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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG012537 | AFK49677.1 | 98.195 | 277 | 5 | 0 | 1 | 277 | 1 | 277 | 0.0 | 566 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG012537 | sp|Q2YDP3|NC2A_BOVIN | 49.558 | 113 | 55 | 2 | 2 | 114 | 5 | 115 | 2.03e-30 | 116 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG012537 | I3TAY5 | 98.195 | 277 | 5 | 0 | 1 | 277 | 1 | 277 | 0.0 | 566 |
| Gene ID | Type | Classification |
|---|---|---|
| MsaG012537 | TF | NF-YC |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsaG002146 | MsaG012537 | 0.811748 | 1.028966e-50 | 1.833893e-48 |
| MsaG004654 | MsaG012537 | 0.804063 | 4.359775e-49 | 6.467880e-47 |
| MsaG007891 | MsaG012537 | 0.817939 | 4.429382e-52 | 9.230677e-50 |
| MsaG008052 | MsaG012537 | 0.813324 | 4.672518e-51 | 8.659816e-49 |
| MsaG010644 | MsaG012537 | 0.804750 | 3.140267e-49 | 4.733310e-47 |
| MsaG012537 | MsaG023676 | 0.807521 | 8.250363e-50 | 1.327273e-47 |
| MsaG012537 | MsaG029515 | 0.801737 | 1.311052e-48 | 1.843638e-46 |
| MsaG012537 | MsaG032180 | 0.806326 | 1.471580e-49 | 2.301495e-47 |
| MsaG012537 | MsaG034225 | 0.802462 | 9.317393e-49 | 1.332102e-46 |
| MsaG012537 | MsaG040261 | 0.801987 | 1.165543e-48 | 1.648348e-46 |
| MsaG012537 | MsaG042686 | 0.809817 | 2.680653e-50 | 4.557659e-48 |
| MsaG012537 | MsaG013069 | 0.805620 | 2.068159e-49 | 3.181015e-47 |
| MsaG012537 | MsaG030025 | 0.801528 | 1.446412e-48 | 2.024331e-46 |
| MsaG012537 | MsaG036474 | 0.801017 | 1.838419e-48 | 2.543359e-46 |
| MsaG012537 | MsaG036898 | 0.808057 | 6.352981e-50 | 1.035290e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG012537 | MtrunA17_Chr3g0081161 | 97.834 | 277 | 6 | 0 | 1 | 277 | 1 | 277 | 0.0 | 563 |
| MsaG012537 | MtrunA17_Chr8g0354151 | 70.242 | 289 | 69 | 6 | 1 | 273 | 1 | 288 | 7.38e-125 | 358 |
| MsaG012537 | MtrunA17_Chr5g0441241 | 50.179 | 279 | 105 | 8 | 18 | 273 | 1 | 268 | 2.61e-54 | 177 |
| MsaG012537 | MtrunA17_Chr5g0420401 | 85.393 | 89 | 13 | 0 | 171 | 259 | 51 | 139 | 3.29e-50 | 162 |
| MsaG012537 | MtrunA17_Chr2g0288481 | 40.449 | 89 | 50 | 1 | 1 | 86 | 75 | 163 | 1.83e-12 | 65.9 |
| MsaG012537 | MtrunA17_Chr1g0191681 | 39.744 | 78 | 47 | 0 | 9 | 86 | 102 | 179 | 4.54e-12 | 64.7 |
| MsaG012537 | MtrunA17_Chr3g0132191 | 40.506 | 79 | 47 | 0 | 8 | 86 | 55 | 133 | 4.63e-12 | 64.3 |
| MsaG012537 | MtrunA17_Chr7g0272991 | 39.744 | 78 | 47 | 0 | 9 | 86 | 102 | 179 | 6.01e-12 | 64.3 |
| MsaG012537 | MtrunA17_Chr2g0310741 | 41.026 | 78 | 46 | 0 | 9 | 86 | 104 | 181 | 3.33e-11 | 62.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG012537 | AT3G12480.1 | 51.736 | 288 | 114 | 9 | 1 | 274 | 1 | 277 | 6.51e-78 | 238 |
| MsaG012537 | AT5G19490.1 | 63.504 | 137 | 42 | 4 | 1 | 136 | 1 | 130 | 1.32e-51 | 170 |
| MsaG012537 | AT1G54830.2 | 41.026 | 78 | 46 | 0 | 9 | 86 | 71 | 148 | 2.50e-12 | 65.5 |
| MsaG012537 | AT1G54830.3 | 41.026 | 78 | 46 | 0 | 9 | 86 | 71 | 148 | 2.50e-12 | 65.5 |
| MsaG012537 | AT1G54830.1 | 41.026 | 78 | 46 | 0 | 9 | 86 | 71 | 148 | 2.50e-12 | 65.5 |
| MsaG012537 | AT1G08970.3 | 41.026 | 78 | 46 | 0 | 9 | 86 | 81 | 158 | 5.37e-12 | 64.7 |
| MsaG012537 | AT1G08970.4 | 41.026 | 78 | 46 | 0 | 9 | 86 | 81 | 158 | 5.37e-12 | 64.7 |
| MsaG012537 | AT1G08970.2 | 41.026 | 78 | 46 | 0 | 9 | 86 | 81 | 158 | 5.37e-12 | 64.7 |
| MsaG012537 | AT1G08970.1 | 41.026 | 78 | 46 | 0 | 9 | 86 | 81 | 158 | 5.37e-12 | 64.7 |
| MsaG012537 | AT5G63470.2 | 40.506 | 79 | 47 | 0 | 8 | 86 | 78 | 156 | 5.87e-12 | 64.7 |
| MsaG012537 | AT5G63470.1 | 40.506 | 79 | 47 | 0 | 8 | 86 | 78 | 156 | 5.87e-12 | 64.7 |
| MsaG012537 | AT3G48590.1 | 40.506 | 79 | 47 | 0 | 8 | 86 | 65 | 143 | 6.45e-12 | 64.3 |
| MsaG012537 | AT1G56170.1 | 41.026 | 78 | 46 | 0 | 9 | 86 | 77 | 154 | 1.48e-11 | 62.8 |
| MsaG012537 | AT1G56170.2 | 41.026 | 78 | 46 | 0 | 9 | 86 | 77 | 154 | 1.48e-11 | 62.8 |
Find 73 sgRNAs with CRISPR-Local
Find sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGGGGAAGAGGAAGGGGTAG+AGG | 0.303468 | 3:-26509169 | MsaT012537.1:CDS |
| TTACAAATGCAATGCATTCA+TGG | 0.332233 | 3:+26510397 | None:intergenic |
| GGTATCAAGCTTCTTCTTCA+TGG | 0.333154 | 3:+26513180 | None:intergenic |
| TAGACTTCGAACCTTCTCTT+TGG | 0.338468 | 3:+26509760 | None:intergenic |
| AGAGGCTAAGCGGAGTAAAA+TGG | 0.373594 | 3:-26509622 | MsaT012537.1:intron |
| TGGCATTCAGATCAATGTTT+CGG | 0.398272 | 3:+26508951 | None:intergenic |
| ACAAGTGTGGCAATAGATAA+TGG | 0.404330 | 3:-26509037 | MsaT012537.1:CDS |
| AGAGGAAGAGGCCGTGGTCG+AGG | 0.411226 | 3:-26509151 | MsaT012537.1:CDS |
| GGACATGGCCATTCTGAGGC+TGG | 0.411356 | 3:-26509802 | MsaT012537.1:CDS |
| TTGCAGCAGGATCAGGCAAT+GGG | 0.419456 | 3:+26508873 | None:intergenic |
| AGCAACTCACAAACTAAAAC+AGG | 0.421254 | 3:+26510578 | None:intergenic |
| AGATTCAACCTGCTGATGTA+AGG | 0.427032 | 3:+26509105 | None:intergenic |
| AGAGGAAGGGGTAGAGGAAG+AGG | 0.428938 | 3:-26509163 | MsaT012537.1:CDS |
| ATGCAACATGAAGAAATTCC+AGG | 0.430277 | 3:-26508842 | MsaT012537.1:CDS |
| GACATGGCCATTCTGAGGCT+GGG | 0.432721 | 3:-26509801 | MsaT012537.1:CDS |
| TGCATATCGGTTGTTGCAGC+AGG | 0.434501 | 3:+26508860 | None:intergenic |
| GTTTGATTACAGCTTGAGTT+GGG | 0.437970 | 3:-26509211 | MsaT012537.1:intron |
| AAAACTTACAGCAGGGAAAC+GGG | 0.443026 | 3:+26513159 | None:intergenic |
| CCACACTGGCGGTACTGGTA+GGG | 0.444180 | 3:-26509188 | MsaT012537.1:CDS |
| AATTTCTTCATGTTGCATAT+CGG | 0.449191 | 3:+26508847 | None:intergenic |
| TTGGGCCACACTGGCGGTAC+TGG | 0.449291 | 3:-26509193 | MsaT012537.1:CDS |
| GGCGGTACTGGTAGGGGAAG+AGG | 0.449384 | 3:-26509181 | MsaT012537.1:CDS |
| TGTTTGATTACAGCTTGAGT+TGG | 0.458715 | 3:-26509212 | MsaT012537.1:intron |
| AGGGGTAGAGGAAGAGGCCG+TGG | 0.459826 | 3:-26509157 | MsaT012537.1:CDS |
| TCGGTTGTTGCAGCAGGATC+AGG | 0.462137 | 3:+26508866 | None:intergenic |
| ACTGGTAGGGGAAGAGGAAG+GGG | 0.463619 | 3:-26509175 | MsaT012537.1:CDS |
| CTGCAGCTTGCCGCAAACCT+TGG | 0.465823 | 3:-26508779 | MsaT012537.1:intron |
| GTAGAGTTATTTCATAAGTC+CGG | 0.468953 | 3:+26510435 | None:intergenic |
| TAGCTTATTACCAAGGTTTG+CGG | 0.478286 | 3:+26508769 | None:intergenic |
| CTATTGCCACACTTGTATTG+TGG | 0.495965 | 3:+26509044 | None:intergenic |
| AAGAGAAACCTTACATCAGC+AGG | 0.497349 | 3:-26509113 | MsaT012537.1:CDS |
| GCCACACTGGCGGTACTGGT+AGG | 0.501008 | 3:-26509189 | MsaT012537.1:CDS |
| GAGGAAGAGGCCGTGGTCGA+GGG | 0.501744 | 3:-26509150 | MsaT012537.1:CDS |
| CACACTGGCGGTACTGGTAG+GGG | 0.503334 | 3:-26509187 | MsaT012537.1:CDS |
| ACATGGCCATTCTGAGGCTG+GGG | 0.511479 | 3:-26509800 | MsaT012537.1:CDS |
| CCATGTCCGTGGCTATAGTC+AGG | 0.512389 | 3:+26509817 | None:intergenic |
| GTTGCAGCAGGATCAGGCAA+TGG | 0.525706 | 3:+26508872 | None:intergenic |
| ATGCAAGCAGATGAGGATGT+TGG | 0.535775 | 3:-26510620 | MsaT012537.1:CDS |
| CCATCTTGTCGACATCAGAA+AGG | 0.538115 | 3:+26508813 | None:intergenic |
| CATCAGCCCCAGCCTCAGAA+TGG | 0.550548 | 3:+26509794 | None:intergenic |
| TACTGGTAGGGGAAGAGGAA+GGG | 0.550796 | 3:-26509176 | MsaT012537.1:CDS |
| TGCCAACTTACATGAAAATG+AGG | 0.551853 | 3:-26508933 | MsaT012537.1:CDS |
| CCTTTCTGATGTCGACAAGA+TGG | 0.553095 | 3:-26508813 | MsaT012537.1:CDS |
| TCAGGCAATGGGGCCTGAGT+AGG | 0.558536 | 3:+26508884 | None:intergenic |
| CAGCTTGAGTTGGGCCACAC+TGG | 0.562286 | 3:-26509202 | MsaT012537.1:CDS |
| CATCTTGTCGACATCAGAAA+GGG | 0.564046 | 3:+26508814 | None:intergenic |
| GAAGATAATGCAAGCAGATG+AGG | 0.565858 | 3:-26510627 | MsaT012537.1:CDS |
| AGATAATGGTTCAGAACCAA+AGG | 0.574615 | 3:-26509023 | MsaT012537.1:CDS |
| AGGAAGAGGCCGTGGTCGAG+GGG | 0.582092 | 3:-26509149 | MsaT012537.1:CDS |
| ATGTTTACCAGGAAAGCTGC+TGG | 0.583874 | 3:-26509669 | MsaT012537.1:intron |
| TTTGAGAGACATTGTCAGCA+GGG | 0.585914 | 3:-26509842 | MsaT012537.1:CDS |
| ATCGCGCTGTTCCAAAGAGA+AGG | 0.602154 | 3:-26509771 | MsaT012537.1:intron |
| GTACTGGTAGGGGAAGAGGA+AGG | 0.602926 | 3:-26509177 | MsaT012537.1:CDS |
| AGAACCAAAGGAGTTATCAA+AGG | 0.605334 | 3:-26509011 | MsaT012537.1:CDS |
| TGCAACATGAAGAAATTCCA+GGG | 0.612607 | 3:-26508841 | MsaT012537.1:CDS |
| AAGCGTGGATATACCTACTC+AGG | 0.613353 | 3:-26508897 | MsaT012537.1:CDS |
| CCACGGACATGGCCATTCTG+AGG | 0.617948 | 3:-26509806 | MsaT012537.1:CDS |
| TTGCAATGATAGTGATGAAG+AGG | 0.618928 | 3:-26509640 | MsaT012537.1:CDS |
| CCTGACTATAGCCACGGACA+TGG | 0.621947 | 3:-26509817 | MsaT012537.1:CDS |
| CAGTTCGAGCCCCTCGACCA+CGG | 0.623572 | 3:+26509140 | None:intergenic |
| CTTGAGTTGGGCCACACTGG+CGG | 0.626402 | 3:-26509199 | MsaT012537.1:CDS |
| GGATGTTGGAAAGATAGCAC+TGG | 0.638767 | 3:-26510606 | MsaT012537.1:CDS |
| AGGGTTCCTGACTATAGCCA+CGG | 0.641831 | 3:-26509823 | MsaT012537.1:CDS |
| GTTTGCTGAATAGAAGTGCA+AGG | 0.641923 | 3:+26509079 | None:intergenic |
| CCTCAGAATGGCCATGTCCG+TGG | 0.649675 | 3:+26509806 | None:intergenic |
| CCCTACCAGTACCGCCAGTG+TGG | 0.652289 | 3:+26509188 | None:intergenic |
| TGCAGCAGGATCAGGCAATG+GGG | 0.669650 | 3:+26508874 | None:intergenic |
| ACATCAGAAAGGGACCACCC+TGG | 0.672109 | 3:+26508824 | None:intergenic |
| TGTTGGAAAGATAGCACTGG+CGG | 0.685962 | 3:-26510603 | MsaT012537.1:CDS |
| AGACGTCCACAATACAAGTG+TGG | 0.693828 | 3:-26509050 | MsaT012537.1:CDS |
| ATAGTGATGAAGAGGCTAAG+CGG | 0.722409 | 3:-26509632 | MsaT012537.1:CDS |
| TATGAAATAACTCTACAGAG+AGG | 0.731792 | 3:-26510428 | MsaT012537.1:CDS |
| AACATGAAGAAATTCCAGGG+TGG | 0.773110 | 3:-26508838 | MsaT012537.1:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr3 | gene | 26508544 | 26513200 | 26508544 | ID=MsaG012537 |
| Chr3 | mRNA | 26508544 | 26513200 | 26508544 | ID=MsaT012537.1;Parent=MsaG012537 |
| Chr3 | exon | 26508544 | 26508569 | 26508544 | ID=MsaT012537.1.exon7;Parent=MsaT012537.1 |
| Chr3 | CDS | 26508544 | 26508569 | 26508544 | ID=cds.MsaT012537.1;Parent=MsaT012537.1 |
| Chr3 | exon | 26508780 | 26509221 | 26508780 | ID=MsaT012537.1.exon6;Parent=MsaT012537.1 |
| Chr3 | CDS | 26508780 | 26509221 | 26508780 | ID=cds.MsaT012537.1;Parent=MsaT012537.1 |
| Chr3 | exon | 26509623 | 26509680 | 26509623 | ID=MsaT012537.1.exon5;Parent=MsaT012537.1 |
| Chr3 | CDS | 26509623 | 26509680 | 26509623 | ID=cds.MsaT012537.1;Parent=MsaT012537.1 |
| Chr3 | exon | 26509772 | 26509900 | 26509772 | ID=MsaT012537.1.exon4;Parent=MsaT012537.1 |
| Chr3 | CDS | 26509772 | 26509900 | 26509772 | ID=cds.MsaT012537.1;Parent=MsaT012537.1 |
| Chr3 | exon | 26510401 | 26510494 | 26510401 | ID=MsaT012537.1.exon3;Parent=MsaT012537.1 |
| Chr3 | CDS | 26510401 | 26510494 | 26510401 | ID=cds.MsaT012537.1;Parent=MsaT012537.1 |
| Chr3 | exon | 26510588 | 26510660 | 26510588 | ID=MsaT012537.1.exon2;Parent=MsaT012537.1 |
| Chr3 | CDS | 26510588 | 26510660 | 26510588 | ID=cds.MsaT012537.1;Parent=MsaT012537.1 |
| Chr3 | exon | 26513168 | 26513200 | 26513168 | ID=MsaT012537.1.exon1;Parent=MsaT012537.1 |
| Chr3 | CDS | 26513168 | 26513200 | 26513168 | ID=cds.MsaT012537.1;Parent=MsaT012537.1 |
| Gene Sequence |
| Protein sequence |
