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.gene24528.t1 | ABO33479.1 | 98.8 | 85 | 1 | 0 | 1 | 85 | 51 | 135 | 4.40E-38 | 166.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene24528.t1 | O04135 | 81.8 | 88 | 12 | 1 | 1 | 84 | 155 | 242 | 5.9e-31 | 134.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene24528.t1 | X2D315 | 98.8 | 85 | 1 | 0 | 1 | 85 | 142 | 226 | 3.2e-38 | 166.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051648 | MS.gene24528 | 0.845778 | 3.28E-59 | -1.69E-46 |
| MS.gene052150 | MS.gene24528 | 0.857086 | 2.07E-62 | -1.69E-46 |
| MS.gene052151 | MS.gene24528 | 0.87417 | 8.33E-68 | -1.69E-46 |
| MS.gene05894 | MS.gene24528 | 0.807177 | 5.74E-50 | -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.gene24528.t1 | MTR_1g017080 | 98.824 | 85 | 1 | 0 | 1 | 85 | 142 | 226 | 1.49e-52 | 168 |
| MS.gene24528.t1 | MTR_5g033720 | 51.899 | 79 | 38 | 0 | 1 | 79 | 95 | 173 | 7.90e-22 | 86.7 |
| MS.gene24528.t1 | MTR_2g024390 | 48.684 | 76 | 39 | 0 | 1 | 76 | 140 | 215 | 6.82e-17 | 73.6 |
| MS.gene24528.t1 | MTR_5g085860 | 50.000 | 80 | 36 | 1 | 1 | 76 | 69 | 148 | 2.31e-16 | 71.6 |
| MS.gene24528.t1 | MTR_1g084060 | 45.000 | 80 | 38 | 2 | 1 | 79 | 42 | 116 | 3.48e-14 | 65.9 |
| MS.gene24528.t1 | MTR_1g084060 | 45.000 | 80 | 38 | 2 | 1 | 79 | 42 | 116 | 3.50e-14 | 65.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene24528.t1 | AT4G08150 | 69.412 | 85 | 25 | 1 | 1 | 84 | 157 | 241 | 2.71e-35 | 123 |
| MS.gene24528.t1 | AT1G23380 | 45.570 | 79 | 43 | 0 | 1 | 79 | 108 | 186 | 6.88e-18 | 76.3 |
| MS.gene24528.t1 | AT1G23380 | 45.570 | 79 | 43 | 0 | 1 | 79 | 110 | 188 | 7.42e-18 | 75.9 |
| MS.gene24528.t1 | AT1G70510 | 43.750 | 80 | 45 | 0 | 1 | 80 | 92 | 171 | 2.23e-16 | 72.0 |
| MS.gene24528.t1 | AT1G62360 | 50.685 | 73 | 36 | 0 | 1 | 73 | 144 | 216 | 1.09e-15 | 70.5 |
| MS.gene24528.t1 | AT1G70510 | 41.667 | 84 | 45 | 1 | 1 | 80 | 92 | 175 | 2.53e-14 | 66.2 |
Find 21 sgRNAs with CRISPR-Local
Find 26 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACCATGAATTGGTCTAGTTC+TGG | 0.338115 | 1.3:-77142926 | None:intergenic |
| ACCAAACGAGCCACCACTTC+CGG | 0.349272 | 1.3:-77142836 | None:intergenic |
| ACCGGAAGTGGTGGCTCGTT+TGG | 0.365361 | 1.3:+77142835 | MS.gene24528:CDS |
| AAATCCATAGCCTCTTGTAT+AGG | 0.443002 | 1.3:-77143195 | None:intergenic |
| TCCAGAACTAGACCAATTCA+TGG | 0.475218 | 1.3:+77142925 | MS.gene24528:CDS |
| CACTTTGCAATGGACCCCTT+CGG | 0.484187 | 1.3:+77143247 | MS.gene24528:CDS |
| GATTGGAGCTCCACCGGAAG+TGG | 0.502488 | 1.3:+77142823 | None:intergenic |
| GGACCCCTTCGGATCTTCCC+TGG | 0.503797 | 1.3:+77143258 | MS.gene24528:CDS |
| AAGGCCTATACAAGAGGCTA+TGG | 0.514686 | 1.3:+77143191 | MS.gene24528:CDS |
| TGGCTCGTTTGGTTGCGTCT+AGG | 0.518848 | 1.3:+77142846 | MS.gene24528:CDS |
| TATGTAGATTGGAGCTCCAC+CGG | 0.547316 | 1.3:+77142817 | None:intergenic |
| CAGCTAAATACACTTTGCAA+TGG | 0.562110 | 1.3:+77143237 | MS.gene24528:CDS |
| TGGAGCTCCACCGGAAGTGG+TGG | 0.570424 | 1.3:+77142826 | MS.gene24528:CDS |
| ACTCACCAGGGAAGATCCGA+AGG | 0.608503 | 1.3:-77143263 | None:intergenic |
| ATTAACAAGGCCTATACAAG+AGG | 0.622954 | 1.3:+77143185 | MS.gene24528:CDS |
| AAACGAGCCACCACTTCCGG+TGG | 0.627824 | 1.3:-77142833 | None:intergenic |
| CATGCTTGTGAAGTATAGAG+AGG | 0.648293 | 1.3:+77143161 | MS.gene24528:CDS |
| CTCACCAGGGAAGATCCGAA+GGG | 0.678902 | 1.3:-77143262 | None:intergenic |
| CTAGGCAAGAGTTTGAAGCA+AGG | 0.689197 | 1.3:+77142864 | MS.gene24528:CDS |
| AGTATAGAGAGGAATTAACA+AGG | 0.714149 | 1.3:+77143172 | MS.gene24528:CDS |
| TCACCAGGGAAGATCCGAAG+GGG | 0.724320 | 1.3:-77143261 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTAAACTTAATAATTATCA+TGG | - | chr1.3:77143024-77143043 | None:intergenic | 10.0% |
| !!! | ATTAGAACTTATAGATTTTG+TGG | + | chr1.3:77143090-77143109 | MS.gene24528:intron | 20.0% |
| ! | AAATGGTGTTTATGTTTAAC+AGG | + | chr1.3:77143125-77143144 | MS.gene24528:intron | 25.0% |
| AGTATAGAGAGGAATTAACA+AGG | + | chr1.3:77143172-77143191 | MS.gene24528:CDS | 30.0% | |
| !!! | AGGGGGTATATTTTGTTTTA+TGG | + | chr1.3:77142952-77142971 | MS.gene24528:intron | 30.0% |
| AAATCCATAGCCTCTTGTAT+AGG | - | chr1.3:77143198-77143217 | None:intergenic | 35.0% | |
| ATTAACAAGGCCTATACAAG+AGG | + | chr1.3:77143185-77143204 | MS.gene24528:CDS | 35.0% | |
| CAGCTAAATACACTTTGCAA+TGG | + | chr1.3:77143237-77143256 | MS.gene24528:CDS | 35.0% | |
| TAGACCAATTCATGGTACAA+GGG | + | chr1.3:77142933-77142952 | MS.gene24528:intron | 35.0% | |
| !!! | TGTGGTTTTAGACGTTGAAA+TGG | + | chr1.3:77143108-77143127 | MS.gene24528:intron | 35.0% |
| AGACCAATTCATGGTACAAG+GGG | + | chr1.3:77142934-77142953 | MS.gene24528:intron | 40.0% | |
| CATGCTTGTGAAGTATAGAG+AGG | + | chr1.3:77143161-77143180 | MS.gene24528:CDS | 40.0% | |
| CTAGACCAATTCATGGTACA+AGG | + | chr1.3:77142932-77142951 | MS.gene24528:intron | 40.0% | |
| TCCAGAACTAGACCAATTCA+TGG | + | chr1.3:77142925-77142944 | MS.gene24528:CDS | 40.0% | |
| ! | ACCATGAATTGGTCTAGTTC+TGG | - | chr1.3:77142929-77142948 | None:intergenic | 40.0% |
| ! | TTCGATTTGCACTGTGATGT+CGG | + | chr1.3:77143049-77143068 | MS.gene24528:intron | 40.0% |
| AAGGCCTATACAAGAGGCTA+TGG | + | chr1.3:77143191-77143210 | MS.gene24528:CDS | 45.0% | |
| GACCAATTCATGGTACAAGG+GGG | + | chr1.3:77142935-77142954 | MS.gene24528:intron | 45.0% | |
| TACCCCCTTGTACCATGAAT+TGG | - | chr1.3:77142940-77142959 | None:intergenic | 45.0% | |
| ! | CTAGGCAAGAGTTTGAAGCA+AGG | + | chr1.3:77142864-77142883 | MS.gene24528:CDS | 45.0% |
| CACTTTGCAATGGACCCCTT+CGG | + | chr1.3:77143247-77143266 | MS.gene24528:CDS | 50.0% | |
| ACCAAACGAGCCACCACTTC+CGG | - | chr1.3:77142839-77142858 | None:intergenic | 55.0% | |
| TGGCTCGTTTGGTTGCGTCT+AGG | + | chr1.3:77142846-77142865 | MS.gene24528:CDS | 55.0% | |
| AAACGAGCCACCACTTCCGG+TGG | - | chr1.3:77142836-77142855 | None:intergenic | 60.0% | |
| ACCGGAAGTGGTGGCTCGTT+TGG | + | chr1.3:77142835-77142854 | MS.gene24528:CDS | 60.0% | |
| TGGAGCTCCACCGGAAGTGG+TGG | + | chr1.3:77142826-77142845 | MS.gene24528:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.3 | gene | 77142824 | 77143279 | 77142824 | ID=MS.gene24528 |
| chr1.3 | mRNA | 77142824 | 77143279 | 77142824 | ID=MS.gene24528.t1;Parent=MS.gene24528 |
| chr1.3 | exon | 77142824 | 77142946 | 77142824 | ID=MS.gene24528.t1.exon1;Parent=MS.gene24528.t1 |
| chr1.3 | CDS | 77142824 | 77142946 | 77142824 | ID=cds.MS.gene24528.t1;Parent=MS.gene24528.t1 |
| chr1.3 | exon | 77143147 | 77143279 | 77143147 | ID=MS.gene24528.t1.exon2;Parent=MS.gene24528.t1 |
| chr1.3 | CDS | 77143147 | 77143279 | 77143147 | ID=cds.MS.gene24528.t1;Parent=MS.gene24528.t1 |
| Gene Sequence |
| Protein sequence |
