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.gene26141.t1 | XP_003616209.1 | 96.7 | 239 | 6 | 2 | 1 | 239 | 1 | 237 | 9.60E-123 | 449.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene26141.t1 | Q39263 | 49.2 | 183 | 56 | 9 | 89 | 239 | 83 | 260 | 6.7e-32 | 139.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene26141.t1 | G7KFY0 | 96.7 | 239 | 6 | 2 | 1 | 239 | 1 | 237 | 6.9e-123 | 449.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene26141.t1 | TF | C2H2 |
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.gene26141.t1 | MTR_5g077370 | 96.653 | 239 | 6 | 2 | 1 | 239 | 1 | 237 | 7.74e-173 | 475 |
| MS.gene26141.t1 | MTR_3g065020 | 57.430 | 249 | 85 | 8 | 1 | 239 | 1 | 238 | 5.37e-83 | 248 |
| MS.gene26141.t1 | MTR_1g033340 | 44.231 | 260 | 107 | 10 | 4 | 239 | 6 | 251 | 4.30e-58 | 185 |
| MS.gene26141.t1 | MTR_2g104900 | 66.234 | 77 | 18 | 3 | 88 | 157 | 80 | 155 | 2.02e-26 | 103 |
| MS.gene26141.t1 | MTR_1g013130 | 32.812 | 256 | 120 | 11 | 14 | 239 | 29 | 262 | 6.07e-24 | 96.7 |
| MS.gene26141.t1 | MTR_1g107055 | 38.889 | 144 | 73 | 5 | 66 | 205 | 41 | 173 | 3.63e-23 | 93.2 |
| MS.gene26141.t1 | MTR_4g006575 | 47.154 | 123 | 54 | 3 | 38 | 158 | 16 | 129 | 7.99e-20 | 85.1 |
| MS.gene26141.t1 | MTR_4g006600 | 47.154 | 123 | 54 | 3 | 38 | 158 | 16 | 129 | 7.99e-20 | 85.1 |
| MS.gene26141.t1 | MTR_3g106230 | 41.045 | 134 | 57 | 5 | 43 | 155 | 22 | 154 | 4.06e-19 | 83.2 |
| MS.gene26141.t1 | MTR_4g128340 | 64.912 | 57 | 17 | 1 | 89 | 145 | 45 | 98 | 2.58e-16 | 74.3 |
| MS.gene26141.t1 | MTR_8g466760 | 47.778 | 90 | 33 | 7 | 89 | 169 | 98 | 182 | 6.83e-13 | 67.0 |
| MS.gene26141.t1 | MTR_7g083210 | 69.697 | 33 | 10 | 0 | 89 | 121 | 39 | 71 | 3.33e-11 | 60.8 |
| MS.gene26141.t1 | MTR_7g086860 | 64.865 | 37 | 13 | 0 | 89 | 125 | 30 | 66 | 4.05e-11 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene26141.t1 | AT1G66140 | 49.180 | 183 | 56 | 9 | 89 | 239 | 83 | 260 | 9.61e-43 | 145 |
| MS.gene26141.t1 | AT1G24625 | 39.286 | 224 | 79 | 12 | 35 | 239 | 24 | 209 | 1.03e-31 | 115 |
| MS.gene26141.t1 | AT1G80730 | 60.227 | 88 | 18 | 2 | 88 | 158 | 65 | 152 | 1.87e-24 | 97.4 |
| MS.gene26141.t1 | AT5G25160 | 46.491 | 114 | 54 | 4 | 82 | 188 | 52 | 165 | 8.80e-24 | 95.9 |
| MS.gene26141.t1 | AT5G10970 | 56.098 | 82 | 29 | 3 | 82 | 158 | 95 | 174 | 1.01e-21 | 91.3 |
| MS.gene26141.t1 | AT5G57520 | 79.487 | 39 | 8 | 0 | 88 | 126 | 49 | 87 | 9.63e-16 | 72.4 |
| MS.gene26141.t1 | AT5G14010 | 69.444 | 36 | 11 | 0 | 89 | 124 | 36 | 71 | 1.14e-12 | 64.3 |
| MS.gene26141.t1 | AT5G01860 | 44.615 | 65 | 31 | 1 | 58 | 122 | 39 | 98 | 5.16e-11 | 60.8 |
| MS.gene26141.t1 | AT1G67030 | 43.038 | 79 | 33 | 3 | 71 | 146 | 18 | 87 | 5.60e-11 | 60.5 |
Find 29 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGGATTTGTGATGTTGTAAA+AGG | 0.238996 | 5.4:-57173820 | None:intergenic |
| TCCTCATCTTCCAAGAATAT+TGG | 0.301130 | 5.4:-57174287 | None:intergenic |
| ACAAGAGATTCAAATTCAAT+AGG | 0.312010 | 5.4:+57173903 | MS.gene26141:CDS |
| GTTTCTCACCAACAACAATT+AGG | 0.315395 | 5.4:+57174204 | MS.gene26141:CDS |
| CAAAGTTTCAATGTCAAATC+TGG | 0.316382 | 5.4:-57174422 | None:intergenic |
| AGAGATATATCATATGAATT+AGG | 0.358518 | 5.4:-57173840 | None:intergenic |
| GGAATTGTTGCTGCTGCTGC+AGG | 0.371101 | 5.4:-57173966 | None:intergenic |
| CAAGAGATTCAAATTCAATA+GGG | 0.379098 | 5.4:+57173904 | MS.gene26141:CDS |
| TGTTGGATTTCCAATATTCT+TGG | 0.388274 | 5.4:+57174277 | MS.gene26141:CDS |
| GAATTTGAATCTCTTGTTGT+TGG | 0.420518 | 5.4:-57173897 | None:intergenic |
| GCACACTCTTCAATGCACTA+TGG | 0.425583 | 5.4:+57174182 | MS.gene26141:CDS |
| TTCAGTTCTCAAGCTCTTGG+TGG | 0.434858 | 5.4:+57174026 | MS.gene26141:CDS |
| ATTTGACATTGAAACTTTGA+AGG | 0.446905 | 5.4:+57174426 | MS.gene26141:CDS |
| TATTTGCATGAGAAAACTCT+TGG | 0.472741 | 5.4:-57173987 | None:intergenic |
| TCCAATATTCTTGGAAGATG+AGG | 0.489945 | 5.4:+57174286 | MS.gene26141:CDS |
| TTCGAGCAACAAGGGTGTGT+TGG | 0.505986 | 5.4:+57174260 | MS.gene26141:CDS |
| TTAGCATCTTTACCTTTGCA+TGG | 0.510848 | 5.4:+57174134 | MS.gene26141:CDS |
| TTTCGACAAGAATCCGGGGC+GGG | 0.536078 | 5.4:+57174335 | MS.gene26141:CDS |
| GAGTCAAAGTTAATGTGGCC+AGG | 0.539222 | 5.4:+57174308 | MS.gene26141:CDS |
| CTGTTGAGCACCACCCGCCC+CGG | 0.541347 | 5.4:-57174348 | None:intergenic |
| TTGATACATTAGAATCAACT+TGG | 0.543408 | 5.4:-57173788 | None:intergenic |
| CGACAAGAATCCGGGGCGGG+TGG | 0.543660 | 5.4:+57174338 | MS.gene26141:CDS |
| TGATGAGGCCTAATTGTTGT+TGG | 0.553936 | 5.4:-57174212 | None:intergenic |
| GATTCTTGTCGAAAACTACC+TGG | 0.592240 | 5.4:-57174326 | None:intergenic |
| ATGAGGAGTCAAAGTTAATG+TGG | 0.619143 | 5.4:+57174303 | MS.gene26141:CDS |
| GACCTAAAAGAACCATGCAA+AGG | 0.631354 | 5.4:-57174146 | None:intergenic |
| ATATGAGATTCGAGCAACAA+GGG | 0.654483 | 5.4:+57174252 | MS.gene26141:CDS |
| TATATGAGATTCGAGCAACA+AGG | 0.660520 | 5.4:+57174251 | MS.gene26141:CDS |
| ACAGAATTTCATACTCACTG+AGG | 0.743093 | 5.4:+57174367 | MS.gene26141:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AGAGATATATCATATGAATT+AGG | - | chr5.4:57173843-57173862 | None:intergenic | 20.0% |
| ! | ACAAGAGATTCAAATTCAAT+AGG | + | chr5.4:57173903-57173922 | MS.gene26141:CDS | 25.0% |
| ! | CAAGAGATTCAAATTCAATA+GGG | + | chr5.4:57173904-57173923 | MS.gene26141:CDS | 25.0% |
| ! | TTGATACATTAGAATCAACT+TGG | - | chr5.4:57173791-57173810 | None:intergenic | 25.0% |
| !! | TTTCTCTTTTATGTGCATTT+TGG | - | chr5.4:57174055-57174074 | None:intergenic | 25.0% |
| AGGATTTGTGATGTTGTAAA+AGG | - | chr5.4:57173823-57173842 | None:intergenic | 30.0% | |
| CAAAGTTTCAATGTCAAATC+TGG | - | chr5.4:57174425-57174444 | None:intergenic | 30.0% | |
| TATTTGCATGAGAAAACTCT+TGG | - | chr5.4:57173990-57174009 | None:intergenic | 30.0% | |
| TGTTGGATTTCCAATATTCT+TGG | + | chr5.4:57174277-57174296 | MS.gene26141:CDS | 30.0% | |
| ! | GAATTTGAATCTCTTGTTGT+TGG | - | chr5.4:57173900-57173919 | None:intergenic | 30.0% |
| !! | ATGGTTCTTTTAGGTCATTA+GGG | + | chr5.4:57174153-57174172 | MS.gene26141:CDS | 30.0% |
| ACAGAATTTCATACTCACTG+AGG | + | chr5.4:57174367-57174386 | MS.gene26141:CDS | 35.0% | |
| AGCAAAAAGAGCTATGAGAA+TGG | + | chr5.4:57174082-57174101 | MS.gene26141:CDS | 35.0% | |
| ATATGAGATTCGAGCAACAA+GGG | + | chr5.4:57174252-57174271 | MS.gene26141:CDS | 35.0% | |
| ATGAGGAGTCAAAGTTAATG+TGG | + | chr5.4:57174303-57174322 | MS.gene26141:CDS | 35.0% | |
| GCAAAAAGAGCTATGAGAAT+GGG | + | chr5.4:57174083-57174102 | MS.gene26141:CDS | 35.0% | |
| GTTTCTCACCAACAACAATT+AGG | + | chr5.4:57174204-57174223 | MS.gene26141:CDS | 35.0% | |
| TATATGAGATTCGAGCAACA+AGG | + | chr5.4:57174251-57174270 | MS.gene26141:CDS | 35.0% | |
| TCCAATATTCTTGGAAGATG+AGG | + | chr5.4:57174286-57174305 | MS.gene26141:CDS | 35.0% | |
| TCCTCATCTTCCAAGAATAT+TGG | - | chr5.4:57174290-57174309 | None:intergenic | 35.0% | |
| TTAGCATCTTTACCTTTGCA+TGG | + | chr5.4:57174134-57174153 | MS.gene26141:CDS | 35.0% | |
| ! | GATTTTTCTCTGTCTACACA+TGG | - | chr5.4:57174398-57174417 | None:intergenic | 35.0% |
| ! | TACCTTTGCATGGTTCTTTT+AGG | + | chr5.4:57174144-57174163 | MS.gene26141:CDS | 35.0% |
| !! | CATGGTTCTTTTAGGTCATT+AGG | + | chr5.4:57174152-57174171 | MS.gene26141:CDS | 35.0% |
| !! | GTTTTCACTTCATGATGATG+AGG | - | chr5.4:57174230-57174249 | None:intergenic | 35.0% |
| !! | TTTTTCAGTTCTCAAGCTCT+TGG | + | chr5.4:57174023-57174042 | MS.gene26141:CDS | 35.0% |
| GACCTAAAAGAACCATGCAA+AGG | - | chr5.4:57174149-57174168 | None:intergenic | 40.0% | |
| GATTCTTGTCGAAAACTACC+TGG | - | chr5.4:57174329-57174348 | None:intergenic | 40.0% | |
| TGATGAGGCCTAATTGTTGT+TGG | - | chr5.4:57174215-57174234 | None:intergenic | 40.0% | |
| ! | GAATGGGAATGTTTTCTGAC+AGG | + | chr5.4:57174099-57174118 | MS.gene26141:CDS | 40.0% |
| ! | GGTAGTTTTCGACAAGAATC+CGG | + | chr5.4:57174329-57174348 | MS.gene26141:CDS | 40.0% |
| ! | GTAGTTTTCGACAAGAATCC+GGG | + | chr5.4:57174330-57174349 | MS.gene26141:CDS | 40.0% |
| ! | TAGTTTTCGACAAGAATCCG+GGG | + | chr5.4:57174331-57174350 | MS.gene26141:CDS | 40.0% |
| GAGTCAAAGTTAATGTGGCC+AGG | + | chr5.4:57174308-57174327 | MS.gene26141:CDS | 45.0% | |
| GCACACTCTTCAATGCACTA+TGG | + | chr5.4:57174182-57174201 | MS.gene26141:CDS | 45.0% | |
| TTCAGTTCTCAAGCTCTTGG+TGG | + | chr5.4:57174026-57174045 | MS.gene26141:CDS | 45.0% | |
| ! | TTCGAGCAACAAGGGTGTGT+TGG | + | chr5.4:57174260-57174279 | MS.gene26141:CDS | 50.0% |
| ! | TTTTCGACAAGAATCCGGGG+CGG | + | chr5.4:57174334-57174353 | MS.gene26141:CDS | 50.0% |
| GGAATTGTTGCTGCTGCTGC+AGG | - | chr5.4:57173969-57173988 | None:intergenic | 55.0% | |
| TTTCGACAAGAATCCGGGGC+GGG | + | chr5.4:57174335-57174354 | MS.gene26141:CDS | 55.0% | |
| CGACAAGAATCCGGGGCGGG+TGG | + | chr5.4:57174338-57174357 | MS.gene26141:CDS | 70.0% | |
| CTGTTGAGCACCACCCGCCC+CGG | - | chr5.4:57174351-57174370 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.4 | gene | 57173726 | 57174445 | 57173726 | ID=MS.gene26141 |
| chr5.4 | mRNA | 57173726 | 57174445 | 57173726 | ID=MS.gene26141.t1;Parent=MS.gene26141 |
| chr5.4 | exon | 57173726 | 57174445 | 57173726 | ID=MS.gene26141.t1.exon1;Parent=MS.gene26141.t1 |
| chr5.4 | CDS | 57173726 | 57174445 | 57173726 | ID=cds.MS.gene26141.t1;Parent=MS.gene26141.t1 |
| Gene Sequence |
| Protein sequence |
