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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0349340 | AES68797.1 | 84.507 | 71 | 11 | 0 | 1 | 71 | 1 | 71 | 5.25e-33 | 118 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0349340 | G7IVW3 | 84.507 | 71 | 11 | 0 | 1 | 71 | 1 | 71 | 2.51e-33 | 118 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0075160 | Msa0349340 | -0.800155 | 1.645315e-48 | -8.615850e-47 |
| Msa0167500 | Msa0349340 | -0.802215 | 6.235385e-49 | -8.615850e-47 |
| Msa0168310 | Msa0349340 | 0.827113 | 1.871771e-54 | -8.615850e-47 |
| Msa0349280 | Msa0349340 | 0.910066 | 2.837428e-82 | -8.615850e-47 |
| Msa0349340 | Msa0396230 | 0.806349 | 8.589515e-50 | -8.615850e-47 |
| Msa0349340 | Msa0396240 | 0.903452 | 3.418726e-79 | -8.615850e-47 |
| Msa0349340 | Msa0396290 | 0.818788 | 1.632263e-52 | -8.615850e-47 |
| Msa0349340 | Msa1170490 | 0.810185 | 1.307220e-50 | -8.615850e-47 |
| Msa0349340 | Msa1175100 | 0.828714 | 7.709165e-55 | -8.615850e-47 |
| Msa0349340 | Msa1234470 | 0.823985 | 1.031089e-53 | -8.615850e-47 |
| Msa0349340 | Msa1306960 | 0.821824 | 3.288118e-53 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0349340 | MtrunA17_Chr3g0082801 | 84.507 | 71 | 11 | 0 | 1 | 71 | 4 | 74 | 4.86e-37 | 118 |
| Msa0349340 | MtrunA17_Chr3g0082851 | 68.254 | 63 | 16 | 3 | 1 | 63 | 1 | 59 | 4.20e-20 | 75.5 |
| Msa0349340 | MtrunA17_Chr3g0082821 | 53.226 | 62 | 24 | 3 | 1 | 61 | 1 | 58 | 4.65e-13 | 57.8 |
| Msa0349340 | MtrunA17_Chr3g0082831 | 50.820 | 61 | 24 | 3 | 1 | 61 | 1 | 55 | 2.47e-11 | 53.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 28 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTTGCCATTCTTATGATTC+TGG | 0.176754 | 3_1:+12868049 | None:intergenic |
| CTCCAATATAAGATATATTA+TGG | 0.196890 | 3_1:-12868433 | Msa0349340:exon |
| TGCCGTTGCTTCTACTTTCA+TGG | 0.219220 | 3_1:+12868356 | None:intergenic |
| AGCCATAATATATCTTATAT+TGG | 0.374060 | 3_1:+12868431 | None:intergenic |
| GAGGAGGCACAGCATAGTTA+TGG | 0.405206 | 3_1:+12868104 | None:intergenic |
| CATTCTGTTGGTGTTAATGA+TGG | 0.424860 | 3_1:-12868136 | Msa0349340:CDS |
| AGGAGGCACAGCATAGTTAT+GGG | 0.448878 | 3_1:+12868105 | None:intergenic |
| CATGCTTCTTTGTGAGGAAG+AGG | 0.456230 | 3_1:+12868309 | None:intergenic |
| CTGATTGGTGCAGGAGGAGG+AGG | 0.483631 | 3_1:+12868088 | None:intergenic |
| AACAACTTGAACACTATACT+TGG | 0.506730 | 3_1:+12868487 | None:intergenic |
| CAACTGATTGGTGCAGGAGG+AGG | 0.506888 | 3_1:+12868085 | None:intergenic |
| CAACGGCAAGGGTACCATCA+TGG | 0.520766 | 3_1:-12868341 | Msa0349340:CDS |
| AAGAATCAACTGATTGGTGC+AGG | 0.527694 | 3_1:+12868079 | None:intergenic |
| TAAAAGTGTTATGTTAAACC+TGG | 0.528314 | 3_1:-12868403 | Msa0349340:CDS |
| AACTTACATGCTTCTTTGTG+AGG | 0.549537 | 3_1:+12868303 | None:intergenic |
| AGAATGGCAAACAAGTATGT+TGG | 0.557736 | 3_1:-12868038 | Msa0349340:three_prime_UTR |
| GAGCACCAGAATCATAAGAA+TGG | 0.560588 | 3_1:-12868054 | Msa0349340:three_prime_UTR |
| GGACGCCTACTTCATTCTGT+TGG | 0.568175 | 3_1:-12868148 | Msa0349340:CDS |
| GCTCTGAAGAATCAACTGAT+TGG | 0.569246 | 3_1:+12868073 | None:intergenic |
| TAACACCAACAGAATGAAGT+AGG | 0.577968 | 3_1:+12868143 | None:intergenic |
| GTCCATGAAAGTAGAAGCAA+CGG | 0.580256 | 3_1:-12868358 | Msa0349340:CDS |
| GAATCATAAACAGAAAAGCC+AGG | 0.588758 | 3_1:+12868385 | None:intergenic |
| TGAAAGTAGAAGCAACGGCA+AGG | 0.589324 | 3_1:-12868353 | Msa0349340:CDS |
| ATGTTGGCAAAGAATAAACA+TGG | 0.605178 | 3_1:-12868022 | Msa0349340:three_prime_UTR |
| GAAAGTAGAAGCAACGGCAA+GGG | 0.621106 | 3_1:-12868352 | Msa0349340:CDS |
| AATCAACTGATTGGTGCAGG+AGG | 0.632665 | 3_1:+12868082 | None:intergenic |
| ACAGCATAGTTATGGGAGCG+TGG | 0.670795 | 3_1:+12868112 | None:intergenic |
| TGTTGGCAAAGAATAAACAT+GGG | 0.690833 | 3_1:-12868021 | Msa0349340:three_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CTCCAATATAAGATATATTA+TGG | - | chr3_1:12868100-12868119 | Msa0349340:CDS | 20.0% |
| !! | AGCCATAATATATCTTATAT+TGG | + | chr3_1:12868105-12868124 | None:intergenic | 20.0% |
| !!! | TGTAAGTTATAACTTTTTGT+AGG | - | chr3_1:12868245-12868264 | Msa0349340:intron | 20.0% |
| ! | ATTGAACCTTAAAAAGTAGT+AGG | + | chr3_1:12868008-12868027 | None:intergenic | 25.0% |
| !!! | TAAAAGTGTTATGTTAAACC+TGG | - | chr3_1:12868130-12868149 | Msa0349340:CDS | 25.0% |
| !! | TTTTCCATTAAAATTGTGCA+TGG | - | chr3_1:12868306-12868325 | Msa0349340:intron | 25.0% |
| !! | TTAACCATGCACAATTTTAA+TGG | + | chr3_1:12868313-12868332 | None:intergenic | 25.0% |
| AACAACTTGAACACTATACT+TGG | + | chr3_1:12868049-12868068 | None:intergenic | 30.0% | |
| ATGTTGGCAAAGAATAAACA+TGG | - | chr3_1:12868511-12868530 | Msa0349340:five_prime_UTR | 30.0% | |
| TGTTGGCAAAGAATAAACAT+GGG | - | chr3_1:12868512-12868531 | Msa0349340:five_prime_UTR | 30.0% | |
| GAATCATAAACAGAAAAGCC+AGG | + | chr3_1:12868151-12868170 | None:intergenic | 35.0% | |
| ! | AGAGGCTTAATTTTCCATGA+TGG | + | chr3_1:12868209-12868228 | None:intergenic | 35.0% |
| AACTTACATGCTTCTTTGTG+AGG | + | chr3_1:12868233-12868252 | None:intergenic | 35.0% | |
| AAACATGGCAACAAGATGAA+GGG | + | chr3_1:12868346-12868365 | None:intergenic | 35.0% | |
| ATCTTGTTGCCATGTTTGTT+TGG | - | chr3_1:12868349-12868368 | Msa0349340:CDS | 35.0% | |
| TCTTGTTGCCATGTTTGTTT+GGG | - | chr3_1:12868350-12868369 | Msa0349340:CDS | 35.0% | |
| TTGAGATTCCCAAACAAACA+TGG | + | chr3_1:12868361-12868380 | None:intergenic | 35.0% | |
| TTGTTTGGGAATCTCAAAGA+TGG | - | chr3_1:12868364-12868383 | Msa0349340:CDS | 35.0% | |
| TAACACCAACAGAATGAAGT+AGG | + | chr3_1:12868393-12868412 | None:intergenic | 35.0% | |
| !! | CATTCTGTTGGTGTTAATGA+TGG | - | chr3_1:12868397-12868416 | Msa0349340:CDS | 35.0% |
| GTTTGCCATTCTTATGATTC+TGG | + | chr3_1:12868487-12868506 | None:intergenic | 35.0% | |
| AGAATGGCAAACAAGTATGT+TGG | - | chr3_1:12868495-12868514 | Msa0349340:five_prime_UTR | 35.0% | |
| GTCCATGAAAGTAGAAGCAA+CGG | - | chr3_1:12868175-12868194 | Msa0349340:intron | 40.0% | |
| CAAACATGGCAACAAGATGA+AGG | + | chr3_1:12868347-12868366 | None:intergenic | 40.0% | |
| AAGAATCAACTGATTGGTGC+AGG | + | chr3_1:12868457-12868476 | None:intergenic | 40.0% | |
| !! | GCTCTGAAGAATCAACTGAT+TGG | + | chr3_1:12868463-12868482 | None:intergenic | 40.0% |
| GAGCACCAGAATCATAAGAA+TGG | - | chr3_1:12868479-12868498 | Msa0349340:five_prime_UTR | 40.0% | |
| TGCCGTTGCTTCTACTTTCA+TGG | + | chr3_1:12868180-12868199 | None:intergenic | 45.0% | |
| TGAAAGTAGAAGCAACGGCA+AGG | - | chr3_1:12868180-12868199 | Msa0349340:intron | 45.0% | |
| GAAAGTAGAAGCAACGGCAA+GGG | - | chr3_1:12868181-12868200 | Msa0349340:intron | 45.0% | |
| CATGCTTCTTTGTGAGGAAG+AGG | + | chr3_1:12868227-12868246 | None:intergenic | 45.0% | |
| ! | AGGAGGCACAGCATAGTTAT+GGG | + | chr3_1:12868431-12868450 | None:intergenic | 45.0% |
| AATCAACTGATTGGTGCAGG+AGG | + | chr3_1:12868454-12868473 | None:intergenic | 45.0% | |
| GGACGCCTACTTCATTCTGT+TGG | - | chr3_1:12868385-12868404 | Msa0349340:CDS | 50.0% | |
| ACAGCATAGTTATGGGAGCG+TGG | + | chr3_1:12868424-12868443 | None:intergenic | 50.0% | |
| ! | GAGGAGGCACAGCATAGTTA+TGG | + | chr3_1:12868432-12868451 | None:intergenic | 50.0% |
| !! | CAACGGCAAGGGTACCATCA+TGG | - | chr3_1:12868192-12868211 | Msa0349340:intron | 55.0% |
| CAACTGATTGGTGCAGGAGG+AGG | + | chr3_1:12868451-12868470 | None:intergenic | 55.0% | |
| CTGATTGGTGCAGGAGGAGG+AGG | + | chr3_1:12868448-12868467 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 12868001 | 12868554 | 12868001 | ID=Msa0349340;Name=Msa0349340 |
| chr3_1 | mRNA | 12868001 | 12868554 | 12868001 | ID=Msa0349340-mRNA-1;Parent=Msa0349340;Name=Msa0349340-mRNA-1;_AED=0.38;_eAED=0.38;_QI=118|1|1|1|1|1|2|83|71 |
| chr3_1 | exon | 12868001 | 12868172 | 12868001 | ID=Msa0349340-mRNA-1:exon:3303;Parent=Msa0349340-mRNA-1 |
| chr3_1 | exon | 12868310 | 12868554 | 12868310 | ID=Msa0349340-mRNA-1:exon:3302;Parent=Msa0349340-mRNA-1 |
| chr3_1 | five_prime_UTR | 12868437 | 12868554 | 12868437 | ID=Msa0349340-mRNA-1:five_prime_utr;Parent=Msa0349340-mRNA-1 |
| chr3_1 | CDS | 12868310 | 12868436 | 12868310 | ID=Msa0349340-mRNA-1:cds;Parent=Msa0349340-mRNA-1 |
| chr3_1 | CDS | 12868084 | 12868172 | 12868084 | ID=Msa0349340-mRNA-1:cds;Parent=Msa0349340-mRNA-1 |
| chr3_1 | three_prime_UTR | 12868001 | 12868083 | 12868001 | ID=Msa0349340-mRNA-1:three_prime_utr;Parent=Msa0349340-mRNA-1 |
| Gene Sequence |
| Protein sequence |
