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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0956940 | AES69043.1 | 65.385 | 104 | 16 | 1 | 3 | 106 | 18 | 101 | 8.44e-33 | 120 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0956940 | sp|P0CM96|CWC22_CRYNJ | 36.029 | 136 | 56 | 3 | 1 | 105 | 173 | 308 | 3.95e-16 | 75.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0028380 | Msa0956940 | 0.800629 | 1.317749e-48 | -8.615850e-47 |
| Msa0028480 | Msa0956940 | 0.800105 | 1.684798e-48 | -8.615850e-47 |
| Msa0743810 | Msa0956940 | 0.802998 | 4.299725e-49 | -8.615850e-47 |
| Msa0124150 | Msa0956940 | 0.810274 | 1.250624e-50 | -8.615850e-47 |
| Msa0331450 | Msa0956940 | 0.816120 | 6.514231e-52 | -8.615850e-47 |
| Msa0956940 | Msa1192640 | 0.802520 | 5.396958e-49 | -8.615850e-47 |
| Msa0956940 | Msa1285930 | 0.804038 | 2.616679e-49 | -8.615850e-47 |
| Msa0956940 | Msa1287810 | 0.815076 | 1.112853e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0956940 | MtrunA17_Chr3g0094801 | 50.365 | 137 | 37 | 3 | 1 | 106 | 233 | 369 | 8.61e-32 | 117 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0956940 | AT1G80930.1 | 46.715 | 137 | 42 | 3 | 1 | 106 | 362 | 498 | 2.45e-28 | 107 |
Find 16 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACACTAAGGAAGAGTATTAA+TGG | 0.257517 | 6_3:-66117403 | Msa0956940:intron |
| AACTTACAAATTCCATATCC+TGG | 0.366929 | 6_3:-66117277 | Msa0956940:CDS |
| ACATTAGTAAACCCAGGATA+TGG | 0.370826 | 6_3:+66117265 | None:intergenic |
| ACTTCAAAACTATCAGCATT+AGG | 0.396315 | 6_3:+66116932 | None:intergenic |
| AAGGAAGAGTATTAATGGTT+TGG | 0.399858 | 6_3:-66117398 | Msa0956940:CDS |
| GGAATTTGTAAGTTCATAAA+CGG | 0.427535 | 6_3:+66117286 | None:intergenic |
| TACTTGTAACATTCATTGCA+TGG | 0.483460 | 6_3:+66117365 | None:intergenic |
| TTTGTCGAGAACTTGATCCT+TGG | 0.491647 | 6_3:-66117328 | Msa0956940:CDS |
| TACTAATAAAATCACCTCAT+AGG | 0.503805 | 6_3:+66117536 | None:intergenic |
| ACTTACAAATTCCATATCCT+GGG | 0.521602 | 6_3:-66117276 | Msa0956940:CDS |
| TGCAAAATAGTTGTATTCCA+AGG | 0.556512 | 6_3:+66117311 | None:intergenic |
| TTAATAGTAGCAAGTAATTG+AGG | 0.567063 | 6_3:+66117031 | None:intergenic |
| TATTAATGGTTTGGTAAACA+AGG | 0.588952 | 6_3:-66117389 | Msa0956940:CDS |
| TATTGTGATAGAGCTACTCA+CGG | 0.643043 | 6_3:-66116969 | Msa0956940:CDS |
| AACAACACATTAGTAAACCC+AGG | 0.648683 | 6_3:+66117259 | None:intergenic |
| AGCACATATGAATGAGCATG+TGG | 0.733236 | 6_3:-66117002 | Msa0956940:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTCCTAATTTTTCTACACTA+AGG | - | chr6_3:66117026-66117045 | Msa0956940:CDS | 25.0% |
| ! | TTCCTTAGTGTAGAAAAATT+AGG | + | chr6_3:66117031-66117050 | None:intergenic | 25.0% |
| !!! | TATTAATGGTTTGGTAAACA+AGG | - | chr6_3:66117054-66117073 | Msa0956940:intron | 25.0% |
| ! | GGAATTTGTAAGTTCATAAA+CGG | + | chr6_3:66117160-66117179 | None:intergenic | 25.0% |
| ! | TTAATAGTAGCAAGTAATTG+AGG | + | chr6_3:66117415-66117434 | None:intergenic | 25.0% |
| CTTAGACCTAAATCTAAATC+AGG | + | chr6_3:66116963-66116982 | None:intergenic | 30.0% | |
| !! | ACACTAAGGAAGAGTATTAA+TGG | - | chr6_3:66117040-66117059 | Msa0956940:intron | 30.0% |
| !! | AAGGAAGAGTATTAATGGTT+TGG | - | chr6_3:66117045-66117064 | Msa0956940:intron | 30.0% |
| TACTTGTAACATTCATTGCA+TGG | + | chr6_3:66117081-66117100 | None:intergenic | 30.0% | |
| TGCAAAATAGTTGTATTCCA+AGG | + | chr6_3:66117135-66117154 | None:intergenic | 30.0% | |
| AACTTACAAATTCCATATCC+TGG | - | chr6_3:66117166-66117185 | Msa0956940:intron | 30.0% | |
| ACTTACAAATTCCATATCCT+GGG | - | chr6_3:66117167-66117186 | Msa0956940:intron | 30.0% | |
| AACACGAAATGTACTAAAGT+TGG | - | chr6_3:66117210-66117229 | Msa0956940:intron | 30.0% | |
| CCAATTAGAAGCAAATGAAA+AGG | + | chr6_3:66117371-66117390 | None:intergenic | 30.0% | |
| ! | CCTTTTCATTTGCTTCTAAT+TGG | - | chr6_3:66117368-66117387 | Msa0956940:CDS | 30.0% |
| ACTTCAAAACTATCAGCATT+AGG | + | chr6_3:66117514-66117533 | None:intergenic | 30.0% | |
| !!! | GATAGTTTTGAAGTAGTTGT+TGG | - | chr6_3:66117520-66117539 | Msa0956940:intron | 30.0% |
| TATGTCAGAATTGAGTGTGA+TGG | - | chr6_3:66116936-66116955 | Msa0956940:CDS | 35.0% | |
| GATGGTCCTGATTTAGATTT+AGG | - | chr6_3:66116954-66116973 | Msa0956940:CDS | 35.0% | |
| AAGTTCTCGACAAAAAACTC+AGG | + | chr6_3:66117109-66117128 | None:intergenic | 35.0% | |
| ACATTAGTAAACCCAGGATA+TGG | + | chr6_3:66117181-66117200 | None:intergenic | 35.0% | |
| AACAACACATTAGTAAACCC+AGG | + | chr6_3:66117187-66117206 | None:intergenic | 35.0% | |
| CAGCAAAGGAAATTACATCA+GGG | + | chr6_3:66117312-66117331 | None:intergenic | 35.0% | |
| TCAGCAAAGGAAATTACATC+AGG | + | chr6_3:66117313-66117332 | None:intergenic | 35.0% | |
| AAGCAAATGAAAAGGCAAGT+AGG | + | chr6_3:66117363-66117382 | None:intergenic | 35.0% | |
| TATTGTGATAGAGCTACTCA+CGG | - | chr6_3:66117474-66117493 | Msa0956940:intron | 35.0% | |
| TTTGTCGAGAACTTGATCCT+TGG | - | chr6_3:66117115-66117134 | Msa0956940:intron | 40.0% | |
| GAGAACAACAATCTCAGCAA+AGG | + | chr6_3:66117326-66117345 | None:intergenic | 40.0% | |
| ! | AGGCAAGTAGGAGTACAATT+GGG | + | chr6_3:66117351-66117370 | None:intergenic | 40.0% |
| ! | AAGGCAAGTAGGAGTACAAT+TGG | + | chr6_3:66117352-66117371 | None:intergenic | 40.0% |
| AGCACATATGAATGAGCATG+TGG | - | chr6_3:66117441-66117460 | Msa0956940:intron | 40.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 66116910 | 66117555 | 66116910 | ID=Msa0956940;Name=Msa0956940 |
| chr6_3 | mRNA | 66116910 | 66117555 | 66116910 | ID=Msa0956940-mRNA-1;Parent=Msa0956940;Name=Msa0956940-mRNA-1;_AED=0.16;_eAED=0.19;_QI=0|0|0|0.66|0|0.33|3|0|106 |
| chr6_3 | exon | 66117551 | 66117555 | 66117551 | ID=Msa0956940-mRNA-1:exon:12391;Parent=Msa0956940-mRNA-1 |
| chr6_3 | exon | 66117246 | 66117417 | 66117246 | ID=Msa0956940-mRNA-1:exon:12390;Parent=Msa0956940-mRNA-1 |
| chr6_3 | exon | 66116910 | 66117053 | 66116910 | ID=Msa0956940-mRNA-1:exon:12389;Parent=Msa0956940-mRNA-1 |
| chr6_3 | CDS | 66117551 | 66117555 | 66117551 | ID=Msa0956940-mRNA-1:cds;Parent=Msa0956940-mRNA-1 |
| chr6_3 | CDS | 66117246 | 66117417 | 66117246 | ID=Msa0956940-mRNA-1:cds;Parent=Msa0956940-mRNA-1 |
| chr6_3 | CDS | 66116910 | 66117053 | 66116910 | ID=Msa0956940-mRNA-1:cds;Parent=Msa0956940-mRNA-1 |
| Gene Sequence |
| Protein sequence |
