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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0661410 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0661410 | 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 | Msa0661410 | 0.806896 | 6.584229e-50 | -8.615850e-47 |
| Msa0015950 | Msa0661410 | 0.989413 | 5.179607e-178 | -8.615850e-47 |
| Msa0015960 | Msa0661410 | 0.987673 | 4.104294e-171 | -8.615850e-47 |
| Msa0016070 | Msa0661410 | 0.961000 | 3.382623e-119 | -8.615850e-47 |
| Msa0016080 | Msa0661410 | 0.977726 | 2.327020e-144 | -8.615850e-47 |
| Msa0028690 | Msa0661410 | 0.845975 | 2.904084e-59 | -8.615850e-47 |
| Msa0047660 | Msa0661410 | -0.829040 | 6.429552e-55 | -8.615850e-47 |
| Msa0060410 | Msa0661410 | 0.830859 | 2.315787e-55 | -8.615850e-47 |
| Msa0658150 | Msa0661410 | 0.806107 | 9.658105e-50 | -8.615850e-47 |
| Msa0661410 | Msa0661420 | 0.988250 | 2.735299e-173 | -8.615850e-47 |
| Msa0661410 | Msa0691320 | -0.808579 | 2.889281e-50 | -8.615850e-47 |
| Msa0661410 | Msa0703000 | 0.808629 | 2.819195e-50 | -8.615850e-47 |
| Msa0661410 | Msa0736920 | 0.808867 | 2.508173e-50 | -8.615850e-47 |
| Msa0661410 | Msa0773030 | 0.834942 | 2.238870e-56 | -8.615850e-47 |
| Msa0661410 | Msa0778570 | 0.816366 | 5.737671e-52 | -8.615850e-47 |
| Msa0661410 | Msa0800120 | 0.810007 | 1.427607e-50 | -8.615850e-47 |
| Msa0661410 | Msa0800150 | 0.828280 | 9.816240e-55 | -8.615850e-47 |
| Msa0661410 | Msa0800180 | 0.809381 | 1.945814e-50 | -8.615850e-47 |
| Msa0661410 | Msa0810330 | 0.847799 | 9.198612e-60 | -8.615850e-47 |
| Msa0661410 | Msa0815940 | 0.806776 | 6.980885e-50 | -8.615850e-47 |
| Msa0661410 | Msa0850640 | 0.858213 | 9.615246e-63 | -8.615850e-47 |
| Msa0661410 | Msa0901270 | 0.802887 | 4.531929e-49 | -8.615850e-47 |
| Msa0661410 | Msa0907880 | 0.852198 | 5.404061e-61 | -8.615850e-47 |
| Msa0661410 | Msa0925940 | 0.828823 | 7.256743e-55 | -8.615850e-47 |
| Msa0661410 | Msa0966580 | 0.812778 | 3.572530e-51 | -8.615850e-47 |
| Msa0661410 | Msa1019420 | 0.814993 | 1.160821e-51 | -8.615850e-47 |
| Msa0661410 | Msa1092310 | 0.821926 | 3.114095e-53 | -8.615850e-47 |
| Msa0661410 | Msa1202800 | 0.828957 | 6.732717e-55 | -8.615850e-47 |
| Msa0661410 | Msa1211940 | 0.837910 | 3.932585e-57 | -8.615850e-47 |
| Msa0661410 | Msa1212080 | 0.828410 | 9.129946e-55 | -8.615850e-47 |
| Msa0661410 | Msa1255210 | 0.824547 | 7.607739e-54 | -8.615850e-47 |
| Msa0661410 | Msa1268360 | 0.814778 | 1.295402e-51 | -8.615850e-47 |
| Msa0661410 | Msa1268390 | 0.814644 | 1.386981e-51 | -8.615850e-47 |
| Msa0661410 | Msa1269200 | 0.819837 | 9.416678e-53 | -8.615850e-47 |
| Msa0661410 | Msa1295650 | 0.826803 | 2.219843e-54 | -8.615850e-47 |
| Msa0661410 | Msa1301280 | -0.804790 | 1.823728e-49 | -8.615850e-47 |
| Msa0661410 | Msa1343600 | 0.807738 | 4.364607e-50 | -8.615850e-47 |
| Msa0661410 | Msa1348540 | 0.824227 | 9.050064e-54 | -8.615850e-47 |
| Msa0661410 | Msa1395080 | 0.809045 | 2.297169e-50 | -8.615850e-47 |
| Msa0661410 | Msa1416130 | 0.806062 | 9.869179e-50 | -8.615850e-47 |
| Msa0661410 | Msa1430950 | 0.859337 | 4.434440e-63 | -8.615850e-47 |
| Msa0661410 | Msa1433040 | 0.816714 | 4.796753e-52 | -8.615850e-47 |
| Msa0168750 | Msa0661410 | 0.825351 | 4.914016e-54 | -8.615850e-47 |
| Msa0189990 | Msa0661410 | 0.827653 | 1.389056e-54 | -8.615850e-47 |
| Msa0210610 | Msa0661410 | 0.822963 | 1.787796e-53 | -8.615850e-47 |
| Msa0217060 | Msa0661410 | 0.809329 | 1.996561e-50 | -8.615850e-47 |
| Msa0218500 | Msa0661410 | 0.807462 | 4.996323e-50 | -8.615850e-47 |
| Msa0219340 | Msa0661410 | 0.801316 | 9.538581e-49 | -8.615850e-47 |
| Msa0383480 | Msa0661410 | 0.821088 | 4.863171e-53 | -8.615850e-47 |
| Msa0433650 | Msa0661410 | 0.832433 | 9.481249e-56 | -8.615850e-47 |
| Msa0477420 | Msa0661410 | 0.808521 | 2.972746e-50 | -8.615850e-47 |
| Msa0258260 | Msa0661410 | 0.805525 | 1.280061e-49 | -8.615850e-47 |
| Msa0286360 | Msa0661410 | 0.811484 | 6.841834e-51 | -8.615850e-47 |
| Msa0289960 | Msa0661410 | 0.812207 | 4.760881e-51 | -8.615850e-47 |
| Msa0297340 | Msa0661410 | 0.805238 | 1.470041e-49 | -8.615850e-47 |
| Msa0297910 | Msa0661410 | 0.803791 | 2.945416e-49 | -8.615850e-47 |
| Msa0307740 | Msa0661410 | 0.854743 | 1.004482e-61 | -8.615850e-47 |
| Msa0521490 | Msa0661410 | 0.831391 | 1.714683e-55 | -8.615850e-47 |
| Msa0521550 | Msa0661410 | 0.834564 | 2.786931e-56 | -8.615850e-47 |
| Msa0588040 | Msa0661410 | 0.812936 | 3.298844e-51 | -8.615850e-47 |
| Msa0590810 | Msa0661410 | 0.803007 | 4.281773e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0661410 | 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 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCTCACTGTGTCTTCTATT+AGG | 0.227341 | 4_3:+72882119 | Msa0661410:CDS |
| AAGACACAGTGAGATGTATT+TGG | 0.235014 | 4_3:-72882111 | None:intergenic |
| TTTGGTGGCCAGTGTTTCTT+AGG | 0.235134 | 4_3:-72882227 | None:intergenic |
| GGGATTGTTTGGTCCACTTT+TGG | 0.317502 | 4_3:-72882290 | None:intergenic |
| GTAGGAGGCCAGTGTTTCTT+TGG | 0.327069 | 4_3:-72882245 | None:intergenic |
| TGGAAGAAGCATCCTCCTTC+AGG | 0.366754 | 4_3:+72882383 | Msa0661410:CDS |
| TCTCACTGTGTCTTCTATTA+GGG | 0.371015 | 4_3:+72882120 | Msa0661410:CDS |
| AGACACAGTGAGATGTATTT+GGG | 0.409412 | 4_3:-72882110 | None:intergenic |
| GAAGGAGGATGCTTCTTCCA+TGG | 0.436291 | 4_3:-72882380 | None:intergenic |
| GGAGGCCAGTGTTTCTTTGG+TGG | 0.468858 | 4_3:-72882242 | None:intergenic |
| CTTGTGACTATCCTCAACTA+TGG | 0.473523 | 4_3:-72882342 | None:intergenic |
| ACAAAATGATCTTCCAAAAG+TGG | 0.476864 | 4_3:+72882277 | Msa0661410:CDS |
| AAGGAGGATGCTTCTTCCAT+GGG | 0.483462 | 4_3:-72882379 | None:intergenic |
| GCTTCTTCCATGGGTGCTTG+TGG | 0.496634 | 4_3:-72882370 | None:intergenic |
| GACTATCCTCAACTATGGTA+TGG | 0.539163 | 4_3:-72882337 | None:intergenic |
| AGCATCACCACAAGCACCCA+TGG | 0.549276 | 4_3:+72882363 | Msa0661410:CDS |
| CCTCTGTGAGTGTTAATGCT+TGG | 0.552898 | 4_3:+72882192 | Msa0661410:CDS |
| ATTAATCAATTTCCTGAAGG+AGG | 0.566620 | 4_3:-72882395 | None:intergenic |
| ATGATTAATCAATTTCCTGA+AGG | 0.570240 | 4_3:-72882398 | None:intergenic |
| ACTGGCCACCAAAGAAACAC+TGG | 0.593745 | 4_3:+72882237 | Msa0661410:CDS |
| TTCTCTAGCAGATCTTTCAG+AGG | 0.609208 | 4_3:+72882163 | Msa0661410:CDS |
| ATAAGCAACCTAAGAAACAC+TGG | 0.614646 | 4_3:+72882219 | Msa0661410:CDS |
| AGAAGACCATACCATAGTTG+AGG | 0.630682 | 4_3:+72882331 | Msa0661410:CDS |
| TGAAAGATCTGCTAGAGAAG+TGG | 0.631719 | 4_3:-72882159 | None:intergenic |
| AAGATCTGCTAGAGAAGTGG+TGG | 0.634386 | 4_3:-72882156 | None:intergenic |
| CCAAGCATTAACACTCACAG+AGG | 0.666199 | 4_3:-72882192 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAGATCATTTTGTGTAGTTG+TGG | - | chr4_3:72882270-72882289 | None:intergenic | 30.0% |
| ACAAAATGATCTTCCAAAAG+TGG | + | chr4_3:72882277-72882296 | Msa0661410:CDS | 30.0% | |
| AGACACAGTGAGATGTATTT+GGG | - | chr4_3:72882113-72882132 | None:intergenic | 35.0% | |
| AAGACACAGTGAGATGTATT+TGG | - | chr4_3:72882114-72882133 | None:intergenic | 35.0% | |
| ATCTCACTGTGTCTTCTATT+AGG | + | chr4_3:72882119-72882138 | Msa0661410:CDS | 35.0% | |
| TCTCACTGTGTCTTCTATTA+GGG | + | chr4_3:72882120-72882139 | Msa0661410:CDS | 35.0% | |
| ATAAGCAACCTAAGAAACAC+TGG | + | chr4_3:72882219-72882238 | Msa0661410:CDS | 35.0% | |
| ! | TCATTTTGTGTAGTTGTGGT+AGG | - | chr4_3:72882266-72882285 | None:intergenic | 35.0% |
| !!! | GTTTGTTTTGTGGGATTGTT+TGG | - | chr4_3:72882304-72882323 | None:intergenic | 35.0% |
| !!! | CTTGTGCTTGTTTGTTTTGT+GGG | - | chr4_3:72882313-72882332 | None:intergenic | 35.0% |
| !!! | TCTTGTGCTTGTTTGTTTTG+TGG | - | chr4_3:72882314-72882333 | None:intergenic | 35.0% |
| TGAAAGATCTGCTAGAGAAG+TGG | - | chr4_3:72882162-72882181 | None:intergenic | 40.0% | |
| TTCTCTAGCAGATCTTTCAG+AGG | + | chr4_3:72882163-72882182 | Msa0661410:CDS | 40.0% | |
| ! | TTTTGTGTAGTTGTGGTAGG+AGG | - | chr4_3:72882263-72882282 | None:intergenic | 40.0% |
| AGAAGACCATACCATAGTTG+AGG | + | chr4_3:72882331-72882350 | Msa0661410:CDS | 40.0% | |
| GACTATCCTCAACTATGGTA+TGG | - | chr4_3:72882340-72882359 | None:intergenic | 40.0% | |
| CTTGTGACTATCCTCAACTA+TGG | - | chr4_3:72882345-72882364 | None:intergenic | 40.0% | |
| AAGATCTGCTAGAGAAGTGG+TGG | - | chr4_3:72882159-72882178 | None:intergenic | 45.0% | |
| CCAAGCATTAACACTCACAG+AGG | - | chr4_3:72882195-72882214 | None:intergenic | 45.0% | |
| CCTCTGTGAGTGTTAATGCT+TGG | + | chr4_3:72882192-72882211 | Msa0661410:CDS | 45.0% | |
| ! | TTTGGTGGCCAGTGTTTCTT+AGG | - | chr4_3:72882230-72882249 | None:intergenic | 45.0% |
| ! | GGGATTGTTTGGTCCACTTT+TGG | - | chr4_3:72882293-72882312 | None:intergenic | 45.0% |
| AAGGAGGATGCTTCTTCCAT+GGG | - | chr4_3:72882382-72882401 | None:intergenic | 45.0% | |
| ACTGGCCACCAAAGAAACAC+TGG | + | chr4_3:72882237-72882256 | Msa0661410:CDS | 50.0% | |
| GTAGGAGGCCAGTGTTTCTT+TGG | - | chr4_3:72882248-72882267 | None:intergenic | 50.0% | |
| GAAGGAGGATGCTTCTTCCA+TGG | - | chr4_3:72882383-72882402 | None:intergenic | 50.0% | |
| !! | TGGAAGAAGCATCCTCCTTC+AGG | + | chr4_3:72882383-72882402 | Msa0661410:CDS | 50.0% |
| GGAGGCCAGTGTTTCTTTGG+TGG | - | chr4_3:72882245-72882264 | None:intergenic | 55.0% | |
| AGCATCACCACAAGCACCCA+TGG | + | chr4_3:72882363-72882382 | Msa0661410:CDS | 55.0% | |
| GCTTCTTCCATGGGTGCTTG+TGG | - | chr4_3:72882373-72882392 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 72882104 | 72882412 | 72882104 | ID=Msa0661410;Name=Msa0661410 |
| chr4_3 | mRNA | 72882104 | 72882412 | 72882104 | ID=Msa0661410-mRNA-1;Parent=Msa0661410;Name=Msa0661410-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|102 |
| chr4_3 | exon | 72882104 | 72882412 | 72882104 | ID=Msa0661410-mRNA-1:exon:21873;Parent=Msa0661410-mRNA-1 |
| chr4_3 | CDS | 72882104 | 72882412 | 72882104 | ID=Msa0661410-mRNA-1:cds;Parent=Msa0661410-mRNA-1 |
| Gene Sequence |
| Protein sequence |
