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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880042209.01.T01 | XP_040931683.1 | 81.119 | 143 | 25 | 1 | 8 | 150 | 18 | 158 | 4.76E-76 | 235 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880042209.01.T01 | Q08069 | 81.6 | 125 | 22 | 1 | 27 | 151 | 11 | 134 | 4.11E-68 | 209 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880042209.01.T01 | A0A6A6KWZ8 | 76.471 | 153 | 33 | 1 | 8 | 157 | 541 | 693 | 3.68e-71 | 238 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0080048933.01 | MsG0880042209.01 | 0.880349 | 5.906008e-70 | 3.316181e-66 |
| MsG0180002738.01 | MsG0880042209.01 | 0.842266 | 2.872668e-58 | 4.332118e-55 |
| MsG0180002810.01 | MsG0880042209.01 | 0.836009 | 1.203024e-56 | 1.496530e-53 |
| MsG0180003115.01 | MsG0880042209.01 | 0.837795 | 4.210803e-57 | 5.530563e-54 |
| MsG0180003897.01 | MsG0880042209.01 | 0.823218 | 1.559459e-53 | 1.334373e-50 |
| MsG0180004607.01 | MsG0880042209.01 | 0.805885 | 1.075521e-49 | 5.755890e-47 |
| MsG0180005366.01 | MsG0880042209.01 | 0.803746 | 3.008565e-49 | 1.523893e-46 |
| MsG0180005573.01 | MsG0880042209.01 | 0.820963 | 5.194924e-53 | 4.171300e-50 |
| MsG0780041332.01 | MsG0880042209.01 | 0.844761 | 6.189697e-59 | 1.009514e-55 |
| MsG0880042208.01 | MsG0880042209.01 | 0.829304 | 5.549538e-55 | 5.658615e-52 |
| MsG0880042209.01 | MsG0880042517.01 | 0.852467 | 4.528680e-61 | 9.471211e-58 |
| MsG0880042209.01 | MsG0880043076.01 | 0.833924 | 4.031802e-56 | 4.711873e-53 |
| MsG0880042209.01 | MsG0880044003.01 | 0.834293 | 3.259406e-56 | 3.851386e-53 |
| MsG0880042209.01 | MsG0880046220.01 | 0.800026 | 1.748109e-48 | 8.054885e-46 |
| MsG0880042209.01 | MsG0880047082.01 | 0.846214 | 2.499772e-59 | 4.271064e-56 |
| MsG0680031763.01 | MsG0880042209.01 | 0.814020 | 1.905746e-51 | 1.264335e-48 |
| MsG0680034604.01 | MsG0880042209.01 | 0.825881 | 3.680230e-54 | 3.397277e-51 |
| MsG0480019165.01 | MsG0880042209.01 | 0.806811 | 6.862996e-50 | 3.760898e-47 |
| MsG0480021279.01 | MsG0880042209.01 | 0.807809 | 4.215267e-50 | 2.370629e-47 |
| MsG0480021879.01 | MsG0880042209.01 | 0.861805 | 7.925659e-64 | 2.270013e-60 |
| MsG0480023970.01 | MsG0880042209.01 | 0.885593 | 7.110615e-72 | 4.910447e-68 |
| MsG0580024738.01 | MsG0880042209.01 | 0.823918 | 1.069377e-53 | 9.333668e-51 |
| MsG0580025073.01 | MsG0880042209.01 | 0.942477 | 6.708880e-102 | 8.435142e-97 |
| MsG0580025750.01 | MsG0880042209.01 | 0.841536 | 4.477461e-58 | 6.599157e-55 |
| MsG0380015494.01 | MsG0880042209.01 | 0.828998 | 6.580022e-55 | 6.647319e-52 |
| MsG0380016577.01 | MsG0880042209.01 | 0.820550 | 6.464649e-53 | 5.130989e-50 |
| MsG0380016622.01 | MsG0880042209.01 | 0.908998 | 9.252805e-82 | 1.763573e-77 |
| MsG0380016678.01 | MsG0880042209.01 | 0.813736 | 2.200489e-51 | 1.448703e-48 |
| MsG0380016733.01 | MsG0880042209.01 | 0.809869 | 1.529058e-50 | 9.080508e-48 |
| MsG0580029284.01 | MsG0880042209.01 | 0.810249 | 1.266003e-50 | 7.593537e-48 |
| MsG0580029702.01 | MsG0880042209.01 | 0.835266 | 1.855054e-56 | 2.256931e-53 |
| MsG0580030073.01 | MsG0880042209.01 | 0.880841 | 3.935092e-70 | 2.253355e-66 |
| MsG0280006747.01 | MsG0880042209.01 | 0.821094 | 4.846374e-53 | 3.905453e-50 |
| MsG0280007995.01 | MsG0880042209.01 | 0.801193 | 1.010411e-48 | 4.795717e-46 |
| MsG0280010495.01 | MsG0880042209.01 | 0.803054 | 4.186812e-49 | 2.083235e-46 |
| MsG0780038383.01 | MsG0880042209.01 | 0.800604 | 1.333174e-48 | 6.233773e-46 |
| MsG0780040062.01 | MsG0880042209.01 | 0.815507 | 8.922549e-52 | 6.163523e-49 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880042209.01.T01 | MTR_8g012325 | 100.000 | 106 | 0 | 0 | 44 | 149 | 27 | 132 | 2.27e-73 | 219 |
| MsG0880042209.01.T01 | MTR_7g053450 | 94.393 | 107 | 6 | 0 | 44 | 150 | 27 | 133 | 5.99e-71 | 213 |
| MsG0880042209.01.T01 | MTR_8g012330 | 75.758 | 132 | 27 | 2 | 19 | 150 | 78 | 204 | 2.00e-66 | 204 |
| MsG0880042209.01.T01 | MTR_4g016670 | 85.088 | 114 | 17 | 0 | 43 | 156 | 26 | 139 | 4.51e-65 | 198 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880042209.01.T01 | AT5G59240 | 82.645 | 121 | 21 | 0 | 25 | 145 | 8 | 128 | 2.83e-68 | 206 |
| MsG0880042209.01.T01 | AT5G20290 | 91.837 | 98 | 8 | 0 | 44 | 141 | 27 | 124 | 3.10e-63 | 194 |
Find 30 sgRNAs with CRISPR-Local
Find 73 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAAAGAGGAGGTAATGTTTA+TGG | 0.207297 | 8:-5387678 | MsG0880042209.01.T01:CDS |
| CAACACTATGGTGTTGATAT+TGG | 0.287835 | 8:-5387725 | MsG0880042209.01.T01:CDS |
| TGTGAAGAGTGCTATTGTTC+AGG | 0.325462 | 8:-5387780 | MsG0880042209.01.T01:CDS |
| AGTTCGCACCAACTCATTGT+TGG | 0.421739 | 8:+5387811 | None:intergenic |
| GCTTCCCCATGAGAAGTTAC+CGG | 0.437652 | 8:+5387883 | None:intergenic |
| GTGAGGAGGATTCGTGTTAG+AGG | 0.449573 | 8:-5387941 | MsG0880042209.01.T01:CDS |
| TGTAAACCACATCGAGCAAA+CGG | 0.457912 | 8:+5387840 | None:intergenic |
| CAATGGTACCTTCAACACTA+TGG | 0.459815 | 8:-5387737 | MsG0880042209.01.T01:CDS |
| ATGCACAAGAGACGTGAAAC+TGG | 0.464049 | 8:-5388868 | MsG0880042209.01.T01:CDS |
| TTGAAGGTACCATTGCTTGA+AGG | 0.488302 | 8:+5387745 | None:intergenic |
| TATCAACACCATAGTGTTGA+AGG | 0.489500 | 8:+5387729 | None:intergenic |
| GAAGTGGAGAGCTTTGAGAT+TGG | 0.494282 | 8:-5387909 | MsG0880042209.01.T01:CDS |
| TGAAGGTACCATTGCTTGAA+GGG | 0.514607 | 8:+5387746 | None:intergenic |
| TGGATACCGGTAACTTCTCA+TGG | 0.515609 | 8:-5387889 | MsG0880042209.01.T01:CDS |
| CAAAACCCGTTTGCTCGATG+TGG | 0.521241 | 8:-5387846 | MsG0880042209.01.T01:CDS |
| CAATGCTTCCAACAATGAGT+TGG | 0.525534 | 8:-5387819 | MsG0880042209.01.T01:CDS |
| GTAAACCACATCGAGCAAAC+GGG | 0.544170 | 8:+5387841 | None:intergenic |
| AGGAGGATTCGTGTTAGAGG+TGG | 0.553665 | 8:-5387938 | MsG0880042209.01.T01:CDS |
| ATGCTGCTCCCTTCAAGCAA+TGG | 0.568267 | 8:-5387754 | MsG0880042209.01.T01:CDS |
| GGATACCGGTAACTTCTCAT+GGG | 0.577966 | 8:-5387888 | MsG0880042209.01.T01:CDS |
| AAATGTTAGCAAGAAAGAGG+AGG | 0.606920 | 8:-5387690 | MsG0880042209.01.T01:CDS |
| CTGGTGGCAAGAAGAAAGCA+TGG | 0.611110 | 8:-5388849 | MsG0880042209.01.T01:CDS |
| GTTTCATCTAGGTACGAGCT+CGG | 0.613407 | 8:-5388004 | MsG0880042209.01.T01:CDS |
| AGAGCTTTGAGATTGGATAC+CGG | 0.636809 | 8:-5387902 | MsG0880042209.01.T01:CDS |
| TTAGAGGTGGAAATGTGAAG+TGG | 0.659708 | 8:-5387925 | MsG0880042209.01.T01:CDS |
| CACAAGAGACGTGAAACTGG+TGG | 0.674239 | 8:-5388865 | MsG0880042209.01.T01:CDS |
| GATACCGGTAACTTCTCATG+GGG | 0.694944 | 8:-5387887 | MsG0880042209.01.T01:CDS |
| CAAGCAACAAGACAGTGAGG+AGG | 0.706786 | 8:-5387955 | MsG0880042209.01.T01:CDS |
| TATCAAGCAACAAGACAGTG+AGG | 0.731948 | 8:-5387958 | MsG0880042209.01.T01:CDS |
| GTGGCAAGAAGAAAGCATGG+AGG | 0.807428 | 8:-5388846 | MsG0880042209.01.T01:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATATTTTCTGATAAATAATT+AGG | - | Chr8:5388364-5388383 | MsG0880042209.01.T01:intron | 10.0% |
| !!! | ATTTTTTAACTAAGATATTT+TGG | - | Chr8:5388532-5388551 | MsG0880042209.01.T01:intron | 10.0% |
| !! | ATACAAAATATGTTTACTTT+CGG | + | Chr8:5388231-5388250 | None:intergenic | 15.0% |
| !! | ATATAAAAAACGAGTAAAAA+AGG | + | Chr8:5387769-5387788 | None:intergenic | 15.0% |
| !!! | CACTTTTTTTTTTTTAATGT+GGG | - | Chr8:5387899-5387918 | MsG0880042209.01.T01:CDS | 15.0% |
| !!! | TCACTTTTTTTTTTTTAATG+TGG | - | Chr8:5387898-5387917 | MsG0880042209.01.T01:CDS | 15.0% |
| !!! | TTTTGTAATTGTTTTAGATA+TGG | - | Chr8:5387850-5387869 | MsG0880042209.01.T01:CDS | 15.0% |
| !! | ATAATTAGGTTATAGATCAA+TGG | - | Chr8:5388378-5388397 | MsG0880042209.01.T01:intron | 20.0% |
| !! | ATAATTATAGCCAAAAGATA+AGG | + | Chr8:5388275-5388294 | None:intergenic | 20.0% |
| !! | GTATTATTTAATCCTGAAAT+GGG | - | Chr8:5388128-5388147 | MsG0880042209.01.T01:intron | 20.0% |
| !! | TAATTATAGCCAAAAGATAA+GGG | + | Chr8:5388274-5388293 | None:intergenic | 20.0% |
| !! | TATTATTTAATCCTGAAATG+GGG | - | Chr8:5388129-5388148 | MsG0880042209.01.T01:intron | 20.0% |
| !! | TCTCAATGTTATTATTTGTT+GGG | - | Chr8:5388493-5388512 | MsG0880042209.01.T01:intron | 20.0% |
| !! | TTTATATATAATGTGGGAAT+TGG | - | Chr8:5387941-5387960 | MsG0880042209.01.T01:CDS | 20.0% |
| !!! | AGTTTACATTTCTATTTTCT+GGG | - | Chr8:5388316-5388335 | MsG0880042209.01.T01:intron | 20.0% |
| !!! | TAGTTTACATTTCTATTTTC+TGG | - | Chr8:5388315-5388334 | MsG0880042209.01.T01:intron | 20.0% |
| !!! | TTTTTTTTTTTTAATGTGGG+TGG | - | Chr8:5387902-5387921 | MsG0880042209.01.T01:CDS | 20.0% |
| ! | CGTATTATTTAATCCTGAAA+TGG | - | Chr8:5388127-5388146 | MsG0880042209.01.T01:intron | 25.0% |
| ! | GTCTCAATGTTATTATTTGT+TGG | - | Chr8:5388492-5388511 | MsG0880042209.01.T01:intron | 25.0% |
| ! | TTGGGGTTTATATATAATGT+GGG | - | Chr8:5387935-5387954 | MsG0880042209.01.T01:CDS | 25.0% |
| !! | ATTTCATTTCCCTTATCTTT+TGG | - | Chr8:5388262-5388281 | MsG0880042209.01.T01:intron | 25.0% |
| !! | TTTGGGGTTTATATATAATG+TGG | - | Chr8:5387934-5387953 | MsG0880042209.01.T01:CDS | 25.0% |
| !!! | ATATTTTGGTTGTTTCATCT+AGG | - | Chr8:5388546-5388565 | MsG0880042209.01.T01:intron | 25.0% |
| !!! | CAGTGTTAGTTTATAGATTT+TGG | - | Chr8:5388012-5388031 | MsG0880042209.01.T01:CDS | 25.0% |
| !!! | TGTAATTGTTTTAGATATGG+TGG | - | Chr8:5387853-5387872 | MsG0880042209.01.T01:CDS | 25.0% |
| GAAAAATGTTAGCAAGAAAG+AGG | - | Chr8:5388868-5388887 | MsG0880042209.01.T01:CDS | 30.0% | |
| !!! | GATTGTTGATTTTGAATCTC+AGG | - | Chr8:5387654-5387673 | MsG0880042209.01.T01:CDS | 30.0% |
| AAATGTTAGCAAGAAAGAGG+AGG | - | Chr8:5388871-5388890 | MsG0880042209.01.T01:CDS | 35.0% | |
| ATCAGAAAATATGTGCTACC+TGG | + | Chr8:5388356-5388375 | None:intergenic | 35.0% | |
| GAAAGAGGAGGTAATGTTTA+TGG | - | Chr8:5388883-5388902 | MsG0880042209.01.T01:CDS | 35.0% | |
| GATTTGTGTGTTGAGATTCT+GGG | - | Chr8:5387808-5387827 | MsG0880042209.01.T01:CDS | 35.0% | |
| ! | TATCAACACCATAGTGTTGA+AGG | + | Chr8:5388835-5388854 | None:intergenic | 35.0% |
| ! | TGATTTGTGTGTTGAGATTC+TGG | - | Chr8:5387807-5387826 | MsG0880042209.01.T01:CDS | 35.0% |
| !! | CAACACTATGGTGTTGATAT+TGG | - | Chr8:5388836-5388855 | MsG0880042209.01.T01:CDS | 35.0% |
| !! | GTGGGTGGTTATTTGATTTT+GGG | - | Chr8:5387917-5387936 | MsG0880042209.01.T01:CDS | 35.0% |
| !! | TGGGATAGTTATTTTGTACC+AGG | - | Chr8:5388335-5388354 | MsG0880042209.01.T01:intron | 35.0% |
| !! | TGGGTGGTTATTTGATTTTG+GGG | - | Chr8:5387918-5387937 | MsG0880042209.01.T01:CDS | 35.0% |
| !! | TGTGGGTGGTTATTTGATTT+TGG | - | Chr8:5387916-5387935 | MsG0880042209.01.T01:CDS | 35.0% |
| !!! | CTTGATAGTTTTGTGTTAGC+TGG | + | Chr8:5388590-5388609 | None:intergenic | 35.0% |
| AAATCTTCGTACCCCATTTC+AGG | + | Chr8:5388143-5388162 | None:intergenic | 40.0% | |
| CAATGCTTCCAACAATGAGT+TGG | - | Chr8:5388742-5388761 | MsG0880042209.01.T01:intron | 40.0% | |
| CAATGGTACCTTCAACACTA+TGG | - | Chr8:5388824-5388843 | MsG0880042209.01.T01:intron | 40.0% | |
| TATCAAGCAACAAGACAGTG+AGG | - | Chr8:5388603-5388622 | MsG0880042209.01.T01:intron | 40.0% | |
| TGTAAACCACATCGAGCAAA+CGG | + | Chr8:5388724-5388743 | None:intergenic | 40.0% | |
| TTAGAGGTGGAAATGTGAAG+TGG | - | Chr8:5388636-5388655 | MsG0880042209.01.T01:intron | 40.0% | |
| !! | AGAGCTTTGAGATTGGATAC+CGG | - | Chr8:5388659-5388678 | MsG0880042209.01.T01:intron | 40.0% |
| !! | TGAAGGTACCATTGCTTGAA+GGG | + | Chr8:5388818-5388837 | None:intergenic | 40.0% |
| !! | TGTGAAGAGTGCTATTGTTC+AGG | - | Chr8:5388781-5388800 | MsG0880042209.01.T01:intron | 40.0% |
| !! | TTGAAGGTACCATTGCTTGA+AGG | + | Chr8:5388819-5388838 | None:intergenic | 40.0% |
| !!! | ATAGTTTTGTGTTAGCTGGC+TGG | + | Chr8:5388586-5388605 | None:intergenic | 40.0% |
| AGTTCGCACCAACTCATTGT+TGG | + | Chr8:5388753-5388772 | None:intergenic | 45.0% | |
| ATGCACAAGAGACGTGAAAC+TGG | - | Chr8:5387693-5387712 | MsG0880042209.01.T01:CDS | 45.0% | |
| CGCACATGAATGTCTGAACT+GGG | - | Chr8:5388469-5388488 | MsG0880042209.01.T01:intron | 45.0% | |
| GATACCGGTAACTTCTCATG+GGG | - | Chr8:5388674-5388693 | MsG0880042209.01.T01:intron | 45.0% | |
| GCACATGAATGTCTGAACTG+GGG | - | Chr8:5388470-5388489 | MsG0880042209.01.T01:intron | 45.0% | |
| GGATACCGGTAACTTCTCAT+GGG | - | Chr8:5388673-5388692 | MsG0880042209.01.T01:intron | 45.0% | |
| GTAAACCACATCGAGCAAAC+GGG | + | Chr8:5388723-5388742 | None:intergenic | 45.0% | |
| GTTTCATCTAGGTACGAGCT+CGG | - | Chr8:5388557-5388576 | MsG0880042209.01.T01:intron | 45.0% | |
| TGGATACCGGTAACTTCTCA+TGG | - | Chr8:5388672-5388691 | MsG0880042209.01.T01:intron | 45.0% | |
| !! | GAAGTGGAGAGCTTTGAGAT+TGG | - | Chr8:5388652-5388671 | MsG0880042209.01.T01:intron | 45.0% |
| !!! | TTTTATATATATAATGAAAT+TGG | - | Chr8:5387781-5387800 | MsG0880042209.01.T01:CDS | 5.0% |
| !!! | TTTTATTTTATTTTCTTATA+AGG | - | Chr8:5388192-5388211 | MsG0880042209.01.T01:intron | 5.0% |
| AGGAGGATTCGTGTTAGAGG+TGG | - | Chr8:5388623-5388642 | MsG0880042209.01.T01:intron | 50.0% | |
| ATGCTGCTCCCTTCAAGCAA+TGG | - | Chr8:5388807-5388826 | MsG0880042209.01.T01:intron | 50.0% | |
| CAAAACCCGTTTGCTCGATG+TGG | - | Chr8:5388715-5388734 | MsG0880042209.01.T01:intron | 50.0% | |
| CAAGCAACAAGACAGTGAGG+AGG | - | Chr8:5388606-5388625 | MsG0880042209.01.T01:intron | 50.0% | |
| CACAAGAGACGTGAAACTGG+TGG | - | Chr8:5387696-5387715 | MsG0880042209.01.T01:CDS | 50.0% | |
| CTGGTGGCAAGAAGAAAGCA+TGG | - | Chr8:5387712-5387731 | MsG0880042209.01.T01:CDS | 50.0% | |
| GACATTCATGTGCGCAGCAT+AGG | + | Chr8:5388463-5388482 | None:intergenic | 50.0% | |
| GCGCACATGAATGTCTGAAC+TGG | - | Chr8:5388468-5388487 | MsG0880042209.01.T01:intron | 50.0% | |
| GCTTCCCCATGAGAAGTTAC+CGG | + | Chr8:5388681-5388700 | None:intergenic | 50.0% | |
| GTGAGGAGGATTCGTGTTAG+AGG | - | Chr8:5388620-5388639 | MsG0880042209.01.T01:intron | 50.0% | |
| ! | GTGGCAAGAAGAAAGCATGG+AGG | - | Chr8:5387715-5387734 | MsG0880042209.01.T01:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr8 | gene | 5387643 | 5388940 | 5387643 | ID=MsG0880042209.01;Name=MsG0880042209.01 |
| Chr8 | mRNA | 5387643 | 5388940 | 5387643 | ID=MsG0880042209.01.T01;Parent=MsG0880042209.01;Name=MsG0880042209.01.T01;_AED=0.50;_eAED=0.57;_QI=0|0|0|1|0|0.5|2|0|166 |
| Chr8 | exon | 5388835 | 5388940 | 5388835 | ID=MsG0880042209.01.T01:exon:921;Parent=MsG0880042209.01.T01 |
| Chr8 | exon | 5387643 | 5388037 | 5387643 | ID=MsG0880042209.01.T01:exon:920;Parent=MsG0880042209.01.T01 |
| Chr8 | CDS | 5388835 | 5388940 | 5388835 | ID=MsG0880042209.01.T01:cds;Parent=MsG0880042209.01.T01 |
| Chr8 | CDS | 5387643 | 5388037 | 5387643 | ID=MsG0880042209.01.T01:cds;Parent=MsG0880042209.01.T01 |
| Gene Sequence |
| Protein sequence |
