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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0041800 | sp|Q9SN23|LBD38_ARATH | 68.644 | 118 | 35 | 1 | 1 | 118 | 1 | 116 | 1.54e-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 |
|---|
| Gene ID | Type | Classification |
|---|---|---|
| Msa0041800 | 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 |
| Msa0041800 | Msa0136200 | 0.820458 | 6.788590e-53 | -8.615850e-47 |
| Msa0041800 | Msa0179180 | 0.843619 | 1.253307e-58 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0041800 | MtrunA17_Chr1g0207471 | 88.660 | 194 | 7 | 1 | 1 | 179 | 1 | 194 | 1.03e-118 | 333 |
| Msa0041800 | MtrunA17_Chr5g0401401 | 65.873 | 126 | 40 | 2 | 1 | 126 | 1 | 123 | 4.20e-55 | 174 |
| Msa0041800 | MtrunA17_Chr4g0053911 | 70.085 | 117 | 33 | 1 | 1 | 117 | 1 | 115 | 1.02e-54 | 173 |
| Msa0041800 | MtrunA17_Chr7g0215281 | 61.538 | 104 | 40 | 0 | 1 | 104 | 3 | 106 | 7.49e-47 | 155 |
| Msa0041800 | MtrunA17_Chr6g0457431 | 60.577 | 104 | 41 | 0 | 1 | 104 | 3 | 106 | 1.19e-45 | 147 |
| Msa0041800 | MtrunA17_Chr6g0469271 | 40.625 | 160 | 78 | 4 | 1 | 152 | 3 | 153 | 3.01e-38 | 130 |
| Msa0041800 | MtrunA17_Chr6g0470651 | 49.057 | 106 | 52 | 1 | 1 | 104 | 3 | 108 | 2.97e-35 | 123 |
| Msa0041800 | MtrunA17_Chr6g0470631 | 41.732 | 127 | 67 | 2 | 1 | 125 | 3 | 124 | 1.01e-33 | 119 |
| Msa0041800 | MtrunA17_Chr1g0209841 | 41.600 | 125 | 60 | 3 | 1 | 125 | 3 | 114 | 2.20e-29 | 108 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0041800 | AT3G49940.1 | 68.644 | 118 | 35 | 1 | 1 | 118 | 1 | 116 | 1.56e-54 | 173 |
| Msa0041800 | AT5G67420.2 | 67.241 | 116 | 36 | 1 | 1 | 116 | 1 | 114 | 1.53e-53 | 171 |
| Msa0041800 | AT5G67420.1 | 67.241 | 116 | 36 | 1 | 1 | 116 | 1 | 114 | 1.53e-53 | 171 |
| Msa0041800 | AT4G37540.1 | 55.488 | 164 | 61 | 4 | 1 | 160 | 1 | 156 | 9.22e-53 | 168 |
| Msa0041800 | AT3G02550.1 | 56.780 | 118 | 51 | 0 | 1 | 118 | 3 | 120 | 4.81e-47 | 154 |
| Msa0041800 | AT1G67100.1 | 55.932 | 118 | 52 | 0 | 1 | 118 | 3 | 120 | 1.35e-44 | 147 |
| Msa0041800 | AT1G68510.1 | 42.500 | 160 | 88 | 2 | 1 | 160 | 3 | 158 | 1.02e-41 | 140 |
Find 46 sgRNAs with CRISPR-Local
Find 50 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGCCCAACTGCTCCATTTAC+TGG | 0.215944 | 1_1:-72323357 | None:intergenic |
| TTTATGACATACATGATCTT+TGG | 0.296751 | 1_1:-72323121 | None:intergenic |
| AGAACTATAAATCCAGTAAA+TGG | 0.325401 | 1_1:+72323345 | Msa0041800:CDS |
| ATGGAGCAGTTGGGCTGTTA+TGG | 0.333353 | 1_1:+72323364 | Msa0041800:CDS |
| GTCTTTGTCACCAAGTTCTT+CGG | 0.371969 | 1_1:+72323056 | Msa0041800:CDS |
| GATCTTTGGTTGGGAGGAAC+AGG | 0.395798 | 1_1:-72323107 | None:intergenic |
| GACATACATGATCTTTGGTT+GGG | 0.427328 | 1_1:-72323116 | None:intergenic |
| CACTTATGTATGAAGCTGTT+GGG | 0.452221 | 1_1:+72323322 | Msa0041800:CDS |
| TGGCGTTAGCCTGTGCTTGT+GGG | 0.452316 | 1_1:-72323031 | None:intergenic |
| GACACATGAGTCTGAGGAAT+CGG | 0.458754 | 1_1:+72323542 | Msa0041800:CDS |
| TCCACACCTAACAACTGATC+AGG | 0.464754 | 1_1:-72323462 | None:intergenic |
| GGTGGCACGGCCGAAGAACT+TGG | 0.467396 | 1_1:-72323066 | None:intergenic |
| AATCCAGTAAATGGAGCAGT+TGG | 0.467406 | 1_1:+72323354 | Msa0041800:CDS |
| GAATCGGAGTCGTCCACGTT+GGG | 0.467550 | 1_1:+72323558 | Msa0041800:CDS |
| GCACTCCCTGATCAGTTGTT+AGG | 0.468917 | 1_1:+72323456 | Msa0041800:CDS |
| GTGGCGTTAGCCTGTGCTTG+TGG | 0.478831 | 1_1:-72323032 | None:intergenic |
| TGACATACATGATCTTTGGT+TGG | 0.489850 | 1_1:-72323117 | None:intergenic |
| CCCTGATCAGTTGTTAGGTG+TGG | 0.497837 | 1_1:+72323461 | Msa0041800:CDS |
| ATCCAGTAAATGGAGCAGTT+GGG | 0.536591 | 1_1:+72323355 | Msa0041800:CDS |
| TCACTTATGTATGAAGCTGT+TGG | 0.539852 | 1_1:+72323321 | Msa0041800:CDS |
| TGCATCCCTTTCTCAAAACT+CGG | 0.542491 | 1_1:-72322965 | None:intergenic |
| GAACAAGTGCTGAGAGGTAA+CGG | 0.548928 | 1_1:+72323420 | Msa0041800:CDS |
| ATGCTAATTCTCAAACTCAA+AGG | 0.552063 | 1_1:+72323616 | Msa0041800:CDS |
| GAGATCATAAGAATAGTGTA+AGG | 0.555999 | 1_1:-72323647 | None:intergenic |
| GATACAAAACCCACAAGCAC+AGG | 0.556238 | 1_1:+72323022 | Msa0041800:CDS |
| TATAATAAAATGAGTTGCAA+CGG | 0.559441 | 1_1:+72322939 | None:intergenic |
| TTTGAGAAAGGGATGCAGTG+AGG | 0.560200 | 1_1:+72322971 | Msa0041800:CDS |
| ATAAGAATAGTGTAAGGAGT+TGG | 0.568732 | 1_1:-72323641 | None:intergenic |
| CAGCTTCATACATAAGTGAC+TGG | 0.569517 | 1_1:-72323317 | None:intergenic |
| ATACATGATCTTTGGTTGGG+AGG | 0.585857 | 1_1:-72323113 | None:intergenic |
| GGCTGTTATGGACTGGAAAG+TGG | 0.603769 | 1_1:+72323376 | Msa0041800:CDS |
| GAAAAGACATGAGGGTGGCA+CGG | 0.613200 | 1_1:-72323079 | None:intergenic |
| GCAGTTGGGCTGTTATGGAC+TGG | 0.615948 | 1_1:+72323369 | Msa0041800:CDS |
| CCACACCTAACAACTGATCA+GGG | 0.634962 | 1_1:-72323461 | None:intergenic |
| TGCGGAGACACATGAGTCTG+AGG | 0.638167 | 1_1:+72323536 | Msa0041800:CDS |
| GGAATCGGAGTCGTCCACGT+TGG | 0.646426 | 1_1:+72323557 | Msa0041800:CDS |
| AAGTGGCAATTCTGTCAACT+TGG | 0.652925 | 1_1:+72323393 | Msa0041800:CDS |
| TTCTGTTCTACTTCCCAACG+TGG | 0.659625 | 1_1:-72323571 | None:intergenic |
| CAGGTGAAAGAAAAGACATG+AGG | 0.660626 | 1_1:-72323088 | None:intergenic |
| AGGTGAAAGAAAAGACATGA+GGG | 0.666800 | 1_1:-72323087 | None:intergenic |
| CCAAGCAGAAAAGCAACGTG+CGG | 0.683012 | 1_1:+72323518 | Msa0041800:CDS |
| TGCTACGAGATTGTCTAACG+TGG | 0.685370 | 1_1:+72323000 | Msa0041800:CDS |
| GAACTTGGTGACAAAGACAG+TGG | 0.712149 | 1_1:-72323051 | None:intergenic |
| TGAAAGAAAAGACATGAGGG+TGG | 0.725920 | 1_1:-72323084 | None:intergenic |
| GGTGTTGAACAAGTGCTGAG+AGG | 0.756300 | 1_1:+72323414 | Msa0041800:CDS |
| CAAGTGCTGAGAGGTAACGG+CGG | 0.757236 | 1_1:+72323423 | Msa0041800:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ACTAATTTGTATGTATATAT+AGG | + | chr1_1:72323216-72323235 | Msa0041800:intron | 15.0% |
| !!! | ACAAATTAGTTTGATGTATT+TGG | - | chr1_1:72323206-72323225 | None:intergenic | 20.0% |
| !! | TCATTCAATTACTATATTAC+AGG | + | chr1_1:72323288-72323307 | Msa0041800:intron | 20.0% |
| ! | TTTATGACATACATGATCTT+TGG | - | chr1_1:72323124-72323143 | None:intergenic | 25.0% |
| ! | AGAACTATAAATCCAGTAAA+TGG | + | chr1_1:72323345-72323364 | Msa0041800:CDS | 25.0% |
| ATGCTAATTCTCAAACTCAA+AGG | + | chr1_1:72323616-72323635 | Msa0041800:CDS | 30.0% | |
| ATAAGAATAGTGTAAGGAGT+TGG | - | chr1_1:72323644-72323663 | None:intergenic | 30.0% | |
| AGGTGAAAGAAAAGACATGA+GGG | - | chr1_1:72323090-72323109 | None:intergenic | 35.0% | |
| GACATACATGATCTTTGGTT+GGG | - | chr1_1:72323119-72323138 | None:intergenic | 35.0% | |
| TGACATACATGATCTTTGGT+TGG | - | chr1_1:72323120-72323139 | None:intergenic | 35.0% | |
| TCACTTATGTATGAAGCTGT+TGG | + | chr1_1:72323321-72323340 | Msa0041800:CDS | 35.0% | |
| CACTTATGTATGAAGCTGTT+GGG | + | chr1_1:72323322-72323341 | Msa0041800:CDS | 35.0% | |
| TGCATCCCTTTCTCAAAACT+CGG | - | chr1_1:72322968-72322987 | None:intergenic | 40.0% | |
| GTCTTTGTCACCAAGTTCTT+CGG | + | chr1_1:72323056-72323075 | Msa0041800:CDS | 40.0% | |
| TGAAAGAAAAGACATGAGGG+TGG | - | chr1_1:72323087-72323106 | None:intergenic | 40.0% | |
| CAGGTGAAAGAAAAGACATG+AGG | - | chr1_1:72323091-72323110 | None:intergenic | 40.0% | |
| ATACATGATCTTTGGTTGGG+AGG | - | chr1_1:72323116-72323135 | None:intergenic | 40.0% | |
| CAGCTTCATACATAAGTGAC+TGG | - | chr1_1:72323320-72323339 | None:intergenic | 40.0% | |
| AATCCAGTAAATGGAGCAGT+TGG | + | chr1_1:72323354-72323373 | Msa0041800:CDS | 40.0% | |
| ATCCAGTAAATGGAGCAGTT+GGG | + | chr1_1:72323355-72323374 | Msa0041800:CDS | 40.0% | |
| AAGTGGCAATTCTGTCAACT+TGG | + | chr1_1:72323393-72323412 | Msa0041800:CDS | 40.0% | |
| !!! | GGTTGCCGAGTTTTGAGAAA+GGG | + | chr1_1:72322960-72322979 | Msa0041800:CDS | 45.0% |
| TTTGAGAAAGGGATGCAGTG+AGG | + | chr1_1:72322971-72322990 | Msa0041800:CDS | 45.0% | |
| TGCTACGAGATTGTCTAACG+TGG | + | chr1_1:72323000-72323019 | Msa0041800:CDS | 45.0% | |
| GATACAAAACCCACAAGCAC+AGG | + | chr1_1:72323022-72323041 | Msa0041800:CDS | 45.0% | |
| ! | GAACTTGGTGACAAAGACAG+TGG | - | chr1_1:72323054-72323073 | None:intergenic | 45.0% |
| !! | GAACAAGTGCTGAGAGGTAA+CGG | + | chr1_1:72323420-72323439 | Msa0041800:CDS | 45.0% |
| CCACACCTAACAACTGATCA+GGG | - | chr1_1:72323464-72323483 | None:intergenic | 45.0% | |
| TCCACACCTAACAACTGATC+AGG | - | chr1_1:72323465-72323484 | None:intergenic | 45.0% | |
| GACACATGAGTCTGAGGAAT+CGG | + | chr1_1:72323542-72323561 | Msa0041800:CDS | 45.0% | |
| TTCTGTTCTACTTCCCAACG+TGG | - | chr1_1:72323574-72323593 | None:intergenic | 45.0% | |
| !!! | CGGTTGCCGAGTTTTGAGAA+AGG | + | chr1_1:72322959-72322978 | Msa0041800:CDS | 50.0% |
| GAAAAGACATGAGGGTGGCA+CGG | - | chr1_1:72323082-72323101 | None:intergenic | 50.0% | |
| GATCTTTGGTTGGGAGGAAC+AGG | - | chr1_1:72323110-72323129 | None:intergenic | 50.0% | |
| AGCCCAACTGCTCCATTTAC+TGG | - | chr1_1:72323360-72323379 | None:intergenic | 50.0% | |
| ATGGAGCAGTTGGGCTGTTA+TGG | + | chr1_1:72323364-72323383 | Msa0041800:CDS | 50.0% | |
| !! | GGCTGTTATGGACTGGAAAG+TGG | + | chr1_1:72323376-72323395 | Msa0041800:CDS | 50.0% |
| !! | GGTGTTGAACAAGTGCTGAG+AGG | + | chr1_1:72323414-72323433 | Msa0041800:CDS | 50.0% |
| GCACTCCCTGATCAGTTGTT+AGG | + | chr1_1:72323456-72323475 | Msa0041800:CDS | 50.0% | |
| CCCTGATCAGTTGTTAGGTG+TGG | + | chr1_1:72323461-72323480 | Msa0041800:CDS | 50.0% | |
| CCAAGCAGAAAAGCAACGTG+CGG | + | chr1_1:72323518-72323537 | Msa0041800:CDS | 50.0% | |
| ! | TGGCGTTAGCCTGTGCTTGT+GGG | - | chr1_1:72323034-72323053 | None:intergenic | 55.0% |
| GCAGTTGGGCTGTTATGGAC+TGG | + | chr1_1:72323369-72323388 | Msa0041800:CDS | 55.0% | |
| !! | CAAGTGCTGAGAGGTAACGG+CGG | + | chr1_1:72323423-72323442 | Msa0041800:CDS | 55.0% |
| !!! | CCGCACGTTGCTTTTCTGCT+TGG | - | chr1_1:72323521-72323540 | None:intergenic | 55.0% |
| TGCGGAGACACATGAGTCTG+AGG | + | chr1_1:72323536-72323555 | Msa0041800:CDS | 55.0% | |
| GAATCGGAGTCGTCCACGTT+GGG | + | chr1_1:72323558-72323577 | Msa0041800:CDS | 55.0% | |
| ! | GTGGCGTTAGCCTGTGCTTG+TGG | - | chr1_1:72323035-72323054 | None:intergenic | 60.0% |
| GGAATCGGAGTCGTCCACGT+TGG | + | chr1_1:72323557-72323576 | Msa0041800:CDS | 60.0% | |
| GGTGGCACGGCCGAAGAACT+TGG | - | chr1_1:72323069-72323088 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 72322948 | 72323665 | 72322948 | ID=Msa0041800;Name=Msa0041800 |
| chr1_1 | mRNA | 72322948 | 72323665 | 72322948 | ID=Msa0041800-mRNA-1;Parent=Msa0041800;Name=Msa0041800-mRNA-1;_AED=0.17;_eAED=0.18;_QI=0|0|0|1|1|1|2|0|179 |
| chr1_1 | exon | 72322948 | 72323131 | 72322948 | ID=Msa0041800-mRNA-1:exon:24062;Parent=Msa0041800-mRNA-1 |
| chr1_1 | exon | 72323310 | 72323665 | 72323310 | ID=Msa0041800-mRNA-1:exon:24063;Parent=Msa0041800-mRNA-1 |
| chr1_1 | CDS | 72322948 | 72323131 | 72322948 | ID=Msa0041800-mRNA-1:cds;Parent=Msa0041800-mRNA-1 |
| chr1_1 | CDS | 72323310 | 72323665 | 72323310 | ID=Msa0041800-mRNA-1:cds;Parent=Msa0041800-mRNA-1 |
| Gene Sequence |
| Protein sequence |
