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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1116300 | RHN78214.1 | 73.913 | 138 | 36 | 0 | 17 | 154 | 4 | 141 | 1.21e-70 | 221 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1116300 | A0A396JLZ7 | 73.913 | 138 | 36 | 0 | 17 | 154 | 4 | 141 | 5.78e-71 | 221 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1116300 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1116300 | MtrunA17_Chr1g0163091 | 73.913 | 138 | 36 | 0 | 17 | 154 | 4 | 141 | 1.11e-74 | 221 |
| Msa1116300 | MtrunA17_Chr1g0162151 | 67.123 | 146 | 46 | 1 | 17 | 160 | 4 | 149 | 1.47e-60 | 187 |
| Msa1116300 | MtrunA17_Chr1g0163251 | 52.713 | 129 | 61 | 0 | 17 | 145 | 165 | 293 | 3.31e-40 | 139 |
| Msa1116300 | MtrunA17_Chr1g0163261 | 46.575 | 146 | 70 | 3 | 10 | 147 | 155 | 300 | 1.60e-35 | 125 |
| Msa1116300 | MtrunA17_Chr1g0163201 | 43.046 | 151 | 81 | 3 | 8 | 153 | 157 | 307 | 1.06e-32 | 120 |
| Msa1116300 | MtrunA17_Chr1g0163231 | 48.571 | 140 | 56 | 4 | 17 | 152 | 163 | 290 | 6.84e-31 | 113 |
| Msa1116300 | MtrunA17_Chr1g0171611 | 47.368 | 152 | 62 | 6 | 21 | 168 | 155 | 292 | 7.93e-31 | 112 |
| Msa1116300 | MtrunA17_Chr6g0476171 | 45.833 | 144 | 69 | 4 | 9 | 143 | 3 | 146 | 7.66e-30 | 109 |
| Msa1116300 | MtrunA17_Chr1g0163181 | 46.429 | 112 | 60 | 0 | 33 | 144 | 194 | 305 | 1.23e-29 | 112 |
| Msa1116300 | MtrunA17_Chr1g0163151 | 47.273 | 110 | 58 | 0 | 33 | 142 | 15 | 124 | 1.34e-28 | 105 |
| Msa1116300 | MtrunA17_Chr1g0163111 | 48.113 | 106 | 55 | 0 | 33 | 138 | 12 | 117 | 3.14e-28 | 104 |
| Msa1116300 | MtrunA17_Chr5g0419211 | 41.053 | 95 | 55 | 1 | 54 | 147 | 11 | 105 | 4.21e-19 | 77.8 |
| Msa1116300 | MtrunA17_Chr8g0390841 | 38.095 | 126 | 67 | 6 | 23 | 144 | 226 | 344 | 1.25e-13 | 67.8 |
| Msa1116300 | MtrunA17_Chr3g0131891 | 34.234 | 111 | 68 | 3 | 35 | 140 | 201 | 311 | 3.98e-13 | 65.9 |
| Msa1116300 | MtrunA17_Chr1g0208771 | 37.405 | 131 | 69 | 6 | 12 | 136 | 171 | 294 | 3.17e-12 | 63.5 |
| Msa1116300 | MtrunA17_Chr1g0163071 | 31.034 | 116 | 70 | 3 | 30 | 144 | 193 | 299 | 8.12e-12 | 62.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTTGGATTCTCATTAT+TGG | 0.211537 | 7_3:-63899145 | None:intergenic |
| TCAATTATTGAACATCTCTT+AGG | 0.278157 | 7_3:-63899105 | None:intergenic |
| AGAATATACATTAACTTTGC+AGG | 0.315856 | 7_3:+63899060 | Msa1116300:CDS |
| TTGACGGGATCGCAAGGATA+AGG | 0.384450 | 7_3:+63899324 | Msa1116300:CDS |
| CCTTGCAACTTGTTAGGGCT+TGG | 0.397107 | 7_3:-63899536 | None:intergenic |
| GGCTTGGTTCCTCACTAGCT+CGG | 0.456216 | 7_3:-63899520 | None:intergenic |
| TGACGGGATCGCAAGGATAA+GGG | 0.470585 | 7_3:+63899325 | Msa1116300:CDS |
| AATACTTGAACGAGTTTGAC+GGG | 0.492831 | 7_3:+63899309 | Msa1116300:CDS |
| AAGGAAAATAACTTGCAAGT+TGG | 0.532958 | 7_3:+63899437 | Msa1116300:CDS |
| GGGTTGATGCAGGTAGAACT+TGG | 0.542033 | 7_3:+63899345 | Msa1116300:CDS |
| GAATACTTGAACGAGTTTGA+CGG | 0.544212 | 7_3:+63899308 | Msa1116300:CDS |
| ATGACACAAACTTATGCTCA+TGG | 0.555807 | 7_3:+63899177 | Msa1116300:CDS |
| TTCTATTACCCGAGCTAGTG+AGG | 0.556254 | 7_3:+63899511 | Msa1116300:CDS |
| GCTTGGTTCCTCACTAGCTC+GGG | 0.557073 | 7_3:-63899519 | None:intergenic |
| ACGAGTTTGACGGGATCGCA+AGG | 0.567127 | 7_3:+63899318 | Msa1116300:CDS |
| GCAAGGATAAGGGTTGATGC+AGG | 0.581356 | 7_3:+63899335 | Msa1116300:CDS |
| AACTTTGCAGGTACTAACAA+AGG | 0.591292 | 7_3:+63899072 | Msa1116300:CDS |
| CCAAGCCCTAACAAGTTGCA+AGG | 0.593191 | 7_3:+63899536 | Msa1116300:CDS |
| GCAGGTACTAACAAAGGAGG+AGG | 0.600379 | 7_3:+63899078 | Msa1116300:CDS |
| ATAGAAATATTAAATGAAAG+CGG | 0.641791 | 7_3:-63899494 | None:intergenic |
| TGGTTGGTCTATATTCAACA+AGG | 0.670836 | 7_3:+63899418 | Msa1116300:CDS |
| TTTGCAGGTACTAACAAAGG+AGG | 0.671084 | 7_3:+63899075 | Msa1116300:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTGAAAATGTTTACTAATTT+TGG | + | chr7_3:63899222-63899241 | Msa1116300:intron | 15.0% |
| !!! | TATTCTTTTGAAAACTTATT+TGG | - | chr7_3:63899293-63899312 | None:intergenic | 15.0% |
| !! | ATAGAAATATTAAATGAAAG+CGG | - | chr7_3:63899497-63899516 | None:intergenic | 15.0% |
| ! | AGAATATACATTAACTTTGC+AGG | + | chr7_3:63899060-63899079 | Msa1116300:CDS | 25.0% |
| ! | TCAATTATTGAACATCTCTT+AGG | - | chr7_3:63899108-63899127 | None:intergenic | 25.0% |
| ! | AAAACTTGGATTCTCATTAT+TGG | - | chr7_3:63899148-63899167 | None:intergenic | 25.0% |
| !!! | GTCATTTTAAGTTCAAAACT+TGG | - | chr7_3:63899162-63899181 | None:intergenic | 25.0% |
| ! | AAAGCAAACTTACACAAAAA+TGG | - | chr7_3:63899203-63899222 | None:intergenic | 25.0% |
| TATACCATGAATTGAAACAG+AGG | + | chr7_3:63899264-63899283 | Msa1116300:intron | 30.0% | |
| !!! | AGATGTTCTTTTTTGCAAGT+TGG | + | chr7_3:63899398-63899417 | Msa1116300:CDS | 30.0% |
| ! | AAGGAAAATAACTTGCAAGT+TGG | + | chr7_3:63899437-63899456 | Msa1116300:CDS | 30.0% |
| !! | AAAAACCTTGCAACTTGTTA+GGG | - | chr7_3:63899544-63899563 | None:intergenic | 30.0% |
| AACTTTGCAGGTACTAACAA+AGG | + | chr7_3:63899072-63899091 | Msa1116300:CDS | 35.0% | |
| ATGACACAAACTTATGCTCA+TGG | + | chr7_3:63899177-63899196 | Msa1116300:CDS | 35.0% | |
| GTATCCTCTGTTTCAATTCA+TGG | - | chr7_3:63899271-63899290 | None:intergenic | 35.0% | |
| GAATACTTGAACGAGTTTGA+CGG | + | chr7_3:63899308-63899327 | Msa1116300:CDS | 35.0% | |
| AATACTTGAACGAGTTTGAC+GGG | + | chr7_3:63899309-63899328 | Msa1116300:CDS | 35.0% | |
| !!! | GTTCTTTTTTGCAAGTTGGT+TGG | + | chr7_3:63899402-63899421 | Msa1116300:CDS | 35.0% |
| !! | TGGTTGGTCTATATTCAACA+AGG | + | chr7_3:63899418-63899437 | Msa1116300:CDS | 35.0% |
| ! | GAAAAACCTTGCAACTTGTT+AGG | - | chr7_3:63899545-63899564 | None:intergenic | 35.0% |
| TTTGCAGGTACTAACAAAGG+AGG | + | chr7_3:63899075-63899094 | Msa1116300:CDS | 40.0% | |
| TTCTATTACCCGAGCTAGTG+AGG | + | chr7_3:63899511-63899530 | Msa1116300:CDS | 45.0% | |
| GCAGGTACTAACAAAGGAGG+AGG | + | chr7_3:63899078-63899097 | Msa1116300:CDS | 50.0% | |
| TTGACGGGATCGCAAGGATA+AGG | + | chr7_3:63899324-63899343 | Msa1116300:CDS | 50.0% | |
| TGACGGGATCGCAAGGATAA+GGG | + | chr7_3:63899325-63899344 | Msa1116300:CDS | 50.0% | |
| !! | GCAAGGATAAGGGTTGATGC+AGG | + | chr7_3:63899335-63899354 | Msa1116300:CDS | 50.0% |
| !! | GGGTTGATGCAGGTAGAACT+TGG | + | chr7_3:63899345-63899364 | Msa1116300:CDS | 50.0% |
| !! | CCTTGCAACTTGTTAGGGCT+TGG | - | chr7_3:63899539-63899558 | None:intergenic | 50.0% |
| CCAAGCCCTAACAAGTTGCA+AGG | + | chr7_3:63899536-63899555 | Msa1116300:CDS | 50.0% | |
| ACGAGTTTGACGGGATCGCA+AGG | + | chr7_3:63899318-63899337 | Msa1116300:CDS | 55.0% | |
| GCTTGGTTCCTCACTAGCTC+GGG | - | chr7_3:63899522-63899541 | None:intergenic | 55.0% | |
| ! | GGCTTGGTTCCTCACTAGCT+CGG | - | chr7_3:63899523-63899542 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 63899054 | 63899634 | 63899054 | ID=Msa1116300;Name=Msa1116300 |
| chr7_3 | mRNA | 63899054 | 63899634 | 63899054 | ID=Msa1116300-mRNA-1;Parent=Msa1116300;Name=Msa1116300-mRNA-1;_AED=0.37;_eAED=0.37;_QI=0|0|0|1|1|1|2|0|168 |
| chr7_3 | exon | 63899054 | 63899209 | 63899054 | ID=Msa1116300-mRNA-1:exon:15111;Parent=Msa1116300-mRNA-1 |
| chr7_3 | exon | 63899284 | 63899634 | 63899284 | ID=Msa1116300-mRNA-1:exon:15112;Parent=Msa1116300-mRNA-1 |
| chr7_3 | CDS | 63899054 | 63899209 | 63899054 | ID=Msa1116300-mRNA-1:cds;Parent=Msa1116300-mRNA-1 |
| chr7_3 | CDS | 63899284 | 63899634 | 63899284 | ID=Msa1116300-mRNA-1:cds;Parent=Msa1116300-mRNA-1 |
| Gene Sequence |
| Protein sequence |
