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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0291920 | XP_027929706.1 | 71.250 | 80 | 18 | 2 | 1 | 75 | 1 | 80 | 5.39e-32 | 116 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0291920 | sp|Q9SKY1|CSTM4_ARATH | 53.333 | 75 | 31 | 2 | 1 | 75 | 1 | 71 | 6.21e-19 | 75.9 |
| 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 |
|---|---|---|---|---|
| Msa0029010 | Msa0291920 | 0.819086 | 1.397133e-52 | -8.615850e-47 |
| Msa0029020 | Msa0291920 | 0.812254 | 4.650389e-51 | -8.615850e-47 |
| Msa0051480 | Msa0291920 | 0.803058 | 4.177530e-49 | -8.615850e-47 |
| Msa0076640 | Msa0291920 | 0.817600 | 3.032346e-52 | -8.615850e-47 |
| Msa0076650 | Msa0291920 | 0.843397 | 1.437073e-58 | -8.615850e-47 |
| Msa0100840 | Msa0291920 | -0.817574 | 3.072702e-52 | -8.615850e-47 |
| Msa0146200 | Msa0291920 | 0.806367 | 8.514567e-50 | -8.615850e-47 |
| Msa0169050 | Msa0291920 | 0.802351 | 5.845203e-49 | -8.615850e-47 |
| Msa0207220 | Msa0291920 | -0.803396 | 3.557157e-49 | -8.615850e-47 |
| Msa0207260 | Msa0291920 | 0.801743 | 7.796910e-49 | -8.615850e-47 |
| Msa0253120 | Msa0291920 | 0.889878 | 1.631696e-73 | -8.615850e-47 |
| Msa0288270 | Msa0291920 | -0.802858 | 4.594610e-49 | -8.615850e-47 |
| Msa0288280 | Msa0291920 | -0.804743 | 1.865336e-49 | -8.615850e-47 |
| Msa0291900 | Msa0291920 | 0.896237 | 4.471176e-76 | -8.615850e-47 |
| Msa0291920 | Msa0329880 | 0.847175 | 1.365739e-59 | -8.615850e-47 |
| Msa0291920 | Msa0436430 | -0.823624 | 1.253045e-53 | -8.615850e-47 |
| Msa0291920 | Msa0438070 | 0.804983 | 1.662460e-49 | -8.615850e-47 |
| Msa0291920 | Msa0463890 | 0.804092 | 2.549532e-49 | -8.615850e-47 |
| Msa0291920 | Msa0481740 | 0.853037 | 3.112735e-61 | -8.615850e-47 |
| Msa0291920 | Msa0481770 | 0.860734 | 1.680113e-63 | -8.615850e-47 |
| Msa0291920 | Msa0572370 | -0.831110 | 2.010336e-55 | -8.615850e-47 |
| Msa0291920 | Msa0621870 | -0.803045 | 4.203917e-49 | -8.615850e-47 |
| Msa0291920 | Msa0743630 | -0.803637 | 3.170469e-49 | -8.615850e-47 |
| Msa0291920 | Msa0747500 | 0.805548 | 1.265995e-49 | -8.615850e-47 |
| Msa0291920 | Msa0979050 | 0.801524 | 8.644573e-49 | -8.615850e-47 |
| Msa0291920 | Msa1014530 | -0.817981 | 2.486535e-52 | -8.615850e-47 |
| Msa0291920 | Msa1039650 | 0.825785 | 3.878991e-54 | -8.615850e-47 |
| Msa0291920 | Msa1055490 | -0.803552 | 3.301789e-49 | -8.615850e-47 |
| Msa0291920 | Msa1080650 | 0.850473 | 1.659912e-60 | -8.615850e-47 |
| Msa0291920 | Msa1081650 | -0.801161 | 1.026168e-48 | -8.615850e-47 |
| Msa0291920 | Msa1096280 | -0.812876 | 3.400189e-51 | -8.615850e-47 |
| Msa0291920 | Msa1126440 | 0.851581 | 8.082932e-61 | -8.615850e-47 |
| Msa0291920 | Msa1265990 | -0.801551 | 8.534786e-49 | -8.615850e-47 |
| Msa0291920 | Msa1293060 | -0.807771 | 4.294729e-50 | -8.615850e-47 |
| Msa0291920 | Msa1300930 | 0.820567 | 6.408058e-53 | -8.615850e-47 |
| Msa0291920 | Msa1331950 | 0.819357 | 1.211852e-52 | -8.615850e-47 |
| Msa0291920 | Msa1346010 | 0.811567 | 6.562600e-51 | -8.615850e-47 |
| Msa0291920 | Msa1379930 | -0.824485 | 7.866513e-54 | -8.615850e-47 |
| Msa0291920 | Msa1383790 | 0.816607 | 5.068575e-52 | -8.615850e-47 |
| Msa0291920 | Msa1422900 | -0.807866 | 4.099408e-50 | -8.615850e-47 |
| Msa0291920 | Msa1432180 | 0.815760 | 7.837601e-52 | -8.615850e-47 |
| Msa0291920 | Msa1453600 | 0.848626 | 5.436293e-60 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0291920 | MtrunA17_Chr2g0312051 | 81.579 | 76 | 13 | 1 | 1 | 75 | 1 | 76 | 7.05e-34 | 110 |
| Msa0291920 | MtrunA17_Chr1g0166081 | 77.215 | 79 | 14 | 2 | 1 | 75 | 1 | 79 | 4.50e-32 | 106 |
| Msa0291920 | MtrunA17_Chr5g0417951 | 75.949 | 79 | 15 | 2 | 1 | 75 | 1 | 79 | 1.38e-31 | 105 |
| Msa0291920 | MtrunA17_Chr4g0048281 | 80.000 | 80 | 11 | 3 | 1 | 75 | 1 | 80 | 6.38e-29 | 98.2 |
| Msa0291920 | MtrunA17_Chr2g0312011 | 59.375 | 64 | 21 | 2 | 1 | 63 | 1 | 60 | 6.68e-13 | 57.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0291920 | AT2G32190.1 | 53.333 | 75 | 31 | 2 | 1 | 75 | 1 | 71 | 6.32e-20 | 75.9 |
| Msa0291920 | AT2G32210.1 | 53.333 | 75 | 31 | 2 | 1 | 75 | 1 | 71 | 1.08e-19 | 75.1 |
| Msa0291920 | AT2G32200.2 | 50.000 | 78 | 32 | 3 | 1 | 75 | 35 | 108 | 4.66e-16 | 67.0 |
| Msa0291920 | AT2G32200.1 | 50.000 | 78 | 32 | 3 | 1 | 75 | 1 | 74 | 7.29e-16 | 65.5 |
| Msa0291920 | AT3G22240.1 | 52.055 | 73 | 33 | 2 | 3 | 75 | 2 | 72 | 5.13e-11 | 53.1 |
| Msa0291920 | AT1G56060.2 | 51.667 | 60 | 25 | 3 | 18 | 75 | 14 | 71 | 6.87e-11 | 52.8 |
Find 32 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTAGCAAGGGTGATGGTTTC+TGG | 0.152080 | 2_3:+40649503 | Msa0291920:CDS |
| GAACTTAAAAGCAGATATCT+AGG | 0.339148 | 2_3:-40649561 | None:intergenic |
| ACTGGTGGTGGATATGATAC+TGG | 0.355057 | 2_3:-40649382 | None:intergenic |
| CATCACCCTTGCTAGTAGTT+TGG | 0.370930 | 2_3:-40649495 | None:intergenic |
| TGTAACTGCACCACCACCTA+TGG | 0.404681 | 2_3:+40649420 | Msa0291920:CDS |
| GTGCCCTTCAGTGCCATCCT+TGG | 0.431297 | 2_3:-40649452 | None:intergenic |
| CCCTTGCTAGTAGTTTGGTC+TGG | 0.433324 | 2_3:-40649490 | None:intergenic |
| ACATATGGAGCTGTAGATAC+TGG | 0.438751 | 2_3:-40649400 | None:intergenic |
| GGTCTGGAATCCTTTGTTGA+GGG | 0.445983 | 2_3:-40649474 | None:intergenic |
| TAACTTCAACAATAAGCAAC+AGG | 0.473699 | 2_3:+40649357 | Msa0291920:CDS |
| CTGGTGGTGGATATGATACT+GGG | 0.477844 | 2_3:-40649381 | None:intergenic |
| GGTGGTGGTGCAGTTACATA+TGG | 0.482974 | 2_3:-40649415 | None:intergenic |
| CCTTCCAAGGATGGCACTGA+AGG | 0.500647 | 2_3:+40649448 | Msa0291920:CDS |
| AAGGGTGATGGTTTCTGGAA+GGG | 0.563158 | 2_3:+40649508 | Msa0291920:CDS |
| CCTTCAGTGCCATCCTTGGA+AGG | 0.574880 | 2_3:-40649448 | None:intergenic |
| TCCAGACCAAACTACTAGCA+AGG | 0.576972 | 2_3:+40649489 | Msa0291920:CDS |
| ACCTATGGGTTATCCTTCCA+AGG | 0.577836 | 2_3:+40649435 | Msa0291920:CDS |
| TGGTCTGGAATCCTTTGTTG+AGG | 0.581792 | 2_3:-40649475 | None:intergenic |
| CAAGGGTGATGGTTTCTGGA+AGG | 0.583327 | 2_3:+40649507 | Msa0291920:CDS |
| ATGGGTTATCCTTCCAAGGA+TGG | 0.589724 | 2_3:+40649439 | Msa0291920:CDS |
| GAAGGATAACCCATAGGTGG+TGG | 0.596519 | 2_3:-40649430 | None:intergenic |
| GTAACTGCACCACCACCTAT+GGG | 0.597034 | 2_3:+40649421 | Msa0291920:CDS |
| CTTCCAAGGATGGCACTGAA+GGG | 0.598808 | 2_3:+40649449 | Msa0291920:CDS |
| AACTTAAAAGCAGATATCTA+GGG | 0.606743 | 2_3:-40649560 | None:intergenic |
| GGAGCTGTAGATACTGGTGG+TGG | 0.617769 | 2_3:-40649394 | None:intergenic |
| CTGAAGGGCACCCTCAACAA+AGG | 0.624674 | 2_3:+40649464 | Msa0291920:CDS |
| CCAGACCAAACTACTAGCAA+GGG | 0.629272 | 2_3:+40649490 | Msa0291920:CDS |
| CAAACTACTAGCAAGGGTGA+TGG | 0.657448 | 2_3:+40649496 | Msa0291920:CDS |
| TTGGAAGGATAACCCATAGG+TGG | 0.675232 | 2_3:-40649433 | None:intergenic |
| TCCTTGGAAGGATAACCCAT+AGG | 0.678007 | 2_3:-40649436 | None:intergenic |
| TGGTGGTGGATATGATACTG+GGG | 0.717786 | 2_3:-40649380 | None:intergenic |
| TATGGAGCTGTAGATACTGG+TGG | 0.763094 | 2_3:-40649397 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TAACTTCAACAATAAGCAAC+AGG | + | chr2_3:40649357-40649376 | Msa0291920:CDS | 30.0% | |
| ACATATGGAGCTGTAGATAC+TGG | - | chr2_3:40649403-40649422 | None:intergenic | 40.0% | |
| !! | TGGTGGTGGATATGATACTG+GGG | - | chr2_3:40649383-40649402 | None:intergenic | 45.0% |
| !! | CTGGTGGTGGATATGATACT+GGG | - | chr2_3:40649384-40649403 | None:intergenic | 45.0% |
| !! | ACTGGTGGTGGATATGATAC+TGG | - | chr2_3:40649385-40649404 | None:intergenic | 45.0% |
| TATGGAGCTGTAGATACTGG+TGG | - | chr2_3:40649400-40649419 | None:intergenic | 45.0% | |
| TTGGAAGGATAACCCATAGG+TGG | - | chr2_3:40649436-40649455 | None:intergenic | 45.0% | |
| ! | ACCTATGGGTTATCCTTCCA+AGG | + | chr2_3:40649435-40649454 | Msa0291920:CDS | 45.0% |
| TCCTTGGAAGGATAACCCAT+AGG | - | chr2_3:40649439-40649458 | None:intergenic | 45.0% | |
| ! | ATGGGTTATCCTTCCAAGGA+TGG | + | chr2_3:40649439-40649458 | Msa0291920:CDS | 45.0% |
| ! | GGTCTGGAATCCTTTGTTGA+GGG | - | chr2_3:40649477-40649496 | None:intergenic | 45.0% |
| ! | TGGTCTGGAATCCTTTGTTG+AGG | - | chr2_3:40649478-40649497 | None:intergenic | 45.0% |
| TCCAGACCAAACTACTAGCA+AGG | + | chr2_3:40649489-40649508 | Msa0291920:CDS | 45.0% | |
| CCAGACCAAACTACTAGCAA+GGG | + | chr2_3:40649490-40649509 | Msa0291920:CDS | 45.0% | |
| CATCACCCTTGCTAGTAGTT+TGG | - | chr2_3:40649498-40649517 | None:intergenic | 45.0% | |
| CAAACTACTAGCAAGGGTGA+TGG | + | chr2_3:40649496-40649515 | Msa0291920:CDS | 45.0% | |
| ! | AAGGGTGATGGTTTCTGGAA+GGG | + | chr2_3:40649508-40649527 | Msa0291920:CDS | 45.0% |
| ! | GGTGGTGGTGCAGTTACATA+TGG | - | chr2_3:40649418-40649437 | None:intergenic | 50.0% |
| TGTAACTGCACCACCACCTA+TGG | + | chr2_3:40649420-40649439 | Msa0291920:CDS | 50.0% | |
| GTAACTGCACCACCACCTAT+GGG | + | chr2_3:40649421-40649440 | Msa0291920:CDS | 50.0% | |
| GAAGGATAACCCATAGGTGG+TGG | - | chr2_3:40649433-40649452 | None:intergenic | 50.0% | |
| ! | CTTCCAAGGATGGCACTGAA+GGG | + | chr2_3:40649449-40649468 | Msa0291920:CDS | 50.0% |
| CCCTTGCTAGTAGTTTGGTC+TGG | - | chr2_3:40649493-40649512 | None:intergenic | 50.0% | |
| ! | CTAGCAAGGGTGATGGTTTC+TGG | + | chr2_3:40649503-40649522 | Msa0291920:CDS | 50.0% |
| ! | CAAGGGTGATGGTTTCTGGA+AGG | + | chr2_3:40649507-40649526 | Msa0291920:CDS | 50.0% |
| GGAGCTGTAGATACTGGTGG+TGG | - | chr2_3:40649397-40649416 | None:intergenic | 55.0% | |
| CCTTCAGTGCCATCCTTGGA+AGG | - | chr2_3:40649451-40649470 | None:intergenic | 55.0% | |
| ! | CCTTCCAAGGATGGCACTGA+AGG | + | chr2_3:40649448-40649467 | Msa0291920:CDS | 55.0% |
| !! | CTGAAGGGCACCCTCAACAA+AGG | + | chr2_3:40649464-40649483 | Msa0291920:CDS | 55.0% |
| GTGCCCTTCAGTGCCATCCT+TGG | - | chr2_3:40649455-40649474 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 40649352 | 40649579 | 40649352 | ID=Msa0291920;Name=Msa0291920 |
| chr2_3 | mRNA | 40649352 | 40649579 | 40649352 | ID=Msa0291920-mRNA-1;Parent=Msa0291920;Name=Msa0291920-mRNA-1;_AED=0.38;_eAED=0.38;_QI=0|-1|0|1|-1|1|1|0|75 |
| chr2_3 | exon | 40649352 | 40649579 | 40649352 | ID=Msa0291920-mRNA-1:exon:13062;Parent=Msa0291920-mRNA-1 |
| chr2_3 | CDS | 40649352 | 40649579 | 40649352 | ID=Msa0291920-mRNA-1:cds;Parent=Msa0291920-mRNA-1 |
| Gene Sequence |
| Protein sequence |
