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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0346460 | XP_013460852.1 | 89.873 | 79 | 8 | 0 | 1 | 79 | 84 | 162 | 1.29e-44 | 150 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0346460 | sp|Q9LX15|DFC_ARATH | 43.478 | 69 | 39 | 0 | 3 | 71 | 86 | 154 | 3.74e-11 | 58.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0346460 | B7FN25 | 89.873 | 79 | 8 | 0 | 1 | 79 | 84 | 162 | 6.16e-45 | 150 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0345570 | Msa0346460 | 0.920063 | 2.054450e-87 | -8.615850e-47 |
| Msa0346460 | Msa0346560 | 0.876377 | 1.465685e-68 | -8.615850e-47 |
| Msa0346460 | Msa0391720 | 0.929296 | 8.520158e-93 | -8.615850e-47 |
| Msa0346460 | Msa0391780 | 0.938004 | 1.375798e-98 | -8.615850e-47 |
| Msa0346460 | Msa0391840 | 0.930523 | 1.447000e-93 | -8.615850e-47 |
| Msa0346460 | Msa0391880 | 0.936448 | 1.708220e-97 | -8.615850e-47 |
| Msa0346460 | Msa0399300 | 0.807504 | 4.894800e-50 | -8.615850e-47 |
| Msa0346460 | Msa0422280 | 0.811890 | 5.583093e-51 | -8.615850e-47 |
| Msa0346460 | Msa0484780 | 0.800131 | 1.664291e-48 | -8.615850e-47 |
| Msa0346460 | Msa0520700 | 0.816835 | 4.505361e-52 | -8.615850e-47 |
| Msa0346460 | Msa0713640 | 0.804455 | 2.143045e-49 | -8.615850e-47 |
| Msa0346460 | Msa0969450 | 0.801029 | 1.091620e-48 | -8.615850e-47 |
| Msa0346460 | Msa1082500 | 0.811452 | 6.952998e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0346460 | MtrunA17_Chr3g0115561 | 89.873 | 79 | 8 | 0 | 1 | 79 | 84 | 162 | 1.19e-48 | 150 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0346460 | AT4G08685.1 | 42.857 | 77 | 44 | 0 | 1 | 77 | 83 | 159 | 5.75e-19 | 75.9 |
| Msa0346460 | AT1G78040.1 | 42.105 | 76 | 43 | 1 | 3 | 78 | 89 | 163 | 9.16e-13 | 60.1 |
| Msa0346460 | AT1G78040.3 | 42.105 | 76 | 43 | 1 | 3 | 78 | 89 | 163 | 9.16e-13 | 60.1 |
| Msa0346460 | AT1G78040.2 | 42.105 | 76 | 43 | 1 | 3 | 78 | 89 | 163 | 9.16e-13 | 60.1 |
| Msa0346460 | AT5G10130.1 | 43.478 | 69 | 39 | 0 | 3 | 71 | 86 | 154 | 3.80e-12 | 58.5 |
Find 21 sgRNAs with CRISPR-Local
Find 19 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTCAAGCAAATGCAGGAAT+TGG | 0.399028 | 3_1:+6953009 | Msa0346460:CDS |
| GGAGGCAATGCCGTTGTAAC+GGG | 0.439821 | 3_1:-6952921 | None:intergenic |
| AGTTGTAGCGAAAGAGCACC+TGG | 0.442879 | 3_1:+6952872 | Msa0346460:CDS |
| ATATACAATGTATGTGGATC+AGG | 0.452269 | 3_1:+6952799 | None:intergenic |
| AGCATTGGCAAACCTGTCAT+TGG | 0.466304 | 3_1:-6952942 | None:intergenic |
| CCAATTCCTGCATTTGCTTG+AGG | 0.488555 | 3_1:-6953009 | None:intergenic |
| TGGAGGCAATGCCGTTGTAA+CGG | 0.522858 | 3_1:-6952922 | None:intergenic |
| GGGTGAGAATAACGCGTGCT+TGG | 0.527810 | 3_1:-6952901 | None:intergenic |
| ACGGCATTGCCTCCAATGAC+AGG | 0.539090 | 3_1:+6952930 | Msa0346460:CDS |
| TGCTATGTTGTACATGGCAG+AGG | 0.540527 | 3_1:+6952961 | Msa0346460:CDS |
| TGCCAATGCTATGTTGTACA+TGG | 0.550672 | 3_1:+6952955 | Msa0346460:CDS |
| TGGAGAATATACAATGTATG+TGG | 0.553534 | 3_1:+6952793 | None:intergenic |
| ACGCGTGCTTGGTCACGCCC+AGG | 0.556503 | 3_1:-6952890 | None:intergenic |
| ATTGGCAAACCTGTCATTGG+AGG | 0.565263 | 3_1:-6952939 | None:intergenic |
| TGCCATGTACAACATAGCAT+TGG | 0.582518 | 3_1:-6952957 | None:intergenic |
| GTTATTCTCACCCGTTACAA+CGG | 0.584831 | 3_1:+6952911 | Msa0346460:CDS |
| TGAGGTCCTCAAGCAAATGC+AGG | 0.587649 | 3_1:+6953003 | Msa0346460:CDS |
| GGTTGCTTCTAGCTGTGCTG+AGG | 0.620393 | 3_1:+6952985 | Msa0346460:CDS |
| CTTTCGCTACAACTACGCTC+AGG | 0.623193 | 3_1:-6952863 | None:intergenic |
| TATGTTGTACATGGCAGAGG+AGG | 0.691786 | 3_1:+6952964 | Msa0346460:CDS |
| GTTGTAGCGAAAGAGCACCT+GGG | 0.714138 | 3_1:+6952873 | Msa0346460:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GTTATTCTCACCCGTTACAA+CGG | + | chr3_1:6952911-6952930 | Msa0346460:CDS | 40.0% | |
| TGCCAATGCTATGTTGTACA+TGG | + | chr3_1:6952955-6952974 | Msa0346460:CDS | 40.0% | |
| TGCCATGTACAACATAGCAT+TGG | - | chr3_1:6952960-6952979 | None:intergenic | 40.0% | |
| ATTGGCAAACCTGTCATTGG+AGG | - | chr3_1:6952942-6952961 | None:intergenic | 45.0% | |
| !! | AGCATTGGCAAACCTGTCAT+TGG | - | chr3_1:6952945-6952964 | None:intergenic | 45.0% |
| TGCTATGTTGTACATGGCAG+AGG | + | chr3_1:6952961-6952980 | Msa0346460:CDS | 45.0% | |
| TATGTTGTACATGGCAGAGG+AGG | + | chr3_1:6952964-6952983 | Msa0346460:CDS | 45.0% | |
| CCAATTCCTGCATTTGCTTG+AGG | - | chr3_1:6953012-6953031 | None:intergenic | 45.0% | |
| CCTCAAGCAAATGCAGGAAT+TGG | + | chr3_1:6953009-6953028 | Msa0346460:CDS | 45.0% | |
| CTTTCGCTACAACTACGCTC+AGG | - | chr3_1:6952866-6952885 | None:intergenic | 50.0% | |
| !! | AGTTGTAGCGAAAGAGCACC+TGG | + | chr3_1:6952872-6952891 | Msa0346460:CDS | 50.0% |
| !! | GTTGTAGCGAAAGAGCACCT+GGG | + | chr3_1:6952873-6952892 | Msa0346460:CDS | 50.0% |
| TGGAGGCAATGCCGTTGTAA+CGG | - | chr3_1:6952925-6952944 | None:intergenic | 50.0% | |
| TGAGGTCCTCAAGCAAATGC+AGG | + | chr3_1:6953003-6953022 | Msa0346460:CDS | 50.0% | |
| GGGTGAGAATAACGCGTGCT+TGG | - | chr3_1:6952904-6952923 | None:intergenic | 55.0% | |
| GGAGGCAATGCCGTTGTAAC+GGG | - | chr3_1:6952924-6952943 | None:intergenic | 55.0% | |
| ACGGCATTGCCTCCAATGAC+AGG | + | chr3_1:6952930-6952949 | Msa0346460:CDS | 55.0% | |
| ! | GGTTGCTTCTAGCTGTGCTG+AGG | + | chr3_1:6952985-6953004 | Msa0346460:CDS | 55.0% |
| ACGCGTGCTTGGTCACGCCC+AGG | - | chr3_1:6952893-6952912 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 6952806 | 6953045 | 6952806 | ID=Msa0346460;Name=Msa0346460 |
| chr3_1 | mRNA | 6952806 | 6953045 | 6952806 | ID=Msa0346460-mRNA-1;Parent=Msa0346460;Name=Msa0346460-mRNA-1;_AED=0.05;_eAED=0.05;_QI=0|-1|0|1|-1|1|1|0|79 |
| chr3_1 | exon | 6952806 | 6953045 | 6952806 | ID=Msa0346460-mRNA-1:exon:1935;Parent=Msa0346460-mRNA-1 |
| chr3_1 | CDS | 6952806 | 6953045 | 6952806 | ID=Msa0346460-mRNA-1:cds;Parent=Msa0346460-mRNA-1 |
| Gene Sequence |
| Protein sequence |
