Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0580720 | KEH40065.1 | 97.087 | 103 | 3 | 0 | 3 | 105 | 279 | 381 | 7.35e-69 | 221 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0580720 | sp|Q8S2E6|Y1235_ORYSJ | 35.714 | 84 | 50 | 1 | 1 | 84 | 303 | 382 | 7.79e-12 | 63.2 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0580720 | A0A072VPJ6 | 97.087 | 103 | 3 | 0 | 3 | 105 | 279 | 381 | 3.51e-69 | 221 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0580720 | TF | B3 |
| Gene ID | Type | Classification |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0580720 | MtrunA17_Chr1g0154211 | 97.087 | 103 | 3 | 0 | 3 | 105 | 297 | 399 | 4.47e-71 | 216 |
| Msa0580720 | MtrunA17_Chr1g0154131 | 79.518 | 83 | 17 | 0 | 3 | 85 | 390 | 472 | 2.65e-44 | 149 |
| Msa0580720 | MtrunA17_Chr1g0154041 | 72.527 | 91 | 25 | 0 | 3 | 93 | 271 | 361 | 1.36e-43 | 149 |
| Msa0580720 | MtrunA17_Chr1g0154041 | 46.939 | 98 | 43 | 1 | 4 | 101 | 501 | 589 | 7.82e-26 | 100 |
| Msa0580720 | MtrunA17_Chr1g0154101 | 70.330 | 91 | 27 | 0 | 3 | 93 | 522 | 612 | 5.00e-41 | 143 |
| Msa0580720 | MtrunA17_Chr1g0154101 | 50.505 | 99 | 39 | 2 | 4 | 101 | 747 | 836 | 7.01e-26 | 100 |
| Msa0580720 | MtrunA17_Chr1g0154111 | 70.115 | 87 | 26 | 0 | 1 | 87 | 278 | 364 | 4.66e-39 | 136 |
| Msa0580720 | MtrunA17_Chr1g0154071 | 66.667 | 87 | 28 | 1 | 3 | 88 | 406 | 492 | 3.50e-38 | 133 |
| Msa0580720 | MtrunA17_Chr1g0154121 | 62.366 | 93 | 33 | 1 | 10 | 100 | 1 | 93 | 4.98e-37 | 120 |
| Msa0580720 | MtrunA17_Chr1g0154171 | 50.000 | 98 | 40 | 1 | 4 | 101 | 266 | 354 | 4.48e-28 | 104 |
| Msa0580720 | MtrunA17_Chr1g0154191 | 46.789 | 109 | 38 | 3 | 4 | 101 | 266 | 365 | 3.73e-27 | 102 |
| Msa0580720 | MtrunA17_Chr1g0154161 | 45.918 | 98 | 44 | 1 | 4 | 101 | 230 | 318 | 5.83e-25 | 95.5 |
| Msa0580720 | MtrunA17_Chr6g0464121 | 51.852 | 81 | 38 | 1 | 14 | 93 | 122 | 202 | 5.90e-24 | 93.2 |
| Msa0580720 | MtrunA17_Chr1g0154151 | 46.392 | 97 | 40 | 2 | 4 | 100 | 239 | 323 | 2.98e-23 | 91.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 23 sgRNAs with CRISPR-Local
Find 24 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCTCCAAGCTTTATGTTAT+TGG | 0.166151 | 4_1:+85935989 | None:intergenic |
| GAAAGTATTGATCATCAAAA+TGG | 0.270213 | 4_1:-85935876 | Msa0580720:CDS |
| CTTGTATGCACTCTACTTCT+AGG | 0.379008 | 4_1:+85936050 | None:intergenic |
| ATAATCTTTATCTTGCCGTT+TGG | 0.397078 | 4_1:+85936116 | None:intergenic |
| GATGCGCTATGGAAAATTGA+TGG | 0.463928 | 4_1:+85936141 | None:intergenic |
| AAAGTATTGATCATCAAAAT+GGG | 0.485102 | 4_1:-85935875 | Msa0580720:CDS |
| GATTATTCTTCGTAATTTGA+AGG | 0.492590 | 4_1:-85936099 | Msa0580720:CDS |
| TCCATAGCGCATCTTCCAAA+CGG | 0.492621 | 4_1:-85936131 | Msa0580720:CDS |
| GCTAGTCTCCGAGGTTCAAA+AGG | 0.500197 | 4_1:-85935898 | Msa0580720:CDS |
| TTGCTGAGGTCGACGAAGAC+GGG | 0.500559 | 4_1:-85935920 | Msa0580720:CDS |
| ATTATTCTTCGTAATTTGAA+GGG | 0.513122 | 4_1:-85936098 | Msa0580720:CDS |
| GTTGCTGAGGTCGACGAAGA+CGG | 0.514090 | 4_1:-85935921 | Msa0580720:CDS |
| ATGCGCTATGGAAAATTGAT+GGG | 0.534562 | 4_1:+85936142 | None:intergenic |
| CGTGCCAATAACATAAAGCT+TGG | 0.537860 | 4_1:-85935993 | Msa0580720:CDS |
| GCCGTTTGGAAGATGCGCTA+TGG | 0.543496 | 4_1:+85936130 | None:intergenic |
| CATACAAGTCACACTTTGTG+TGG | 0.602821 | 4_1:-85936035 | Msa0580720:CDS |
| GTCACACTTTGTGTGGAGGA+TGG | 0.614641 | 4_1:-85936028 | Msa0580720:CDS |
| ATTACGTGTCCGTGTTGCTG+AGG | 0.620142 | 4_1:-85935934 | Msa0580720:CDS |
| GTAATTTGAAGGGAGAACAG+TGG | 0.655181 | 4_1:-85936088 | Msa0580720:CDS |
| CTTCGTCGACCTCAGCAACA+CGG | 0.662749 | 4_1:+85935925 | None:intergenic |
| CGAAGACGGGCTAGTCTCCG+AGG | 0.666474 | 4_1:-85935907 | Msa0580720:CDS |
| TGCGCTATGGAAAATTGATG+GGG | 0.667850 | 4_1:+85936143 | None:intergenic |
| ACAAGTCACACTTTGTGTGG+AGG | 0.672770 | 4_1:-85936032 | Msa0580720:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTATTCTTCGTAATTTGAA+GGG | - | chr4_1:85935917-85935936 | Msa0580720:CDS | 20.0% |
| !!! | AAAGTATTGATCATCAAAAT+GGG | - | chr4_1:85936140-85936159 | Msa0580720:CDS | 20.0% |
| ! | GATTATTCTTCGTAATTTGA+AGG | - | chr4_1:85935916-85935935 | Msa0580720:CDS | 25.0% |
| !!! | GAAAGTATTGATCATCAAAA+TGG | - | chr4_1:85936139-85936158 | Msa0580720:CDS | 25.0% |
| ATAATCTTTATCTTGCCGTT+TGG | + | chr4_1:85935902-85935921 | None:intergenic | 30.0% | |
| ! | ATCTCCAAGCTTTATGTTAT+TGG | + | chr4_1:85936029-85936048 | None:intergenic | 30.0% |
| ! | AATACTTTCCTTTTGAACCT+CGG | + | chr4_1:85936128-85936147 | None:intergenic | 30.0% |
| ATGCGCTATGGAAAATTGAT+GGG | + | chr4_1:85935876-85935895 | None:intergenic | 35.0% | |
| TGCGCTATGGAAAATTGATG+GGG | + | chr4_1:85935875-85935894 | None:intergenic | 40.0% | |
| GATGCGCTATGGAAAATTGA+TGG | + | chr4_1:85935877-85935896 | None:intergenic | 40.0% | |
| GTAATTTGAAGGGAGAACAG+TGG | - | chr4_1:85935927-85935946 | Msa0580720:CDS | 40.0% | |
| CTTGTATGCACTCTACTTCT+AGG | + | chr4_1:85935968-85935987 | None:intergenic | 40.0% | |
| CATACAAGTCACACTTTGTG+TGG | - | chr4_1:85935980-85935999 | Msa0580720:CDS | 40.0% | |
| CGTGCCAATAACATAAAGCT+TGG | - | chr4_1:85936022-85936041 | Msa0580720:CDS | 40.0% | |
| TCCATAGCGCATCTTCCAAA+CGG | - | chr4_1:85935884-85935903 | Msa0580720:CDS | 45.0% | |
| ACAAGTCACACTTTGTGTGG+AGG | - | chr4_1:85935983-85936002 | Msa0580720:CDS | 45.0% | |
| GTCACACTTTGTGTGGAGGA+TGG | - | chr4_1:85935987-85936006 | Msa0580720:CDS | 50.0% | |
| ! | ATTACGTGTCCGTGTTGCTG+AGG | - | chr4_1:85936081-85936100 | Msa0580720:CDS | 50.0% |
| ! | GCTAGTCTCCGAGGTTCAAA+AGG | - | chr4_1:85936117-85936136 | Msa0580720:CDS | 50.0% |
| GCCGTTTGGAAGATGCGCTA+TGG | + | chr4_1:85935888-85935907 | None:intergenic | 55.0% | |
| CTTCGTCGACCTCAGCAACA+CGG | + | chr4_1:85936093-85936112 | None:intergenic | 55.0% | |
| GTTGCTGAGGTCGACGAAGA+CGG | - | chr4_1:85936094-85936113 | Msa0580720:CDS | 55.0% | |
| TTGCTGAGGTCGACGAAGAC+GGG | - | chr4_1:85936095-85936114 | Msa0580720:CDS | 55.0% | |
| !! | CGAAGACGGGCTAGTCTCCG+AGG | - | chr4_1:85936108-85936127 | Msa0580720:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 85935860 | 85936177 | 85935860 | ID=Msa0580720;Name=Msa0580720 |
| chr4_1 | mRNA | 85935860 | 85936177 | 85935860 | ID=Msa0580720-mRNA-1;Parent=Msa0580720;Name=Msa0580720-mRNA-1;_AED=0.41;_eAED=0.41;_QI=0|-1|0|1|-1|1|1|0|105 |
| chr4_1 | exon | 85935860 | 85936177 | 85935860 | ID=Msa0580720-mRNA-1:exon:31686;Parent=Msa0580720-mRNA-1 |
| chr4_1 | CDS | 85935860 | 85936177 | 85935860 | ID=Msa0580720-mRNA-1:cds;Parent=Msa0580720-mRNA-1 |
| Gene Sequence |
| Protein sequence |
