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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0316790 | XP_003594187.1 | 98.578 | 211 | 2 | 1 | 1 | 211 | 1 | 210 | 6.27e-149 | 422 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0045790 | Msa0316790 | 0.800726 | 1.258832e-48 | -8.615850e-47 |
| Msa0046160 | Msa0316790 | 0.802537 | 5.351834e-49 | -8.615850e-47 |
| Msa0276910 | Msa0316790 | 0.907648 | 4.038594e-81 | -8.615850e-47 |
| Msa0316790 | Msa0973600 | 0.817444 | 3.287568e-52 | -8.615850e-47 |
| Msa0316790 | Msa1278660 | 0.807711 | 4.424157e-50 | -8.615850e-47 |
| Msa0316790 | Msa1394380 | 0.808803 | 2.587603e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0316790 | MtrunA17_Chr2g0289601 | 98.578 | 211 | 2 | 1 | 1 | 211 | 1 | 210 | 5.77e-153 | 422 |
| Msa0316790 | MtrunA17_Chr4g0075561 | 65.138 | 109 | 28 | 3 | 1 | 106 | 1 | 102 | 1.24e-43 | 142 |
| Msa0316790 | MtrunA17_Chr6g0469421 | 41.096 | 219 | 83 | 7 | 1 | 211 | 1 | 181 | 5.80e-39 | 132 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0316790 | AT1G12020.1 | 45.259 | 232 | 100 | 7 | 1 | 211 | 1 | 226 | 1.09e-49 | 161 |
| Msa0316790 | AT1G62422.1 | 46.119 | 219 | 79 | 7 | 1 | 211 | 1 | 188 | 3.47e-45 | 149 |
| Msa0316790 | AT5G13090.1 | 49.462 | 93 | 45 | 1 | 21 | 111 | 40 | 132 | 2.60e-22 | 92.0 |
| Msa0316790 | AT1G24270.1 | 47.872 | 94 | 40 | 2 | 23 | 116 | 86 | 170 | 3.65e-20 | 84.7 |
Find 63 sgRNAs with CRISPR-Local
Find 66 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATGGATGAACCGTCGCTTTA+TGG | 0.220331 | 2_4:+14050757 | None:intergenic |
| AGAAAGGATTTGGGGTGTTT+GGG | 0.237919 | 2_4:-14050163 | Msa0316790:CDS |
| GAGAAAGGATTTGGGGTGTT+TGG | 0.279385 | 2_4:-14050164 | Msa0316790:CDS |
| AGAAAATTTGTGAGTTTCAT+TGG | 0.280803 | 2_4:-14050186 | Msa0316790:CDS |
| TCAGATGCTATACAAGTTAC+TGG | 0.294818 | 2_4:-14050521 | Msa0316790:CDS |
| GTTTCATTGGAGAAAGGATT+TGG | 0.305166 | 2_4:-14050173 | Msa0316790:CDS |
| TTTCATTGGAGAAAGGATTT+GGG | 0.320194 | 2_4:-14050172 | Msa0316790:CDS |
| AAGAATAAGAATAAGAATTC+TGG | 0.321116 | 2_4:-14050354 | Msa0316790:CDS |
| GTTGTTGCTGATGAAGAAAA+AGG | 0.371110 | 2_4:-14050216 | Msa0316790:CDS |
| GCTAGGACTTCTCTGTCTTC+AGG | 0.380809 | 2_4:+14050663 | None:intergenic |
| CGTGCTCCGTCGTGGGTTAC+CGG | 0.383486 | 2_4:+14050587 | None:intergenic |
| CAGGTGATAGCGCCGCCGCT+AGG | 0.396501 | 2_4:+14050682 | None:intergenic |
| TTTATGGTAGAGCTTCTTCA+TGG | 0.396994 | 2_4:+14050773 | None:intergenic |
| AGTGGTAAAGTTGGAAAGAA+AGG | 0.409989 | 2_4:-14050423 | Msa0316790:CDS |
| ATAGCGCCGCCGCTAGGGTT+AGG | 0.446267 | 2_4:+14050688 | None:intergenic |
| TTGTGAGTTTCATTGGAGAA+AGG | 0.453786 | 2_4:-14050179 | Msa0316790:CDS |
| AAAGAGAAGAGGAACAAGAA+AGG | 0.460478 | 2_4:-14050390 | Msa0316790:CDS |
| TAGGATGGTTGCGGGAAGGA+AGG | 0.465653 | 2_4:+14050707 | None:intergenic |
| GCTAGGGTTAGGATGGTTGC+GGG | 0.469356 | 2_4:+14050699 | None:intergenic |
| AGAATTCTGGTGAGTTGAAT+CGG | 0.470549 | 2_4:-14050341 | Msa0316790:CDS |
| AGAAGAGGAACAAGAAAGGA+GGG | 0.473041 | 2_4:-14050386 | Msa0316790:CDS |
| CGACGGAGCACGGTGAAGAC+AGG | 0.487092 | 2_4:-14050576 | Msa0316790:CDS |
| GAGAAATTGCTGAAAGTTGG+TGG | 0.490308 | 2_4:+14050609 | None:intergenic |
| CCGGAGAAATTGCTGAAAGT+TGG | 0.499193 | 2_4:+14050606 | None:intergenic |
| TTGGTTCAGAGTGGTAAAGT+TGG | 0.501650 | 2_4:-14050432 | Msa0316790:CDS |
| GTCTTCACCGTGCTCCGTCG+TGG | 0.502099 | 2_4:+14050579 | None:intergenic |
| CGCTAGGGTTAGGATGGTTG+CGG | 0.505574 | 2_4:+14050698 | None:intergenic |
| GTGGTAAAGTTGGAAAGAAA+GGG | 0.509636 | 2_4:-14050422 | Msa0316790:CDS |
| AGTAATAGTAGTAACAATAG+TGG | 0.510346 | 2_4:-14050270 | Msa0316790:CDS |
| TCATGTATGAGTTGACGATT+CGG | 0.513219 | 2_4:+14050480 | None:intergenic |
| GAGAAGAGGAACAAGAAAGG+AGG | 0.517489 | 2_4:-14050387 | Msa0316790:CDS |
| AACTACTGAGTTAGAATCTG+TGG | 0.517490 | 2_4:-14050301 | Msa0316790:CDS |
| TCGGTTATCACCGGTGGTGA+TGG | 0.517567 | 2_4:+14050738 | None:intergenic |
| CCAACTTTCAGCAATTTCTC+CGG | 0.520053 | 2_4:-14050606 | Msa0316790:CDS |
| GAAAGGATTTGGGGTGTTTG+GGG | 0.530002 | 2_4:-14050162 | Msa0316790:CDS |
| TCTTCACCGTGCTCCGTCGT+GGG | 0.530488 | 2_4:+14050580 | None:intergenic |
| AGGTGATAGCGCCGCCGCTA+GGG | 0.532801 | 2_4:+14050683 | None:intergenic |
| CAGATGCTATACAAGTTACT+GGG | 0.535574 | 2_4:-14050520 | Msa0316790:CDS |
| GGAAAGGAAAGAAAGAGAAG+AGG | 0.541545 | 2_4:-14050401 | Msa0316790:CDS |
| AATAGTAGTAACAATAGTGG+TGG | 0.552263 | 2_4:-14050267 | Msa0316790:CDS |
| AGAAATTGCTGAAAGTTGGT+GGG | 0.556471 | 2_4:+14050610 | None:intergenic |
| TTGCGGGAAGGAAGGAAAGT+TGG | 0.558904 | 2_4:+14050715 | None:intergenic |
| ATACAAGTTACTGGGTCAGA+TGG | 0.559401 | 2_4:-14050512 | Msa0316790:CDS |
| CGCCGCCGCTAGGGTTAGGA+TGG | 0.565059 | 2_4:+14050692 | None:intergenic |
| TTCATTGGAGAAAGGATTTG+GGG | 0.576638 | 2_4:-14050171 | Msa0316790:CDS |
| TGGAAGTGAAAATAGTGAAA+AGG | 0.578579 | 2_4:-14050247 | Msa0316790:CDS |
| CGGTAACCCACGACGGAGCA+CGG | 0.579056 | 2_4:-14050586 | Msa0316790:CDS |
| GAAAGTTGGTCGGTTATCAC+CGG | 0.579949 | 2_4:+14050729 | None:intergenic |
| GAGGAGTGGTTGGTTCAGAG+TGG | 0.580436 | 2_4:-14050441 | Msa0316790:CDS |
| AAAGTTGGAAAGAAAGGGAA+AGG | 0.584297 | 2_4:-14050417 | Msa0316790:CDS |
| TACAAGTTACTGGGTCAGAT+GGG | 0.590792 | 2_4:-14050511 | Msa0316790:CDS |
| GGGTTAGGATGGTTGCGGGA+AGG | 0.591167 | 2_4:+14050703 | None:intergenic |
| AACAATAGATGAGATAAGCT+AGG | 0.603361 | 2_4:+14050646 | None:intergenic |
| GAAAGTTGGTGGGGTTGTCG+TGG | 0.612483 | 2_4:+14050620 | None:intergenic |
| AACCATCCTAACCCTAGCGG+CGG | 0.614685 | 2_4:-14050694 | Msa0316790:CDS |
| GACGGTTCATCCATCACCAC+CGG | 0.616178 | 2_4:-14050748 | Msa0316790:CDS |
| ACTACTGAGTTAGAATCTGT+GGG | 0.616892 | 2_4:-14050300 | Msa0316790:CDS |
| AGTTGGTCGGTTATCACCGG+TGG | 0.641033 | 2_4:+14050732 | None:intergenic |
| GGGAAGGAAGGAAAGTTGGT+CGG | 0.644008 | 2_4:+14050719 | None:intergenic |
| GAAATTGCTGAAAGTTGGTG+GGG | 0.668665 | 2_4:+14050611 | None:intergenic |
| GAAGCTCTACCATAAAGCGA+CGG | 0.694050 | 2_4:-14050766 | Msa0316790:CDS |
| CGCAACCATCCTAACCCTAG+CGG | 0.725015 | 2_4:-14050697 | Msa0316790:CDS |
| ATTTCTCCGGTAACCCACGA+CGG | 0.736661 | 2_4:-14050593 | Msa0316790:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAGAATAAGAATAAGAATTC+TGG | - | chr2_4:14050575-14050594 | Msa0316790:CDS | 20.0% |
| ! | AGTAATAGTAGTAACAATAG+TGG | - | chr2_4:14050659-14050678 | Msa0316790:CDS | 25.0% |
| ! | AGAAAATTTGTGAGTTTCAT+TGG | - | chr2_4:14050743-14050762 | Msa0316790:CDS | 25.0% |
| AACAATAGATGAGATAAGCT+AGG | + | chr2_4:14050286-14050305 | None:intergenic | 30.0% | |
| AATAGTAGTAACAATAGTGG+TGG | - | chr2_4:14050662-14050681 | Msa0316790:CDS | 30.0% | |
| TGGAAGTGAAAATAGTGAAA+AGG | - | chr2_4:14050682-14050701 | Msa0316790:CDS | 30.0% | |
| TTGTTGCTGATGAAGAAAAA+GGG | - | chr2_4:14050714-14050733 | Msa0316790:CDS | 30.0% | |
| TTTCATTGGAGAAAGGATTT+GGG | - | chr2_4:14050757-14050776 | Msa0316790:CDS | 30.0% | |
| ! | AGAAATTGCTGAAAGTTGGT+GGG | + | chr2_4:14050322-14050341 | None:intergenic | 35.0% |
| TCAGATGCTATACAAGTTAC+TGG | - | chr2_4:14050408-14050427 | Msa0316790:CDS | 35.0% | |
| CAGATGCTATACAAGTTACT+GGG | - | chr2_4:14050409-14050428 | Msa0316790:CDS | 35.0% | |
| ! | TCATGTATGAGTTGACGATT+CGG | + | chr2_4:14050452-14050471 | None:intergenic | 35.0% |
| AGTGGTAAAGTTGGAAAGAA+AGG | - | chr2_4:14050506-14050525 | Msa0316790:CDS | 35.0% | |
| GTGGTAAAGTTGGAAAGAAA+GGG | - | chr2_4:14050507-14050526 | Msa0316790:CDS | 35.0% | |
| AAAGTTGGAAAGAAAGGGAA+AGG | - | chr2_4:14050512-14050531 | Msa0316790:CDS | 35.0% | |
| AAAGAGAAGAGGAACAAGAA+AGG | - | chr2_4:14050539-14050558 | Msa0316790:CDS | 35.0% | |
| ! | AGAATTCTGGTGAGTTGAAT+CGG | - | chr2_4:14050588-14050607 | Msa0316790:CDS | 35.0% |
| AACTACTGAGTTAGAATCTG+TGG | - | chr2_4:14050628-14050647 | Msa0316790:CDS | 35.0% | |
| ACTACTGAGTTAGAATCTGT+GGG | - | chr2_4:14050629-14050648 | Msa0316790:CDS | 35.0% | |
| GTTGTTGCTGATGAAGAAAA+AGG | - | chr2_4:14050713-14050732 | Msa0316790:CDS | 35.0% | |
| TTGTGAGTTTCATTGGAGAA+AGG | - | chr2_4:14050750-14050769 | Msa0316790:CDS | 35.0% | |
| GTTTCATTGGAGAAAGGATT+TGG | - | chr2_4:14050756-14050775 | Msa0316790:CDS | 35.0% | |
| TTCATTGGAGAAAGGATTTG+GGG | - | chr2_4:14050758-14050777 | Msa0316790:CDS | 35.0% | |
| !! | GAAATTGCTGAAAGTTGGTG+GGG | + | chr2_4:14050321-14050340 | None:intergenic | 40.0% |
| GAGAAATTGCTGAAAGTTGG+TGG | + | chr2_4:14050323-14050342 | None:intergenic | 40.0% | |
| CCAACTTTCAGCAATTTCTC+CGG | - | chr2_4:14050323-14050342 | Msa0316790:CDS | 40.0% | |
| ATACAAGTTACTGGGTCAGA+TGG | - | chr2_4:14050417-14050436 | Msa0316790:CDS | 40.0% | |
| TACAAGTTACTGGGTCAGAT+GGG | - | chr2_4:14050418-14050437 | Msa0316790:CDS | 40.0% | |
| ! | TGAGATCATCGATGCTTTTG+AGG | - | chr2_4:14050469-14050488 | Msa0316790:CDS | 40.0% |
| TTGGTTCAGAGTGGTAAAGT+TGG | - | chr2_4:14050497-14050516 | Msa0316790:CDS | 40.0% | |
| GGAAAGGAAAGAAAGAGAAG+AGG | - | chr2_4:14050528-14050547 | Msa0316790:CDS | 40.0% | |
| AGAAGAGGAACAAGAAAGGA+GGG | - | chr2_4:14050543-14050562 | Msa0316790:CDS | 40.0% | |
| ! | AGAAAGGATTTGGGGTGTTT+GGG | - | chr2_4:14050766-14050785 | Msa0316790:CDS | 40.0% |
| GAAGCTCTACCATAAAGCGA+CGG | - | chr2_4:14050163-14050182 | Msa0316790:CDS | 45.0% | |
| ! | ATGGATGAACCGTCGCTTTA+TGG | + | chr2_4:14050175-14050194 | None:intergenic | 45.0% |
| ! | GAAAGTTGGTCGGTTATCAC+CGG | + | chr2_4:14050203-14050222 | None:intergenic | 45.0% |
| CCGGAGAAATTGCTGAAAGT+TGG | + | chr2_4:14050326-14050345 | None:intergenic | 45.0% | |
| !! | TCATCGATGCTTTTGAGGAG+TGG | - | chr2_4:14050474-14050493 | Msa0316790:CDS | 45.0% |
| GAGAAGAGGAACAAGAAAGG+AGG | - | chr2_4:14050542-14050561 | Msa0316790:CDS | 45.0% | |
| ! | GAGAAAGGATTTGGGGTGTT+TGG | - | chr2_4:14050765-14050784 | Msa0316790:CDS | 45.0% |
| ! | GAAAGGATTTGGGGTGTTTG+GGG | - | chr2_4:14050767-14050786 | Msa0316790:CDS | 45.0% |
| ! | GGGAAGGAAGGAAAGTTGGT+CGG | + | chr2_4:14050213-14050232 | None:intergenic | 50.0% |
| TTGCGGGAAGGAAGGAAAGT+TGG | + | chr2_4:14050217-14050236 | None:intergenic | 50.0% | |
| GCTAGGACTTCTCTGTCTTC+AGG | + | chr2_4:14050269-14050288 | None:intergenic | 50.0% | |
| ATTTCTCCGGTAACCCACGA+CGG | - | chr2_4:14050336-14050355 | Msa0316790:CDS | 50.0% | |
| !! | CGATGCTTTTGAGGAGTGGT+TGG | - | chr2_4:14050478-14050497 | Msa0316790:CDS | 50.0% |
| GACGGTTCATCCATCACCAC+CGG | - | chr2_4:14050181-14050200 | Msa0316790:CDS | 55.0% | |
| TCGGTTATCACCGGTGGTGA+TGG | + | chr2_4:14050194-14050213 | None:intergenic | 55.0% | |
| AGTTGGTCGGTTATCACCGG+TGG | + | chr2_4:14050200-14050219 | None:intergenic | 55.0% | |
| TAGGATGGTTGCGGGAAGGA+AGG | + | chr2_4:14050225-14050244 | None:intergenic | 55.0% | |
| GCTAGGGTTAGGATGGTTGC+GGG | + | chr2_4:14050233-14050252 | None:intergenic | 55.0% | |
| CGCTAGGGTTAGGATGGTTG+CGG | + | chr2_4:14050234-14050253 | None:intergenic | 55.0% | |
| CGCAACCATCCTAACCCTAG+CGG | - | chr2_4:14050232-14050251 | Msa0316790:CDS | 55.0% | |
| AACCATCCTAACCCTAGCGG+CGG | - | chr2_4:14050235-14050254 | Msa0316790:CDS | 55.0% | |
| !! | GAAAGTTGGTGGGGTTGTCG+TGG | + | chr2_4:14050312-14050331 | None:intergenic | 55.0% |
| ! | GAGGAGTGGTTGGTTCAGAG+TGG | - | chr2_4:14050488-14050507 | Msa0316790:CDS | 55.0% |
| GGGTTAGGATGGTTGCGGGA+AGG | + | chr2_4:14050229-14050248 | None:intergenic | 60.0% | |
| TCTTCACCGTGCTCCGTCGT+GGG | + | chr2_4:14050352-14050371 | None:intergenic | 60.0% | |
| ATAGCGCCGCCGCTAGGGTT+AGG | + | chr2_4:14050244-14050263 | None:intergenic | 65.0% | |
| ! | AGGTGATAGCGCCGCCGCTA+GGG | + | chr2_4:14050249-14050268 | None:intergenic | 65.0% |
| ! | CGTGCTCCGTCGTGGGTTAC+CGG | + | chr2_4:14050345-14050364 | None:intergenic | 65.0% |
| CGGTAACCCACGACGGAGCA+CGG | - | chr2_4:14050343-14050362 | Msa0316790:CDS | 65.0% | |
| GTCTTCACCGTGCTCCGTCG+TGG | + | chr2_4:14050353-14050372 | None:intergenic | 65.0% | |
| CGACGGAGCACGGTGAAGAC+AGG | - | chr2_4:14050353-14050372 | Msa0316790:CDS | 65.0% | |
| CGCCGCCGCTAGGGTTAGGA+TGG | + | chr2_4:14050240-14050259 | None:intergenic | 70.0% | |
| ! | CAGGTGATAGCGCCGCCGCT+AGG | + | chr2_4:14050250-14050269 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 14050158 | 14050793 | 14050158 | ID=Msa0316790;Name=Msa0316790 |
| chr2_4 | mRNA | 14050158 | 14050793 | 14050158 | ID=Msa0316790-mRNA-1;Parent=Msa0316790;Name=Msa0316790-mRNA-1;_AED=0.22;_eAED=0.22;_QI=0|-1|0|1|-1|1|1|0|211 |
| chr2_4 | exon | 14050158 | 14050793 | 14050158 | ID=Msa0316790-mRNA-1:exon:5346;Parent=Msa0316790-mRNA-1 |
| chr2_4 | CDS | 14050158 | 14050793 | 14050158 | ID=Msa0316790-mRNA-1:cds;Parent=Msa0316790-mRNA-1 |
| Gene Sequence |
| Protein sequence |
