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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1269060 | XP_003612062.1 | 93.600 | 125 | 8 | 0 | 1 | 125 | 1 | 125 | 2.06e-80 | 242 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1269060 | G7KF00 | 93.600 | 125 | 8 | 0 | 1 | 125 | 1 | 125 | 9.83e-81 | 242 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0077370 | Msa1269060 | 0.810073 | 1.381780e-50 | -8.615850e-47 |
| Msa0095940 | Msa1269060 | 0.818699 | 1.710229e-52 | -8.615850e-47 |
| Msa0611060 | Msa1269060 | 0.802363 | 5.813687e-49 | -8.615850e-47 |
| Msa0631130 | Msa1269060 | 0.805526 | 1.279494e-49 | -8.615850e-47 |
| Msa0669350 | Msa1269060 | 0.800103 | 1.685874e-48 | -8.615850e-47 |
| Msa0713060 | Msa1269060 | 0.822954 | 1.796704e-53 | -8.615850e-47 |
| Msa0744640 | Msa1269060 | 0.805029 | 1.625501e-49 | -8.615850e-47 |
| Msa0833270 | Msa1269060 | 0.815484 | 9.030883e-52 | -8.615850e-47 |
| Msa0841730 | Msa1269060 | 0.806554 | 7.775878e-50 | -8.615850e-47 |
| Msa0174100 | Msa1269060 | 0.817036 | 4.059876e-52 | -8.615850e-47 |
| Msa1252810 | Msa1269060 | 0.817604 | 3.024893e-52 | -8.615850e-47 |
| Msa1269060 | Msa1404050 | 0.820202 | 7.769764e-53 | -8.615850e-47 |
| Msa1269060 | Msa1435320 | 0.802685 | 4.989180e-49 | -8.615850e-47 |
| Msa1269060 | Msa1443400 | 0.801780 | 7.660641e-49 | -8.615850e-47 |
| Msa1269060 | Msa1448040 | 0.803703 | 3.071337e-49 | -8.615850e-47 |
| Msa1269060 | Msa1465860 | 0.800681 | 1.285580e-48 | -8.615850e-47 |
| Msa0367540 | Msa1269060 | -0.824213 | 9.116956e-54 | -8.615850e-47 |
| Msa0306310 | Msa1269060 | 0.806979 | 6.322762e-50 | -8.615850e-47 |
| Msa0316470 | Msa1269060 | 0.801348 | 9.394637e-49 | -8.615850e-47 |
| Msa0319680 | Msa1269060 | 0.809486 | 1.847970e-50 | -8.615850e-47 |
| Msa1217260 | Msa1269060 | 0.812874 | 3.403507e-51 | -8.615850e-47 |
| Msa0529000 | Msa1269060 | 0.801992 | 6.929355e-49 | -8.615850e-47 |
| Msa0534610 | Msa1269060 | 0.812138 | 4.930187e-51 | -8.615850e-47 |
| Msa0574930 | Msa1269060 | 0.817645 | 2.961596e-52 | -8.615850e-47 |
| Msa0590810 | Msa1269060 | 0.815036 | 1.135665e-51 | -8.615850e-47 |
| Msa0930740 | Msa1269060 | 0.812173 | 4.843163e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1269060 | MtrunA17_Chr5g0404581 | 93.600 | 125 | 8 | 0 | 1 | 125 | 1 | 125 | 1.89e-84 | 242 |
| Msa1269060 | MtrunA17_Chr8g0372921 | 62.992 | 127 | 41 | 4 | 1 | 125 | 1 | 123 | 1.60e-49 | 154 |
| Msa1269060 | MtrunA17_Chr7g0224161 | 95.238 | 42 | 2 | 0 | 50 | 91 | 1 | 42 | 3.92e-24 | 87.4 |
| Msa1269060 | MtrunA17_Chr7g0224151 | 90.698 | 43 | 4 | 0 | 1 | 43 | 1 | 43 | 4.05e-21 | 79.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1269060 | AT3G50900.1 | 40.741 | 135 | 49 | 5 | 1 | 125 | 1 | 114 | 1.51e-21 | 83.2 |
| Msa1269060 | AT2G18210.1 | 44.898 | 98 | 42 | 4 | 33 | 125 | 34 | 124 | 5.54e-19 | 77.0 |
| Msa1269060 | AT4G36500.1 | 43.011 | 93 | 49 | 1 | 33 | 125 | 34 | 122 | 6.99e-16 | 68.9 |
| Msa1269060 | AT5G66490.1 | 33.835 | 133 | 56 | 5 | 1 | 125 | 1 | 109 | 6.94e-13 | 60.8 |
Find 32 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGAATTTGGTGGAAATAA+TGG | 0.233549 | 8_3:+2276662 | Msa1269060:CDS |
| ATCAAATACAAAGGTAAATA+TGG | 0.271944 | 8_3:+2276736 | Msa1269060:CDS |
| CACTACTTGCTTTCTTTGTT+GGG | 0.272849 | 8_3:-2276799 | None:intergenic |
| GAGAAATTAGATAAAGAATT+TGG | 0.286753 | 8_3:+2276650 | Msa1269060:CDS |
| TCAACATATCTTGCAAATTC+AGG | 0.290589 | 8_3:-2276899 | None:intergenic |
| ATATTTACCTTTGTATTTGA+TGG | 0.294161 | 8_3:-2276734 | None:intergenic |
| ATGGCCTCTTCTAGTACTAT+TGG | 0.297989 | 8_3:-2276618 | None:intergenic |
| TCACTACTTGCTTTCTTTGT+TGG | 0.309163 | 8_3:-2276800 | None:intergenic |
| TACAAAGGTAAATATGGTTA+TGG | 0.309718 | 8_3:+2276742 | Msa1269060:CDS |
| AAGAATTTGGTGGAAATAAT+GGG | 0.329371 | 8_3:+2276663 | Msa1269060:CDS |
| ATGGTTATGGGTTCAACCTT+AGG | 0.342083 | 8_3:+2276755 | Msa1269060:CDS |
| GAAAGCAAGTAGTGATCATA+AGG | 0.388968 | 8_3:+2276808 | Msa1269060:CDS |
| TGGTTATGGGTTCAACCTTA+GGG | 0.404531 | 8_3:+2276756 | Msa1269060:CDS |
| ACAAAGGTAAATATGGTTAT+GGG | 0.413220 | 8_3:+2276743 | Msa1269060:CDS |
| AGGAGCACAAGTGTTCCTTC+AGG | 0.428206 | 8_3:+2276710 | Msa1269060:CDS |
| CTAATTTCTCATACTTCTCA+TGG | 0.429115 | 8_3:-2276637 | None:intergenic |
| AAGATATGTTGAGTATTTGA+AGG | 0.455536 | 8_3:+2276910 | Msa1269060:CDS |
| TATGTTGAGTATTTGAAGGA+AGG | 0.471592 | 8_3:+2276914 | Msa1269060:CDS |
| TTGTAGATTAATATCCCCTA+AGG | 0.515423 | 8_3:-2276771 | None:intergenic |
| GGAGCACAAGTGTTCCTTCA+GGG | 0.516731 | 8_3:+2276711 | Msa1269060:CDS |
| TTTGTATTTGATGGCCCTGA+AGG | 0.555468 | 8_3:-2276725 | None:intergenic |
| GTTGAGTATTTGAAGGAAGG+AGG | 0.555632 | 8_3:+2276917 | Msa1269060:CDS |
| TTTGAAGGAAGGAGGCATGT+GGG | 0.559503 | 8_3:+2276925 | Msa1269060:CDS |
| TATCATTTATAATACATCAC+AGG | 0.563417 | 8_3:-2276965 | None:intergenic |
| AAATTAGATAAAGAATTTGG+TGG | 0.563779 | 8_3:+2276653 | Msa1269060:CDS |
| ATTTGAAGGAAGGAGGCATG+TGG | 0.565436 | 8_3:+2276924 | Msa1269060:CDS |
| AAATCCAATAGTACTAGAAG+AGG | 0.567361 | 8_3:+2276614 | Msa1269060:CDS |
| CAAATGAAGAGTACTTGAAG+AGG | 0.569869 | 8_3:+2276690 | Msa1269060:CDS |
| AAATCAAAGAAATTGAGAAG+TGG | 0.589565 | 8_3:-2276848 | None:intergenic |
| AGTACTATTGGATTTAAACA+TGG | 0.604551 | 8_3:-2276606 | None:intergenic |
| TTCAGGGCCATCAAATACAA+AGG | 0.612946 | 8_3:+2276727 | Msa1269060:CDS |
| GGTTATGGGTTCAACCTTAG+GGG | 0.624193 | 8_3:+2276757 | Msa1269060:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GAGAAATTAGATAAAGAATT+TGG | + | chr8_3:2276650-2276669 | Msa1269060:CDS | 20.0% |
| !! | AAATTAGATAAAGAATTTGG+TGG | + | chr8_3:2276653-2276672 | Msa1269060:CDS | 20.0% |
| !! | ATATTTACCTTTGTATTTGA+TGG | - | chr8_3:2276737-2276756 | None:intergenic | 20.0% |
| !! | ATCAAATACAAAGGTAAATA+TGG | + | chr8_3:2276736-2276755 | Msa1269060:CDS | 20.0% |
| !!! | TTCTCAATTTCTTTGATTTT+CGG | + | chr8_3:2276852-2276871 | Msa1269060:CDS | 20.0% |
| !! | AAAGAATTTGGTGGAAATAA+TGG | + | chr8_3:2276662-2276681 | Msa1269060:CDS | 25.0% |
| !! | AAGAATTTGGTGGAAATAAT+GGG | + | chr8_3:2276663-2276682 | Msa1269060:CDS | 25.0% |
| ! | TACAAAGGTAAATATGGTTA+TGG | + | chr8_3:2276742-2276761 | Msa1269060:CDS | 25.0% |
| ! | ACAAAGGTAAATATGGTTAT+GGG | + | chr8_3:2276743-2276762 | Msa1269060:CDS | 25.0% |
| ! | AAATCAAAGAAATTGAGAAG+TGG | - | chr8_3:2276851-2276870 | None:intergenic | 25.0% |
| ! | AAGATATGTTGAGTATTTGA+AGG | + | chr8_3:2276910-2276929 | Msa1269060:CDS | 25.0% |
| AAATCCAATAGTACTAGAAG+AGG | + | chr8_3:2276614-2276633 | Msa1269060:CDS | 30.0% | |
| CTAATTTCTCATACTTCTCA+TGG | - | chr8_3:2276640-2276659 | None:intergenic | 30.0% | |
| TTGTAGATTAATATCCCCTA+AGG | - | chr8_3:2276774-2276793 | None:intergenic | 30.0% | |
| TCAACATATCTTGCAAATTC+AGG | - | chr8_3:2276902-2276921 | None:intergenic | 30.0% | |
| TATGTTGAGTATTTGAAGGA+AGG | + | chr8_3:2276914-2276933 | Msa1269060:CDS | 30.0% | |
| !! | CAAATGAAGAGTACTTGAAG+AGG | + | chr8_3:2276690-2276709 | Msa1269060:CDS | 35.0% |
| CACTACTTGCTTTCTTTGTT+GGG | - | chr8_3:2276802-2276821 | None:intergenic | 35.0% | |
| TCACTACTTGCTTTCTTTGT+TGG | - | chr8_3:2276803-2276822 | None:intergenic | 35.0% | |
| GAAAGCAAGTAGTGATCATA+AGG | + | chr8_3:2276808-2276827 | Msa1269060:CDS | 35.0% | |
| ATGGCCTCTTCTAGTACTAT+TGG | - | chr8_3:2276621-2276640 | None:intergenic | 40.0% | |
| ! | TTTGTATTTGATGGCCCTGA+AGG | - | chr8_3:2276728-2276747 | None:intergenic | 40.0% |
| TTCAGGGCCATCAAATACAA+AGG | + | chr8_3:2276727-2276746 | Msa1269060:CDS | 40.0% | |
| ATGGTTATGGGTTCAACCTT+AGG | + | chr8_3:2276755-2276774 | Msa1269060:CDS | 40.0% | |
| TGGTTATGGGTTCAACCTTA+GGG | + | chr8_3:2276756-2276775 | Msa1269060:CDS | 40.0% | |
| GTTGAGTATTTGAAGGAAGG+AGG | + | chr8_3:2276917-2276936 | Msa1269060:CDS | 40.0% | |
| GGTTATGGGTTCAACCTTAG+GGG | + | chr8_3:2276757-2276776 | Msa1269060:CDS | 45.0% | |
| ! | ATTTGAAGGAAGGAGGCATG+TGG | + | chr8_3:2276924-2276943 | Msa1269060:CDS | 45.0% |
| ! | TTTGAAGGAAGGAGGCATGT+GGG | + | chr8_3:2276925-2276944 | Msa1269060:CDS | 45.0% |
| ! | AGGAGCACAAGTGTTCCTTC+AGG | + | chr8_3:2276710-2276729 | Msa1269060:CDS | 50.0% |
| GGAGCACAAGTGTTCCTTCA+GGG | + | chr8_3:2276711-2276730 | Msa1269060:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 2276608 | 2276985 | 2276608 | ID=Msa1269060;Name=Msa1269060 |
| chr8_3 | mRNA | 2276608 | 2276985 | 2276608 | ID=Msa1269060-mRNA-1;Parent=Msa1269060;Name=Msa1269060-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|125 |
| chr8_3 | exon | 2276608 | 2276985 | 2276608 | ID=Msa1269060-mRNA-1:exon:684;Parent=Msa1269060-mRNA-1 |
| chr8_3 | CDS | 2276608 | 2276985 | 2276608 | ID=Msa1269060-mRNA-1:cds;Parent=Msa1269060-mRNA-1 |
| Gene Sequence |
| Protein sequence |
