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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0015960 | RHN78606.1 | 96.078 | 102 | 4 | 0 | 1 | 102 | 13 | 114 | 6.84e-63 | 196 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0015960 | A0A396JK39 | 96.078 | 102 | 4 | 0 | 1 | 102 | 13 | 114 | 3.27e-63 | 196 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0008440 | Msa0015960 | 0.801691 | 7.989182e-49 | -8.615850e-47 |
| Msa0015950 | Msa0015960 | 0.981092 | 9.359728e-152 | -8.615850e-47 |
| Msa0015960 | Msa0016070 | 0.962341 | 9.224278e-121 | -8.615850e-47 |
| Msa0015960 | Msa0016080 | 0.967774 | 9.633875e-128 | -8.615850e-47 |
| Msa0015960 | Msa0028690 | 0.844245 | 8.517380e-59 | -8.615850e-47 |
| Msa0015960 | Msa0047660 | -0.826392 | 2.782371e-54 | -8.615850e-47 |
| Msa0015960 | Msa0060410 | 0.821286 | 4.377926e-53 | -8.615850e-47 |
| Msa0015960 | Msa0168750 | 0.820853 | 5.507353e-53 | -8.615850e-47 |
| Msa0015960 | Msa0189990 | 0.825339 | 4.947581e-54 | -8.615850e-47 |
| Msa0015960 | Msa0193950 | 0.803991 | 2.675768e-49 | -8.615850e-47 |
| Msa0015960 | Msa0210610 | 0.831104 | 2.016724e-55 | -8.615850e-47 |
| Msa0015960 | Msa0217060 | 0.815996 | 6.944247e-52 | -8.615850e-47 |
| Msa0015960 | Msa0219340 | 0.803522 | 3.349354e-49 | -8.615850e-47 |
| Msa0015960 | Msa0286360 | 0.816201 | 6.247848e-52 | -8.615850e-47 |
| Msa0015960 | Msa0289960 | 0.810975 | 8.823836e-51 | -8.615850e-47 |
| Msa0015960 | Msa0297910 | 0.803841 | 2.876088e-49 | -8.615850e-47 |
| Msa0015960 | Msa0307740 | 0.862353 | 5.383587e-64 | -8.615850e-47 |
| Msa0015960 | Msa0383480 | 0.822887 | 1.862467e-53 | -8.615850e-47 |
| Msa0015960 | Msa0415100 | 0.800457 | 1.428521e-48 | -8.615850e-47 |
| Msa0015960 | Msa0433650 | 0.830249 | 3.267043e-55 | -8.615850e-47 |
| Msa0015960 | Msa0521490 | 0.829755 | 4.309354e-55 | -8.615850e-47 |
| Msa0015960 | Msa0521550 | 0.830590 | 2.695069e-55 | -8.615850e-47 |
| Msa0015960 | Msa0588040 | 0.802502 | 5.442615e-49 | -8.615850e-47 |
| Msa0015960 | Msa0590810 | 0.815533 | 8.803370e-52 | -8.615850e-47 |
| Msa0015960 | Msa0661410 | 0.987673 | 4.104294e-171 | -8.615850e-47 |
| Msa0015960 | Msa0661420 | 0.996532 | 9.585554e-229 | -8.615850e-47 |
| Msa0015960 | Msa0691320 | -0.812372 | 4.382439e-51 | -8.615850e-47 |
| Msa0015960 | Msa0736920 | 0.802597 | 5.203021e-49 | -8.615850e-47 |
| Msa0015960 | Msa0773030 | 0.834174 | 3.491452e-56 | -8.615850e-47 |
| Msa0015960 | Msa0778570 | 0.811848 | 5.700537e-51 | -8.615850e-47 |
| Msa0015960 | Msa0800150 | 0.819072 | 1.406785e-52 | -8.615850e-47 |
| Msa0015960 | Msa0800180 | 0.800780 | 1.227283e-48 | -8.615850e-47 |
| Msa0015960 | Msa0810330 | 0.856294 | 3.545909e-62 | -8.615850e-47 |
| Msa0015960 | Msa0850640 | 0.867255 | 1.565887e-65 | -8.615850e-47 |
| Msa0015960 | Msa0905570 | 0.800450 | 1.433245e-48 | -8.615850e-47 |
| Msa0015960 | Msa0907880 | 0.863633 | 2.165042e-64 | -8.615850e-47 |
| Msa0015960 | Msa0925940 | 0.826375 | 2.807566e-54 | -8.615850e-47 |
| Msa0015960 | Msa0966580 | 0.813696 | 2.245556e-51 | -8.615850e-47 |
| Msa0015960 | Msa1019420 | 0.814412 | 1.561286e-51 | -8.615850e-47 |
| Msa0015960 | Msa1092310 | 0.818341 | 2.061355e-52 | -8.615850e-47 |
| Msa0015960 | Msa1202800 | 0.830811 | 2.379436e-55 | -8.615850e-47 |
| Msa0015960 | Msa1211940 | 0.825415 | 4.747020e-54 | -8.615850e-47 |
| Msa0015960 | Msa1212080 | 0.814089 | 1.839687e-51 | -8.615850e-47 |
| Msa0015960 | Msa1255210 | 0.829232 | 5.774544e-55 | -8.615850e-47 |
| Msa0015960 | Msa1268390 | 0.803177 | 3.948388e-49 | -8.615850e-47 |
| Msa0015960 | Msa1269200 | 0.810867 | 9.309854e-51 | -8.615850e-47 |
| Msa0015960 | Msa1295650 | 0.830020 | 3.714975e-55 | -8.615850e-47 |
| Msa0015960 | Msa1301280 | -0.808033 | 3.778515e-50 | -8.615850e-47 |
| Msa0015960 | Msa1343600 | 0.801558 | 8.507582e-49 | -8.615850e-47 |
| Msa0015960 | Msa1348540 | 0.823617 | 1.257867e-53 | -8.615850e-47 |
| Msa0015960 | Msa1413450 | 0.806932 | 6.470285e-50 | -8.615850e-47 |
| Msa0015960 | Msa1416130 | 0.806128 | 9.561324e-50 | -8.615850e-47 |
| Msa0015960 | Msa1430950 | 0.865534 | 5.509652e-65 | -8.615850e-47 |
| Msa0015960 | Msa1433040 | 0.808144 | 3.577168e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0015960 | MtrunA17_Chr1g0167771 | 96.078 | 102 | 4 | 0 | 1 | 102 | 13 | 114 | 6.29e-67 | 196 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 26 sgRNAs with CRISPR-Local
Find 60 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCTCACTGTGTCTTCTATT+AGG | 0.227341 | 1_1:+26354025 | Msa0015960:CDS |
| AAGACACAGTGAGATGTATT+TGG | 0.235014 | 1_1:-26354017 | None:intergenic |
| TTTGGTGGCCAGTGTTTCTT+AGG | 0.235134 | 1_1:-26354133 | None:intergenic |
| GGGATTGTTTGGTCCACTTT+TGG | 0.317502 | 1_1:-26354196 | None:intergenic |
| GTAGGAGGCCAGTGTTTCTT+TGG | 0.327069 | 1_1:-26354151 | None:intergenic |
| TGGAAGAAGCATCCTCCTTC+AGG | 0.366754 | 1_1:+26354289 | Msa0015960:CDS |
| TCTCACTGTGTCTTCTATTA+GGG | 0.371015 | 1_1:+26354026 | Msa0015960:CDS |
| AGACACAGTGAGATGTATTT+GGG | 0.409412 | 1_1:-26354016 | None:intergenic |
| GAAGGAGGATGCTTCTTCCA+TGG | 0.436291 | 1_1:-26354286 | None:intergenic |
| GGAGGCCAGTGTTTCTTTGG+TGG | 0.468858 | 1_1:-26354148 | None:intergenic |
| CTTGTGACTATCCTCAACTA+TGG | 0.473523 | 1_1:-26354248 | None:intergenic |
| ACAAAATGATCTTCCAAAAG+TGG | 0.476864 | 1_1:+26354183 | Msa0015960:CDS |
| AAGGAGGATGCTTCTTCCAT+GGG | 0.483462 | 1_1:-26354285 | None:intergenic |
| GCTTCTTCCATGGGTGCTTG+TGG | 0.496634 | 1_1:-26354276 | None:intergenic |
| GACTATCCTCAACTATGGTA+TGG | 0.539163 | 1_1:-26354243 | None:intergenic |
| AGCATCACCACAAGCACCCA+TGG | 0.549276 | 1_1:+26354269 | Msa0015960:CDS |
| CCTCTGTGAGTGTTAATGCT+TGG | 0.552898 | 1_1:+26354098 | Msa0015960:CDS |
| ATTAATCAATTTCCTGAAGG+AGG | 0.566620 | 1_1:-26354301 | None:intergenic |
| ATGATTAATCAATTTCCTGA+AGG | 0.570240 | 1_1:-26354304 | None:intergenic |
| ACTGGCCACCAAAGAAACAC+TGG | 0.593745 | 1_1:+26354143 | Msa0015960:CDS |
| TTCTCTAGCAGATCTTTCAG+AGG | 0.609208 | 1_1:+26354069 | Msa0015960:CDS |
| ATAAGCAACCTAAGAAACAC+TGG | 0.614646 | 1_1:+26354125 | Msa0015960:CDS |
| AGAAGACCATACCATAGTTG+AGG | 0.630682 | 1_1:+26354237 | Msa0015960:CDS |
| TGAAAGATCTGCTAGAGAAG+TGG | 0.631719 | 1_1:-26354065 | None:intergenic |
| AAGATCTGCTAGAGAAGTGG+TGG | 0.634386 | 1_1:-26354062 | None:intergenic |
| CCAAGCATTAACACTCACAG+AGG | 0.666199 | 1_1:-26354098 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAGATCATTTTGTGTAGTTG+TGG | - | chr1_1:26354176-26354195 | None:intergenic | 30.0% |
| ACAAAATGATCTTCCAAAAG+TGG | + | chr1_1:26354183-26354202 | Msa0015960:CDS | 30.0% | |
| ! | AAGATCATTTTGTGTAGTTG+TGG | - | chr1_1:26354176-26354195 | None:intergenic | 30.0% |
| ACAAAATGATCTTCCAAAAG+TGG | + | chr1_1:26354183-26354202 | Msa0015960:CDS | 30.0% | |
| AGACACAGTGAGATGTATTT+GGG | - | chr1_1:26354019-26354038 | None:intergenic | 35.0% | |
| AAGACACAGTGAGATGTATT+TGG | - | chr1_1:26354020-26354039 | None:intergenic | 35.0% | |
| ATCTCACTGTGTCTTCTATT+AGG | + | chr1_1:26354025-26354044 | Msa0015960:CDS | 35.0% | |
| TCTCACTGTGTCTTCTATTA+GGG | + | chr1_1:26354026-26354045 | Msa0015960:CDS | 35.0% | |
| ATAAGCAACCTAAGAAACAC+TGG | + | chr1_1:26354125-26354144 | Msa0015960:CDS | 35.0% | |
| ! | TCATTTTGTGTAGTTGTGGT+AGG | - | chr1_1:26354172-26354191 | None:intergenic | 35.0% |
| !!! | GTTTGTTTTGTGGGATTGTT+TGG | - | chr1_1:26354210-26354229 | None:intergenic | 35.0% |
| !!! | CTTGTGCTTGTTTGTTTTGT+GGG | - | chr1_1:26354219-26354238 | None:intergenic | 35.0% |
| !!! | TCTTGTGCTTGTTTGTTTTG+TGG | - | chr1_1:26354220-26354239 | None:intergenic | 35.0% |
| AGACACAGTGAGATGTATTT+GGG | - | chr1_1:26354019-26354038 | None:intergenic | 35.0% | |
| AAGACACAGTGAGATGTATT+TGG | - | chr1_1:26354020-26354039 | None:intergenic | 35.0% | |
| ATCTCACTGTGTCTTCTATT+AGG | + | chr1_1:26354025-26354044 | Msa0015960:CDS | 35.0% | |
| TCTCACTGTGTCTTCTATTA+GGG | + | chr1_1:26354026-26354045 | Msa0015960:CDS | 35.0% | |
| ATAAGCAACCTAAGAAACAC+TGG | + | chr1_1:26354125-26354144 | Msa0015960:CDS | 35.0% | |
| ! | TCATTTTGTGTAGTTGTGGT+AGG | - | chr1_1:26354172-26354191 | None:intergenic | 35.0% |
| !!! | GTTTGTTTTGTGGGATTGTT+TGG | - | chr1_1:26354210-26354229 | None:intergenic | 35.0% |
| !!! | CTTGTGCTTGTTTGTTTTGT+GGG | - | chr1_1:26354219-26354238 | None:intergenic | 35.0% |
| !!! | TCTTGTGCTTGTTTGTTTTG+TGG | - | chr1_1:26354220-26354239 | None:intergenic | 35.0% |
| TGAAAGATCTGCTAGAGAAG+TGG | - | chr1_1:26354068-26354087 | None:intergenic | 40.0% | |
| TTCTCTAGCAGATCTTTCAG+AGG | + | chr1_1:26354069-26354088 | Msa0015960:CDS | 40.0% | |
| ! | TTTTGTGTAGTTGTGGTAGG+AGG | - | chr1_1:26354169-26354188 | None:intergenic | 40.0% |
| AGAAGACCATACCATAGTTG+AGG | + | chr1_1:26354237-26354256 | Msa0015960:CDS | 40.0% | |
| GACTATCCTCAACTATGGTA+TGG | - | chr1_1:26354246-26354265 | None:intergenic | 40.0% | |
| CTTGTGACTATCCTCAACTA+TGG | - | chr1_1:26354251-26354270 | None:intergenic | 40.0% | |
| TGAAAGATCTGCTAGAGAAG+TGG | - | chr1_1:26354068-26354087 | None:intergenic | 40.0% | |
| TTCTCTAGCAGATCTTTCAG+AGG | + | chr1_1:26354069-26354088 | Msa0015960:CDS | 40.0% | |
| ! | TTTTGTGTAGTTGTGGTAGG+AGG | - | chr1_1:26354169-26354188 | None:intergenic | 40.0% |
| AGAAGACCATACCATAGTTG+AGG | + | chr1_1:26354237-26354256 | Msa0015960:CDS | 40.0% | |
| GACTATCCTCAACTATGGTA+TGG | - | chr1_1:26354246-26354265 | None:intergenic | 40.0% | |
| CTTGTGACTATCCTCAACTA+TGG | - | chr1_1:26354251-26354270 | None:intergenic | 40.0% | |
| AAGATCTGCTAGAGAAGTGG+TGG | - | chr1_1:26354065-26354084 | None:intergenic | 45.0% | |
| CCAAGCATTAACACTCACAG+AGG | - | chr1_1:26354101-26354120 | None:intergenic | 45.0% | |
| CCTCTGTGAGTGTTAATGCT+TGG | + | chr1_1:26354098-26354117 | Msa0015960:CDS | 45.0% | |
| ! | TTTGGTGGCCAGTGTTTCTT+AGG | - | chr1_1:26354136-26354155 | None:intergenic | 45.0% |
| ! | GGGATTGTTTGGTCCACTTT+TGG | - | chr1_1:26354199-26354218 | None:intergenic | 45.0% |
| AAGGAGGATGCTTCTTCCAT+GGG | - | chr1_1:26354288-26354307 | None:intergenic | 45.0% | |
| AAGATCTGCTAGAGAAGTGG+TGG | - | chr1_1:26354065-26354084 | None:intergenic | 45.0% | |
| CCAAGCATTAACACTCACAG+AGG | - | chr1_1:26354101-26354120 | None:intergenic | 45.0% | |
| CCTCTGTGAGTGTTAATGCT+TGG | + | chr1_1:26354098-26354117 | Msa0015960:CDS | 45.0% | |
| ! | TTTGGTGGCCAGTGTTTCTT+AGG | - | chr1_1:26354136-26354155 | None:intergenic | 45.0% |
| ! | GGGATTGTTTGGTCCACTTT+TGG | - | chr1_1:26354199-26354218 | None:intergenic | 45.0% |
| AAGGAGGATGCTTCTTCCAT+GGG | - | chr1_1:26354288-26354307 | None:intergenic | 45.0% | |
| ACTGGCCACCAAAGAAACAC+TGG | + | chr1_1:26354143-26354162 | Msa0015960:CDS | 50.0% | |
| GTAGGAGGCCAGTGTTTCTT+TGG | - | chr1_1:26354154-26354173 | None:intergenic | 50.0% | |
| GAAGGAGGATGCTTCTTCCA+TGG | - | chr1_1:26354289-26354308 | None:intergenic | 50.0% | |
| !! | TGGAAGAAGCATCCTCCTTC+AGG | + | chr1_1:26354289-26354308 | Msa0015960:CDS | 50.0% |
| ACTGGCCACCAAAGAAACAC+TGG | + | chr1_1:26354143-26354162 | Msa0015960:CDS | 50.0% | |
| GTAGGAGGCCAGTGTTTCTT+TGG | - | chr1_1:26354154-26354173 | None:intergenic | 50.0% | |
| GAAGGAGGATGCTTCTTCCA+TGG | - | chr1_1:26354289-26354308 | None:intergenic | 50.0% | |
| !! | TGGAAGAAGCATCCTCCTTC+AGG | + | chr1_1:26354289-26354308 | Msa0015960:CDS | 50.0% |
| GGAGGCCAGTGTTTCTTTGG+TGG | - | chr1_1:26354151-26354170 | None:intergenic | 55.0% | |
| AGCATCACCACAAGCACCCA+TGG | + | chr1_1:26354269-26354288 | Msa0015960:CDS | 55.0% | |
| GCTTCTTCCATGGGTGCTTG+TGG | - | chr1_1:26354279-26354298 | None:intergenic | 55.0% | |
| GGAGGCCAGTGTTTCTTTGG+TGG | - | chr1_1:26354151-26354170 | None:intergenic | 55.0% | |
| AGCATCACCACAAGCACCCA+TGG | + | chr1_1:26354269-26354288 | Msa0015960:CDS | 55.0% | |
| GCTTCTTCCATGGGTGCTTG+TGG | - | chr1_1:26354279-26354298 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 26354010 | 26354318 | 26354010 | ID=Msa0015960;Name=Msa0015960 |
| chr1_1 | mRNA | 26354010 | 26354318 | 26354010 | ID=Msa0015960-mRNA-1;Parent=Msa0015960;Name=Msa0015960-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|102 |
| chr1_1 | exon | 26354010 | 26354318 | 26354010 | ID=Msa0015960-mRNA-1:exon:8917;Parent=Msa0015960-mRNA-1 |
| chr1_1 | CDS | 26354010 | 26354318 | 26354010 | ID=Msa0015960-mRNA-1:cds;Parent=Msa0015960-mRNA-1 |
| Gene Sequence |
| Protein sequence |
