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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0840100 | AES92029.1 | 77.273 | 198 | 16 | 1 | 1 | 169 | 28 | 225 | 5.59e-104 | 307 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0840100 | G7JQ00 | 77.273 | 198 | 16 | 1 | 1 | 169 | 28 | 225 | 2.67e-104 | 307 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0840100 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0840100 | MtrunA17_Chr5g0393501 | 30.653 | 199 | 106 | 4 | 2 | 168 | 43 | 241 | 5.83e-25 | 96.7 |
| Msa0840100 | MtrunA17_Chr4g0044671 | 27.717 | 184 | 104 | 2 | 1 | 155 | 25 | 208 | 3.54e-14 | 67.8 |
| Msa0840100 | MtrunA17_Chr4g0034781 | 27.174 | 184 | 105 | 2 | 1 | 155 | 19 | 202 | 2.44e-13 | 65.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 37 sgRNAs with CRISPR-Local
Find 49 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGAAGTTCCTATCTGGATA+TGG | 0.289906 | 5_4:-15681988 | Msa0840100:intron |
| GTACCTTTGAAGTTCCTATC+TGG | 0.333773 | 5_4:-15681994 | Msa0840100:intron |
| AGGAATTTGCCGAAAGTATC+AGG | 0.335653 | 5_4:+15681841 | None:intergenic |
| AATCGTGATGTTTCACTCTA+AGG | 0.341127 | 5_4:+15681821 | None:intergenic |
| TAGGAACTACCTGATACTTT+CGG | 0.400617 | 5_4:-15681850 | Msa0840100:CDS |
| TCCGAACATCACATTTGGTA+TGG | 0.417548 | 5_4:+15681735 | None:intergenic |
| ATCTACTTCCACCAAGGTAC+TGG | 0.428620 | 5_4:+15682101 | None:intergenic |
| CCGAACATCACATTTGGTAT+GGG | 0.451435 | 5_4:+15681736 | None:intergenic |
| GAGCAATGGCACTTGCTAGA+TGG | 0.455163 | 5_4:-15682241 | Msa0840100:CDS |
| TTGTGCTGCCAATGGTATTG+AGG | 0.463000 | 5_4:-15681695 | Msa0840100:CDS |
| AAATATTTAGCAACAAAGAA+TGG | 0.465634 | 5_4:+15682277 | None:intergenic |
| CCAAATGTGATGTTCGGAAA+AGG | 0.475440 | 5_4:-15681730 | Msa0840100:CDS |
| CCCATACCAAATGTGATGTT+CGG | 0.477035 | 5_4:-15681736 | Msa0840100:CDS |
| TCGTCGATCCATATCCAGAT+AGG | 0.486078 | 5_4:+15681980 | None:intergenic |
| GGCCGTTGTTGACAGATGGT+TGG | 0.487397 | 5_4:-15682174 | Msa0840100:CDS |
| GTCATGCGTTTATCAACGCT+TGG | 0.500774 | 5_4:+15681612 | None:intergenic |
| TGTGCTGCCAATGGTATTGA+GGG | 0.501205 | 5_4:-15681694 | Msa0840100:CDS |
| CACGATTACGTCATGTTGTA+CGG | 0.501494 | 5_4:-15681805 | Msa0840100:CDS |
| TAAATATTTCTACGAGCTAC+CGG | 0.507354 | 5_4:-15682263 | Msa0840100:CDS |
| ATTATTGCTTTCCAGTACCT+TGG | 0.508515 | 5_4:-15682112 | Msa0840100:CDS |
| ACAGGAATGATATTGTCATA+AGG | 0.528831 | 5_4:+15681781 | None:intergenic |
| AGTCGGCCGTTGTTGACAGA+TGG | 0.531450 | 5_4:-15682178 | Msa0840100:CDS |
| TCTAGCAAGTGCCATTGCTC+CGG | 0.534587 | 5_4:+15682244 | None:intergenic |
| ATTGCTTTCCAGTACCTTGG+TGG | 0.549152 | 5_4:-15682109 | Msa0840100:CDS |
| CGAACATCACATTTGGTATG+GGG | 0.552019 | 5_4:+15681737 | None:intergenic |
| GTCTCCGCCCTCAATACCAT+TGG | 0.581950 | 5_4:+15681687 | None:intergenic |
| CTGACTAACTTCTAGGATGT+CGG | 0.584798 | 5_4:-15682310 | None:intergenic |
| TGGCACTTGCTAGATGGTGA+TGG | 0.587936 | 5_4:-15682235 | Msa0840100:CDS |
| ATGTGATGTTCGGAAAAGGT+TGG | 0.606400 | 5_4:-15681726 | Msa0840100:CDS |
| GGCACTTGCTAGATGGTGAT+GGG | 0.608333 | 5_4:-15682234 | Msa0840100:CDS |
| TGTTCAACAAATCAGTTAGT+CGG | 0.609582 | 5_4:-15682195 | Msa0840100:CDS |
| TCTACGAGCTACCGGAGCAA+TGG | 0.612965 | 5_4:-15682255 | Msa0840100:CDS |
| TTTCAAGTACAAGTGTGTCG+TGG | 0.648578 | 5_4:-15681656 | Msa0840100:CDS |
| CTCCAACCATCTGTCAACAA+CGG | 0.679074 | 5_4:+15682172 | None:intergenic |
| TTTGAAATCTACTTCCACCA+AGG | 0.681040 | 5_4:+15682095 | None:intergenic |
| TGGATCGACGAAATCACCGA+AGG | 0.700849 | 5_4:-15681968 | Msa0840100:intron |
| GCTGCCAATGGTATTGAGGG+CGG | 0.739556 | 5_4:-15681691 | Msa0840100:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GTTTATATATGCTATAATAA+AGG | - | chr5_4:15682009-15682028 | Msa0840100:intron | 15.0% |
| !!! | CAGTTTTTTTTCTTTTTTTT+AGG | - | chr5_4:15682050-15682069 | Msa0840100:intron | 15.0% |
| !! | AAATATTTAGCAACAAAGAA+TGG | + | chr5_4:15681645-15681664 | None:intergenic | 20.0% |
| !! | AAAAAACAATAAACAACCTT+CGG | + | chr5_4:15681970-15681989 | None:intergenic | 20.0% |
| !! | TTTTGATGCTATTCATTTAG+AGG | - | chr5_4:15681987-15682006 | Msa0840100:intron | 25.0% |
| !!! | TCTGTATATTTTAATCTCAC+AGG | + | chr5_4:15682159-15682178 | None:intergenic | 25.0% |
| ! | TAAATATTTCTACGAGCTAC+CGG | - | chr5_4:15681656-15681675 | Msa0840100:CDS | 30.0% |
| TGTTCAACAAATCAGTTAGT+CGG | - | chr5_4:15681724-15681743 | Msa0840100:CDS | 30.0% | |
| ACAGGAATGATATTGTCATA+AGG | + | chr5_4:15682141-15682160 | None:intergenic | 30.0% | |
| ATTATTGCTTTCCAGTACCT+TGG | - | chr5_4:15681807-15681826 | Msa0840100:CDS | 35.0% | |
| ! | TTTGAAATCTACTTCCACCA+AGG | + | chr5_4:15681827-15681846 | None:intergenic | 35.0% |
| TATCCAGATAGGAACTTCAA+AGG | + | chr5_4:15681931-15681950 | None:intergenic | 35.0% | |
| TTGAAGTTCCTATCTGGATA+TGG | - | chr5_4:15681931-15681950 | Msa0840100:intron | 35.0% | |
| TAGGAACTACCTGATACTTT+CGG | - | chr5_4:15682069-15682088 | Msa0840100:intron | 35.0% | |
| AATCGTGATGTTTCACTCTA+AGG | + | chr5_4:15682101-15682120 | None:intergenic | 35.0% | |
| TGATAGGGTGGATAATCAGT+TGG | + | chr5_4:15681876-15681895 | None:intergenic | 40.0% | |
| !! | GTACCTTTGAAGTTCCTATC+TGG | - | chr5_4:15681925-15681944 | Msa0840100:intron | 40.0% |
| !! | AGGAATTTGCCGAAAGTATC+AGG | + | chr5_4:15682081-15682100 | None:intergenic | 40.0% |
| CACGATTACGTCATGTTGTA+CGG | - | chr5_4:15682114-15682133 | Msa0840100:CDS | 40.0% | |
| CGAACATCACATTTGGTATG+GGG | + | chr5_4:15682185-15682204 | None:intergenic | 40.0% | |
| CCGAACATCACATTTGGTAT+GGG | + | chr5_4:15682186-15682205 | None:intergenic | 40.0% | |
| CCCATACCAAATGTGATGTT+CGG | - | chr5_4:15682183-15682202 | Msa0840100:CDS | 40.0% | |
| TCCGAACATCACATTTGGTA+TGG | + | chr5_4:15682187-15682206 | None:intergenic | 40.0% | |
| ! | CCTTTTCCGAACATCACATT+TGG | + | chr5_4:15682192-15682211 | None:intergenic | 40.0% |
| CCAAATGTGATGTTCGGAAA+AGG | - | chr5_4:15682189-15682208 | Msa0840100:CDS | 40.0% | |
| ATGTGATGTTCGGAAAAGGT+TGG | - | chr5_4:15682193-15682212 | Msa0840100:CDS | 40.0% | |
| ! | TTTCAAGTACAAGTGTGTCG+TGG | - | chr5_4:15682263-15682282 | Msa0840100:CDS | 40.0% |
| CTCCAACCATCTGTCAACAA+CGG | + | chr5_4:15681750-15681769 | None:intergenic | 45.0% | |
| ATTGCTTTCCAGTACCTTGG+TGG | - | chr5_4:15681810-15681829 | Msa0840100:CDS | 45.0% | |
| ATCTACTTCCACCAAGGTAC+TGG | + | chr5_4:15681821-15681840 | None:intergenic | 45.0% | |
| ACCCTATCATTCCATGAGTG+CGG | - | chr5_4:15681887-15681906 | Msa0840100:intron | 45.0% | |
| TCGTCGATCCATATCCAGAT+AGG | + | chr5_4:15681942-15681961 | None:intergenic | 45.0% | |
| ! | ACGAGTTTTTGTGCTGCCAA+TGG | - | chr5_4:15682216-15682235 | Msa0840100:CDS | 45.0% |
| TTGTGCTGCCAATGGTATTG+AGG | - | chr5_4:15682224-15682243 | Msa0840100:CDS | 45.0% | |
| ! | TGTGCTGCCAATGGTATTGA+GGG | - | chr5_4:15682225-15682244 | Msa0840100:CDS | 45.0% |
| ! | TCTAGCAAGTGCCATTGCTC+CGG | + | chr5_4:15681678-15681697 | None:intergenic | 50.0% |
| ! | GAGCAATGGCACTTGCTAGA+TGG | - | chr5_4:15681678-15681697 | Msa0840100:CDS | 50.0% |
| ! | TGGCACTTGCTAGATGGTGA+TGG | - | chr5_4:15681684-15681703 | Msa0840100:CDS | 50.0% |
| ! | GGCACTTGCTAGATGGTGAT+GGG | - | chr5_4:15681685-15681704 | Msa0840100:CDS | 50.0% |
| GCACTCATGGAATGATAGGG+TGG | + | chr5_4:15681888-15681907 | None:intergenic | 50.0% | |
| GCCGCACTCATGGAATGATA+GGG | + | chr5_4:15681891-15681910 | None:intergenic | 50.0% | |
| TGCCGCACTCATGGAATGAT+AGG | + | chr5_4:15681892-15681911 | None:intergenic | 50.0% | |
| TGGATCGACGAAATCACCGA+AGG | - | chr5_4:15681951-15681970 | Msa0840100:intron | 50.0% | |
| TCTACGAGCTACCGGAGCAA+TGG | - | chr5_4:15681664-15681683 | Msa0840100:CDS | 55.0% | |
| AGTCGGCCGTTGTTGACAGA+TGG | - | chr5_4:15681741-15681760 | Msa0840100:CDS | 55.0% | |
| GGCCGTTGTTGACAGATGGT+TGG | - | chr5_4:15681745-15681764 | Msa0840100:CDS | 55.0% | |
| ACACGATGTTGCCGCACTCA+TGG | + | chr5_4:15681901-15681920 | None:intergenic | 55.0% | |
| ! | GCTGCCAATGGTATTGAGGG+CGG | - | chr5_4:15682228-15682247 | Msa0840100:CDS | 55.0% |
| GTCTCCGCCCTCAATACCAT+TGG | + | chr5_4:15682235-15682254 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_4 | gene | 15681624 | 15682317 | 15681624 | ID=Msa0840100;Name=Msa0840100 |
| chr5_4 | mRNA | 15681624 | 15682317 | 15681624 | ID=Msa0840100-mRNA-1;Parent=Msa0840100;Name=Msa0840100-mRNA-1;_AED=0.18;_eAED=0.18;_QI=0|0.5|0|1|0|0.33|3|0|169 |
| chr5_4 | exon | 15682090 | 15682317 | 15682090 | ID=Msa0840100-mRNA-1:exon:6721;Parent=Msa0840100-mRNA-1 |
| chr5_4 | exon | 15681969 | 15682004 | 15681969 | ID=Msa0840100-mRNA-1:exon:6720;Parent=Msa0840100-mRNA-1 |
| chr5_4 | exon | 15681624 | 15681869 | 15681624 | ID=Msa0840100-mRNA-1:exon:6719;Parent=Msa0840100-mRNA-1 |
| chr5_4 | CDS | 15682090 | 15682317 | 15682090 | ID=Msa0840100-mRNA-1:cds;Parent=Msa0840100-mRNA-1 |
| chr5_4 | CDS | 15681969 | 15682004 | 15681969 | ID=Msa0840100-mRNA-1:cds;Parent=Msa0840100-mRNA-1 |
| chr5_4 | CDS | 15681624 | 15681869 | 15681624 | ID=Msa0840100-mRNA-1:cds;Parent=Msa0840100-mRNA-1 |
| Gene Sequence |
| Protein sequence |
