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 |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0089930 | sp|Q9SN23|LBD38_ARATH | 67.797 | 118 | 36 | 1 | 1 | 118 | 1 | 116 | 1.77e-53 | 173 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0089930 | G7IE59 | 88.144 | 194 | 8 | 1 | 1 | 179 | 1 | 194 | 1.70e-114 | 332 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0089930 | TF | LOB |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0041800 | Msa0089930 | 0.842335 | 2.753874e-58 | -8.615850e-47 |
| Msa0089930 | Msa0136200 | 0.893171 | 8.056233e-75 | -8.615850e-47 |
| Msa0089930 | Msa0179180 | 0.801691 | 7.990866e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0089930 | MtrunA17_Chr1g0207471 | 88.144 | 194 | 8 | 1 | 1 | 179 | 1 | 194 | 3.27e-118 | 332 |
| Msa0089930 | MtrunA17_Chr5g0401401 | 65.079 | 126 | 41 | 2 | 1 | 126 | 1 | 123 | 5.39e-55 | 173 |
| Msa0089930 | MtrunA17_Chr4g0053911 | 69.231 | 117 | 34 | 1 | 1 | 117 | 1 | 115 | 1.51e-54 | 172 |
| Msa0089930 | MtrunA17_Chr7g0215281 | 60.577 | 104 | 41 | 0 | 1 | 104 | 3 | 106 | 1.57e-46 | 154 |
| Msa0089930 | MtrunA17_Chr6g0457431 | 59.615 | 104 | 42 | 0 | 1 | 104 | 3 | 106 | 2.26e-45 | 147 |
| Msa0089930 | MtrunA17_Chr6g0469271 | 40.000 | 160 | 79 | 4 | 1 | 152 | 3 | 153 | 5.75e-38 | 130 |
| Msa0089930 | MtrunA17_Chr6g0470651 | 48.113 | 106 | 53 | 1 | 1 | 104 | 3 | 108 | 6.37e-35 | 122 |
| Msa0089930 | MtrunA17_Chr6g0470631 | 40.945 | 127 | 68 | 2 | 1 | 125 | 3 | 124 | 2.65e-33 | 118 |
| Msa0089930 | MtrunA17_Chr1g0209841 | 40.800 | 125 | 61 | 3 | 1 | 125 | 3 | 114 | 5.17e-29 | 107 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0089930 | AT3G49940.1 | 67.797 | 118 | 36 | 1 | 1 | 118 | 1 | 116 | 1.80e-54 | 173 |
| Msa0089930 | AT5G67420.2 | 66.379 | 116 | 37 | 1 | 1 | 116 | 1 | 114 | 1.78e-53 | 171 |
| Msa0089930 | AT5G67420.1 | 66.379 | 116 | 37 | 1 | 1 | 116 | 1 | 114 | 1.78e-53 | 171 |
| Msa0089930 | AT4G37540.1 | 54.819 | 166 | 59 | 5 | 1 | 160 | 1 | 156 | 6.23e-52 | 166 |
| Msa0089930 | AT3G02550.1 | 60.577 | 104 | 41 | 0 | 1 | 104 | 3 | 106 | 1.21e-46 | 154 |
| Msa0089930 | AT1G67100.1 | 59.048 | 105 | 43 | 0 | 1 | 105 | 3 | 107 | 5.07e-44 | 146 |
| Msa0089930 | AT1G68510.1 | 42.500 | 160 | 88 | 2 | 1 | 160 | 3 | 158 | 3.37e-42 | 141 |
Find 47 sgRNAs with CRISPR-Local
Find 51 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGCCCAACTGCTCCATTTAC+TGG | 0.215944 | 1_2:+71684473 | None:intergenic |
| TTTATGACATACATGATCTT+TGG | 0.296751 | 1_2:+71684709 | None:intergenic |
| AGAACTATAAATCCAGTAAA+TGG | 0.325401 | 1_2:-71684485 | Msa0089930:CDS |
| ATGGAGCAGTTGGGCTGTTA+TGG | 0.333353 | 1_2:-71684466 | Msa0089930:CDS |
| GTCTTTGTCACCAAGTTCTT+CGG | 0.371969 | 1_2:-71684774 | Msa0089930:CDS |
| GATCTTTGGTTGGGAGGAAC+AGG | 0.395798 | 1_2:+71684723 | None:intergenic |
| GACATACATGATCTTTGGTT+GGG | 0.427328 | 1_2:+71684714 | None:intergenic |
| CACTTATGTATGAAGCTGTT+GGG | 0.452221 | 1_2:-71684508 | Msa0089930:CDS |
| TGGCGTTAGCCTGTGCTTGT+GGG | 0.452316 | 1_2:+71684799 | None:intergenic |
| GACACATGAGTCTGAGGAAT+CGG | 0.458754 | 1_2:-71684288 | Msa0089930:CDS |
| TCCACACCTAACAACTGATC+AGG | 0.464754 | 1_2:+71684368 | None:intergenic |
| GGTGGCACGGCCGAAGAACT+TGG | 0.467396 | 1_2:+71684764 | None:intergenic |
| AATCCAGTAAATGGAGCAGT+TGG | 0.467406 | 1_2:-71684476 | Msa0089930:CDS |
| GAATCGGAGTCGTCCACGTT+GGG | 0.467550 | 1_2:-71684272 | Msa0089930:CDS |
| GCACTCCCTGATCAGTTGTT+AGG | 0.477941 | 1_2:-71684374 | Msa0089930:CDS |
| GTGGCGTTAGCCTGTGCTTG+TGG | 0.478831 | 1_2:+71684798 | None:intergenic |
| TGACATACATGATCTTTGGT+TGG | 0.489850 | 1_2:+71684713 | None:intergenic |
| CCCTGATCAGTTGTTAGGTG+TGG | 0.497837 | 1_2:-71684369 | Msa0089930:CDS |
| ATCCAGTAAATGGAGCAGTT+GGG | 0.536591 | 1_2:-71684475 | Msa0089930:CDS |
| TCACTTATGTATGAAGCTGT+TGG | 0.539852 | 1_2:-71684509 | Msa0089930:CDS |
| TGCATCCCTTTCTCAAAACT+CGG | 0.542491 | 1_2:+71684865 | None:intergenic |
| GAACAAGTGCTGAGAGGTAA+CGG | 0.548928 | 1_2:-71684410 | Msa0089930:CDS |
| GAGATCATAAGAATAGTGTA+AGG | 0.555999 | 1_2:+71684183 | None:intergenic |
| GATGCAAAACCCACAAGCAC+AGG | 0.559482 | 1_2:-71684808 | Msa0089930:CDS |
| TTTGAGAAAGGGATGCAGTG+AGG | 0.560200 | 1_2:-71684859 | Msa0089930:CDS |
| ATAAGAATAGTGTAAGGAGT+TGG | 0.568732 | 1_2:+71684189 | None:intergenic |
| CAGCTTCATACATAAGTGAC+TGG | 0.569517 | 1_2:+71684513 | None:intergenic |
| ATGCTACTTCTCAAACTCAA+AGG | 0.580159 | 1_2:-71684214 | Msa0089930:CDS |
| ATACATGATCTTTGGTTGGG+AGG | 0.585857 | 1_2:+71684717 | None:intergenic |
| GGCTGTTATGGACTGGAAAG+TGG | 0.603769 | 1_2:-71684454 | Msa0089930:CDS |
| ATATATAAAATGAGTTGCAA+CGG | 0.607017 | 1_2:-71684891 | None:intergenic |
| GAAAAGACATGAGGGTGGCA+CGG | 0.613200 | 1_2:+71684751 | None:intergenic |
| GCAGTTGGGCTGTTATGGAC+TGG | 0.615948 | 1_2:-71684461 | Msa0089930:CDS |
| CCACACCTAACAACTGATCA+GGG | 0.634962 | 1_2:+71684369 | None:intergenic |
| TGCGGAGACACATGAGTCTG+AGG | 0.638167 | 1_2:-71684294 | Msa0089930:CDS |
| GGAATCGGAGTCGTCCACGT+TGG | 0.646426 | 1_2:-71684273 | Msa0089930:CDS |
| AAGTGGCAATTCTGTCAACT+TGG | 0.652925 | 1_2:-71684437 | Msa0089930:CDS |
| TTCTGTTCTACTTCCCAACG+TGG | 0.659625 | 1_2:+71684259 | None:intergenic |
| CAGGTGAAAGAAAAGACATG+AGG | 0.660626 | 1_2:+71684742 | None:intergenic |
| AGGTGAAAGAAAAGACATGA+GGG | 0.666800 | 1_2:+71684743 | None:intergenic |
| TAACAACTGATCAGGGAGTG+CGG | 0.677605 | 1_2:+71684376 | None:intergenic |
| CCAAGCAGAAAAGCAACGTG+CGG | 0.683012 | 1_2:-71684312 | Msa0089930:CDS |
| TGCTACGAGATTGTCTAACG+TGG | 0.703821 | 1_2:-71684830 | Msa0089930:CDS |
| GAACTTGGTGACAAAGACAG+TGG | 0.712149 | 1_2:+71684779 | None:intergenic |
| TGAAAGAAAAGACATGAGGG+TGG | 0.725920 | 1_2:+71684746 | None:intergenic |
| GGTGTTGAACAAGTGCTGAG+AGG | 0.756300 | 1_2:-71684416 | Msa0089930:CDS |
| CAAGTGCTGAGAGGTAACGG+CGG | 0.757236 | 1_2:-71684407 | Msa0089930:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ACAAATTAGTTTGATGTATT+TGG | + | chr1_2:71684445-71684464 | None:intergenic | 20.0% |
| !!! | ACTAATTTGTATGTATATAC+AGG | - | chr1_2:71684455-71684474 | Msa0089930:CDS | 20.0% |
| !! | TCATTCAATTACTATATTAC+AGG | - | chr1_2:71684527-71684546 | Msa0089930:intron | 20.0% |
| ! | TTTATGACATACATGATCTT+TGG | + | chr1_2:71684363-71684382 | None:intergenic | 25.0% |
| ! | AGAACTATAAATCCAGTAAA+TGG | - | chr1_2:71684584-71684603 | Msa0089930:intron | 25.0% |
| ATAAGAATAGTGTAAGGAGT+TGG | + | chr1_2:71684883-71684902 | None:intergenic | 30.0% | |
| AGGTGAAAGAAAAGACATGA+GGG | + | chr1_2:71684329-71684348 | None:intergenic | 35.0% | |
| GACATACATGATCTTTGGTT+GGG | + | chr1_2:71684358-71684377 | None:intergenic | 35.0% | |
| TGACATACATGATCTTTGGT+TGG | + | chr1_2:71684359-71684378 | None:intergenic | 35.0% | |
| TCACTTATGTATGAAGCTGT+TGG | - | chr1_2:71684560-71684579 | Msa0089930:intron | 35.0% | |
| CACTTATGTATGAAGCTGTT+GGG | - | chr1_2:71684561-71684580 | Msa0089930:intron | 35.0% | |
| ! | ATGCTACTTCTCAAACTCAA+AGG | - | chr1_2:71684855-71684874 | Msa0089930:CDS | 35.0% |
| TGCATCCCTTTCTCAAAACT+CGG | + | chr1_2:71684207-71684226 | None:intergenic | 40.0% | |
| GTCTTTGTCACCAAGTTCTT+CGG | - | chr1_2:71684295-71684314 | Msa0089930:CDS | 40.0% | |
| TGAAAGAAAAGACATGAGGG+TGG | + | chr1_2:71684326-71684345 | None:intergenic | 40.0% | |
| CAGGTGAAAGAAAAGACATG+AGG | + | chr1_2:71684330-71684349 | None:intergenic | 40.0% | |
| ATACATGATCTTTGGTTGGG+AGG | + | chr1_2:71684355-71684374 | None:intergenic | 40.0% | |
| CAGCTTCATACATAAGTGAC+TGG | + | chr1_2:71684559-71684578 | None:intergenic | 40.0% | |
| AATCCAGTAAATGGAGCAGT+TGG | - | chr1_2:71684593-71684612 | Msa0089930:intron | 40.0% | |
| ATCCAGTAAATGGAGCAGTT+GGG | - | chr1_2:71684594-71684613 | Msa0089930:intron | 40.0% | |
| AAGTGGCAATTCTGTCAACT+TGG | - | chr1_2:71684632-71684651 | Msa0089930:intron | 40.0% | |
| !!! | GGTTGCCGAGTTTTGAGAAA+GGG | - | chr1_2:71684199-71684218 | Msa0089930:CDS | 45.0% |
| TTTGAGAAAGGGATGCAGTG+AGG | - | chr1_2:71684210-71684229 | Msa0089930:CDS | 45.0% | |
| TGCTACGAGATTGTCTAACG+TGG | - | chr1_2:71684239-71684258 | Msa0089930:CDS | 45.0% | |
| ! | GAACTTGGTGACAAAGACAG+TGG | + | chr1_2:71684293-71684312 | None:intergenic | 45.0% |
| !! | GAACAAGTGCTGAGAGGTAA+CGG | - | chr1_2:71684659-71684678 | Msa0089930:intron | 45.0% |
| TAACAACTGATCAGGGAGTG+CGG | + | chr1_2:71684696-71684715 | None:intergenic | 45.0% | |
| CCACACCTAACAACTGATCA+GGG | + | chr1_2:71684703-71684722 | None:intergenic | 45.0% | |
| TCCACACCTAACAACTGATC+AGG | + | chr1_2:71684704-71684723 | None:intergenic | 45.0% | |
| GACACATGAGTCTGAGGAAT+CGG | - | chr1_2:71684781-71684800 | Msa0089930:CDS | 45.0% | |
| TTCTGTTCTACTTCCCAACG+TGG | + | chr1_2:71684813-71684832 | None:intergenic | 45.0% | |
| !!! | CGGTTGCCGAGTTTTGAGAA+AGG | - | chr1_2:71684198-71684217 | Msa0089930:CDS | 50.0% |
| GATGCAAAACCCACAAGCAC+AGG | - | chr1_2:71684261-71684280 | Msa0089930:CDS | 50.0% | |
| GAAAAGACATGAGGGTGGCA+CGG | + | chr1_2:71684321-71684340 | None:intergenic | 50.0% | |
| GATCTTTGGTTGGGAGGAAC+AGG | + | chr1_2:71684349-71684368 | None:intergenic | 50.0% | |
| AGCCCAACTGCTCCATTTAC+TGG | + | chr1_2:71684599-71684618 | None:intergenic | 50.0% | |
| ATGGAGCAGTTGGGCTGTTA+TGG | - | chr1_2:71684603-71684622 | Msa0089930:intron | 50.0% | |
| !! | GGCTGTTATGGACTGGAAAG+TGG | - | chr1_2:71684615-71684634 | Msa0089930:intron | 50.0% |
| !! | GGTGTTGAACAAGTGCTGAG+AGG | - | chr1_2:71684653-71684672 | Msa0089930:intron | 50.0% |
| GCACTCCCTGATCAGTTGTT+AGG | - | chr1_2:71684695-71684714 | Msa0089930:intron | 50.0% | |
| CCCTGATCAGTTGTTAGGTG+TGG | - | chr1_2:71684700-71684719 | Msa0089930:intron | 50.0% | |
| CCAAGCAGAAAAGCAACGTG+CGG | - | chr1_2:71684757-71684776 | Msa0089930:CDS | 50.0% | |
| ! | TGGCGTTAGCCTGTGCTTGT+GGG | + | chr1_2:71684273-71684292 | None:intergenic | 55.0% |
| GCAGTTGGGCTGTTATGGAC+TGG | - | chr1_2:71684608-71684627 | Msa0089930:intron | 55.0% | |
| !! | CAAGTGCTGAGAGGTAACGG+CGG | - | chr1_2:71684662-71684681 | Msa0089930:intron | 55.0% |
| !!! | CCGCACGTTGCTTTTCTGCT+TGG | + | chr1_2:71684760-71684779 | None:intergenic | 55.0% |
| TGCGGAGACACATGAGTCTG+AGG | - | chr1_2:71684775-71684794 | Msa0089930:CDS | 55.0% | |
| GAATCGGAGTCGTCCACGTT+GGG | - | chr1_2:71684797-71684816 | Msa0089930:CDS | 55.0% | |
| ! | GTGGCGTTAGCCTGTGCTTG+TGG | + | chr1_2:71684274-71684293 | None:intergenic | 60.0% |
| GGAATCGGAGTCGTCCACGT+TGG | - | chr1_2:71684796-71684815 | Msa0089930:CDS | 60.0% | |
| GGTGGCACGGCCGAAGAACT+TGG | + | chr1_2:71684308-71684327 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 71684187 | 71684904 | 71684187 | ID=Msa0089930;Name=Msa0089930 |
| chr1_2 | mRNA | 71684187 | 71684904 | 71684187 | ID=Msa0089930-mRNA-1;Parent=Msa0089930;Name=Msa0089930-mRNA-1;_AED=0.17;_eAED=0.18;_QI=0|0|0|1|1|1|2|0|179 |
| chr1_2 | exon | 71684721 | 71684904 | 71684721 | ID=Msa0089930-mRNA-1:exon:24726;Parent=Msa0089930-mRNA-1 |
| chr1_2 | exon | 71684187 | 71684542 | 71684187 | ID=Msa0089930-mRNA-1:exon:24725;Parent=Msa0089930-mRNA-1 |
| chr1_2 | CDS | 71684721 | 71684904 | 71684721 | ID=Msa0089930-mRNA-1:cds;Parent=Msa0089930-mRNA-1 |
| chr1_2 | CDS | 71684187 | 71684542 | 71684187 | ID=Msa0089930-mRNA-1:cds;Parent=Msa0089930-mRNA-1 |
| Gene Sequence |
| Protein sequence |
