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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0419300 | XP_024634011.2 | 90.991 | 111 | 7 | 2 | 1 | 110 | 42 | 150 | 1.61e-50 | 167 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0419300 | A0A396IWG2 | 93.694 | 111 | 4 | 2 | 1 | 110 | 1 | 109 | 3.10e-50 | 164 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0021980 | Msa0419300 | 0.812090 | 5.049240e-51 | -8.615850e-47 |
| Msa0365360 | Msa0419300 | 0.806911 | 6.537011e-50 | -8.615850e-47 |
| Msa0368790 | Msa0419300 | 0.813488 | 2.495140e-51 | -8.615850e-47 |
| Msa0419300 | Msa0465050 | 0.803095 | 4.104725e-49 | -8.615850e-47 |
| Msa0419300 | Msa0623360 | 0.803241 | 3.828656e-49 | -8.615850e-47 |
| Msa0419300 | Msa0641030 | 0.803666 | 3.126179e-49 | -8.615850e-47 |
| Msa0419300 | Msa0657860 | 0.810990 | 8.754657e-51 | -8.615850e-47 |
| Msa0419300 | Msa1263610 | 0.802125 | 6.505853e-49 | -8.615850e-47 |
| Msa0419300 | Msa1443440 | 0.812188 | 4.808306e-51 | -8.615850e-47 |
| Msa0419300 | Msa1445250 | 0.804910 | 1.721763e-49 | -8.615850e-47 |
| Msa0419300 | Msa1456410 | 0.847087 | 1.443203e-59 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0419300 | MtrunA17_Chr3g0116971 | 93.694 | 111 | 4 | 2 | 1 | 110 | 1 | 109 | 5.97e-54 | 164 |
| Msa0419300 | MtrunA17_Chr3g0116951 | 70.339 | 118 | 25 | 5 | 1 | 110 | 6 | 121 | 3.32e-44 | 140 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 47 sgRNAs with CRISPR-Local
Find 47 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCAACCCTCTCAACGATTTC+AGG | 0.158944 | 3_2:+67220792 | None:intergenic |
| TTGAAGGCCATCTCACCATT+TGG | 0.332611 | 3_2:+67220885 | None:intergenic |
| CAGGGTTGTGGTTGTGGTGG+TGG | 0.362579 | 3_2:+67220811 | None:intergenic |
| CGATTTCAGGGTTGTGGTTG+TGG | 0.374856 | 3_2:+67220805 | None:intergenic |
| CCTTCGTGGGTAATGTTGAT+TGG | 0.388716 | 3_2:+67220689 | None:intergenic |
| TGAAGGCCATCTCACCATTT+GGG | 0.418823 | 3_2:+67220886 | None:intergenic |
| CAACCCTCTCAACGATTTCA+GGG | 0.425008 | 3_2:+67220793 | None:intergenic |
| GGTTGTGGTGGTGGCGGCCA+TGG | 0.430280 | 3_2:+67220820 | None:intergenic |
| CCATTTGACCTGTTCCTTCG+TGG | 0.432698 | 3_2:+67220675 | None:intergenic |
| GTCACTCATGGAATACATTC+AGG | 0.444691 | 3_2:-67220653 | Msa0419300:CDS |
| GTAGACAACCCTCTTGTTGA+AGG | 0.446780 | 3_2:+67220869 | None:intergenic |
| TCTCAACGATTTCAGGGTTG+TGG | 0.456849 | 3_2:+67220799 | None:intergenic |
| GGTTGTGGTTGTGGTGGTGG+CGG | 0.461949 | 3_2:+67220814 | None:intergenic |
| CATTTGACCTGTTCCTTCGT+GGG | 0.467646 | 3_2:+67220676 | None:intergenic |
| CCCTTCGAACTTCTGAAATG+TGG | 0.470828 | 3_2:+67220931 | None:intergenic |
| TACGAGGAGGATGCGATTGA+AGG | 0.477683 | 3_2:-67220849 | Msa0419300:CDS |
| CGTTGAGAGGGTTGAAGTGG+TGG | 0.489360 | 3_2:-67220784 | Msa0419300:CDS |
| AACATTACCCACGAAGGAAC+AGG | 0.491085 | 3_2:-67220683 | Msa0419300:CDS |
| CCACGAAGGAACAGGTCAAA+TGG | 0.498880 | 3_2:-67220675 | Msa0419300:CDS |
| GTACCTGAGGTTAGGCCCTA+TGG | 0.503566 | 3_2:-67220750 | Msa0419300:CDS |
| CCACCATAGGGCCTAACCTC+AGG | 0.504816 | 3_2:+67220747 | None:intergenic |
| GAATACTCTCGCTACCCAAA+TGG | 0.533741 | 3_2:-67220900 | Msa0419300:CDS |
| CCTTCGAACTTCTGAAATGT+GGG | 0.541962 | 3_2:+67220932 | None:intergenic |
| ATGAACGTGTACCTGAGGTT+AGG | 0.542173 | 3_2:-67220758 | Msa0419300:CDS |
| CCCACATTTCAGAAGTTCGA+AGG | 0.543003 | 3_2:-67220932 | Msa0419300:CDS |
| ACAGGTCAAATGGTCACTCA+TGG | 0.552434 | 3_2:-67220665 | Msa0419300:CDS |
| GTAGATCACTTGACCACCAT+AGG | 0.569439 | 3_2:+67220734 | None:intergenic |
| AATGTGGGTGTGGTAGTCAT+TGG | 0.581040 | 3_2:+67220947 | None:intergenic |
| GGGTAGCGAGAGTATTCGCT+AGG | 0.581864 | 3_2:+67220906 | None:intergenic |
| AGTGATCTACGAAGAGGACG+TGG | 0.585316 | 3_2:-67220721 | Msa0419300:CDS |
| TCGCTACCCAAATGGTGAGA+TGG | 0.585879 | 3_2:-67220892 | Msa0419300:CDS |
| TTTCAGGGTTGTGGTTGTGG+TGG | 0.587207 | 3_2:+67220808 | None:intergenic |
| GTGAGATGGCCTTCAACAAG+AGG | 0.602330 | 3_2:-67220878 | Msa0419300:CDS |
| TAGATCACTTGACCACCATA+GGG | 0.606041 | 3_2:+67220735 | None:intergenic |
| GAACTTCTGAAATGTGGGTG+TGG | 0.614497 | 3_2:+67220937 | None:intergenic |
| CCACATTTCAGAAGTTCGAA+GGG | 0.620439 | 3_2:-67220931 | Msa0419300:CDS |
| CAACCCTGAAATCGTTGAGA+GGG | 0.621410 | 3_2:-67220796 | Msa0419300:CDS |
| CAACAAGAGGGTTGTCTACG+AGG | 0.624314 | 3_2:-67220865 | Msa0419300:CDS |
| CCTGAGGTTAGGCCCTATGG+TGG | 0.626513 | 3_2:-67220747 | Msa0419300:CDS |
| GCGATTGAAGGATCACGCCA+TGG | 0.655981 | 3_2:-67220837 | Msa0419300:CDS |
| TGAGATGGCCTTCAACAAGA+GGG | 0.673455 | 3_2:-67220877 | Msa0419300:CDS |
| ACAACCCTGAAATCGTTGAG+AGG | 0.675269 | 3_2:-67220797 | Msa0419300:CDS |
| TGGTCAAGTGATCTACGAAG+AGG | 0.694239 | 3_2:-67220727 | Msa0419300:CDS |
| AATCGTTGAGAGGGTTGAAG+TGG | 0.698905 | 3_2:-67220787 | Msa0419300:CDS |
| CCAATCAACATTACCCACGA+AGG | 0.702298 | 3_2:-67220689 | Msa0419300:CDS |
| CAAGAGGGTTGTCTACGAGG+AGG | 0.703128 | 3_2:-67220862 | Msa0419300:CDS |
| GGAATATGAACGTGTACCTG+AGG | 0.717370 | 3_2:-67220763 | Msa0419300:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CCTTCGAACTTCTGAAATGT+GGG | + | chr3_2:67220675-67220694 | None:intergenic | 40.0% |
| CCACATTTCAGAAGTTCGAA+GGG | - | chr3_2:67220673-67220692 | Msa0419300:CDS | 40.0% | |
| TAGATCACTTGACCACCATA+GGG | + | chr3_2:67220872-67220891 | None:intergenic | 40.0% | |
| GTCACTCATGGAATACATTC+AGG | - | chr3_2:67220951-67220970 | Msa0419300:CDS | 40.0% | |
| AATGTGGGTGTGGTAGTCAT+TGG | + | chr3_2:67220660-67220679 | None:intergenic | 45.0% | |
| !! | GAACTTCTGAAATGTGGGTG+TGG | + | chr3_2:67220670-67220689 | None:intergenic | 45.0% |
| CCCACATTTCAGAAGTTCGA+AGG | - | chr3_2:67220672-67220691 | Msa0419300:CDS | 45.0% | |
| !! | CCCTTCGAACTTCTGAAATG+TGG | + | chr3_2:67220676-67220695 | None:intergenic | 45.0% |
| GAATACTCTCGCTACCCAAA+TGG | - | chr3_2:67220704-67220723 | Msa0419300:CDS | 45.0% | |
| TGAAGGCCATCTCACCATTT+GGG | + | chr3_2:67220721-67220740 | None:intergenic | 45.0% | |
| TTGAAGGCCATCTCACCATT+TGG | + | chr3_2:67220722-67220741 | None:intergenic | 45.0% | |
| TGAGATGGCCTTCAACAAGA+GGG | - | chr3_2:67220727-67220746 | Msa0419300:CDS | 45.0% | |
| GTAGACAACCCTCTTGTTGA+AGG | + | chr3_2:67220738-67220757 | None:intergenic | 45.0% | |
| TCTCAACGATTTCAGGGTTG+TGG | + | chr3_2:67220808-67220827 | None:intergenic | 45.0% | |
| ACAACCCTGAAATCGTTGAG+AGG | - | chr3_2:67220807-67220826 | Msa0419300:CDS | 45.0% | |
| CAACCCTGAAATCGTTGAGA+GGG | - | chr3_2:67220808-67220827 | Msa0419300:CDS | 45.0% | |
| CAACCCTCTCAACGATTTCA+GGG | + | chr3_2:67220814-67220833 | None:intergenic | 45.0% | |
| TCAACCCTCTCAACGATTTC+AGG | + | chr3_2:67220815-67220834 | None:intergenic | 45.0% | |
| AATCGTTGAGAGGGTTGAAG+TGG | - | chr3_2:67220817-67220836 | Msa0419300:CDS | 45.0% | |
| GGAATATGAACGTGTACCTG+AGG | - | chr3_2:67220841-67220860 | Msa0419300:CDS | 45.0% | |
| ATGAACGTGTACCTGAGGTT+AGG | - | chr3_2:67220846-67220865 | Msa0419300:CDS | 45.0% | |
| GTAGATCACTTGACCACCAT+AGG | + | chr3_2:67220873-67220892 | None:intergenic | 45.0% | |
| TGGTCAAGTGATCTACGAAG+AGG | - | chr3_2:67220877-67220896 | Msa0419300:CDS | 45.0% | |
| CCTTCGTGGGTAATGTTGAT+TGG | + | chr3_2:67220918-67220937 | None:intergenic | 45.0% | |
| CCAATCAACATTACCCACGA+AGG | - | chr3_2:67220915-67220934 | Msa0419300:CDS | 45.0% | |
| AACATTACCCACGAAGGAAC+AGG | - | chr3_2:67220921-67220940 | Msa0419300:CDS | 45.0% | |
| CATTTGACCTGTTCCTTCGT+GGG | + | chr3_2:67220931-67220950 | None:intergenic | 45.0% | |
| ACAGGTCAAATGGTCACTCA+TGG | - | chr3_2:67220939-67220958 | Msa0419300:CDS | 45.0% | |
| TCGCTACCCAAATGGTGAGA+TGG | - | chr3_2:67220712-67220731 | Msa0419300:CDS | 50.0% | |
| GTGAGATGGCCTTCAACAAG+AGG | - | chr3_2:67220726-67220745 | Msa0419300:CDS | 50.0% | |
| CAACAAGAGGGTTGTCTACG+AGG | - | chr3_2:67220739-67220758 | Msa0419300:CDS | 50.0% | |
| TACGAGGAGGATGCGATTGA+AGG | - | chr3_2:67220755-67220774 | Msa0419300:CDS | 50.0% | |
| TTTCAGGGTTGTGGTTGTGG+TGG | + | chr3_2:67220799-67220818 | None:intergenic | 50.0% | |
| CGATTTCAGGGTTGTGGTTG+TGG | + | chr3_2:67220802-67220821 | None:intergenic | 50.0% | |
| AGTGATCTACGAAGAGGACG+TGG | - | chr3_2:67220883-67220902 | Msa0419300:CDS | 50.0% | |
| CCATTTGACCTGTTCCTTCG+TGG | + | chr3_2:67220932-67220951 | None:intergenic | 50.0% | |
| CCACGAAGGAACAGGTCAAA+TGG | - | chr3_2:67220929-67220948 | Msa0419300:CDS | 50.0% | |
| !! | GGGTAGCGAGAGTATTCGCT+AGG | + | chr3_2:67220701-67220720 | None:intergenic | 55.0% |
| CAAGAGGGTTGTCTACGAGG+AGG | - | chr3_2:67220742-67220761 | Msa0419300:CDS | 55.0% | |
| GCGATTGAAGGATCACGCCA+TGG | - | chr3_2:67220767-67220786 | Msa0419300:CDS | 55.0% | |
| CGTTGAGAGGGTTGAAGTGG+TGG | - | chr3_2:67220820-67220839 | Msa0419300:CDS | 55.0% | |
| GTACCTGAGGTTAGGCCCTA+TGG | - | chr3_2:67220854-67220873 | Msa0419300:CDS | 55.0% | |
| !! | GGTTGTGGTTGTGGTGGTGG+CGG | + | chr3_2:67220793-67220812 | None:intergenic | 60.0% |
| CAGGGTTGTGGTTGTGGTGG+TGG | + | chr3_2:67220796-67220815 | None:intergenic | 60.0% | |
| CCACCATAGGGCCTAACCTC+AGG | + | chr3_2:67220860-67220879 | None:intergenic | 60.0% | |
| CCTGAGGTTAGGCCCTATGG+TGG | - | chr3_2:67220857-67220876 | Msa0419300:CDS | 60.0% | |
| !! | GGTTGTGGTGGTGGCGGCCA+TGG | + | chr3_2:67220787-67220806 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 67220647 | 67220979 | 67220647 | ID=Msa0419300;Name=Msa0419300 |
| chr3_2 | mRNA | 67220647 | 67220979 | 67220647 | ID=Msa0419300-mRNA-1;Parent=Msa0419300;Name=Msa0419300-mRNA-1;_AED=0.29;_eAED=0.29;_QI=0|-1|0|1|-1|1|1|0|110 |
| chr3_2 | exon | 67220647 | 67220979 | 67220647 | ID=Msa0419300-mRNA-1:exon:15647;Parent=Msa0419300-mRNA-1 |
| chr3_2 | CDS | 67220647 | 67220979 | 67220647 | ID=Msa0419300-mRNA-1:cds;Parent=Msa0419300-mRNA-1 |
| Gene Sequence |
| Protein sequence |
