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.gene28364.t1 | GAU45400.1 | 52.6 | 268 | 69 | 4 | 1 | 267 | 1 | 211 | 2.30E-64 | 255.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28364.t1 | Q9SZL8 | 34.8 | 164 | 99 | 5 | 105 | 262 | 77 | 238 | 6.4e-15 | 82.8 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28364.t1 | A0A2Z6P7V3 | 52.6 | 268 | 69 | 4 | 1 | 267 | 1 | 211 | 1.6e-64 | 255.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene28364.t1 | TF | FAR1 |
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.gene28364.t1 | MTR_3g080590 | 85.806 | 155 | 18 | 1 | 1 | 151 | 1 | 155 | 3.14e-83 | 246 |
| MS.gene28364.t1 | MTR_7g446520 | 44.118 | 170 | 80 | 1 | 94 | 263 | 81 | 235 | 4.90e-42 | 147 |
| MS.gene28364.t1 | MTR_7g028855 | 43.709 | 151 | 82 | 1 | 94 | 241 | 113 | 263 | 9.80e-34 | 127 |
| MS.gene28364.t1 | MTR_7g446480 | 53.933 | 89 | 41 | 0 | 175 | 263 | 140 | 228 | 1.61e-27 | 108 |
| MS.gene28364.t1 | MTR_7g446510 | 52.809 | 89 | 42 | 0 | 175 | 263 | 155 | 243 | 2.22e-24 | 100 |
| MS.gene28364.t1 | MTR_5g076070 | 29.518 | 166 | 114 | 2 | 98 | 260 | 50 | 215 | 1.77e-22 | 94.0 |
| MS.gene28364.t1 | MTR_1g070355 | 31.176 | 170 | 110 | 2 | 101 | 265 | 74 | 241 | 5.05e-22 | 95.5 |
| MS.gene28364.t1 | MTR_6g022080 | 26.471 | 170 | 122 | 1 | 94 | 260 | 78 | 247 | 2.01e-19 | 85.1 |
| MS.gene28364.t1 | MTR_8g035530 | 46.753 | 77 | 39 | 1 | 88 | 164 | 1 | 75 | 2.64e-17 | 74.7 |
| MS.gene28364.t1 | MTR_3g450850 | 29.651 | 172 | 109 | 4 | 107 | 266 | 53 | 224 | 7.01e-15 | 73.9 |
| MS.gene28364.t1 | MTR_0402s0040 | 32.121 | 165 | 103 | 6 | 104 | 263 | 29 | 189 | 1.34e-14 | 73.6 |
| MS.gene28364.t1 | MTR_4g035820 | 29.012 | 162 | 107 | 3 | 107 | 261 | 81 | 241 | 1.59e-12 | 67.4 |
| MS.gene28364.t1 | MTR_6g051425 | 29.697 | 165 | 101 | 6 | 108 | 262 | 24 | 183 | 3.27e-11 | 63.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28364.t1 | AT5G28530 | 34.783 | 161 | 100 | 3 | 107 | 262 | 61 | 221 | 4.31e-19 | 87.0 |
| MS.gene28364.t1 | AT5G28530 | 34.783 | 161 | 100 | 3 | 107 | 262 | 61 | 221 | 4.34e-19 | 87.0 |
| MS.gene28364.t1 | AT5G28530 | 34.783 | 161 | 100 | 3 | 107 | 262 | 61 | 221 | 4.34e-19 | 87.0 |
| MS.gene28364.t1 | AT5G28530 | 34.783 | 161 | 100 | 3 | 107 | 262 | 61 | 221 | 5.85e-19 | 86.7 |
| MS.gene28364.t1 | AT5G28530 | 34.783 | 161 | 100 | 3 | 107 | 262 | 61 | 221 | 6.39e-19 | 86.7 |
| MS.gene28364.t1 | AT4G38180 | 31.696 | 224 | 141 | 7 | 46 | 262 | 20 | 238 | 1.66e-16 | 79.3 |
| MS.gene28364.t1 | AT1G10240 | 31.707 | 164 | 105 | 5 | 107 | 263 | 54 | 217 | 6.10e-14 | 72.0 |
| MS.gene28364.t1 | AT1G10240 | 31.707 | 164 | 105 | 5 | 107 | 263 | 54 | 217 | 6.10e-14 | 72.0 |
| MS.gene28364.t1 | AT3G07500 | 34.459 | 148 | 84 | 6 | 75 | 215 | 2 | 143 | 1.95e-11 | 62.4 |
Find 53 sgRNAs with CRISPR-Local
Find 58 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCACTCAATTTGCGGTAATT+AGG | 0.258248 | 4.4:+8381284 | None:intergenic |
| AAATGATGATATAAGGGATA+TGG | 0.309095 | 4.4:-8381621 | MS.gene28364:CDS |
| AGGACTTGGGTTTATCAAAA+AGG | 0.326599 | 4.4:-8381168 | MS.gene28364:CDS |
| TGATAAACCCAAGTCCTTCA+TGG | 0.346028 | 4.4:+8381174 | None:intergenic |
| ATGTGACAAATGATGATATA+AGG | 0.351919 | 4.4:-8381628 | MS.gene28364:CDS |
| ACGACTTTGTTCGTACGATT+TGG | 0.356788 | 4.4:-8381373 | MS.gene28364:CDS |
| AAAGGACTTATATAATTTCA+TGG | 0.370840 | 4.4:-8381150 | MS.gene28364:CDS |
| TGTAAGAACATGTCATATCT+TGG | 0.387474 | 4.4:-8381222 | MS.gene28364:CDS |
| ATATAATTTCATGGATCATC+AGG | 0.392252 | 4.4:-8381141 | MS.gene28364:CDS |
| TGCGGTAATTAGGCATCAAA+TGG | 0.435720 | 4.4:+8381294 | None:intergenic |
| CGCAGAACAATTAGTTCGAA+TGG | 0.445789 | 4.4:+8381412 | None:intergenic |
| TATCAACTTCACTCAATTTG+CGG | 0.446828 | 4.4:+8381276 | None:intergenic |
| AAGGGTGGCCATGAAGGACT+TGG | 0.449428 | 4.4:-8381182 | MS.gene28364:CDS |
| GTAAGAACATGTCATATCTT+GGG | 0.464989 | 4.4:-8381221 | MS.gene28364:CDS |
| GCGTCAATTAGTATGCAATA+AGG | 0.467578 | 4.4:-8381486 | MS.gene28364:CDS |
| AACGCAAAGGAGCTAATTCA+TGG | 0.469712 | 4.4:+8381321 | None:intergenic |
| TTCGAATGGTTAGCGTAGAT+CGG | 0.471186 | 4.4:+8381426 | None:intergenic |
| CAAGGGAAAGAGAACTTTGA+TGG | 0.478759 | 4.4:-8381668 | MS.gene28364:CDS |
| ATGTGAAACGTGATTCTAAT+GGG | 0.492055 | 4.4:-8381520 | MS.gene28364:CDS |
| GACACCGATAGTGATACATA+TGG | 0.508428 | 4.4:-8381830 | MS.gene28364:CDS |
| GTATCACTATATACATCAAA+AGG | 0.509968 | 4.4:+8381887 | None:intergenic |
| GGTCAAAAGGGTGGCCATGA+AGG | 0.510809 | 4.4:-8381188 | MS.gene28364:CDS |
| CCACGGGTTTGAAGTAAGAA+AGG | 0.512169 | 4.4:-8381546 | MS.gene28364:CDS |
| GATGTGAAACGTGATTCTAA+TGG | 0.514927 | 4.4:-8381521 | MS.gene28364:CDS |
| ACACCGATAGTGATACATAT+GGG | 0.525577 | 4.4:-8381829 | MS.gene28364:CDS |
| AACAACGATGTTCGTACTGA+TGG | 0.529175 | 4.4:-8381740 | MS.gene28364:CDS |
| TGTGACAAATGATGATATAA+GGG | 0.541240 | 4.4:-8381627 | MS.gene28364:CDS |
| AGCTAATTCATGGTTGTGAG+AGG | 0.545517 | 4.4:+8381331 | None:intergenic |
| TATTATTTGCAAAATACCAC+GGG | 0.572281 | 4.4:-8381562 | MS.gene28364:CDS |
| GTGGAATTTAACCATGGTAA+TGG | 0.576772 | 4.4:-8381704 | MS.gene28364:CDS |
| CACCCCATATGTATCACTAT+CGG | 0.580906 | 4.4:+8381826 | None:intergenic |
| GCTAATTCATGGTTGTGAGA+GGG | 0.581523 | 4.4:+8381332 | None:intergenic |
| TCAATTAGTATGCAATAAGG+AGG | 0.584633 | 4.4:-8381483 | MS.gene28364:CDS |
| GTATTATTTGCAAAATACCA+CGG | 0.584890 | 4.4:-8381563 | MS.gene28364:CDS |
| AGGGTGGCCATGAAGGACTT+GGG | 0.586883 | 4.4:-8381181 | MS.gene28364:CDS |
| ATTTCATGGATCATCAGGCA+AGG | 0.590300 | 4.4:-8381136 | MS.gene28364:CDS |
| TTTCATGGATCATCAGGCAA+GGG | 0.599626 | 4.4:-8381135 | None:intergenic |
| ATATAGTGATACAGATGAGG+TGG | 0.607738 | 4.4:-8381876 | MS.gene28364:CDS |
| GTTGATAAACAAGTTGCTAG+TGG | 0.617676 | 4.4:-8381260 | MS.gene28364:CDS |
| CGATAGTGATACATATGGGG+TGG | 0.618374 | 4.4:-8381825 | MS.gene28364:CDS |
| CCTTTCTTACTTCAAACCCG+TGG | 0.639832 | 4.4:+8381546 | None:intergenic |
| CATTGCAAACACCATTACCA+TGG | 0.642035 | 4.4:+8381693 | None:intergenic |
| AATGGTGTTTGCAATGAGCA+AGG | 0.648235 | 4.4:-8381686 | MS.gene28364:CDS |
| GCTAGTGGTCTACATTCGCA+AGG | 0.649023 | 4.4:-8381245 | MS.gene28364:CDS |
| ATCAAATGGACAAAACGCAA+AGG | 0.651947 | 4.4:+8381308 | None:intergenic |
| ATGGTGTTTGCAATGAGCAA+GGG | 0.657603 | 4.4:-8381685 | MS.gene28364:CDS |
| TGATGGAGATGCAGACGGTG+TGG | 0.660310 | 4.4:-8381723 | MS.gene28364:CDS |
| CACCGATAGTGATACATATG+GGG | 0.671448 | 4.4:-8381828 | MS.gene28364:CDS |
| CAATTAGTATGCAATAAGGA+GGG | 0.675920 | 4.4:-8381482 | MS.gene28364:CDS |
| GACGGTGTGGAATTTAACCA+TGG | 0.688761 | 4.4:-8381710 | MS.gene28364:CDS |
| TGTATATAGTGATACAGATG+AGG | 0.703043 | 4.4:-8381879 | MS.gene28364:CDS |
| CGTACTGATGGAGATGCAGA+CGG | 0.711480 | 4.4:-8381728 | MS.gene28364:CDS |
| GGATATGGAATTCAACACAG+AGG | 0.763384 | 4.4:-8381606 | MS.gene28364:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAGGACTTATATAATTTCA+TGG | - | chr4.4:8381900-8381919 | MS.gene28364:CDS | 20.0% |
| ! | AAATGATGATATAAGGGATA+TGG | - | chr4.4:8381429-8381448 | MS.gene28364:CDS | 25.0% |
| ! | ATATAATTTCATGGATCATC+AGG | - | chr4.4:8381909-8381928 | MS.gene28364:CDS | 25.0% |
| ! | ATGTGACAAATGATGATATA+AGG | - | chr4.4:8381422-8381441 | MS.gene28364:CDS | 25.0% |
| ! | GATCGAAAAAATAAGAAGAA+TGG | - | chr4.4:8381598-8381617 | MS.gene28364:CDS | 25.0% |
| ! | GTATCACTATATACATCAAA+AGG | + | chr4.4:8381166-8381185 | None:intergenic | 25.0% |
| ! | GTATTATTTGCAAAATACCA+CGG | - | chr4.4:8381487-8381506 | MS.gene28364:CDS | 25.0% |
| ! | TATTATTTGCAAAATACCAC+GGG | - | chr4.4:8381488-8381507 | MS.gene28364:CDS | 25.0% |
| ! | TGTGACAAATGATGATATAA+GGG | - | chr4.4:8381423-8381442 | MS.gene28364:CDS | 25.0% |
| ATGTGAAACGTGATTCTAAT+GGG | - | chr4.4:8381530-8381549 | MS.gene28364:CDS | 30.0% | |
| CAATTAGTATGCAATAAGGA+GGG | - | chr4.4:8381568-8381587 | MS.gene28364:CDS | 30.0% | |
| GTAAGAACATGTCATATCTT+GGG | - | chr4.4:8381829-8381848 | MS.gene28364:CDS | 30.0% | |
| TATCAACTTCACTCAATTTG+CGG | + | chr4.4:8381777-8381796 | None:intergenic | 30.0% | |
| TCAATTAGTATGCAATAAGG+AGG | - | chr4.4:8381567-8381586 | MS.gene28364:CDS | 30.0% | |
| TGTAAGAACATGTCATATCT+TGG | - | chr4.4:8381828-8381847 | MS.gene28364:CDS | 30.0% | |
| TGTATATAGTGATACAGATG+AGG | - | chr4.4:8381171-8381190 | MS.gene28364:CDS | 30.0% | |
| !!! | CATATCTTGGGTTTTTTGAT+GGG | - | chr4.4:8381841-8381860 | MS.gene28364:CDS | 30.0% |
| !!! | TCATATCTTGGGTTTTTTGA+TGG | - | chr4.4:8381840-8381859 | MS.gene28364:CDS | 30.0% |
| ACACCGATAGTGATACATAT+GGG | - | chr4.4:8381221-8381240 | MS.gene28364:CDS | 35.0% | |
| AGGACTTGGGTTTATCAAAA+AGG | - | chr4.4:8381882-8381901 | MS.gene28364:CDS | 35.0% | |
| ATATAGTGATACAGATGAGG+TGG | - | chr4.4:8381174-8381193 | MS.gene28364:CDS | 35.0% | |
| ATCAAATGGACAAAACGCAA+AGG | + | chr4.4:8381745-8381764 | None:intergenic | 35.0% | |
| GATGTGAAACGTGATTCTAA+TGG | - | chr4.4:8381529-8381548 | MS.gene28364:CDS | 35.0% | |
| GCGTCAATTAGTATGCAATA+AGG | - | chr4.4:8381564-8381583 | MS.gene28364:CDS | 35.0% | |
| GTGGAATTTAACCATGGTAA+TGG | - | chr4.4:8381346-8381365 | MS.gene28364:CDS | 35.0% | |
| TCACTCAATTTGCGGTAATT+AGG | + | chr4.4:8381769-8381788 | None:intergenic | 35.0% | |
| ! | GTTGATAAACAAGTTGCTAG+TGG | - | chr4.4:8381790-8381809 | MS.gene28364:CDS | 35.0% |
| !!! | GGTTTTTTGATGGGTCAAAA+GGG | - | chr4.4:8381850-8381869 | MS.gene28364:CDS | 35.0% |
| AACAACGATGTTCGTACTGA+TGG | - | chr4.4:8381310-8381329 | MS.gene28364:CDS | 40.0% | |
| AACGCAAAGGAGCTAATTCA+TGG | + | chr4.4:8381732-8381751 | None:intergenic | 40.0% | |
| AATGGTGTTTGCAATGAGCA+AGG | - | chr4.4:8381364-8381383 | MS.gene28364:CDS | 40.0% | |
| ACGACTTTGTTCGTACGATT+TGG | - | chr4.4:8381677-8381696 | MS.gene28364:CDS | 40.0% | |
| AGCTAATTCATGGTTGTGAG+AGG | + | chr4.4:8381722-8381741 | None:intergenic | 40.0% | |
| ATGGTGTTTGCAATGAGCAA+GGG | - | chr4.4:8381365-8381384 | MS.gene28364:CDS | 40.0% | |
| ATTTCATGGATCATCAGGCA+AGG | - | chr4.4:8381914-8381933 | MS.gene28364:CDS | 40.0% | |
| CAAGGGAAAGAGAACTTTGA+TGG | - | chr4.4:8381382-8381401 | MS.gene28364:CDS | 40.0% | |
| CACCCCATATGTATCACTAT+CGG | + | chr4.4:8381227-8381246 | None:intergenic | 40.0% | |
| CACCGATAGTGATACATATG+GGG | - | chr4.4:8381222-8381241 | MS.gene28364:CDS | 40.0% | |
| CATTGCAAACACCATTACCA+TGG | + | chr4.4:8381360-8381379 | None:intergenic | 40.0% | |
| CGCAGAACAATTAGTTCGAA+TGG | + | chr4.4:8381641-8381660 | None:intergenic | 40.0% | |
| GACACCGATAGTGATACATA+TGG | - | chr4.4:8381220-8381239 | MS.gene28364:CDS | 40.0% | |
| GCTAATTCATGGTTGTGAGA+GGG | + | chr4.4:8381721-8381740 | None:intergenic | 40.0% | |
| GGATATGGAATTCAACACAG+AGG | - | chr4.4:8381444-8381463 | MS.gene28364:CDS | 40.0% | |
| TGATAAACCCAAGTCCTTCA+TGG | + | chr4.4:8381879-8381898 | None:intergenic | 40.0% | |
| TGCGGTAATTAGGCATCAAA+TGG | + | chr4.4:8381759-8381778 | None:intergenic | 40.0% | |
| TTCGAATGGTTAGCGTAGAT+CGG | + | chr4.4:8381627-8381646 | None:intergenic | 40.0% | |
| !! | TTTTTGATGGGTCAAAAGGG+TGG | - | chr4.4:8381853-8381872 | MS.gene28364:CDS | 40.0% |
| !!! | GGGTTTTTTGATGGGTCAAA+AGG | - | chr4.4:8381849-8381868 | MS.gene28364:CDS | 40.0% |
| CCTTTCTTACTTCAAACCCG+TGG | + | chr4.4:8381507-8381526 | None:intergenic | 45.0% | |
| CGATAGTGATACATATGGGG+TGG | - | chr4.4:8381225-8381244 | MS.gene28364:CDS | 45.0% | |
| GACGGTGTGGAATTTAACCA+TGG | - | chr4.4:8381340-8381359 | MS.gene28364:CDS | 45.0% | |
| ! | CCACGGGTTTGAAGTAAGAA+AGG | - | chr4.4:8381504-8381523 | MS.gene28364:CDS | 45.0% |
| GCTAGTGGTCTACATTCGCA+AGG | - | chr4.4:8381805-8381824 | MS.gene28364:CDS | 50.0% | |
| ! | CGTACTGATGGAGATGCAGA+CGG | - | chr4.4:8381322-8381341 | MS.gene28364:CDS | 50.0% |
| AAGGGTGGCCATGAAGGACT+TGG | - | chr4.4:8381868-8381887 | MS.gene28364:CDS | 55.0% | |
| AGGGTGGCCATGAAGGACTT+GGG | - | chr4.4:8381869-8381888 | MS.gene28364:CDS | 55.0% | |
| GGTCAAAAGGGTGGCCATGA+AGG | - | chr4.4:8381862-8381881 | MS.gene28364:CDS | 55.0% | |
| TGATGGAGATGCAGACGGTG+TGG | - | chr4.4:8381327-8381346 | MS.gene28364:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 8381136 | 8381936 | 8381136 | ID=MS.gene28364 |
| chr4.4 | mRNA | 8381136 | 8381936 | 8381136 | ID=MS.gene28364.t1;Parent=MS.gene28364 |
| chr4.4 | exon | 8381136 | 8381936 | 8381136 | ID=MS.gene28364.t1.exon1;Parent=MS.gene28364.t1 |
| chr4.4 | CDS | 8381136 | 8381936 | 8381136 | ID=cds.MS.gene28364.t1;Parent=MS.gene28364.t1 |
| Gene Sequence |
| Protein sequence |
