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.gene55842.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.gene55842.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.gene55842.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.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.gene55842.t1 | MTR_8g100065 | 95.745 | 188 | 5 | 2 | 1 | 187 | 1 | 186 | 2.13e-131 | 366 |
| MS.gene55842.t1 | MTR_8g100065 | 97.093 | 172 | 5 | 0 | 16 | 187 | 37 | 208 | 1.06e-125 | 352 |
| MS.gene55842.t1 | MTR_6g077990 | 76.966 | 178 | 39 | 2 | 10 | 186 | 23 | 199 | 5.76e-95 | 275 |
| MS.gene55842.t1 | MTR_6g077990 | 79.290 | 169 | 33 | 2 | 19 | 186 | 31 | 198 | 1.18e-93 | 271 |
| MS.gene55842.t1 | MTR_6g077990 | 78.846 | 156 | 32 | 1 | 31 | 186 | 2 | 156 | 2.57e-87 | 253 |
| MS.gene55842.t1 | MTR_8g100065 | 93.893 | 131 | 5 | 2 | 1 | 130 | 1 | 129 | 1.79e-84 | 245 |
| MS.gene55842.t1 | MTR_8g100065 | 95.652 | 115 | 5 | 0 | 16 | 130 | 37 | 151 | 6.19e-79 | 232 |
| MS.gene55842.t1 | MTR_1g033750 | 53.261 | 184 | 85 | 1 | 3 | 186 | 41 | 223 | 9.38e-67 | 204 |
| MS.gene55842.t1 | MTR_1g114640 | 60.000 | 160 | 63 | 1 | 24 | 183 | 60 | 218 | 1.65e-63 | 196 |
| MS.gene55842.t1 | MTR_6g077990 | 79.130 | 115 | 22 | 2 | 19 | 132 | 31 | 144 | 1.13e-58 | 181 |
| MS.gene55842.t1 | MTR_1g114690 | 52.071 | 169 | 80 | 1 | 18 | 186 | 51 | 218 | 2.73e-56 | 177 |
| MS.gene55842.t1 | MTR_1g114690 | 51.497 | 167 | 80 | 1 | 18 | 184 | 51 | 216 | 6.94e-56 | 176 |
| MS.gene55842.t1 | MTR_1g114750 | 46.409 | 181 | 96 | 1 | 6 | 186 | 42 | 221 | 1.79e-55 | 175 |
| MS.gene55842.t1 | MTR_1g115130 | 52.667 | 150 | 70 | 1 | 37 | 186 | 46 | 194 | 1.07e-50 | 162 |
| MS.gene55842.t1 | MTR_1g114690 | 43.781 | 201 | 78 | 2 | 18 | 184 | 51 | 250 | 5.32e-49 | 159 |
| MS.gene55842.t1 | MTR_7g083570 | 41.975 | 162 | 93 | 1 | 23 | 184 | 115 | 275 | 4.01e-42 | 143 |
| MS.gene55842.t1 | MTR_3g100750 | 36.538 | 156 | 97 | 1 | 28 | 183 | 102 | 255 | 1.75e-39 | 135 |
| MS.gene55842.t1 | MTR_1g114640 | 60.185 | 108 | 42 | 1 | 24 | 131 | 60 | 166 | 3.51e-39 | 132 |
| MS.gene55842.t1 | MTR_8g069110 | 37.888 | 161 | 98 | 1 | 23 | 183 | 109 | 267 | 6.90e-39 | 134 |
| MS.gene55842.t1 | MTR_1g114680 | 60.000 | 110 | 43 | 1 | 75 | 184 | 53 | 161 | 9.26e-38 | 129 |
| MS.gene55842.t1 | MTR_2g076350 | 35.802 | 162 | 102 | 2 | 23 | 183 | 65 | 225 | 1.85e-31 | 114 |
| MS.gene55842.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.gene55842.t1 | AT5G23370 | 54.878 | 164 | 73 | 1 | 24 | 187 | 55 | 217 | 1.78e-59 | 185 |
| MS.gene55842.t1 | AT5G08350 | 54.878 | 164 | 73 | 1 | 24 | 187 | 54 | 216 | 1.14e-58 | 183 |
| MS.gene55842.t1 | AT5G23350 | 54.658 | 161 | 72 | 1 | 24 | 184 | 55 | 214 | 8.10e-57 | 178 |
| MS.gene55842.t1 | AT5G23360 | 52.174 | 161 | 76 | 1 | 24 | 184 | 47 | 206 | 7.99e-55 | 173 |
| MS.gene55842.t1 | AT5G13200 | 39.506 | 162 | 97 | 1 | 23 | 184 | 101 | 261 | 1.72e-40 | 138 |
| MS.gene55842.t1 | AT1G28200 | 37.267 | 161 | 99 | 1 | 23 | 183 | 96 | 254 | 1.21e-39 | 135 |
| MS.gene55842.t1 | AT1G28200 | 37.267 | 161 | 99 | 1 | 23 | 183 | 96 | 254 | 1.21e-39 | 135 |
| MS.gene55842.t1 | AT4G01600 | 37.654 | 162 | 101 | 0 | 22 | 183 | 24 | 185 | 9.56e-39 | 131 |
| MS.gene55842.t1 | AT2G22475 | 35.625 | 160 | 101 | 1 | 24 | 183 | 134 | 291 | 1.24e-38 | 134 |
| MS.gene55842.t1 | AT4G01600 | 37.888 | 161 | 100 | 0 | 23 | 183 | 64 | 224 | 2.69e-38 | 131 |
| MS.gene55842.t1 | AT4G01600 | 39.456 | 147 | 89 | 0 | 37 | 183 | 73 | 219 | 1.07e-35 | 125 |
| MS.gene55842.t1 | AT5G13200 | 41.584 | 101 | 59 | 0 | 23 | 123 | 101 | 201 | 4.60e-24 | 94.4 |
| MS.gene55842.t1 | AT2G22475 | 33.333 | 117 | 76 | 1 | 24 | 140 | 134 | 248 | 8.55e-21 | 86.7 |
| MS.gene55842.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 | 4.3:+4049296 | MS.gene55842:CDS |
| TTTAGCAGTTGCAGTTTCTT+TGG | 0.245252 | 4.3:-4048279 | None:intergenic |
| AGAAACTGCAACTGCTAAAA+TGG | 0.264589 | 4.3:+4048283 | MS.gene55842:CDS |
| CAATGTGCAGTAGGGCTAAA+TGG | 0.279415 | 4.3:-4049380 | None:intergenic |
| GATGCAGAAGAGAAGGTTAT+TGG | 0.316549 | 4.3:-4048913 | None:intergenic |
| TCTGAAGGGTAAGTTGAGTT+TGG | 0.345403 | 4.3:+4048717 | MS.gene55842:CDS |
| AATCCTACATGCAAAACTTC+TGG | 0.347012 | 4.3:-4048333 | None:intergenic |
| TTCAGAGTCTCTGATAGTTT+AGG | 0.396250 | 4.3:-4048700 | None:intergenic |
| CTGAAGGGTAAGTTGAGTTT+GGG | 0.410973 | 4.3:+4048718 | MS.gene55842:CDS |
| ACAACAGCTGGTCCTATTGC+TGG | 0.416930 | 4.3:+4048844 | MS.gene55842:CDS |
| TGAAGGGCAGAATGTGAATC+AGG | 0.430005 | 4.3:+4049246 | MS.gene55842:CDS |
| ACCTTCTCTTCTGCATCAAC+GGG | 0.443671 | 4.3:+4048919 | MS.gene55842:CDS |
| ATGAAAAGAACTCCAGCAAT+AGG | 0.446868 | 4.3:-4048856 | None:intergenic |
| ATGAATTCTTCTACTTCTAC+AGG | 0.454002 | 4.3:+4048131 | MS.gene55842:CDS |
| TAATAATTACGTACCTTGTA+CGG | 0.463291 | 4.3:-4048958 | None:intergenic |
| AACCTTCTCTTCTGCATCAA+CGG | 0.469610 | 4.3:+4048918 | MS.gene55842:CDS |
| GGGCTAAATGGACATTGAAA+TGG | 0.476559 | 4.3:-4049368 | None:intergenic |
| GTAAGTTGAGTTTGGGTGCA+AGG | 0.498584 | 4.3:+4048725 | MS.gene55842:CDS |
| AAGATAAAAGAAGTCAATGA+AGG | 0.502485 | 4.3:+4049229 | MS.gene55842:CDS |
| AGAAGGAGAGAAAGTGTTGA+AGG | 0.521050 | 4.3:+4048801 | MS.gene55842:CDS |
| ATAATACAAGAAGGTGGGAG+AGG | 0.525733 | 4.3:+4048748 | MS.gene55842:CDS |
| TGTTACTTATACACAACAGC+TGG | 0.553623 | 4.3:+4048832 | MS.gene55842:CDS |
| AAATTCATTGCAGTAAAACT+AGG | 0.557356 | 4.3:+4048676 | MS.gene55842:intron |
| TCCCGTTGATGCAGAAGAGA+AGG | 0.582493 | 4.3:-4048920 | None:intergenic |
| AGCACAAGAAAGCAACAACC+AGG | 0.598769 | 4.3:+4048306 | MS.gene55842:CDS |
| GCAAGGATAATACAAGAAGG+TGG | 0.599451 | 4.3:+4048742 | MS.gene55842:CDS |
| TAATACAAGAAGGTGGGAGA+GGG | 0.599558 | 4.3:+4048749 | MS.gene55842:CDS |
| TAAACTATCAGAGACTCTGA+AGG | 0.601920 | 4.3:+4048702 | MS.gene55842:CDS |
| GCATGTAGGATTCATGAACA+TGG | 0.604739 | 4.3:+4048344 | MS.gene55842:CDS |
| CAAGGATAATACAAGAAGGT+GGG | 0.615352 | 4.3:+4048743 | MS.gene55842:CDS |
| AGATAAAAGAAGTCAATGAA+GGG | 0.635091 | 4.3:+4049230 | MS.gene55842:CDS |
| GACGCGCAAGATACCGTACA+AGG | 0.636816 | 4.3:+4048945 | MS.gene55842:CDS |
| AAACTATCAGAGACTCTGAA+GGG | 0.658037 | 4.3:+4048703 | MS.gene55842:CDS |
| GGTGCAAGGATAATACAAGA+AGG | 0.670404 | 4.3:+4048739 | MS.gene55842:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATAATCAATATTTTTTTTAG+GGG | + | chr4.3:4048579-4048598 | MS.gene55842:intron | 10.0% |
| !!! | AACATTTTCAAGAATATTTT+TGG | + | chr4.3:4048772-4048791 | MS.gene55842:CDS | 15.0% |
| !!! | ATAATTTGGTTTATTGATTT+AGG | + | chr4.3:4049050-4049069 | MS.gene55842:intron | 15.0% |
| !!! | TTTTGAATGTAATTAATTGA+AGG | - | chr4.3:4048185-4048204 | None:intergenic | 15.0% |
| !! | TAAGAGAGAAAGAAAAAAAA+AGG | - | chr4.3:4048620-4048639 | None:intergenic | 20.0% |
| !!! | ATTTGTTGTATTAACTGTTT+CGG | + | chr4.3:4049152-4049171 | MS.gene55842:intron | 20.0% |
| !!! | TTGATTTGCACTTTATAATT+TGG | + | chr4.3:4049036-4049055 | MS.gene55842:intron | 20.0% |
| ! | AAATTCATTGCAGTAAAACT+AGG | + | chr4.3:4048676-4048695 | MS.gene55842:intron | 25.0% |
| ! | AAGATAAAAGAAGTCAATGA+AGG | + | chr4.3:4049229-4049248 | MS.gene55842:CDS | 25.0% |
| ! | AGATAAAAGAAGTCAATGAA+GGG | + | chr4.3:4049230-4049249 | MS.gene55842:CDS | 25.0% |
| ! | AGTTTGATATGTTAAAGTTG+AGG | - | chr4.3:4049117-4049136 | None:intergenic | 25.0% |
| ! | ATACTACTAATATATTGACG+TGG | + | chr4.3:4048241-4048260 | MS.gene55842:intron | 25.0% |
| ! | ATGTAATTAATTGAAGGTTG+TGG | - | chr4.3:4048179-4048198 | None:intergenic | 25.0% |
| ! | TAATAATTACGTACCTTGTA+CGG | - | chr4.3:4048961-4048980 | None:intergenic | 25.0% |
| ! | TATTTACCTCACAAATTAAC+TGG | + | chr4.3:4048384-4048403 | MS.gene55842:intron | 25.0% |
| !! | ACTACAAAATGCAACTTTTT+GGG | - | chr4.3:4048887-4048906 | None:intergenic | 25.0% |
| !! | TAGATTAGTTATGTGTTAGT+TGG | + | chr4.3:4048506-4048525 | MS.gene55842:intron | 25.0% |
| !!! | AATATTTTTGGTATGCAAGA+AGG | + | chr4.3:4048784-4048803 | MS.gene55842:CDS | 25.0% |
| !!! | GATTCTGAATTTTGGTTTAT+GGG | + | chr4.3:4049304-4049323 | MS.gene55842:CDS | 25.0% |
| !!! | TGATTCTGAATTTTGGTTTA+TGG | + | chr4.3:4049303-4049322 | MS.gene55842:CDS | 25.0% |
| ATAGTAATAGAGCTTATGAG+TGG | + | chr4.3:4049011-4049030 | MS.gene55842:intron | 30.0% | |
| ATGAATTCTTCTACTTCTAC+AGG | + | chr4.3:4048131-4048150 | MS.gene55842:CDS | 30.0% | |
| CTCATAAGCTCTATTACTAT+TGG | - | chr4.3:4049011-4049030 | None:intergenic | 30.0% | |
| TATTAACTGTTTCGGTATCA+AGG | + | chr4.3:4049160-4049179 | MS.gene55842:intron | 30.0% | |
| TCGGTATCAAGGATTTAATT+AGG | + | chr4.3:4049171-4049190 | MS.gene55842:intron | 30.0% | |
| TGATATGTTAAAGTTGAGGT+CGG | - | chr4.3:4049113-4049132 | None:intergenic | 30.0% | |
| TGTGAGGTAAATATTTAGAG+AGG | - | chr4.3:4048377-4048396 | None:intergenic | 30.0% | |
| ! | ACTTCTTTTATCTTCCCAAT+AGG | - | chr4.3:4049223-4049242 | None:intergenic | 30.0% |
| ! | CACTACAAAATGCAACTTTT+TGG | - | chr4.3:4048888-4048907 | None:intergenic | 30.0% |
| AAACTATCAGAGACTCTGAA+GGG | + | chr4.3:4048703-4048722 | MS.gene55842:CDS | 35.0% | |
| AATCCTACATGCAAAACTTC+TGG | - | chr4.3:4048336-4048355 | None:intergenic | 35.0% | |
| AGAAACTGCAACTGCTAAAA+TGG | + | chr4.3:4048283-4048302 | MS.gene55842:CDS | 35.0% | |
| ATGAAAAGAACTCCAGCAAT+AGG | - | chr4.3:4048859-4048878 | None:intergenic | 35.0% | |
| CAAGGATAATACAAGAAGGT+GGG | + | chr4.3:4048743-4048762 | MS.gene55842:CDS | 35.0% | |
| TAAACTATCAGAGACTCTGA+AGG | + | chr4.3:4048702-4048721 | MS.gene55842:CDS | 35.0% | |
| TTCAGAGTCTCTGATAGTTT+AGG | - | chr4.3:4048703-4048722 | None:intergenic | 35.0% | |
| TTTAGCAGTTGCAGTTTCTT+TGG | - | chr4.3:4048282-4048301 | None:intergenic | 35.0% | |
| ! | AAACCAGAAGTTTTGCATGT+AGG | + | chr4.3:4048330-4048349 | MS.gene55842:CDS | 35.0% |
| ! | CTCACGATGATTCTGAATTT+TGG | + | chr4.3:4049296-4049315 | MS.gene55842:CDS | 35.0% |
| ! | TACGCTATGAGAAAGCTTTT+AGG | + | chr4.3:4049332-4049351 | MS.gene55842:CDS | 35.0% |
| ! | TATGTGTTAGTTGGTCTACT+TGG | + | chr4.3:4048515-4048534 | MS.gene55842:intron | 35.0% |
| ! | TGTTACTTATACACAACAGC+TGG | + | chr4.3:4048832-4048851 | MS.gene55842:CDS | 35.0% |
| ! | TTAGGTGCATTTTACTATGC+AGG | + | chr4.3:4049189-4049208 | MS.gene55842:intron | 35.0% |
| !! | ACAAAATGCAACTTTTTGGG+TGG | - | chr4.3:4048884-4048903 | None:intergenic | 35.0% |
| !! | ATGCAGGTTTTGATACCTAT+TGG | + | chr4.3:4049205-4049224 | MS.gene55842:intron | 35.0% |
| !! | TGCAGGTTTTGATACCTATT+GGG | + | chr4.3:4049206-4049225 | MS.gene55842:intron | 35.0% |
| AACCTTCTCTTCTGCATCAA+CGG | + | chr4.3:4048918-4048937 | MS.gene55842:CDS | 40.0% | |
| ATAATACAAGAAGGTGGGAG+AGG | + | chr4.3:4048748-4048767 | MS.gene55842:CDS | 40.0% | |
| GATGCAGAAGAGAAGGTTAT+TGG | - | chr4.3:4048916-4048935 | None:intergenic | 40.0% | |
| GCAAGGATAATACAAGAAGG+TGG | + | chr4.3:4048742-4048761 | MS.gene55842:CDS | 40.0% | |
| GCATGTAGGATTCATGAACA+TGG | + | chr4.3:4048344-4048363 | MS.gene55842:CDS | 40.0% | |
| GGTGCAAGGATAATACAAGA+AGG | + | chr4.3:4048739-4048758 | MS.gene55842:CDS | 40.0% | |
| TAATACAAGAAGGTGGGAGA+GGG | + | chr4.3:4048749-4048768 | MS.gene55842:CDS | 40.0% | |
| ! | CTGAAGGGTAAGTTGAGTTT+GGG | + | chr4.3:4048718-4048737 | MS.gene55842:CDS | 40.0% |
| ! | TCTGAAGGGTAAGTTGAGTT+TGG | + | chr4.3:4048717-4048736 | MS.gene55842:CDS | 40.0% |
| !! | AGAAGGAGAGAAAGTGTTGA+AGG | + | chr4.3:4048801-4048820 | MS.gene55842:CDS | 40.0% |
| !! | CAGTAGCCAGTTAATTTGTG+AGG | - | chr4.3:4048393-4048412 | None:intergenic | 40.0% |
| !!! | TGCAAAACTTCTGGTTTTCC+TGG | - | chr4.3:4048327-4048346 | None:intergenic | 40.0% |
| ACCTTCTCTTCTGCATCAAC+GGG | + | chr4.3:4048919-4048938 | MS.gene55842:CDS | 45.0% | |
| AGCACAAGAAAGCAACAACC+AGG | + | chr4.3:4048306-4048325 | MS.gene55842:CDS | 45.0% | |
| TGAAGGGCAGAATGTGAATC+AGG | + | chr4.3:4049246-4049265 | MS.gene55842:CDS | 45.0% | |
| ! | GTAAGTTGAGTTTGGGTGCA+AGG | + | chr4.3:4048725-4048744 | MS.gene55842:CDS | 45.0% |
| !!! | AATAATCAATATTTTTTTTA+GGG | + | chr4.3:4048578-4048597 | MS.gene55842:intron | 5.0% |
| !!! | TAATAATCAATATTTTTTTT+AGG | + | chr4.3:4048577-4048596 | MS.gene55842:intron | 5.0% |
| ACAACAGCTGGTCCTATTGC+TGG | + | chr4.3:4048844-4048863 | MS.gene55842:CDS | 50.0% | |
| TCCCGTTGATGCAGAAGAGA+AGG | - | chr4.3:4048923-4048942 | None:intergenic | 50.0% | |
| GACGCGCAAGATACCGTACA+AGG | + | chr4.3:4048945-4048964 | MS.gene55842:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.3 | gene | 4048131 | 4049387 | 4048131 | ID=MS.gene55842 |
| chr4.3 | mRNA | 4048131 | 4049387 | 4048131 | ID=MS.gene55842.t1;Parent=MS.gene55842 |
| chr4.3 | exon | 4048131 | 4048152 | 4048131 | ID=MS.gene55842.t1.exon1;Parent=MS.gene55842.t1 |
| chr4.3 | CDS | 4048131 | 4048152 | 4048131 | ID=cds.MS.gene55842.t1;Parent=MS.gene55842.t1 |
| chr4.3 | exon | 4048279 | 4048365 | 4048279 | ID=MS.gene55842.t1.exon2;Parent=MS.gene55842.t1 |
| chr4.3 | CDS | 4048279 | 4048365 | 4048279 | ID=cds.MS.gene55842.t1;Parent=MS.gene55842.t1 |
| chr4.3 | exon | 4048689 | 4048966 | 4048689 | ID=MS.gene55842.t1.exon3;Parent=MS.gene55842.t1 |
| chr4.3 | CDS | 4048689 | 4048966 | 4048689 | ID=cds.MS.gene55842.t1;Parent=MS.gene55842.t1 |
| chr4.3 | exon | 4049211 | 4049387 | 4049211 | ID=MS.gene55842.t1.exon4;Parent=MS.gene55842.t1 |
| chr4.3 | CDS | 4049211 | 4049387 | 4049211 | ID=cds.MS.gene55842.t1;Parent=MS.gene55842.t1 |
| Gene Sequence |
| Protein sequence |
