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.gene028574.t1 | XP_024636481.1 | 83.5 | 176 | 19 | 1 | 5 | 180 | 40 | 205 | 1.00E-68 | 269.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene028574.t1 | O81900 | 40.8 | 179 | 98 | 2 | 7 | 179 | 29 | 205 | 1.3e-24 | 114.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene028574.t1 | A0A072UQ30 | 81.2 | 176 | 17 | 1 | 5 | 180 | 40 | 199 | 3.4e-66 | 260.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene028574.t1 | TF | bHLH |
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.gene028574.t1 | MTR_4g091990 | 80.791 | 177 | 18 | 1 | 4 | 180 | 39 | 199 | 3.66e-96 | 277 |
| MS.gene028574.t1 | MTR_4g091910 | 52.326 | 172 | 80 | 1 | 3 | 174 | 40 | 209 | 1.22e-59 | 185 |
| MS.gene028574.t1 | MTR_1g112680 | 32.222 | 180 | 89 | 4 | 9 | 157 | 316 | 493 | 2.30e-20 | 87.8 |
| MS.gene028574.t1 | MTR_8g064700 | 33.548 | 155 | 95 | 3 | 5 | 151 | 239 | 393 | 3.40e-20 | 87.0 |
| MS.gene028574.t1 | MTR_2g038040 | 32.530 | 166 | 96 | 4 | 9 | 158 | 51 | 216 | 8.77e-15 | 70.1 |
| MS.gene028574.t1 | MTR_3g498695 | 28.261 | 184 | 112 | 4 | 9 | 175 | 297 | 477 | 9.61e-15 | 71.6 |
| MS.gene028574.t1 | MTR_3g498695 | 28.261 | 184 | 111 | 5 | 9 | 175 | 297 | 476 | 3.94e-14 | 69.7 |
| MS.gene028574.t1 | MTR_7g083900 | 25.000 | 184 | 120 | 3 | 9 | 175 | 285 | 467 | 9.53e-14 | 68.6 |
| MS.gene028574.t1 | MTR_7g083900 | 25.000 | 184 | 121 | 2 | 9 | 175 | 285 | 468 | 2.35e-13 | 67.4 |
| MS.gene028574.t1 | MTR_4g057270 | 28.947 | 152 | 99 | 4 | 9 | 153 | 148 | 297 | 3.25e-12 | 63.9 |
| MS.gene028574.t1 | MTR_8g024790 | 30.282 | 142 | 85 | 5 | 14 | 146 | 295 | 431 | 3.23e-11 | 61.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene028574.t1 | AT4G21330 | 40.884 | 181 | 95 | 3 | 7 | 179 | 29 | 205 | 4.94e-35 | 122 |
| MS.gene028574.t1 | AT2G16910 | 34.783 | 161 | 80 | 2 | 9 | 144 | 313 | 473 | 4.07e-22 | 92.8 |
| MS.gene028574.t1 | AT1G10610 | 30.357 | 168 | 103 | 4 | 7 | 161 | 164 | 330 | 2.13e-16 | 75.9 |
| MS.gene028574.t1 | AT1G10610 | 32.432 | 148 | 91 | 3 | 7 | 146 | 231 | 377 | 2.44e-16 | 75.9 |
| MS.gene028574.t1 | AT1G10610 | 32.432 | 148 | 91 | 3 | 7 | 146 | 261 | 407 | 3.64e-16 | 75.5 |
| MS.gene028574.t1 | AT1G12860 | 28.090 | 178 | 116 | 4 | 9 | 175 | 266 | 442 | 4.01e-15 | 72.8 |
| MS.gene028574.t1 | AT5G57150 | 32.919 | 161 | 96 | 3 | 9 | 157 | 53 | 213 | 1.62e-14 | 69.3 |
| MS.gene028574.t1 | AT5G57150 | 32.919 | 161 | 96 | 3 | 9 | 157 | 54 | 214 | 2.60e-14 | 68.6 |
| MS.gene028574.t1 | AT5G57150 | 32.919 | 161 | 96 | 3 | 9 | 157 | 54 | 214 | 2.79e-14 | 68.6 |
| MS.gene028574.t1 | AT5G57150 | 32.716 | 162 | 97 | 3 | 9 | 158 | 53 | 214 | 3.31e-14 | 68.9 |
| MS.gene028574.t1 | AT5G57150 | 32.919 | 161 | 96 | 3 | 9 | 157 | 54 | 214 | 4.38e-14 | 68.6 |
| MS.gene028574.t1 | AT1G12860 | 28.289 | 152 | 100 | 2 | 9 | 151 | 266 | 417 | 6.82e-14 | 68.9 |
| MS.gene028574.t1 | AT4G29930 | 27.586 | 174 | 102 | 2 | 9 | 158 | 53 | 226 | 1.13e-13 | 67.4 |
| MS.gene028574.t1 | AT3G26744 | 27.473 | 182 | 116 | 4 | 9 | 175 | 306 | 486 | 1.34e-13 | 68.2 |
| MS.gene028574.t1 | AT3G26744 | 27.473 | 182 | 116 | 4 | 9 | 175 | 306 | 486 | 1.34e-13 | 68.2 |
| MS.gene028574.t1 | AT3G26744 | 27.473 | 182 | 116 | 4 | 9 | 175 | 306 | 486 | 1.34e-13 | 68.2 |
| MS.gene028574.t1 | AT4G29930 | 27.746 | 173 | 101 | 2 | 9 | 157 | 53 | 225 | 1.43e-13 | 67.4 |
| MS.gene028574.t1 | AT4G29930 | 27.746 | 173 | 101 | 2 | 9 | 157 | 53 | 225 | 1.43e-13 | 67.4 |
| MS.gene028574.t1 | AT4G29930 | 28.477 | 151 | 104 | 2 | 9 | 158 | 53 | 200 | 1.81e-13 | 66.6 |
| MS.gene028574.t1 | AT4G29930 | 29.139 | 151 | 100 | 3 | 9 | 158 | 53 | 197 | 6.88e-13 | 64.7 |
| MS.gene028574.t1 | AT4G29930 | 29.333 | 150 | 99 | 3 | 9 | 157 | 53 | 196 | 1.10e-12 | 64.3 |
| MS.gene028574.t1 | AT4G29930 | 38.298 | 94 | 49 | 1 | 9 | 93 | 53 | 146 | 1.78e-12 | 63.2 |
| MS.gene028574.t1 | AT3G26744 | 27.564 | 156 | 100 | 2 | 9 | 151 | 306 | 461 | 2.61e-12 | 64.7 |
| MS.gene028574.t1 | AT2G28160 | 29.299 | 157 | 98 | 6 | 14 | 160 | 135 | 288 | 6.70e-11 | 60.1 |
| MS.gene028574.t1 | AT2G28160 | 29.299 | 157 | 98 | 6 | 14 | 160 | 135 | 288 | 7.58e-11 | 60.1 |
Find 20 sgRNAs with CRISPR-Local
Find 59 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATGGAGACTATGAATGATTT+AGG | 0.220770 | 4.3:+22275627 | MS.gene028574:CDS |
| CCCAATGTAACAACCATAAA+AGG | 0.285457 | 4.3:+22275666 | MS.gene028574:CDS |
| AGGAGGGTTCAAGAAATTAA+TGG | 0.301353 | 4.3:+22275608 | MS.gene028574:CDS |
| CTGACCCAGTGTTCTTTGAT+AGG | 0.310935 | 4.3:-22275062 | None:intergenic |
| TCTGATTACAACTTTCATAA+AGG | 0.355929 | 4.3:+22275695 | MS.gene028574:CDS |
| AGACCGAAGCATGAAGAGTT+TGG | 0.405306 | 4.3:-22275112 | None:intergenic |
| GTGGTTACATTTGTGACCAT+TGG | 0.476973 | 4.3:-22275141 | None:intergenic |
| ACACCAAACTCTTCATGCTT+CGG | 0.486316 | 4.3:+22275109 | MS.gene028574:CDS |
| AAGAAGTACTATAATGAAGA+TGG | 0.534455 | 4.3:+22275029 | None:intergenic |
| CACGCAAGAGCTTCAAGCGA+TGG | 0.536206 | 4.3:+22275363 | MS.gene028574:CDS |
| GCTTCGGTCTTTAGTACCAA+TGG | 0.541325 | 4.3:+22275125 | MS.gene028574:CDS |
| ACACTGGGTCAGAAAGAAAG+AGG | 0.564246 | 4.3:+22275073 | MS.gene028574:CDS |
| ATCTTTGAGAACAAGAGAGG+AGG | 0.564401 | 4.3:+22275591 | MS.gene028574:CDS |
| GTGTTCCTATCAAAGAACAC+TGG | 0.568463 | 4.3:+22275057 | MS.gene028574:CDS |
| TAATAAGGAAGAGGTTCAAG+TGG | 0.575955 | 4.3:+22275533 | MS.gene028574:intron |
| TCTTTGAGAACAAGAGAGGA+GGG | 0.579294 | 4.3:+22275592 | MS.gene028574:CDS |
| ATGATCTTTGAGAACAAGAG+AGG | 0.626104 | 4.3:+22275588 | MS.gene028574:CDS |
| TTGACTTGATGAACATCAAG+TGG | 0.631805 | 4.3:-22276353 | None:intergenic |
| TGTTCCTATCAAAGAACACT+GGG | 0.634820 | 4.3:+22275058 | MS.gene028574:CDS |
| GGTCAGAAAGAAAGAGGAGA+CGG | 0.643508 | 4.3:+22275079 | MS.gene028574:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTTTGCTTATATTTTATA+AGG | - | chr4.3:22276134-22276153 | None:intergenic | 10.0% |
| !! | ATCTATAACTTCTATTAATA+AGG | + | chr4.3:22275518-22275537 | MS.gene028574:intron | 15.0% |
| !! | TAGTTATATGATATTAATTG+TGG | - | chr4.3:22275742-22275761 | None:intergenic | 15.0% |
| !!! | AAACGAAATCAATTTTAATA+TGG | - | chr4.3:22275858-22275877 | None:intergenic | 15.0% |
| !!! | GATTTTATGAATCTTAATTT+TGG | + | chr4.3:22275263-22275282 | MS.gene028574:intron | 15.0% |
| !! | ACAAACTAAAAATTAAACCA+AGG | - | chr4.3:22275223-22275242 | None:intergenic | 20.0% |
| !! | ACAAATCAAAGATTATGTAA+TGG | - | chr4.3:22276084-22276103 | None:intergenic | 20.0% |
| !! | ATAACTATTAGAAAAGACTA+TGG | + | chr4.3:22275755-22275774 | MS.gene028574:intron | 20.0% |
| !! | TAACTATTAGAAAAGACTAT+GGG | + | chr4.3:22275756-22275775 | MS.gene028574:intron | 20.0% |
| !! | TCATTTAGTTAATTCATGAA+AGG | - | chr4.3:22275492-22275511 | None:intergenic | 20.0% |
| !! | TTTATATATATTCGTTTCCT+TGG | + | chr4.3:22275203-22275222 | MS.gene028574:intron | 20.0% |
| !!! | ACAATTTTTAGGCTTTAAAA+AGG | - | chr4.3:22275794-22275813 | None:intergenic | 20.0% |
| !!! | CAATTTTTAGGCTTTAAAAA+GGG | - | chr4.3:22275793-22275812 | None:intergenic | 20.0% |
| !!! | CCTAAAAATTGTTTTTTTAG+AGG | + | chr4.3:22275802-22275821 | MS.gene028574:intron | 20.0% |
| !!! | CCTCTAAAAAAACAATTTTT+AGG | - | chr4.3:22275805-22275824 | None:intergenic | 20.0% |
| !!! | TTCAACTCATTTTACAAATA+TGG | + | chr4.3:22275954-22275973 | MS.gene028574:intron | 20.0% |
| !!! | TTTGCTTATATTTTATAAGG+TGG | - | chr4.3:22276131-22276150 | None:intergenic | 20.0% |
| ! | AACTTCTATTAATAAGGAAG+AGG | + | chr4.3:22275524-22275543 | MS.gene028574:intron | 25.0% |
| ! | TCAAACAAAATTGTTGTAGT+TGG | - | chr4.3:22276196-22276215 | None:intergenic | 25.0% |
| ! | TCTGATTACAACTTTCATAA+AGG | + | chr4.3:22275695-22275714 | MS.gene028574:CDS | 25.0% |
| ! | TTACGAGTAAATATCACATT+TGG | - | chr4.3:22275926-22275945 | None:intergenic | 25.0% |
| !! | GCAGAAAAATCATCTAATTT+TGG | - | chr4.3:22275421-22275440 | None:intergenic | 25.0% |
| ATGGAGACTATGAATGATTT+AGG | + | chr4.3:22275627-22275646 | MS.gene028574:CDS | 30.0% | |
| GGAAGCAAAAGAAAAATATG+AGG | + | chr4.3:22275384-22275403 | MS.gene028574:CDS | 30.0% | |
| TAAGAAGATGAGTGAAGTTT+AGG | - | chr4.3:22275166-22275185 | None:intergenic | 30.0% | |
| TGCAGAAGAGATGAAAAAAT+GGG | + | chr4.3:22275441-22275460 | MS.gene028574:CDS | 30.0% | |
| ! | AATCAGATATGCTCCTTTTA+TGG | - | chr4.3:22275682-22275701 | None:intergenic | 30.0% |
| ! | ATAAATGCAACGTTTTTGTG+TGG | + | chr4.3:22276292-22276311 | MS.gene028574:intron | 30.0% |
| ! | CCTTTTATGGTTGTTACATT+GGG | - | chr4.3:22275669-22275688 | None:intergenic | 30.0% |
| ! | TCCTTTTATGGTTGTTACAT+TGG | - | chr4.3:22275670-22275689 | None:intergenic | 30.0% |
| ! | TTTTTGTGTGGATTCAATGT+TGG | + | chr4.3:22276304-22276323 | MS.gene028574:intron | 30.0% |
| !!! | TCAATGTTGGTAATTTTCCA+GGG | + | chr4.3:22276317-22276336 | MS.gene028574:intron | 30.0% |
| !!! | TTCAATGTTGGTAATTTTCC+AGG | + | chr4.3:22276316-22276335 | MS.gene028574:intron | 30.0% |
| AGAGGTTCAAGTGGAAAAAA+TGG | + | chr4.3:22275542-22275561 | MS.gene028574:CDS | 35.0% | |
| AGGAGGGTTCAAGAAATTAA+TGG | + | chr4.3:22275608-22275627 | MS.gene028574:CDS | 35.0% | |
| CAGAAGAGATGAAAAAATGG+GGG | + | chr4.3:22275443-22275462 | MS.gene028574:CDS | 35.0% | |
| CCCAATGTAACAACCATAAA+AGG | + | chr4.3:22275666-22275685 | MS.gene028574:CDS | 35.0% | |
| CTGCAGAAGAGATGAAAAAA+TGG | + | chr4.3:22275440-22275459 | MS.gene028574:CDS | 35.0% | |
| GCAGAAGAGATGAAAAAATG+GGG | + | chr4.3:22275442-22275461 | MS.gene028574:CDS | 35.0% | |
| GTTCAAGTGGAAAAAATGGA+TGG | + | chr4.3:22275546-22275565 | MS.gene028574:CDS | 35.0% | |
| TAATAAGGAAGAGGTTCAAG+TGG | + | chr4.3:22275533-22275552 | MS.gene028574:intron | 35.0% | |
| TGTTCCTATCAAAGAACACT+GGG | + | chr4.3:22275058-22275077 | MS.gene028574:CDS | 35.0% | |
| ! | ATGATCTTTGAGAACAAGAG+AGG | + | chr4.3:22275588-22275607 | MS.gene028574:CDS | 35.0% |
| ! | TTGACTTGATGAACATCAAG+TGG | - | chr4.3:22276356-22276375 | None:intergenic | 35.0% |
| ACACCAAACTCTTCATGCTT+CGG | + | chr4.3:22275109-22275128 | MS.gene028574:CDS | 40.0% | |
| GAAGATGAGTGAAGTTTAGG+TGG | - | chr4.3:22275163-22275182 | None:intergenic | 40.0% | |
| GATGAAAAAATGGGGGATAC+AGG | + | chr4.3:22275450-22275469 | MS.gene028574:CDS | 40.0% | |
| GTGGTTACATTTGTGACCAT+TGG | - | chr4.3:22275144-22275163 | None:intergenic | 40.0% | |
| GTGTTCCTATCAAAGAACAC+TGG | + | chr4.3:22275057-22275076 | MS.gene028574:CDS | 40.0% | |
| ! | ATCTTTGAGAACAAGAGAGG+AGG | + | chr4.3:22275591-22275610 | MS.gene028574:CDS | 40.0% |
| ! | GTAATTTTCCAGGGAATGTG+TGG | + | chr4.3:22276326-22276345 | MS.gene028574:intron | 40.0% |
| ! | TCTTTGAGAACAAGAGAGGA+GGG | + | chr4.3:22275592-22275611 | MS.gene028574:CDS | 40.0% |
| ACACTGGGTCAGAAAGAAAG+AGG | + | chr4.3:22275073-22275092 | MS.gene028574:CDS | 45.0% | |
| AGACCGAAGCATGAAGAGTT+TGG | - | chr4.3:22275115-22275134 | None:intergenic | 45.0% | |
| CTGACCCAGTGTTCTTTGAT+AGG | - | chr4.3:22275065-22275084 | None:intergenic | 45.0% | |
| GCTTCGGTCTTTAGTACCAA+TGG | + | chr4.3:22275125-22275144 | MS.gene028574:CDS | 45.0% | |
| GGTCAGAAAGAAAGAGGAGA+CGG | + | chr4.3:22275079-22275098 | MS.gene028574:CDS | 45.0% | |
| CACGCAAGAGCTTCAAGCGA+TGG | + | chr4.3:22275363-22275382 | MS.gene028574:CDS | 55.0% | |
| GTGGCTGACCACACATTCCC+TGG | - | chr4.3:22276337-22276356 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.3 | gene | 22275042 | 22276409 | 22275042 | ID=MS.gene028574 |
| chr4.3 | mRNA | 22275042 | 22276409 | 22275042 | ID=MS.gene028574.t1;Parent=MS.gene028574 |
| chr4.3 | exon | 22275042 | 22275155 | 22275042 | ID=MS.gene028574.t1.exon1;Parent=MS.gene028574.t1 |
| chr4.3 | CDS | 22275042 | 22275155 | 22275042 | ID=cds.MS.gene028574.t1;Parent=MS.gene028574.t1 |
| chr4.3 | exon | 22275292 | 22275471 | 22275292 | ID=MS.gene028574.t1.exon2;Parent=MS.gene028574.t1 |
| chr4.3 | CDS | 22275292 | 22275471 | 22275292 | ID=cds.MS.gene028574.t1;Parent=MS.gene028574.t1 |
| chr4.3 | exon | 22275540 | 22275716 | 22275540 | ID=MS.gene028574.t1.exon3;Parent=MS.gene028574.t1 |
| chr4.3 | CDS | 22275540 | 22275716 | 22275540 | ID=cds.MS.gene028574.t1;Parent=MS.gene028574.t1 |
| chr4.3 | exon | 22276338 | 22276409 | 22276338 | ID=MS.gene028574.t1.exon4;Parent=MS.gene028574.t1 |
| chr4.3 | CDS | 22276338 | 22276409 | 22276338 | ID=cds.MS.gene028574.t1;Parent=MS.gene028574.t1 |
| Gene Sequence |
| Protein sequence |
