Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene79864.t1 | XP_024633668.1 | 74.6 | 185 | 17 | 1 | 1 | 155 | 1 | 185 | 5.80E-52 | 213.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene79864.t1 | O64864 | 41.4 | 87 | 51 | 0 | 7 | 93 | 12 | 98 | 3.0e-17 | 89.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene79864.t1 | A0A396IUN5 | 74.6 | 185 | 17 | 1 | 1 | 155 | 1 | 185 | 4.2e-52 | 213.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049298 | MS.gene79864 | 0.822037 | 2.93E-53 | -1.69E-46 |
| MS.gene052169 | MS.gene79864 | 0.802753 | 4.83E-49 | -1.69E-46 |
| MS.gene052209 | MS.gene79864 | 0.811197 | 7.90E-51 | -1.69E-46 |
| MS.gene054662 | MS.gene79864 | 0.804501 | 2.10E-49 | -1.69E-46 |
| MS.gene054941 | MS.gene79864 | 0.805447 | 1.33E-49 | -1.69E-46 |
| MS.gene05652 | MS.gene79864 | 0.801731 | 7.84E-49 | -1.69E-46 |
| MS.gene057669 | MS.gene79864 | 0.838066 | 3.58E-57 | -1.69E-46 |
| MS.gene05926 | MS.gene79864 | 0.813596 | 2.36E-51 | -1.69E-46 |
| MS.gene059616 | MS.gene79864 | 0.808097 | 3.66E-50 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene79864 | MS.gene066915 | PPI |
| MS.gene79864 | MS.gene067247 | PPI |
| MS.gene79864 | MS.gene016280 | PPI |
| MS.gene59892 | MS.gene79864 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene79864.t1 | MTR_3g083760 | 69.802 | 202 | 14 | 1 | 1 | 155 | 1 | 202 | 3.10e-70 | 211 |
| MS.gene79864.t1 | MTR_3g083760 | 69.231 | 143 | 14 | 1 | 1 | 113 | 1 | 143 | 3.35e-56 | 173 |
| MS.gene79864.t1 | MTR_8g085560 | 41.436 | 181 | 72 | 3 | 9 | 155 | 14 | 194 | 6.00e-48 | 154 |
| MS.gene79864.t1 | MTR_7g014880 | 35.000 | 180 | 78 | 3 | 8 | 148 | 12 | 191 | 4.42e-26 | 97.8 |
| MS.gene79864.t1 | MTR_8g446830 | 46.392 | 97 | 48 | 2 | 1 | 93 | 1 | 97 | 1.46e-22 | 89.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene79864.t1 | AT1G55260 | 34.831 | 178 | 80 | 3 | 8 | 153 | 53 | 226 | 1.05e-30 | 110 |
| MS.gene79864.t1 | AT1G55260 | 34.831 | 178 | 77 | 4 | 8 | 153 | 53 | 223 | 2.26e-30 | 110 |
| MS.gene79864.t1 | AT2G44300 | 50.000 | 84 | 42 | 0 | 10 | 93 | 14 | 97 | 3.31e-26 | 98.6 |
| MS.gene79864.t1 | AT2G44290 | 31.472 | 197 | 82 | 4 | 9 | 155 | 11 | 204 | 1.58e-24 | 94.4 |
| MS.gene79864.t1 | AT3G58550 | 39.362 | 94 | 53 | 2 | 4 | 93 | 9 | 102 | 1.01e-15 | 70.9 |
| MS.gene79864.t1 | AT5G09370 | 33.051 | 118 | 71 | 4 | 23 | 138 | 20 | 131 | 3.25e-11 | 58.5 |
| MS.gene79864.t1 | AT5G09370 | 42.857 | 70 | 35 | 2 | 23 | 90 | 20 | 86 | 6.78e-11 | 57.8 |
Find 44 sgRNAs with CRISPR-Local
Find 83 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAATAATTACCGCTGGAAAT+AGG | 0.158824 | 3.1:-65734495 | None:intergenic |
| TCTTATCAAGGACTTGTTTA+AGG | 0.173161 | 3.1:-65733803 | None:intergenic |
| AATAATTACCGCTGGAAATA+GGG | 0.274317 | 3.1:-65734494 | None:intergenic |
| AAGGAGGTGGCTGGTGGCAG+AGG | 0.280788 | 3.1:+65734654 | MS.gene79864:CDS |
| ATTCAACTTGATACCAAGTT+TGG | 0.282616 | 3.1:-65733868 | None:intergenic |
| GATAAACTTGTTACTCTTGC+TGG | 0.316761 | 3.1:+65733723 | MS.gene79864:CDS |
| TTCAACTTGATACCAAGTTT+GGG | 0.358716 | 3.1:-65733867 | None:intergenic |
| TGGATTGGGAAGGAGGTGGC+TGG | 0.375917 | 3.1:+65734645 | MS.gene79864:CDS |
| AGGGGAGGAACTGTTTGTTT+TGG | 0.377595 | 3.1:-65734475 | None:intergenic |
| GAAAAGAGTGGTGGTGGATT+GGG | 0.380896 | 3.1:+65734631 | MS.gene79864:CDS |
| TGCATTATTATTTCTACTGT+TGG | 0.388007 | 3.1:+65733653 | MS.gene79864:CDS |
| TTATTATTTCTACTGTTGGC+TGG | 0.403176 | 3.1:+65733657 | MS.gene79864:CDS |
| CTTATCAAGGACTTGTTTAA+GGG | 0.407090 | 3.1:-65733802 | None:intergenic |
| GGAAAAGAGTGGTGGTGGAT+TGG | 0.435272 | 3.1:+65734630 | MS.gene79864:CDS |
| GCTAAGGTGTTTGAAGGACT+TGG | 0.437073 | 3.1:+65734444 | MS.gene79864:intron |
| GAGGTGGCTGGTGGCAGAGG+TGG | 0.447551 | 3.1:+65734657 | MS.gene79864:CDS |
| AAGTGAGATATGAAAAGAAA+TGG | 0.450601 | 3.1:-65734694 | None:intergenic |
| GGAAGTACAACAATCTATAG+TGG | 0.456166 | 3.1:-65733781 | None:intergenic |
| CCTGAAGCTAAGGTGTTTGA+AGG | 0.476875 | 3.1:+65734438 | MS.gene79864:intron |
| GATCGCAATGACCCCAAACT+TGG | 0.492547 | 3.1:+65733855 | MS.gene79864:CDS |
| GTGGTGGATTGGGAAGGAGG+TGG | 0.495091 | 3.1:+65734641 | MS.gene79864:CDS |
| GTGGTGGTGGATTGGGAAGG+AGG | 0.496077 | 3.1:+65734638 | MS.gene79864:CDS |
| TCTGAGGAAAAGAGTGGTGG+TGG | 0.499326 | 3.1:+65734625 | MS.gene79864:CDS |
| TGTTTAAGGTTCTGCTGAGA+GGG | 0.503753 | 3.1:+65734588 | MS.gene79864:intron |
| GAAGTACAACAATCTATAGT+GGG | 0.507467 | 3.1:-65733780 | None:intergenic |
| ATTGGGAAGGAGGTGGCTGG+TGG | 0.530641 | 3.1:+65734648 | MS.gene79864:CDS |
| TCAAACTTGAACTTCAAGCT+AGG | 0.546383 | 3.1:-65734723 | None:intergenic |
| ATAATTACCGCTGGAAATAG+GGG | 0.565206 | 3.1:-65734493 | None:intergenic |
| GGTTGTCTTCCATACGTTGG+TGG | 0.578596 | 3.1:+65733744 | MS.gene79864:CDS |
| GCTGGTTGTCTTCCATACGT+TGG | 0.583066 | 3.1:+65733741 | MS.gene79864:CDS |
| TTGGCACTACCACCAACGTA+TGG | 0.586024 | 3.1:-65733753 | None:intergenic |
| TGGAAGCTGTACAGCAAGAG+TGG | 0.593369 | 3.1:-65733892 | None:intergenic |
| TCAACTTGATACCAAGTTTG+GGG | 0.608436 | 3.1:-65733866 | None:intergenic |
| ATGTTTAAGGTTCTGCTGAG+AGG | 0.614875 | 3.1:+65734587 | MS.gene79864:intron |
| AGAGTGGTGGTGGATTGGGA+AGG | 0.615185 | 3.1:+65734635 | MS.gene79864:CDS |
| GGGATCAAGCTCAAGTTCTG+AGG | 0.620498 | 3.1:+65734609 | MS.gene79864:CDS |
| GGTCATTGCGATCTTTGATG+AGG | 0.621163 | 3.1:-65733845 | None:intergenic |
| GTTTAAGGTTCTGCTGAGAG+GGG | 0.633464 | 3.1:+65734589 | MS.gene79864:intron |
| AAGTACAACAATCTATAGTG+GGG | 0.642782 | 3.1:-65733779 | None:intergenic |
| AGTTCCTCCCCTATTTCCAG+CGG | 0.660557 | 3.1:+65734486 | MS.gene79864:CDS |
| ATTACCGCTGGAAATAGGGG+AGG | 0.669828 | 3.1:-65734490 | None:intergenic |
| TCAAGTTCTGAGGAAAAGAG+TGG | 0.677014 | 3.1:+65734619 | MS.gene79864:CDS |
| AGTACAACAATCTATAGTGG+GGG | 0.691483 | 3.1:-65733778 | None:intergenic |
| AGTTCTGAGGAAAAGAGTGG+TGG | 0.693229 | 3.1:+65734622 | MS.gene79864:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAATGAGAATTTTTTTTTGT+TGG | + | chr3.1:65734287-65734306 | MS.gene79864:intron | 15.0% |
| !! | AAAATTATAATAATTACCGC+TGG | - | chr3.1:65734505-65734524 | None:intergenic | 20.0% |
| !! | ATATAAATAAGGCTTAATCA+TGG | + | chr3.1:65734170-65734189 | MS.gene79864:intron | 20.0% |
| !!! | TAGTTTGCTTTATGTATTAA+GGG | + | chr3.1:65733995-65734014 | MS.gene79864:intron | 20.0% |
| !!! | TTAGTTTGCTTTATGTATTA+AGG | + | chr3.1:65733994-65734013 | MS.gene79864:intron | 20.0% |
| ! | AAGTGAGATATGAAAAGAAA+TGG | - | chr3.1:65734697-65734716 | None:intergenic | 25.0% |
| ! | ACACATTCAGTTATATTAGA+TGG | - | chr3.1:65733933-65733952 | None:intergenic | 25.0% |
| ! | AGAACCTTAAACATTATTAG+AGG | - | chr3.1:65734581-65734600 | None:intergenic | 25.0% |
| ! | ATAATCTTCAAAAGTAAGTG+AGG | + | chr3.1:65734201-65734220 | MS.gene79864:intron | 25.0% |
| ! | TCTAATATAACTGAATGTGT+AGG | + | chr3.1:65733933-65733952 | MS.gene79864:intron | 25.0% |
| !!! | CACTTACTTTTGAAGATTAT+TGG | - | chr3.1:65734201-65734220 | None:intergenic | 25.0% |
| !!! | GAGAATTTTTTTTTGTTGGT+CGG | + | chr3.1:65734291-65734310 | MS.gene79864:intron | 25.0% |
| !!! | TGCATTATTATTTCTACTGT+TGG | + | chr3.1:65733653-65733672 | MS.gene79864:CDS | 25.0% |
| AAGTACAACAATCTATAGTG+GGG | - | chr3.1:65733782-65733801 | None:intergenic | 30.0% | |
| AATAATTACCGCTGGAAATA+GGG | - | chr3.1:65734497-65734516 | None:intergenic | 30.0% | |
| ATTCAACTTGATACCAAGTT+TGG | - | chr3.1:65733871-65733890 | None:intergenic | 30.0% | |
| CATATGTATATAGTCCAATC+AGG | - | chr3.1:65734021-65734040 | None:intergenic | 30.0% | |
| GAAGTACAACAATCTATAGT+GGG | - | chr3.1:65733783-65733802 | None:intergenic | 30.0% | |
| TAATAATTACCGCTGGAAAT+AGG | - | chr3.1:65734498-65734517 | None:intergenic | 30.0% | |
| TACAAGAAAAATGTCTCATG+TGG | - | chr3.1:65734262-65734281 | None:intergenic | 30.0% | |
| TGTGCCTCTAATAATGTTTA+AGG | + | chr3.1:65734574-65734593 | MS.gene79864:intron | 30.0% | |
| TTCAACTTGATACCAAGTTT+GGG | - | chr3.1:65733870-65733889 | None:intergenic | 30.0% | |
| ! | CTTATCAAGGACTTGTTTAA+GGG | - | chr3.1:65733805-65733824 | None:intergenic | 30.0% |
| ! | TAATGCAGTTACACTTTTGT+TGG | - | chr3.1:65733640-65733659 | None:intergenic | 30.0% |
| ! | TCTTATCAAGGACTTGTTTA+AGG | - | chr3.1:65733806-65733825 | None:intergenic | 30.0% |
| !! | ACATTCCATTGAGTTGAATT+AGG | - | chr3.1:65734363-65734382 | None:intergenic | 30.0% |
| !! | ACTTTTGAAGATTATTGGAC+CGG | - | chr3.1:65734196-65734215 | None:intergenic | 30.0% |
| !! | TTATTATTTCTACTGTTGGC+TGG | + | chr3.1:65733657-65733676 | MS.gene79864:CDS | 30.0% |
| !!! | TGCATTTTTTGGTCTTATCA+AGG | - | chr3.1:65733818-65733837 | None:intergenic | 30.0% |
| AAATAAGGCTTAATCATGGC+CGG | + | chr3.1:65734174-65734193 | MS.gene79864:intron | 35.0% | |
| AGTACAACAATCTATAGTGG+GGG | - | chr3.1:65733781-65733800 | None:intergenic | 35.0% | |
| ATAATTACCGCTGGAAATAG+GGG | - | chr3.1:65734496-65734515 | None:intergenic | 35.0% | |
| GAGGAGACATATATTGAACT+TGG | - | chr3.1:65734234-65734253 | None:intergenic | 35.0% | |
| TCAACTTGATACCAAGTTTG+GGG | - | chr3.1:65733869-65733888 | None:intergenic | 35.0% | |
| TTATGTATTAAGGGCCTGAT+TGG | + | chr3.1:65734004-65734023 | MS.gene79864:intron | 35.0% | |
| ! | GGAAGTACAACAATCTATAG+TGG | - | chr3.1:65733784-65733803 | None:intergenic | 35.0% |
| !! | GATAAACTTGTTACTCTTGC+TGG | + | chr3.1:65733723-65733742 | MS.gene79864:CDS | 35.0% |
| !!! | GAGGATACAGATGCATTTTT+TGG | - | chr3.1:65733829-65733848 | None:intergenic | 35.0% |
| AATGTCTCATGTGGCAAAAG+AGG | - | chr3.1:65734253-65734272 | None:intergenic | 40.0% | |
| CTTCAAACACCTTAGCTTCA+GGG | - | chr3.1:65734440-65734459 | None:intergenic | 40.0% | |
| GGTGACAAATGTAGAAGATC+TGG | - | chr3.1:65734411-65734430 | None:intergenic | 40.0% | |
| TTCAAACACCTTAGCTTCAG+GGG | - | chr3.1:65734439-65734458 | None:intergenic | 40.0% | |
| ! | ACAATCTATAGTGGGGGTAT+TGG | - | chr3.1:65733775-65733794 | None:intergenic | 40.0% |
| ! | ATGTTTAAGGTTCTGCTGAG+AGG | + | chr3.1:65734587-65734606 | MS.gene79864:intron | 40.0% |
| ! | TAGTAGCTTTACTTTAGCGC+CGG | + | chr3.1:65734330-65734349 | MS.gene79864:intron | 40.0% |
| ! | TGTTTAAGGTTCTGCTGAGA+GGG | + | chr3.1:65734588-65734607 | MS.gene79864:intron | 40.0% |
| !! | ATTGAGTTGAATTAGGCACG+GGG | - | chr3.1:65734356-65734375 | None:intergenic | 40.0% |
| !! | CATTGAGTTGAATTAGGCAC+GGG | - | chr3.1:65734357-65734376 | None:intergenic | 40.0% |
| !! | CCATTGAGTTGAATTAGGCA+CGG | - | chr3.1:65734358-65734377 | None:intergenic | 40.0% |
| !! | TCAAGTTCTGAGGAAAAGAG+TGG | + | chr3.1:65734619-65734638 | MS.gene79864:CDS | 40.0% |
| ACCTAAATCCCCTGAAGCTA+AGG | + | chr3.1:65734428-65734447 | MS.gene79864:intron | 45.0% | |
| ACCTTAGCTTCAGGGGATTT+AGG | - | chr3.1:65734432-65734451 | None:intergenic | 45.0% | |
| CCGTGCCTAATTCAACTCAA+TGG | + | chr3.1:65734355-65734374 | MS.gene79864:intron | 45.0% | |
| CCTTCAAACACCTTAGCTTC+AGG | - | chr3.1:65734441-65734460 | None:intergenic | 45.0% | |
| GATGGTATGTGACAAGCGTT+TGG | - | chr3.1:65733915-65733934 | None:intergenic | 45.0% | |
| GGTCATTGCGATCTTTGATG+AGG | - | chr3.1:65733848-65733867 | None:intergenic | 45.0% | |
| ! | AGGGGAGGAACTGTTTGTTT+TGG | - | chr3.1:65734478-65734497 | None:intergenic | 45.0% |
| ! | CCTGAAGCTAAGGTGTTTGA+AGG | + | chr3.1:65734438-65734457 | MS.gene79864:intron | 45.0% |
| ! | GCTAAGGTGTTTGAAGGACT+TGG | + | chr3.1:65734444-65734463 | MS.gene79864:intron | 45.0% |
| ! | GTTTAAGGTTCTGCTGAGAG+GGG | + | chr3.1:65734589-65734608 | MS.gene79864:intron | 45.0% |
| !! | AGTTCTGAGGAAAAGAGTGG+TGG | + | chr3.1:65734622-65734641 | MS.gene79864:CDS | 45.0% |
| !! | GAAAAGAGTGGTGGTGGATT+GGG | + | chr3.1:65734631-65734650 | MS.gene79864:CDS | 45.0% |
| !! | GCTACTAAAGCCGTCGTTTT+TGG | - | chr3.1:65734317-65734336 | None:intergenic | 45.0% |
| !! | TTAAAATGTTTATATAAATA+AGG | + | chr3.1:65734159-65734178 | MS.gene79864:intron | 5.0% |
| AGTTCCTCCCCTATTTCCAG+CGG | + | chr3.1:65734486-65734505 | MS.gene79864:CDS | 50.0% | |
| ATTACCGCTGGAAATAGGGG+AGG | - | chr3.1:65734493-65734512 | None:intergenic | 50.0% | |
| GATCGCAATGACCCCAAACT+TGG | + | chr3.1:65733855-65733874 | MS.gene79864:CDS | 50.0% | |
| GCTGGTTGTCTTCCATACGT+TGG | + | chr3.1:65733741-65733760 | MS.gene79864:CDS | 50.0% | |
| GGGATCAAGCTCAAGTTCTG+AGG | + | chr3.1:65734609-65734628 | MS.gene79864:CDS | 50.0% | |
| GGTTGTCTTCCATACGTTGG+TGG | + | chr3.1:65733744-65733763 | MS.gene79864:CDS | 50.0% | |
| TCTGAGGAAAAGAGTGGTGG+TGG | + | chr3.1:65734625-65734644 | MS.gene79864:CDS | 50.0% | |
| TGGAAGCTGTACAGCAAGAG+TGG | - | chr3.1:65733895-65733914 | None:intergenic | 50.0% | |
| TGTTGGTCGGCCAAAAACGA+CGG | + | chr3.1:65734304-65734323 | MS.gene79864:intron | 50.0% | |
| TTGGCACTACCACCAACGTA+TGG | - | chr3.1:65733756-65733775 | None:intergenic | 50.0% | |
| !! | GGAAAAGAGTGGTGGTGGAT+TGG | + | chr3.1:65734630-65734649 | MS.gene79864:CDS | 50.0% |
| AGTTGAATTAGGCACGGGGC+CGG | - | chr3.1:65734352-65734371 | None:intergenic | 55.0% | |
| !! | AGAGTGGTGGTGGATTGGGA+AGG | + | chr3.1:65734635-65734654 | MS.gene79864:CDS | 55.0% |
| ATTGGGAAGGAGGTGGCTGG+TGG | + | chr3.1:65734648-65734667 | MS.gene79864:CDS | 60.0% | |
| ! | TGGATTGGGAAGGAGGTGGC+TGG | + | chr3.1:65734645-65734664 | MS.gene79864:CDS | 60.0% |
| !! | GTGGTGGATTGGGAAGGAGG+TGG | + | chr3.1:65734641-65734660 | MS.gene79864:CDS | 60.0% |
| !! | GTGGTGGTGGATTGGGAAGG+AGG | + | chr3.1:65734638-65734657 | MS.gene79864:CDS | 60.0% |
| AAGGAGGTGGCTGGTGGCAG+AGG | + | chr3.1:65734654-65734673 | MS.gene79864:CDS | 65.0% | |
| GAGGTGGCTGGTGGCAGAGG+TGG | + | chr3.1:65734657-65734676 | MS.gene79864:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 65733627 | 65734732 | 65733627 | ID=MS.gene79864 |
| chr3.1 | mRNA | 65733627 | 65734732 | 65733627 | ID=MS.gene79864.t1;Parent=MS.gene79864 |
| chr3.1 | exon | 65733627 | 65733902 | 65733627 | ID=MS.gene79864.t1.exon1;Parent=MS.gene79864.t1 |
| chr3.1 | CDS | 65733627 | 65733902 | 65733627 | ID=cds.MS.gene79864.t1;Parent=MS.gene79864.t1 |
| chr3.1 | exon | 65734450 | 65734507 | 65734450 | ID=MS.gene79864.t1.exon2;Parent=MS.gene79864.t1 |
| chr3.1 | CDS | 65734450 | 65734507 | 65734450 | ID=cds.MS.gene79864.t1;Parent=MS.gene79864.t1 |
| chr3.1 | exon | 65734596 | 65734732 | 65734596 | ID=MS.gene79864.t1.exon3;Parent=MS.gene79864.t1 |
| chr3.1 | CDS | 65734596 | 65734732 | 65734596 | ID=cds.MS.gene79864.t1;Parent=MS.gene79864.t1 |
| Gene Sequence |
| Protein sequence |
