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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0535000 | KEH42347.1 | 83.077 | 130 | 6 | 1 | 2 | 115 | 7 | 136 | 1.62e-65 | 204 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0535000 | A0A072VKQ1 | 83.077 | 130 | 6 | 1 | 2 | 115 | 7 | 136 | 7.74e-66 | 204 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0535000 | Msa0594710 | 0.912914 | 1.127393e-83 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0535000 | MtrunA17_Chr1g0182201 | 80.435 | 92 | 2 | 1 | 40 | 115 | 1 | 92 | 8.49e-45 | 140 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0535000 | AT1G33500.2 | 46.296 | 108 | 42 | 2 | 18 | 109 | 147 | 254 | 2.83e-22 | 88.2 |
| Msa0535000 | AT1G33500.3 | 46.296 | 108 | 42 | 2 | 18 | 109 | 147 | 254 | 2.83e-22 | 88.2 |
| Msa0535000 | AT1G33500.1 | 44.944 | 89 | 33 | 2 | 18 | 90 | 147 | 235 | 6.74e-14 | 66.2 |
Find 17 sgRNAs with CRISPR-Local
Find 120 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCCATAGACTGCAAGTATT+CGG | 0.336412 | 4_1:-10770567 | None:intergenic |
| GTAAAATACCAGGTTATCTA+TGG | 0.364353 | 4_1:-10769668 | None:intergenic |
| AACCGAATACTTGCAGTCTA+TGG | 0.365243 | 4_1:+10770565 | Msa0535000:CDS |
| TAACAACTTAATCACTGAGT+TGG | 0.465262 | 4_1:+10769765 | Msa0535000:CDS |
| TATGAAATCCAAGGTTCTCA+TGG | 0.508723 | 4_1:+10769822 | Msa0535000:CDS |
| GTTAATGTCCATGAGAACCT+TGG | 0.514632 | 4_1:-10769830 | None:intergenic |
| CAGTCTATGGAGAAACAAGT+AGG | 0.519458 | 4_1:+10770578 | Msa0535000:CDS |
| TGATATAACCGCTCTTGAAG+AGG | 0.585407 | 4_1:+10770508 | Msa0535000:CDS |
| TAACTGTGCCATAGATAACC+TGG | 0.597968 | 4_1:+10769660 | Msa0535000:CDS |
| AGTCTATGGAGAAACAAGTA+GGG | 0.599025 | 4_1:+10770579 | Msa0535000:CDS |
| GATTCTTGTTATGAAATCCA+AGG | 0.599940 | 4_1:+10769813 | Msa0535000:CDS |
| AGTTGGATTCAGCTAAAGCA+AGG | 0.606877 | 4_1:+10769782 | Msa0535000:CDS |
| ATTATATTCCTCTTCAAGAG+CGG | 0.617481 | 4_1:-10770516 | None:intergenic |
| CAACTTATAAAATGTGCTTG+TGG | 0.646559 | 4_1:+10770825 | Msa0535000:CDS |
| TATAAAATGTGCTTGTGGTG+AGG | 0.649465 | 4_1:+10770830 | Msa0535000:CDS |
| GAAACAAGTAGGGAAACTCA+AGG | 0.667054 | 4_1:+10770589 | Msa0535000:CDS |
| GGTTCTCATGGACATTAACA+AGG | 0.678444 | 4_1:+10769834 | Msa0535000:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATCAATTTAGTTTCATAAAA+CGG | - | chr4_1:10769587-10769606 | None:intergenic | 15.0% |
| !!! | TATGTTAATATTGTTGTTTA+TGG | + | chr4_1:10770091-10770110 | Msa0535000:intron | 15.0% |
| !! | AAAGTAATTATCAACAAAAT+AGG | + | chr4_1:10770653-10770672 | Msa0535000:intron | 15.0% |
| !!! | ATCAATTTAGTTTCATAAAA+CGG | - | chr4_1:10769587-10769606 | None:intergenic | 15.0% |
| !!! | TATGTTAATATTGTTGTTTA+TGG | + | chr4_1:10770091-10770110 | Msa0535000:intron | 15.0% |
| !! | AAAGTAATTATCAACAAAAT+AGG | + | chr4_1:10770653-10770672 | Msa0535000:intron | 15.0% |
| !! | AAGTTTATTATACGAATGTT+TGG | - | chr4_1:10769612-10769631 | None:intergenic | 20.0% |
| !! | TATAATAAACTTATCTTGCA+GGG | + | chr4_1:10769620-10769639 | Msa0535000:intron | 20.0% |
| !! | TTATTCATTACTCAAGTTAT+TGG | + | chr4_1:10769887-10769906 | Msa0535000:intron | 20.0% |
| !! | TAAAATAATTGTCTTCAGAA+TGG | + | chr4_1:10770043-10770062 | Msa0535000:intron | 20.0% |
| !! | AAAATAATTGTCTTCAGAAT+GGG | + | chr4_1:10770044-10770063 | Msa0535000:intron | 20.0% |
| !!! | TAACTTGTAAAATTTTCCAT+TGG | - | chr4_1:10770630-10770649 | None:intergenic | 20.0% |
| !! | AAGTTTATTATACGAATGTT+TGG | - | chr4_1:10769612-10769631 | None:intergenic | 20.0% |
| !! | TATAATAAACTTATCTTGCA+GGG | + | chr4_1:10769620-10769639 | Msa0535000:intron | 20.0% |
| !! | TTATTCATTACTCAAGTTAT+TGG | + | chr4_1:10769887-10769906 | Msa0535000:intron | 20.0% |
| !! | TAAAATAATTGTCTTCAGAA+TGG | + | chr4_1:10770043-10770062 | Msa0535000:intron | 20.0% |
| !! | AAAATAATTGTCTTCAGAAT+GGG | + | chr4_1:10770044-10770063 | Msa0535000:intron | 20.0% |
| !!! | TAACTTGTAAAATTTTCCAT+TGG | - | chr4_1:10770630-10770649 | None:intergenic | 20.0% |
| ! | GTATAATAAACTTATCTTGC+AGG | + | chr4_1:10769619-10769638 | Msa0535000:intron | 25.0% |
| ! | TAATTTATCTTTGTCTGACA+GGG | + | chr4_1:10769730-10769749 | Msa0535000:intron | 25.0% |
| ! | GAATAATTGACAGTCTAAAA+AGG | - | chr4_1:10769873-10769892 | None:intergenic | 25.0% |
| ! | TTCAGAAAATACAGATGAAA+TGG | - | chr4_1:10769931-10769950 | None:intergenic | 25.0% |
| ! | AAATAATTGTCTTCAGAATG+GGG | + | chr4_1:10770045-10770064 | Msa0535000:intron | 25.0% |
| !! | ATATATGCTTCTGATTTTAC+AGG | + | chr4_1:10770794-10770813 | Msa0535000:intron | 25.0% |
| ! | GTATAATAAACTTATCTTGC+AGG | + | chr4_1:10769619-10769638 | Msa0535000:intron | 25.0% |
| ! | TAATTTATCTTTGTCTGACA+GGG | + | chr4_1:10769730-10769749 | Msa0535000:intron | 25.0% |
| ! | GAATAATTGACAGTCTAAAA+AGG | - | chr4_1:10769873-10769892 | None:intergenic | 25.0% |
| ! | TTCAGAAAATACAGATGAAA+TGG | - | chr4_1:10769931-10769950 | None:intergenic | 25.0% |
| ! | AAATAATTGTCTTCAGAATG+GGG | + | chr4_1:10770045-10770064 | Msa0535000:intron | 25.0% |
| !! | ATATATGCTTCTGATTTTAC+AGG | + | chr4_1:10770794-10770813 | Msa0535000:intron | 25.0% |
| GTAAAATACCAGGTTATCTA+TGG | - | chr4_1:10769671-10769690 | None:intergenic | 30.0% | |
| GATGAAAAAGGTAAAATACC+AGG | - | chr4_1:10769681-10769700 | None:intergenic | 30.0% | |
| GAAGAACAGATTGATGAAAA+AGG | - | chr4_1:10769693-10769712 | None:intergenic | 30.0% | |
| GTAATTTATCTTTGTCTGAC+AGG | + | chr4_1:10769729-10769748 | Msa0535000:intron | 30.0% | |
| AATTTATCTTTGTCTGACAG+GGG | + | chr4_1:10769731-10769750 | Msa0535000:intron | 30.0% | |
| TAACAACTTAATCACTGAGT+TGG | + | chr4_1:10769765-10769784 | Msa0535000:CDS | 30.0% | |
| ! | GATTCTTGTTATGAAATCCA+AGG | + | chr4_1:10769813-10769832 | Msa0535000:CDS | 30.0% |
| ! | GTATTTTCTGAATTACATGC+TGG | + | chr4_1:10769939-10769958 | Msa0535000:intron | 30.0% |
| !! | CTAGATAAAACTTGCTATTG+AGG | + | chr4_1:10770157-10770176 | Msa0535000:intron | 30.0% |
| !!! | GATTTAGCTTTTCTCTTAAC+TGG | + | chr4_1:10770382-10770401 | Msa0535000:intron | 30.0% |
| ATTATATTCCTCTTCAAGAG+CGG | - | chr4_1:10770519-10770538 | None:intergenic | 30.0% | |
| GTAAAATAGGTTTAGTCCAA+TGG | + | chr4_1:10770611-10770630 | Msa0535000:intron | 30.0% | |
| AGCATATATCCATGATTGAA+GGG | - | chr4_1:10770783-10770802 | None:intergenic | 30.0% | |
| AAGCATATATCCATGATTGA+AGG | - | chr4_1:10770784-10770803 | None:intergenic | 30.0% | |
| CAACTTATAAAATGTGCTTG+TGG | + | chr4_1:10770825-10770844 | Msa0535000:CDS | 30.0% | |
| GTAAAATACCAGGTTATCTA+TGG | - | chr4_1:10769671-10769690 | None:intergenic | 30.0% | |
| GATGAAAAAGGTAAAATACC+AGG | - | chr4_1:10769681-10769700 | None:intergenic | 30.0% | |
| GAAGAACAGATTGATGAAAA+AGG | - | chr4_1:10769693-10769712 | None:intergenic | 30.0% | |
| GTAATTTATCTTTGTCTGAC+AGG | + | chr4_1:10769729-10769748 | Msa0535000:intron | 30.0% | |
| AATTTATCTTTGTCTGACAG+GGG | + | chr4_1:10769731-10769750 | Msa0535000:intron | 30.0% | |
| TAACAACTTAATCACTGAGT+TGG | + | chr4_1:10769765-10769784 | Msa0535000:CDS | 30.0% | |
| ! | GATTCTTGTTATGAAATCCA+AGG | + | chr4_1:10769813-10769832 | Msa0535000:CDS | 30.0% |
| ! | GTATTTTCTGAATTACATGC+TGG | + | chr4_1:10769939-10769958 | Msa0535000:intron | 30.0% |
| !! | CTAGATAAAACTTGCTATTG+AGG | + | chr4_1:10770157-10770176 | Msa0535000:intron | 30.0% |
| !!! | GATTTAGCTTTTCTCTTAAC+TGG | + | chr4_1:10770382-10770401 | Msa0535000:intron | 30.0% |
| ATTATATTCCTCTTCAAGAG+CGG | - | chr4_1:10770519-10770538 | None:intergenic | 30.0% | |
| GTAAAATAGGTTTAGTCCAA+TGG | + | chr4_1:10770611-10770630 | Msa0535000:intron | 30.0% | |
| AGCATATATCCATGATTGAA+GGG | - | chr4_1:10770783-10770802 | None:intergenic | 30.0% | |
| AAGCATATATCCATGATTGA+AGG | - | chr4_1:10770784-10770803 | None:intergenic | 30.0% | |
| CAACTTATAAAATGTGCTTG+TGG | + | chr4_1:10770825-10770844 | Msa0535000:CDS | 30.0% | |
| AATAAACTTATCTTGCAGGG+AGG | + | chr4_1:10769623-10769642 | Msa0535000:intron | 35.0% | |
| CAATCTGTTCTTCACAAAGT+TGG | + | chr4_1:10769700-10769719 | Msa0535000:intron | 35.0% | |
| TTCTTCACAAAGTTGGAATC+TGG | + | chr4_1:10769707-10769726 | Msa0535000:intron | 35.0% | |
| TATGAAATCCAAGGTTCTCA+TGG | + | chr4_1:10769822-10769841 | Msa0535000:CDS | 35.0% | |
| CATCGTATTTACCATGATCA+AGG | + | chr4_1:10769977-10769996 | Msa0535000:intron | 35.0% | |
| GTGCAGAGAAAATGAGTTTA+AGG | + | chr4_1:10770187-10770206 | Msa0535000:intron | 35.0% | |
| AGTCTATGGAGAAACAAGTA+GGG | + | chr4_1:10770579-10770598 | Msa0535000:CDS | 35.0% | |
| AGGGAAACTCAAGGTAAAAT+AGG | + | chr4_1:10770598-10770617 | Msa0535000:intron | 35.0% | |
| ! | CATCTGTTCGACTTTTACAT+AGG | - | chr4_1:10770748-10770767 | None:intergenic | 35.0% |
| ATATATCCATGATTGAAGGG+GGG | - | chr4_1:10770780-10770799 | None:intergenic | 35.0% | |
| CATATATCCATGATTGAAGG+GGG | - | chr4_1:10770781-10770800 | None:intergenic | 35.0% | |
| GCATATATCCATGATTGAAG+GGG | - | chr4_1:10770782-10770801 | None:intergenic | 35.0% | |
| TATAAAATGTGCTTGTGGTG+AGG | + | chr4_1:10770830-10770849 | Msa0535000:CDS | 35.0% | |
| AATAAACTTATCTTGCAGGG+AGG | + | chr4_1:10769623-10769642 | Msa0535000:intron | 35.0% | |
| CAATCTGTTCTTCACAAAGT+TGG | + | chr4_1:10769700-10769719 | Msa0535000:intron | 35.0% | |
| TTCTTCACAAAGTTGGAATC+TGG | + | chr4_1:10769707-10769726 | Msa0535000:intron | 35.0% | |
| TATGAAATCCAAGGTTCTCA+TGG | + | chr4_1:10769822-10769841 | Msa0535000:CDS | 35.0% | |
| CATCGTATTTACCATGATCA+AGG | + | chr4_1:10769977-10769996 | Msa0535000:intron | 35.0% | |
| GTGCAGAGAAAATGAGTTTA+AGG | + | chr4_1:10770187-10770206 | Msa0535000:intron | 35.0% | |
| AGTCTATGGAGAAACAAGTA+GGG | + | chr4_1:10770579-10770598 | Msa0535000:CDS | 35.0% | |
| AGGGAAACTCAAGGTAAAAT+AGG | + | chr4_1:10770598-10770617 | Msa0535000:intron | 35.0% | |
| ! | CATCTGTTCGACTTTTACAT+AGG | - | chr4_1:10770748-10770767 | None:intergenic | 35.0% |
| ATATATCCATGATTGAAGGG+GGG | - | chr4_1:10770780-10770799 | None:intergenic | 35.0% | |
| CATATATCCATGATTGAAGG+GGG | - | chr4_1:10770781-10770800 | None:intergenic | 35.0% | |
| GCATATATCCATGATTGAAG+GGG | - | chr4_1:10770782-10770801 | None:intergenic | 35.0% | |
| TATAAAATGTGCTTGTGGTG+AGG | + | chr4_1:10770830-10770849 | Msa0535000:CDS | 35.0% | |
| TAACTGTGCCATAGATAACC+TGG | + | chr4_1:10769660-10769679 | Msa0535000:CDS | 40.0% | |
| AGTTGGATTCAGCTAAAGCA+AGG | + | chr4_1:10769782-10769801 | Msa0535000:CDS | 40.0% | |
| GTTAATGTCCATGAGAACCT+TGG | - | chr4_1:10769833-10769852 | None:intergenic | 40.0% | |
| GGTTCTCATGGACATTAACA+AGG | + | chr4_1:10769834-10769853 | Msa0535000:CDS | 40.0% | |
| CATGCACGTATATAGAGAGA+TGG | + | chr4_1:10770256-10770275 | Msa0535000:intron | 40.0% | |
| CTCAGGCTAGATCATTCATT+TGG | - | chr4_1:10770477-10770496 | None:intergenic | 40.0% | |
| !!! | ATATCAGCTGCTTTTAGCTC+AGG | - | chr4_1:10770494-10770513 | None:intergenic | 40.0% |
| TGATATAACCGCTCTTGAAG+AGG | + | chr4_1:10770508-10770527 | Msa0535000:CDS | 40.0% | |
| AACCGAATACTTGCAGTCTA+TGG | + | chr4_1:10770565-10770584 | Msa0535000:CDS | 40.0% | |
| CTCCATAGACTGCAAGTATT+CGG | - | chr4_1:10770570-10770589 | None:intergenic | 40.0% | |
| CAGTCTATGGAGAAACAAGT+AGG | + | chr4_1:10770578-10770597 | Msa0535000:CDS | 40.0% | |
| GAAACAAGTAGGGAAACTCA+AGG | + | chr4_1:10770589-10770608 | Msa0535000:CDS | 40.0% | |
| TAACTGTGCCATAGATAACC+TGG | + | chr4_1:10769660-10769679 | Msa0535000:CDS | 40.0% | |
| AGTTGGATTCAGCTAAAGCA+AGG | + | chr4_1:10769782-10769801 | Msa0535000:CDS | 40.0% | |
| GTTAATGTCCATGAGAACCT+TGG | - | chr4_1:10769833-10769852 | None:intergenic | 40.0% | |
| GGTTCTCATGGACATTAACA+AGG | + | chr4_1:10769834-10769853 | Msa0535000:CDS | 40.0% | |
| CATGCACGTATATAGAGAGA+TGG | + | chr4_1:10770256-10770275 | Msa0535000:intron | 40.0% | |
| CTCAGGCTAGATCATTCATT+TGG | - | chr4_1:10770477-10770496 | None:intergenic | 40.0% | |
| !!! | ATATCAGCTGCTTTTAGCTC+AGG | - | chr4_1:10770494-10770513 | None:intergenic | 40.0% |
| TGATATAACCGCTCTTGAAG+AGG | + | chr4_1:10770508-10770527 | Msa0535000:CDS | 40.0% | |
| AACCGAATACTTGCAGTCTA+TGG | + | chr4_1:10770565-10770584 | Msa0535000:CDS | 40.0% | |
| CTCCATAGACTGCAAGTATT+CGG | - | chr4_1:10770570-10770589 | None:intergenic | 40.0% | |
| CAGTCTATGGAGAAACAAGT+AGG | + | chr4_1:10770578-10770597 | Msa0535000:CDS | 40.0% | |
| GAAACAAGTAGGGAAACTCA+AGG | + | chr4_1:10770589-10770608 | Msa0535000:CDS | 40.0% | |
| ACATGCTGGAATGTGTGCAT+TGG | + | chr4_1:10769953-10769972 | Msa0535000:intron | 45.0% | |
| CATGCTGGAATGTGTGCATT+GGG | + | chr4_1:10769954-10769973 | Msa0535000:intron | 45.0% | |
| GCAGTGTTCAACCTTGATCA+TGG | - | chr4_1:10769991-10770010 | None:intergenic | 45.0% | |
| ! | GCTCTTTTGTCTGACAAAGC+TGG | + | chr4_1:10770539-10770558 | Msa0535000:CDS | 45.0% |
| TAGTTTCCCCCCTTCAATCA+TGG | + | chr4_1:10770771-10770790 | Msa0535000:intron | 45.0% | |
| ACATGCTGGAATGTGTGCAT+TGG | + | chr4_1:10769953-10769972 | Msa0535000:intron | 45.0% | |
| CATGCTGGAATGTGTGCATT+GGG | + | chr4_1:10769954-10769973 | Msa0535000:intron | 45.0% | |
| GCAGTGTTCAACCTTGATCA+TGG | - | chr4_1:10769991-10770010 | None:intergenic | 45.0% | |
| ! | GCTCTTTTGTCTGACAAAGC+TGG | + | chr4_1:10770539-10770558 | Msa0535000:CDS | 45.0% |
| TAGTTTCCCCCCTTCAATCA+TGG | + | chr4_1:10770771-10770790 | Msa0535000:intron | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 10769548 | 10770890 | 10769548 | ID=Msa0535000;Name=Msa0535000 |
| chr4_1 | mRNA | 10769548 | 10770890 | 10769548 | ID=Msa0535000-mRNA-1;Parent=Msa0535000;Name=Msa0535000-mRNA-1;_AED=0.15;_eAED=0.15;_QI=0|0.25|0.2|0.8|1|0.6|5|0|115 |
| chr4_1 | exon | 10769548 | 10769551 | 10769548 | ID=Msa0535000-mRNA-1:exon:3430;Parent=Msa0535000-mRNA-1 |
| chr4_1 | exon | 10769641 | 10769681 | 10769641 | ID=Msa0535000-mRNA-1:exon:3431;Parent=Msa0535000-mRNA-1 |
| chr4_1 | exon | 10769751 | 10769855 | 10769751 | ID=Msa0535000-mRNA-1:exon:3432;Parent=Msa0535000-mRNA-1 |
| chr4_1 | exon | 10770491 | 10770610 | 10770491 | ID=Msa0535000-mRNA-1:exon:3433;Parent=Msa0535000-mRNA-1 |
| chr4_1 | exon | 10770816 | 10770890 | 10770816 | ID=Msa0535000-mRNA-1:exon:3434;Parent=Msa0535000-mRNA-1 |
| chr4_1 | CDS | 10769548 | 10769551 | 10769548 | ID=Msa0535000-mRNA-1:cds;Parent=Msa0535000-mRNA-1 |
| chr4_1 | CDS | 10769641 | 10769681 | 10769641 | ID=Msa0535000-mRNA-1:cds;Parent=Msa0535000-mRNA-1 |
| chr4_1 | CDS | 10769751 | 10769855 | 10769751 | ID=Msa0535000-mRNA-1:cds;Parent=Msa0535000-mRNA-1 |
| chr4_1 | CDS | 10770491 | 10770610 | 10770491 | ID=Msa0535000-mRNA-1:cds;Parent=Msa0535000-mRNA-1 |
| chr4_1 | CDS | 10770816 | 10770890 | 10770816 | ID=Msa0535000-mRNA-1:cds;Parent=Msa0535000-mRNA-1 |
| Gene Sequence |
| Protein sequence |
