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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0280580 | XP_003594766.3 | 57.000 | 100 | 38 | 1 | 1 | 95 | 1 | 100 | 2.74e-19 | 85.9 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0280580 | A0A392NIK9 | 50.000 | 106 | 35 | 4 | 1 | 95 | 1 | 99 | 1.13e-12 | 68.2 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0199830 | Msa0280580 | 0.806249 | 9.013946e-50 | -8.615850e-47 |
| Msa0242360 | Msa0280580 | 0.964845 | 7.659882e-124 | -8.615850e-47 |
| Msa0280580 | Msa0306130 | 0.803001 | 4.293179e-49 | -8.615850e-47 |
| Msa0280580 | Msa0363460 | 0.826430 | 2.725376e-54 | -8.615850e-47 |
| Msa0280580 | Msa0411000 | 0.809738 | 1.630848e-50 | -8.615850e-47 |
| Msa0280580 | Msa0418000 | 0.807227 | 5.602097e-50 | -8.615850e-47 |
| Msa0280580 | Msa0455230 | 0.823645 | 1.238896e-53 | -8.615850e-47 |
| Msa0280580 | Msa0618520 | 0.801131 | 1.040561e-48 | -8.615850e-47 |
| Msa0280580 | Msa0656270 | 0.815495 | 8.977634e-52 | -8.615850e-47 |
| Msa0280580 | Msa0700070 | 0.821145 | 4.717440e-53 | -8.615850e-47 |
| Msa0280580 | Msa0860270 | 0.803937 | 2.746906e-49 | -8.615850e-47 |
| Msa0280580 | Msa1244830 | 0.808526 | 2.966591e-50 | -8.615850e-47 |
| Msa0280580 | Msa1361190 | 0.804205 | 2.415733e-49 | -8.615850e-47 |
| Msa0280580 | Msa1428440 | 0.816248 | 6.098572e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0280580 | MtrunA17_Chr2g0294531 | 35.849 | 106 | 51 | 2 | 1 | 95 | 1 | 100 | 3.08e-13 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 35 sgRNAs with CRISPR-Local
Find 105 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGGAGGGGAGGGGAGGGTTT+TGG | 0.212662 | 2_3:+15409202 | Msa0280580:CDS |
| TTAGGCTTTGTTTGGGAGTT+TGG | 0.225567 | 2_3:+15409177 | Msa0280580:CDS |
| TTTGGAGGGGAGGGGAGGGG+AGG | 0.254388 | 2_3:+15409195 | Msa0280580:CDS |
| AGTACCATGGTTGGTGGATT+TGG | 0.268216 | 2_3:-15409144 | None:intergenic |
| GGGAGTTTGGAGGGGAGGGG+AGG | 0.289218 | 2_3:+15409190 | Msa0280580:CDS |
| GAGTTTGGAGGGGAGGGGAG+GGG | 0.299317 | 2_3:+15409192 | Msa0280580:CDS |
| AAATTCATTTAGGCTTTGTT+TGG | 0.328746 | 2_3:+15409169 | Msa0280580:CDS |
| TTTGGGAGTTTGGAGGGGAG+GGG | 0.336426 | 2_3:+15409187 | Msa0280580:CDS |
| GTTTGGGAGTTTGGAGGGGA+GGG | 0.354818 | 2_3:+15409186 | Msa0280580:CDS |
| TGTTTGGGAGTTTGGAGGGG+AGG | 0.355934 | 2_3:+15409185 | Msa0280580:CDS |
| GGAGTTTGGAGGGGAGGGGA+GGG | 0.360686 | 2_3:+15409191 | Msa0280580:CDS |
| CTAATAGTTGTAGTTCTTTG+TGG | 0.363040 | 2_3:-15409757 | None:intergenic |
| ACATTGGGAGGAGAGGGCTT+TGG | 0.379962 | 2_3:+15409258 | Msa0280580:CDS |
| GCTTTGTTTGGGAGTTTGGA+GGG | 0.388556 | 2_3:+15409181 | Msa0280580:CDS |
| ATGGTACTGGAAATTCATTT+AGG | 0.401075 | 2_3:+15409159 | Msa0280580:CDS |
| GGCTTTGTTTGGGAGTTTGG+AGG | 0.401752 | 2_3:+15409180 | Msa0280580:CDS |
| TTGGAGGGGAGGGGAGGGGA+GGG | 0.405392 | 2_3:+15409196 | Msa0280580:CDS |
| AATTCATTTAGGCTTTGTTT+GGG | 0.432275 | 2_3:+15409170 | Msa0280580:CDS |
| CTTTGTTTGGGAGTTTGGAG+GGG | 0.437713 | 2_3:+15409182 | Msa0280580:CDS |
| GGCAATGGAGGGTTTGTTGA+TGG | 0.457965 | 2_3:+15409720 | Msa0280580:CDS |
| AAATCCACCAACCATGGTAC+TGG | 0.464639 | 2_3:+15409146 | Msa0280580:CDS |
| TTGGGAGGAGAGGGCTTTGG+AGG | 0.482407 | 2_3:+15409261 | Msa0280580:CDS |
| TGGAAGAAATAGAAGACATT+GGG | 0.497892 | 2_3:+15409243 | Msa0280580:CDS |
| TAGAAGACATTGGGAGGAGA+GGG | 0.505993 | 2_3:+15409252 | Msa0280580:CDS |
| ATTTCCAGTACCATGGTTGG+TGG | 0.513143 | 2_3:-15409150 | None:intergenic |
| GTGGAAGAAATAGAAGACAT+TGG | 0.540645 | 2_3:+15409242 | Msa0280580:CDS |
| AAACCTCATCGCAATGCTTG+AGG | 0.561734 | 2_3:+15409100 | Msa0280580:CDS |
| TGAATTTCCAGTACCATGGT+TGG | 0.563510 | 2_3:-15409153 | None:intergenic |
| ATAGAAGACATTGGGAGGAG+AGG | 0.564987 | 2_3:+15409251 | Msa0280580:CDS |
| AAGAAATAGAAGACATTGGG+AGG | 0.586992 | 2_3:+15409246 | Msa0280580:CDS |
| TTTAATGGTCATGGCAATGG+AGG | 0.588877 | 2_3:+15409708 | Msa0280580:CDS |
| TTAATGGTCATGGCAATGGA+GGG | 0.603235 | 2_3:+15409709 | Msa0280580:CDS |
| TAAATGAATTTCCAGTACCA+TGG | 0.609714 | 2_3:-15409157 | None:intergenic |
| CAGCCTCAAGCATTGCGATG+AGG | 0.612561 | 2_3:-15409103 | None:intergenic |
| GCTTCCAAATCCACCAACCA+TGG | 0.636574 | 2_3:+15409140 | Msa0280580:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAATTCATTTAGGCTTTGTT+TGG | + | chr2_3:15409169-15409188 | Msa0280580:CDS | 25.0% |
| !!! | AATTCATTTAGGCTTTGTTT+GGG | + | chr2_3:15409170-15409189 | Msa0280580:CDS | 25.0% |
| TAAATGAATTTCCAGTACCA+TGG | - | chr2_3:15409160-15409179 | None:intergenic | 30.0% | |
| ! | ATGGTACTGGAAATTCATTT+AGG | + | chr2_3:15409159-15409178 | Msa0280580:CDS | 30.0% |
| TGGAAGAAATAGAAGACATT+GGG | + | chr2_3:15409243-15409262 | Msa0280580:CDS | 30.0% | |
| AATAAAAAATCCCCCTCATT+TGG | + | chr2_3:15409300-15409319 | Msa0280580:intron | 30.0% | |
| ATAAAAAATCCCCCTCATTT+GGG | + | chr2_3:15409301-15409320 | Msa0280580:intron | 30.0% | |
| !! | TACCCTTGTTATTAATAGTG+CGG | - | chr2_3:15409679-15409698 | None:intergenic | 30.0% |
| CTAATAGTTGTAGTTCTTTG+TGG | - | chr2_3:15409760-15409779 | None:intergenic | 30.0% | |
| GTGGAAGAAATAGAAGACAT+TGG | + | chr2_3:15409242-15409261 | Msa0280580:CDS | 35.0% | |
| AAGAAATAGAAGACATTGGG+AGG | + | chr2_3:15409246-15409265 | Msa0280580:CDS | 35.0% | |
| TAAAAAATCCCCCTCATTTG+GGG | + | chr2_3:15409302-15409321 | Msa0280580:intron | 35.0% | |
| GGGAACTCAAAAATTGCATT+GGG | + | chr2_3:15409323-15409342 | Msa0280580:intron | 35.0% | |
| GGAACTCAAAAATTGCATTG+GGG | + | chr2_3:15409324-15409343 | Msa0280580:intron | 35.0% | |
| GAACTCAAAAATTGCATTGG+GGG | + | chr2_3:15409325-15409344 | Msa0280580:intron | 35.0% | |
| !! | TGGTTGTTAAGGCTTTGTTT+GGG | - | chr2_3:15409560-15409579 | None:intergenic | 35.0% |
| !! | ATGGTTGTTAAGGCTTTGTT+TGG | - | chr2_3:15409561-15409580 | None:intergenic | 35.0% |
| AAACAAAGCCTTAACAACCA+TGG | + | chr2_3:15409560-15409579 | Msa0280580:intron | 35.0% | |
| ! | AGGGTACGTAGTACTTTTAA+TGG | + | chr2_3:15409693-15409712 | Msa0280580:intron | 35.0% |
| ! | CGTAGTACTTTTAATGGTCA+TGG | + | chr2_3:15409699-15409718 | Msa0280580:CDS | 35.0% |
| ! | ACTTTTAATGGTCATGGCAA+TGG | + | chr2_3:15409705-15409724 | Msa0280580:CDS | 35.0% |
| ! | GATGAGGTTTTTGATCACAC+GGG | - | chr2_3:15409090-15409109 | None:intergenic | 40.0% |
| ! | CGATGAGGTTTTTGATCACA+CGG | - | chr2_3:15409091-15409110 | None:intergenic | 40.0% |
| TGAATTTCCAGTACCATGGT+TGG | - | chr2_3:15409156-15409175 | None:intergenic | 40.0% | |
| !! | TTAGGCTTTGTTTGGGAGTT+TGG | + | chr2_3:15409177-15409196 | Msa0280580:CDS | 40.0% |
| !!! | GAGGGTTTTGGAAAAAAGGA+AGG | + | chr2_3:15409214-15409233 | Msa0280580:CDS | 40.0% |
| AAAAAATCCCCCTCATTTGG+GGG | + | chr2_3:15409303-15409322 | Msa0280580:intron | 40.0% | |
| !!! | TTTTGAGTTCCCCCAAATGA+GGG | - | chr2_3:15409315-15409334 | None:intergenic | 40.0% |
| !!! | TTTTTGAGTTCCCCCAAATG+AGG | - | chr2_3:15409316-15409335 | None:intergenic | 40.0% |
| GGGGAACTCAAAAATTGCAT+TGG | + | chr2_3:15409322-15409341 | Msa0280580:intron | 40.0% | |
| TCAAAAATTGCATTGGGGGA+GGG | + | chr2_3:15409329-15409348 | Msa0280580:intron | 40.0% | |
| !! | TAAGGCTTTGTTTGGGAGTT+TGG | - | chr2_3:15409553-15409572 | None:intergenic | 40.0% |
| AGCCTTAACAACCATGGTAA+CGG | + | chr2_3:15409566-15409585 | Msa0280580:intron | 40.0% | |
| !! | TTTTGGCACCGGAGAAATTT+TGG | - | chr2_3:15409595-15409614 | None:intergenic | 40.0% |
| TGGCCGCACTATTAATAACA+AGG | + | chr2_3:15409673-15409692 | Msa0280580:intron | 40.0% | |
| GGCCGCACTATTAATAACAA+GGG | + | chr2_3:15409674-15409693 | Msa0280580:intron | 40.0% | |
| TTTAATGGTCATGGCAATGG+AGG | + | chr2_3:15409708-15409727 | Msa0280580:CDS | 40.0% | |
| TTAATGGTCATGGCAATGGA+GGG | + | chr2_3:15409709-15409728 | Msa0280580:CDS | 40.0% | |
| AAACCTCATCGCAATGCTTG+AGG | + | chr2_3:15409100-15409119 | Msa0280580:CDS | 45.0% | |
| !! | AGTACCATGGTTGGTGGATT+TGG | - | chr2_3:15409147-15409166 | None:intergenic | 45.0% |
| AAATCCACCAACCATGGTAC+TGG | + | chr2_3:15409146-15409165 | Msa0280580:CDS | 45.0% | |
| ATTTCCAGTACCATGGTTGG+TGG | - | chr2_3:15409153-15409172 | None:intergenic | 45.0% | |
| !! | GCTTTGTTTGGGAGTTTGGA+GGG | + | chr2_3:15409181-15409200 | Msa0280580:CDS | 45.0% |
| ! | CTTTGTTTGGGAGTTTGGAG+GGG | + | chr2_3:15409182-15409201 | Msa0280580:CDS | 45.0% |
| !!! | AGGGGAGGGTTTTGGAAAAA+AGG | + | chr2_3:15409210-15409229 | Msa0280580:CDS | 45.0% |
| GGAAAAAAGGAAGGAGCAAG+TGG | + | chr2_3:15409223-15409242 | Msa0280580:CDS | 45.0% | |
| ATAGAAGACATTGGGAGGAG+AGG | + | chr2_3:15409251-15409270 | Msa0280580:CDS | 45.0% | |
| TAGAAGACATTGGGAGGAGA+GGG | + | chr2_3:15409252-15409271 | Msa0280580:CDS | 45.0% | |
| ! | TTTGAGTTCCCCCAAATGAG+GGG | - | chr2_3:15409314-15409333 | None:intergenic | 45.0% |
| CTCAAAAATTGCATTGGGGG+AGG | + | chr2_3:15409328-15409347 | Msa0280580:intron | 45.0% | |
| ! | CTTTGTTTGGGAGTTTGGAG+GGG | - | chr2_3:15409182-15409201 | None:intergenic | 45.0% |
| !! | GCTTTGTTTGGGAGTTTGGA+GGG | - | chr2_3:15409181-15409200 | None:intergenic | 45.0% |
| GCCTTAACAACCATGGTAAC+GGG | + | chr2_3:15409567-15409586 | Msa0280580:intron | 45.0% | |
| ! | CCTTAACAACCATGGTAACG+GGG | + | chr2_3:15409568-15409587 | Msa0280580:intron | 45.0% |
| !! | AATTTTGGTCCCCGTTACCA+TGG | - | chr2_3:15409580-15409599 | None:intergenic | 45.0% |
| AACGGGGACCAAAATTTCTC+CGG | + | chr2_3:15409584-15409603 | Msa0280580:intron | 45.0% | |
| !!! | ATTTGCACGGGCGTTGATTT+TGG | - | chr2_3:15409612-15409631 | None:intergenic | 45.0% |
| !! | CACCATAACTATTGGTGGTG+CGG | - | chr2_3:15409655-15409674 | None:intergenic | 45.0% |
| GCTTCCAAATCCACCAACCA+TGG | + | chr2_3:15409140-15409159 | Msa0280580:CDS | 50.0% | |
| !! | GGCTTTGTTTGGGAGTTTGG+AGG | + | chr2_3:15409180-15409199 | Msa0280580:CDS | 50.0% |
| TTGAGTTCCCCCAAATGAGG+GGG | - | chr2_3:15409313-15409332 | None:intergenic | 50.0% | |
| ! | ATTGCATTGGGGGAGGGTTT+TGG | + | chr2_3:15409335-15409354 | Msa0280580:intron | 50.0% |
| ! | TTGCATTGGGGGAGGGTTTT+GGG | + | chr2_3:15409336-15409355 | Msa0280580:intron | 50.0% |
| !!! | AGGGTTTTGGGGGGTTATAG+AGG | + | chr2_3:15409348-15409367 | Msa0280580:intron | 50.0% |
| !!! | GGGTTTTGGGGGGTTATAGA+GGG | + | chr2_3:15409349-15409368 | Msa0280580:intron | 50.0% |
| TTTGGGAGTTTGGAGGGGAA+GGG | - | chr2_3:15409543-15409562 | None:intergenic | 50.0% | |
| !! | GGCTTTGTTTGGGAGTTTGG+AGG | - | chr2_3:15409180-15409199 | None:intergenic | 50.0% |
| CCCCGTTACCATGGTTGTTA+AGG | - | chr2_3:15409571-15409590 | None:intergenic | 50.0% | |
| ! | TGGTGGTGCGGTGTTTGTTA+CGG | - | chr2_3:15409643-15409662 | None:intergenic | 50.0% |
| CACCGCACCACCAATAGTTA+TGG | + | chr2_3:15409650-15409669 | Msa0280580:intron | 50.0% | |
| CGCACCACCAATAGTTATGG+TGG | + | chr2_3:15409653-15409672 | Msa0280580:intron | 50.0% | |
| AGTGCGGCCACCATAACTAT+TGG | - | chr2_3:15409663-15409682 | None:intergenic | 50.0% | |
| !! | GGCAATGGAGGGTTTGTTGA+TGG | + | chr2_3:15409720-15409739 | Msa0280580:CDS | 50.0% |
| ! | CAGCCTCAAGCATTGCGATG+AGG | - | chr2_3:15409106-15409125 | None:intergenic | 55.0% |
| TGTTTGGGAGTTTGGAGGGG+AGG | + | chr2_3:15409185-15409204 | Msa0280580:CDS | 55.0% | |
| GTTTGGGAGTTTGGAGGGGA+GGG | + | chr2_3:15409186-15409205 | Msa0280580:CDS | 55.0% | |
| TTTGGGAGTTTGGAGGGGAG+GGG | + | chr2_3:15409187-15409206 | Msa0280580:CDS | 55.0% | |
| ACATTGGGAGGAGAGGGCTT+TGG | + | chr2_3:15409258-15409277 | Msa0280580:CDS | 55.0% | |
| ! | TGCATTGGGGGAGGGTTTTG+GGG | + | chr2_3:15409337-15409356 | Msa0280580:intron | 55.0% |
| GTTTGGGAGTTTGGAGGGGA+AGG | - | chr2_3:15409186-15409205 | None:intergenic | 55.0% | |
| !!! | ACGGGCGTTGATTTTGGCAC+CGG | - | chr2_3:15409606-15409625 | None:intergenic | 55.0% |
| ATCAACGCCCGTGCAAATGC+CGG | + | chr2_3:15409614-15409633 | Msa0280580:intron | 55.0% | |
| GCGGCCACCATAACTATTGG+TGG | - | chr2_3:15409660-15409679 | None:intergenic | 55.0% | |
| ! | TTGGGAGGAGAGGGCTTTGG+AGG | + | chr2_3:15409261-15409280 | Msa0280580:CDS | 60.0% |
| !! | GCATTGGGGGAGGGTTTTGG+GGG | + | chr2_3:15409338-15409357 | Msa0280580:intron | 60.0% |
| !!! | CATTGGGGGAGGGTTTTGGG+GGG | + | chr2_3:15409339-15409358 | Msa0280580:intron | 60.0% |
| ! | AAGGGAGGGGAGAGCTTTGG+GGG | - | chr2_3:15409525-15409544 | None:intergenic | 60.0% |
| GAAGGGAGGGGAGAGCTTTG+GGG | - | chr2_3:15409526-15409545 | None:intergenic | 60.0% | |
| GGAAGGGAGGGGAGAGCTTT+GGG | - | chr2_3:15409527-15409546 | None:intergenic | 60.0% | |
| GAGTTTGGAGGGGAAGGGAG+GGG | - | chr2_3:15409538-15409557 | None:intergenic | 60.0% | |
| GGAGTTTGGAGGGGAAGGGA+GGG | - | chr2_3:15409539-15409558 | None:intergenic | 60.0% | |
| TCAACGCCCGTGCAAATGCC+GGG | + | chr2_3:15409615-15409634 | Msa0280580:intron | 60.0% | |
| TACGGTCCCCGGCATTTGCA+CGG | - | chr2_3:15409625-15409644 | None:intergenic | 60.0% | |
| ! | GCGGTGTTTGTTACGGTCCC+CGG | - | chr2_3:15409636-15409655 | None:intergenic | 60.0% |
| GGAGTTTGGAGGGGAGGGGA+GGG | + | chr2_3:15409191-15409210 | Msa0280580:CDS | 65.0% | |
| GAGTTTGGAGGGGAGGGGAG+GGG | + | chr2_3:15409192-15409211 | Msa0280580:CDS | 65.0% | |
| !! | AGGGAGGGGAGAGCTTTGGG+GGG | - | chr2_3:15409524-15409543 | None:intergenic | 65.0% |
| GGGAAGGGAGGGGAGAGCTT+TGG | - | chr2_3:15409528-15409547 | None:intergenic | 65.0% | |
| GGGAGTTTGGAGGGGAAGGG+AGG | - | chr2_3:15409540-15409559 | None:intergenic | 65.0% | |
| CAACGCCCGTGCAAATGCCG+GGG | + | chr2_3:15409616-15409635 | Msa0280580:intron | 65.0% | |
| ACGGTCCCCGGCATTTGCAC+GGG | - | chr2_3:15409624-15409643 | None:intergenic | 65.0% | |
| GGGAGTTTGGAGGGGAGGGG+AGG | + | chr2_3:15409190-15409209 | Msa0280580:CDS | 70.0% | |
| TTTGGAGGGGAGGGGAGGGG+AGG | + | chr2_3:15409195-15409214 | Msa0280580:CDS | 70.0% | |
| TTGGAGGGGAGGGGAGGGGA+GGG | + | chr2_3:15409196-15409215 | Msa0280580:CDS | 70.0% | |
| ! | GGGAGGGGAGGGGAGGGTTT+TGG | + | chr2_3:15409202-15409221 | Msa0280580:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 15409080 | 15409779 | 15409080 | ID=Msa0280580;Name=Msa0280580 |
| chr2_3 | mRNA | 15409080 | 15409779 | 15409080 | ID=Msa0280580-mRNA-1;Parent=Msa0280580;Name=Msa0280580-mRNA-1;_AED=0.77;_eAED=0.79;_QI=0|0|0|0.5|1|1|2|0|95 |
| chr2_3 | exon | 15409080 | 15409282 | 15409080 | ID=Msa0280580-mRNA-1:exon:6406;Parent=Msa0280580-mRNA-1 |
| chr2_3 | exon | 15409695 | 15409779 | 15409695 | ID=Msa0280580-mRNA-1:exon:6407;Parent=Msa0280580-mRNA-1 |
| chr2_3 | CDS | 15409080 | 15409282 | 15409080 | ID=Msa0280580-mRNA-1:cds;Parent=Msa0280580-mRNA-1 |
| chr2_3 | CDS | 15409695 | 15409779 | 15409695 | ID=Msa0280580-mRNA-1:cds;Parent=Msa0280580-mRNA-1 |
| Gene Sequence |
| Protein sequence |
