% |
| !! | AAGAGAGAAAGAAAAAAAAA+AGG | - | chr4.2:3836829-3836848 | None:intergenic | 20.0% |
| !!! | ATTTGTTGTATTAACTGTTT+CGG | + | chr4.2:3837362-3837381 | MS.gene06123:intron | 20.0% |
| !!! | TTGATTTGCACTTTATAATT+TGG | + | chr4.2:3837246-3837265 | MS.gene06123:intron | 20.0% |
| ! | AAATTCATTGCAGTAAAACT+AGG | + | chr4.2:3836886-3836905 | MS.gene06123:intron | 25.0% |
| ! | AAGATAAAAGAAGTCAATGA+AGG | + | chr4.2:3837439-3837458 | MS.gene06123:CDS | 25.0% |
| ! | AGATAAAAGAAGTCAATGAA+GGG | + | chr4.2:3837440-3837459 | MS.gene06123:CDS | 25.0% |
| ! | AGTTTGATATGTTAAAGTTG+AGG | - | chr4.2:3837327-3837346 | None:intergenic | 25.0% |
| ! | ATACTACTAATATATTGACG+TGG | + | chr4.2:3836449-3836468 | MS.gene06123:intron | 25.0% |
| ! | ATGTAATTAATTGAAGGTTG+TGG | - | chr4.2:3836387-3836406 | None:intergenic | 25.0% |
| ! | TAATAATTACGTACCTTGTA+CGG | - | chr4.2:3837171-3837190 | None:intergenic | 25.0% |
| ! | TATTTACCTCACAAATTAAC+TGG | + | chr4.2:3836592-3836611 | MS.gene06123:intron | 25.0% |
| !! | ACTACAAAATGCAACTTTTT+GGG | - | chr4.2:3837097-3837116 | None:intergenic | 25.0% |
| !! | TAGATTAGTTATGTGTTAGT+TGG | + | chr4.2:3836714-3836733 | MS.gene06123:intron | 25.0% |
| !!! | AATATTTTTGGTATGCAAGA+AGG | + | chr4.2:3836994-3837013 | MS.gene06123:CDS | 25.0% |
| !!! | GATTCTGAATTTTGGTTTAT+GGG | + | chr4.2:3837514-3837533 | MS.gene06123:CDS | 25.0% |
| !!! | TGATTCTGAATTTTGGTTTA+TGG | + | chr4.2:3837513-3837532 | MS.gene06123:CDS | 25.0% |
| ATAGTAATAGAGCTTATGAG+TGG | + | chr4.2:3837221-3837240 | MS.gene06123:intron | 30.0% | |
| ATGAATTCTTCTACTTCTAC+AGG | + | chr4.2:3836339-3836358 | MS.gene06123:CDS | 30.0% | |
| CTCATAAGCTCTATTACTAT+TGG | - | chr4.2:3837221-3837240 | None:intergenic | 30.0% | |
| TATTAACTGTTTCGGTATCA+AGG | + | chr4.2:3837370-3837389 | MS.gene06123:intron | 30.0% | |
| TCGGTATCAAGGATTTAATT+AGG | + | chr4.2:3837381-3837400 | MS.gene06123:intron | 30.0% | |
| TGATATGTTAAAGTTGAGGT+CGG | - | chr4.2:3837323-3837342 | None:intergenic | 30.0% | |
| TGTGAGGTAAATATTTAGAG+AGG | - | chr4.2:3836585-3836604 | None:intergenic | 30.0% | |
| ! | ACTTCTTTTATCTTCCCAAT+AGG | - | chr4.2:3837433-3837452 | None:intergenic | 30.0% |
| ! | CACTACAAAATGCAACTTTT+TGG | - | chr4.2:3837098-3837117 | None:intergenic | 30.0% |
| AAACTATCAGAGACTCTGAA+GGG | + | chr4.2:3836913-3836932 | MS.gene06123:CDS | 35.0% | |
| AATCCTACATGCAAAACTTC+TGG | - | chr4.2:3836544-3836563 | None:intergenic | 35.0% | |
| AGAAACTGCAACTGCTAAAA+TGG | + | chr4.2:3836491-3836510 | MS.gene06123:CDS | 35.0% | |
| ATGAAAAGAACTCCAGCAAT+AGG | - | chr4.2:3837069-3837088 | None:intergenic | 35.0% | |
| CAAGGATAATACAAGAAGGT+GGG | + | chr4.2:3836953-3836972 | MS.gene06123:CDS | 35.0% | |
| TAAACTATCAGAGACTCTGA+AGG | + | chr4.2:3836912-3836931 | MS.gene06123:CDS | 35.0% | |
| TTCAGAGTCTCTGATAGTTT+AGG | - | chr4.2:3836913-3836932 | None:intergenic | 35.0% | |
| TTTAGCAGTTGCAGTTTCTT+TGG | - | chr4.2:3836490-3836509 | None:intergenic | 35.0% | |
| ! | AAACCAGAAGTTTTGCATGT+AGG | + | chr4.2:3836538-3836557 | MS.gene06123:CDS | 35.0% |
| ! | CTCACGATGATTCTGAATTT+TGG | + | chr4.2:3837506-3837525 | MS.gene06123:CDS | 35.0% |
| ! | TACGCTATGAGAAAGCTTTT+AGG | + | chr4.2:3837542-3837561 | MS.gene06123:CDS | 35.0% |
| ! | TATGTGTTAGTTGGTCTACT+TGG | + | chr4.2:3836723-3836742 | MS.gene06123:intron | 35.0% |
| ! | TGTTACTTATACACAACAGC+TGG | + | chr4.2:3837042-3837061 | MS.gene06123:CDS | 35.0% |
| ! | TTAGGTGCATTTTACTATGC+AGG | + | chr4.2:3837399-3837418 | MS.gene06123:intron | 35.0% |
| !! | ACAAAATGCAACTTTTTGGG+TGG | - | chr4.2:3837094-3837113 | None:intergenic | 35.0% |
| !! | ATGCAGGTTTTGATACCTAT+TGG | + | chr4.2:3837415-3837434 | MS.gene06123:intron | 35.0% |
| !! | TGCAGGTTTTGATACCTATT+GGG | + | chr4.2:3837416-3837435 | MS.gene06123:intron | 35.0% |
| AACCTTCTCTTCTGCATCAA+CGG | + | chr4.2:3837128-3837147 | MS.gene06123:CDS | 40.0% | |
| ATAATACAAGAAGGTGGGAG+AGG | + | chr4.2:3836958-3836977 | MS.gene06123:CDS | 40.0% | |
| GATGCAGAAGAGAAGGTTAT+TGG | - | chr4.2:3837126-3837145 | None:intergenic | 40.0% | |
| GCAAGGATAATACAAGAAGG+TGG | + | chr4.2:3836952-3836971 | MS.gene06123:CDS | 40.0% | |
| GCATGTAGGATTCATGAACA+TGG | + | chr4.2:3836552-3836571 | MS.gene06123:CDS | 40.0% | |
| GGTGCAAGGATAATACAAGA+AGG | + | chr4.2:3836949-3836968 | MS.gene06123:CDS | 40.0% | |
| TAATACAAGAAGGTGGGAGA+GGG | + | chr4.2:3836959-3836978 | MS.gene06123:CDS | 40.0% | |
| ! | CTGAAGGGTAAGTTGAGTTT+GGG | + | chr4.2:3836928-3836947 | MS.gene06123:CDS | 40.0% |
| ! | TCTGAAGGGTAAGTTGAGTT+TGG | + | chr4.2:3836927-3836946 | MS.gene06123:CDS | 40.0% |
| !! | AGAAGGAGAGAAAGTGTTGA+AGG | + | chr4.2:3837011-3837030 | MS.gene06123:CDS | 40.0% |
| !! | CAGTAGCCAGTTAATTTGTG+AGG | - | chr4.2:3836601-3836620 | None:intergenic | 40.0% |
| !!! | TGCAAAACTTCTGGTTTTCC+TGG | - | chr4.2:3836535-3836554 | None:intergenic | 40.0% |
| ACCTTCTCTTCTGCATCAAC+GGG | + | chr4.2:3837129-3837148 | MS.gene06123:CDS | 45.0% | |
| AGCACAAGAAAGCAACAACC+AGG | + | chr4.2:3836514-3836533 | MS.gene06123:CDS | 45.0% | |
| TGAAGGGCAGAATGTGAATC+AGG | + | chr4.2:3837456-3837475 | MS.gene06123:CDS | 45.0% | |
| ! | GTAAGTTGAGTTTGGGTGCA+AGG | + | chr4.2:3836935-3836954 | MS.gene06123:CDS | 45.0% |
| !!! | AATAATCAATATTTTTTTTA+GGG | + | chr4.2:3836787-3836806 | MS.gene06123:intron | 5.0% |
| !!! | TAATAATCAATATTTTTTTT+AGG | + | chr4.2:3836786-3836805 | MS.gene06123:intron | 5.0% |
| ACAACAGCTGGTCCTATTGC+TGG | + | chr4.2:3837054-3837073 | MS.gene06123:CDS | 50.0% | |
| TCCCGTTGATGCAGAAGAGA+AGG | - | chr4.2:3837133-3837152 | None:intergenic | 50.0% | |
| GACGCGCAAGATACCGTACA+AGG | + | chr4.2:3837155-3837174 | MS.gene06123:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.2 | gene | 3836339 | 3837597 | 3836339 | ID=MS.gene06123 |
| chr4.2 | mRNA | 3836339 | 3837597 | 3836339 | ID=MS.gene06123.t1;Parent=MS.gene06123 |
| chr4.2 | exon | 3836339 | 3836360 | 3836339 | ID=MS.gene06123.t1.exon1;Parent=MS.gene06123.t1 |
| chr4.2 | CDS | 3836339 | 3836360 | 3836339 | ID=cds.MS.gene06123.t1;Parent=MS.gene06123.t1 |
| chr4.2 | exon | 3836487 | 3836573 | 3836487 | ID=MS.gene06123.t1.exon2;Parent=MS.gene06123.t1 |
| chr4.2 | CDS | 3836487 | 3836573 | 3836487 | ID=cds.MS.gene06123.t1;Parent=MS.gene06123.t1 |
| chr4.2 | exon | 3836899 | 3837176 | 3836899 | ID=MS.gene06123.t1.exon3;Parent=MS.gene06123.t1 |
| chr4.2 | CDS | 3836899 | 3837176 | 3836899 | ID=cds.MS.gene06123.t1;Parent=MS.gene06123.t1 |
| chr4.2 | exon | 3837421 | 3837597 | 3837421 | ID=MS.gene06123.t1.exon4;Parent=MS.gene06123.t1 |
| chr4.2 | CDS | 3837421 | 3837597 | 3837421 | ID=cds.MS.gene06123.t1;Parent=MS.gene06123.t1 |
| Gene Sequence |
| Protein sequence |
