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.gene055661.t1 | XP_013467877.1 | 92.3 | 209 | 16 | 0 | 1 | 209 | 1 | 209 | 1.40E-88 | 335.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene055661.t1 | Q9SJ52 | 39.9 | 173 | 98 | 4 | 39 | 209 | 59 | 227 | 5.1e-28 | 125.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene055661.t1 | A0A072VIT5 | 92.3 | 209 | 16 | 0 | 1 | 209 | 1 | 209 | 9.8e-89 | 335.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene055661 | MS.gene41066 | 0.976455 | 7.38E-142 | -1.69E-46 |
| MS.gene055661 | MS.gene45444 | 0.804142 | 2.49E-49 | -1.69E-46 |
| MS.gene055661 | MS.gene78411 | 0.812202 | 4.77E-51 | -1.69E-46 |
| MS.gene055661 | MS.gene88661 | 0.809764 | 1.61E-50 | -1.69E-46 |
| MS.gene055661 | MS.gene88662 | 0.837598 | 4.73E-57 | -1.69E-46 |
| MS.gene055661 | MS.gene88664 | 0.800427 | 1.45E-48 | -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.gene055661.t1 | MTR_1g057400 | 92.344 | 209 | 16 | 0 | 1 | 209 | 1 | 209 | 1.04e-146 | 406 |
| MS.gene055661.t1 | MTR_7g106000 | 60.952 | 210 | 75 | 4 | 2 | 209 | 22 | 226 | 1.79e-87 | 257 |
| MS.gene055661.t1 | MTR_7g105970 | 57.789 | 199 | 80 | 2 | 10 | 208 | 31 | 225 | 2.72e-79 | 236 |
| MS.gene055661.t1 | MTR_7g106010 | 57.073 | 205 | 84 | 3 | 7 | 209 | 25 | 227 | 1.24e-78 | 235 |
| MS.gene055661.t1 | MTR_7g106030 | 57.214 | 201 | 82 | 2 | 11 | 209 | 33 | 231 | 2.01e-75 | 227 |
| MS.gene055661.t1 | MTR_1g057290 | 50.000 | 206 | 102 | 1 | 5 | 209 | 12 | 217 | 1.84e-52 | 168 |
| MS.gene055661.t1 | MTR_1g057270 | 41.327 | 196 | 108 | 4 | 16 | 209 | 52 | 242 | 6.58e-43 | 144 |
| MS.gene055661.t1 | MTR_4g119428 | 39.109 | 202 | 112 | 5 | 11 | 206 | 41 | 237 | 2.44e-39 | 135 |
| MS.gene055661.t1 | MTR_7g105870 | 40.314 | 191 | 109 | 2 | 17 | 206 | 39 | 225 | 6.43e-32 | 115 |
| MS.gene055661.t1 | MTR_1g057300 | 58.929 | 112 | 41 | 3 | 1 | 111 | 1 | 108 | 3.42e-28 | 103 |
| MS.gene055661.t1 | MTR_2g011350 | 29.775 | 178 | 115 | 5 | 32 | 209 | 35 | 202 | 3.14e-20 | 84.7 |
| MS.gene055661.t1 | MTR_6g071410 | 29.730 | 185 | 115 | 8 | 15 | 190 | 2 | 180 | 2.35e-17 | 77.4 |
| MS.gene055661.t1 | MTR_6g070890 | 29.730 | 185 | 115 | 8 | 15 | 190 | 2 | 180 | 2.35e-17 | 77.4 |
| MS.gene055661.t1 | MTR_6g471090 | 29.101 | 189 | 113 | 9 | 8 | 190 | 5 | 178 | 2.47e-17 | 77.4 |
| MS.gene055661.t1 | MTR_6g070900 | 27.568 | 185 | 119 | 8 | 15 | 190 | 2 | 180 | 4.95e-15 | 71.2 |
| MS.gene055661.t1 | MTR_6g071400 | 27.568 | 185 | 119 | 8 | 15 | 190 | 2 | 180 | 4.95e-15 | 71.2 |
| MS.gene055661.t1 | MTR_6g471080 | 29.012 | 162 | 94 | 6 | 10 | 168 | 5 | 148 | 7.66e-13 | 65.1 |
| MS.gene055661.t1 | MTR_2g087000 | 25.478 | 157 | 110 | 3 | 16 | 172 | 45 | 194 | 2.59e-11 | 61.2 |
| MS.gene055661.t1 | MTR_1g105570 | 23.383 | 201 | 138 | 7 | 9 | 209 | 46 | 230 | 7.71e-11 | 60.1 |
| MS.gene055661.t1 | MTR_3g092790 | 26.027 | 146 | 102 | 3 | 44 | 189 | 49 | 188 | 8.60e-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.gene055661.t1 | AT2G35980 | 38.424 | 203 | 117 | 3 | 10 | 209 | 30 | 227 | 2.39e-45 | 150 |
| MS.gene055661.t1 | AT2G35460 | 36.364 | 198 | 120 | 2 | 14 | 209 | 45 | 238 | 1.10e-42 | 144 |
| MS.gene055661.t1 | AT5G06320 | 39.378 | 193 | 112 | 3 | 17 | 209 | 44 | 231 | 1.98e-39 | 135 |
| MS.gene055661.t1 | AT3G11650 | 35.500 | 200 | 122 | 4 | 12 | 209 | 45 | 239 | 7.57e-36 | 126 |
| MS.gene055661.t1 | AT5G53730 | 29.213 | 178 | 116 | 5 | 34 | 207 | 40 | 211 | 7.72e-18 | 78.6 |
| MS.gene055661.t1 | AT1G61760 | 26.829 | 164 | 114 | 3 | 20 | 183 | 43 | 200 | 1.25e-15 | 73.2 |
| MS.gene055661.t1 | AT3G11660 | 26.512 | 215 | 144 | 6 | 1 | 208 | 1 | 208 | 6.18e-14 | 68.2 |
| MS.gene055661.t1 | AT1G32270 | 29.801 | 151 | 97 | 3 | 42 | 190 | 1 | 144 | 8.41e-14 | 69.3 |
| MS.gene055661.t1 | AT1G32270 | 29.801 | 151 | 97 | 3 | 42 | 190 | 1 | 144 | 1.53e-13 | 68.9 |
| MS.gene055661.t1 | AT4G05220 | 22.222 | 189 | 138 | 4 | 21 | 209 | 46 | 225 | 2.97e-13 | 66.6 |
| MS.gene055661.t1 | AT5G06330 | 26.744 | 172 | 119 | 5 | 40 | 208 | 39 | 206 | 1.22e-11 | 62.0 |
Find 42 sgRNAs with CRISPR-Local
Find 52 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACGTGTGATGTAAATTTCTA+AGG | 0.209404 | 1.4:+47998619 | MS.gene055661:CDS |
| AACATCTTCTGCCGCGGTTG+TGG | 0.309180 | 1.4:-47998027 | None:intergenic |
| GTTTCCAAATTATGCCAAAA+AGG | 0.322625 | 1.4:-47998057 | None:intergenic |
| ACATCTTCTGCCGCGGTTGT+GGG | 0.356163 | 1.4:-47998026 | None:intergenic |
| TTTAGACTTGGTGATTATAT+TGG | 0.359682 | 1.4:+47998508 | MS.gene055661:CDS |
| TTAATATTACCCTTAGTAGA+TGG | 0.365970 | 1.4:-47998532 | None:intergenic |
| GTCGTCGCTATAGTTGAATT+TGG | 0.406674 | 1.4:-47998182 | None:intergenic |
| TTCATTGACACTGAACTTGA+AGG | 0.427389 | 1.4:-47998149 | None:intergenic |
| GACTAGGTTTGCTTCAACAA+AGG | 0.437058 | 1.4:+47998312 | MS.gene055661:CDS |
| TTATATTGGTCCATCTACTA+AGG | 0.442373 | 1.4:+47998522 | MS.gene055661:CDS |
| TTAGTTCCATTAGCAACAAA+AGG | 0.456789 | 1.4:-47998571 | None:intergenic |
| CATCTTCTGCCGCGGTTGTG+GGG | 0.481542 | 1.4:-47998025 | None:intergenic |
| CCAGAGAAAACACCACTCAT+AGG | 0.486502 | 1.4:-47998382 | None:intergenic |
| TCGAGCTCTTAGTGTATTGT+CGG | 0.489123 | 1.4:-47998357 | None:intergenic |
| ACACTGAACTTGAAGGTTCG+AGG | 0.490630 | 1.4:-47998142 | None:intergenic |
| TTTGAACGTGATAAGAAAGA+TGG | 0.497010 | 1.4:+47998445 | MS.gene055661:CDS |
| TGAAATTATACTTTGAGATG+AGG | 0.504513 | 1.4:+47998485 | MS.gene055661:CDS |
| CAACCTCGTACTCAACTTCA+CGG | 0.507914 | 1.4:+47998222 | MS.gene055661:CDS |
| AGTTGAGTACGAGGTTGTAA+TGG | 0.520447 | 1.4:-47998216 | None:intergenic |
| TGAGTACGAGGTTGTAATGG+AGG | 0.524265 | 1.4:-47998213 | None:intergenic |
| CGTGTGATGTAAATTTCTAA+GGG | 0.525667 | 1.4:+47998620 | MS.gene055661:CDS |
| TTTCTCTGGGCAACATGTTG+TGG | 0.527422 | 1.4:+47998396 | MS.gene055661:CDS |
| TGAACTTGAAGGTTCGAGGT+TGG | 0.527619 | 1.4:-47998138 | None:intergenic |
| ATGCGTCTTACGAAGGGACT+AGG | 0.531595 | 1.4:+47998296 | MS.gene055661:CDS |
| GAAATTTACATCACACGTGG+TGG | 0.578702 | 1.4:-47998614 | None:intergenic |
| CTTCAACAAAGGTTATAACA+TGG | 0.579854 | 1.4:+47998323 | MS.gene055661:CDS |
| GAAGGACATGCGTCTTACGA+AGG | 0.581641 | 1.4:+47998289 | MS.gene055661:CDS |
| AAGGACATGCGTCTTACGAA+GGG | 0.581992 | 1.4:+47998290 | MS.gene055661:CDS |
| GAAGCAAAACCCCACAACCG+CGG | 0.582202 | 1.4:+47998016 | MS.gene055661:CDS |
| TATATTGGTCCATCTACTAA+GGG | 0.590602 | 1.4:+47998523 | MS.gene055661:CDS |
| CTAAGGGTAATATTAAGTGT+AGG | 0.590927 | 1.4:+47998539 | MS.gene055661:CDS |
| GAGTACGAGGTTGTAATGGA+GGG | 0.597384 | 1.4:-47998212 | None:intergenic |
| GAGGTTGTAATGGAGGGTGT+TGG | 0.602071 | 1.4:-47998206 | None:intergenic |
| GTAGCAATCATCGTTCTCGT+TGG | 0.605038 | 1.4:+47998085 | MS.gene055661:CDS |
| ATCTACTATGATGTAATCGA+AGG | 0.609711 | 1.4:+47998271 | MS.gene055661:CDS |
| TTTGAGATGAGGTTTAGACT+TGG | 0.616430 | 1.4:+47998496 | MS.gene055661:CDS |
| AAATTTACATCACACGTGGT+GGG | 0.616840 | 1.4:-47998613 | None:intergenic |
| AGCAACAACATCTTCTGCCG+CGG | 0.641568 | 1.4:-47998033 | None:intergenic |
| AAGAGCTCGAATCCTATGAG+TGG | 0.682861 | 1.4:+47998370 | MS.gene055661:CDS |
| GGGCCGTGAAGTTGAGTACG+AGG | 0.683761 | 1.4:-47998225 | None:intergenic |
| CGAGAACGATGATTGCTACG+AGG | 0.746688 | 1.4:-47998081 | None:intergenic |
| TTAGAAATTTACATCACACG+TGG | 0.754009 | 1.4:-47998617 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GTCTAATAATCCTTATTTTT+TGG | + | chr1.4:47998107-47998126 | MS.gene055661:CDS | 20.0% |
| ! | TTAATATTACCCTTAGTAGA+TGG | - | chr1.4:47998535-47998554 | None:intergenic | 25.0% |
| !!! | TAGATGTTGAGTTTTTTGTT+TGG | - | chr1.4:47998256-47998275 | None:intergenic | 25.0% |
| !!! | TGAAATTATACTTTGAGATG+AGG | + | chr1.4:47998485-47998504 | MS.gene055661:CDS | 25.0% |
| !!! | TGAGTTTTTTGTTTGGATTA+CGG | - | chr1.4:47998249-47998268 | None:intergenic | 25.0% |
| !!! | TTTAGACTTGGTGATTATAT+TGG | + | chr1.4:47998508-47998527 | MS.gene055661:CDS | 25.0% |
| ATCTACTATGATGTAATCGA+AGG | + | chr1.4:47998271-47998290 | MS.gene055661:CDS | 30.0% | |
| CTAAGGGTAATATTAAGTGT+AGG | + | chr1.4:47998539-47998558 | MS.gene055661:CDS | 30.0% | |
| CTTCAACAAAGGTTATAACA+TGG | + | chr1.4:47998323-47998342 | MS.gene055661:CDS | 30.0% | |
| GTTTCCAAATTATGCCAAAA+AGG | - | chr1.4:47998060-47998079 | None:intergenic | 30.0% | |
| TATATTGGTCCATCTACTAA+GGG | + | chr1.4:47998523-47998542 | MS.gene055661:CDS | 30.0% | |
| TTAGAAATTTACATCACACG+TGG | - | chr1.4:47998620-47998639 | None:intergenic | 30.0% | |
| TTAGTTCCATTAGCAACAAA+AGG | - | chr1.4:47998574-47998593 | None:intergenic | 30.0% | |
| TTATATTGGTCCATCTACTA+AGG | + | chr1.4:47998522-47998541 | MS.gene055661:CDS | 30.0% | |
| TTTGAACGTGATAAGAAAGA+TGG | + | chr1.4:47998445-47998464 | MS.gene055661:CDS | 30.0% | |
| ! | ATTGTTCCTTTTGTTGCTAA+TGG | + | chr1.4:47998565-47998584 | MS.gene055661:CDS | 30.0% |
| ! | TTTTGTTGCTAATGGAACTA+AGG | + | chr1.4:47998573-47998592 | MS.gene055661:CDS | 30.0% |
| !!! | GAGTTTTTTGTTTGGATTAC+GGG | - | chr1.4:47998248-47998267 | None:intergenic | 30.0% |
| AAATTTACATCACACGTGGT+GGG | - | chr1.4:47998616-47998635 | None:intergenic | 35.0% | |
| GGACAATGAGCCAAAAAATA+AGG | - | chr1.4:47998120-47998139 | None:intergenic | 35.0% | |
| TTCATTGACACTGAACTTGA+AGG | - | chr1.4:47998152-47998171 | None:intergenic | 35.0% | |
| ! | TGTGGTTTTTGATCATGATC+AGG | + | chr1.4:47998414-47998433 | MS.gene055661:CDS | 35.0% |
| ! | TTTGAGATGAGGTTTAGACT+TGG | + | chr1.4:47998496-47998515 | MS.gene055661:CDS | 35.0% |
| AGTTGAGTACGAGGTTGTAA+TGG | - | chr1.4:47998219-47998238 | None:intergenic | 40.0% | |
| GAAATTTACATCACACGTGG+TGG | - | chr1.4:47998617-47998636 | None:intergenic | 40.0% | |
| GTCGTCGCTATAGTTGAATT+TGG | - | chr1.4:47998185-47998204 | None:intergenic | 40.0% | |
| TCGAGCTCTTAGTGTATTGT+CGG | - | chr1.4:47998360-47998379 | None:intergenic | 40.0% | |
| ! | AGATGTTGTTGCTGCCTTTT+TGG | + | chr1.4:47998043-47998062 | MS.gene055661:CDS | 40.0% |
| ! | CTATGAGTGGTGTTTTCTCT+GGG | + | chr1.4:47998383-47998402 | MS.gene055661:CDS | 40.0% |
| ! | GACTAGGTTTGCTTCAACAA+AGG | + | chr1.4:47998312-47998331 | MS.gene055661:CDS | 40.0% |
| !! | GCTGCCTTTTTGGCATAATT+TGG | + | chr1.4:47998053-47998072 | MS.gene055661:CDS | 40.0% |
| AAGAGCTCGAATCCTATGAG+TGG | + | chr1.4:47998370-47998389 | MS.gene055661:CDS | 45.0% | |
| AAGGACATGCGTCTTACGAA+GGG | + | chr1.4:47998290-47998309 | MS.gene055661:CDS | 45.0% | |
| ACACTGAACTTGAAGGTTCG+AGG | - | chr1.4:47998145-47998164 | None:intergenic | 45.0% | |
| CAACCTCGTACTCAACTTCA+CGG | + | chr1.4:47998222-47998241 | MS.gene055661:CDS | 45.0% | |
| CCAGAGAAAACACCACTCAT+AGG | - | chr1.4:47998385-47998404 | None:intergenic | 45.0% | |
| GTAGCAATCATCGTTCTCGT+TGG | + | chr1.4:47998085-47998104 | MS.gene055661:CDS | 45.0% | |
| TGAACTTGAAGGTTCGAGGT+TGG | - | chr1.4:47998141-47998160 | None:intergenic | 45.0% | |
| TGAGTACGAGGTTGTAATGG+AGG | - | chr1.4:47998216-47998235 | None:intergenic | 45.0% | |
| TTTCTCTGGGCAACATGTTG+TGG | + | chr1.4:47998396-47998415 | MS.gene055661:CDS | 45.0% | |
| ! | CCTATGAGTGGTGTTTTCTC+TGG | + | chr1.4:47998382-47998401 | MS.gene055661:CDS | 45.0% |
| ! | GAGTACGAGGTTGTAATGGA+GGG | - | chr1.4:47998215-47998234 | None:intergenic | 45.0% |
| AGCAACAACATCTTCTGCCG+CGG | - | chr1.4:47998036-47998055 | None:intergenic | 50.0% | |
| ATGCGTCTTACGAAGGGACT+AGG | + | chr1.4:47998296-47998315 | MS.gene055661:CDS | 50.0% | |
| CGAGAACGATGATTGCTACG+AGG | - | chr1.4:47998084-47998103 | None:intergenic | 50.0% | |
| GAAGGACATGCGTCTTACGA+AGG | + | chr1.4:47998289-47998308 | MS.gene055661:CDS | 50.0% | |
| ! | GAGGTTGTAATGGAGGGTGT+TGG | - | chr1.4:47998209-47998228 | None:intergenic | 50.0% |
| AACATCTTCTGCCGCGGTTG+TGG | - | chr1.4:47998030-47998049 | None:intergenic | 55.0% | |
| ACATCTTCTGCCGCGGTTGT+GGG | - | chr1.4:47998029-47998048 | None:intergenic | 55.0% | |
| GAAGCAAAACCCCACAACCG+CGG | + | chr1.4:47998016-47998035 | MS.gene055661:CDS | 55.0% | |
| CATCTTCTGCCGCGGTTGTG+GGG | - | chr1.4:47998028-47998047 | None:intergenic | 60.0% | |
| GGGCCGTGAAGTTGAGTACG+AGG | - | chr1.4:47998228-47998247 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 47998010 | 47998639 | 47998010 | ID=MS.gene055661 |
| chr1.4 | mRNA | 47998010 | 47998639 | 47998010 | ID=MS.gene055661.t1;Parent=MS.gene055661 |
| chr1.4 | exon | 47998010 | 47998639 | 47998010 | ID=MS.gene055661.t1.exon1;Parent=MS.gene055661.t1 |
| chr1.4 | CDS | 47998010 | 47998639 | 47998010 | ID=cds.MS.gene055661.t1;Parent=MS.gene055661.t1 |
| Gene Sequence |
| Protein sequence |
