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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0179180 | sp|Q9SN23|LBD38_ARATH | 68.644 | 118 | 35 | 1 | 1 | 118 | 1 | 116 | 5.25e-53 | 172 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0179180 | G7IE59 | 86.628 | 172 | 6 | 3 | 1 | 172 | 1 | 155 | 5.36e-100 | 295 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0179180 | TF | LOB |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0041800 | Msa0179180 | 0.843619 | 1.253307e-58 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0179180 | MtrunA17_Chr1g0207471 | 86.628 | 172 | 6 | 3 | 1 | 172 | 1 | 155 | 1.03e-103 | 295 |
| Msa0179180 | MtrunA17_Chr5g0401401 | 62.406 | 133 | 47 | 2 | 1 | 133 | 1 | 130 | 7.24e-55 | 173 |
| Msa0179180 | MtrunA17_Chr4g0053911 | 53.448 | 174 | 76 | 3 | 1 | 174 | 1 | 169 | 1.57e-54 | 172 |
| Msa0179180 | MtrunA17_Chr7g0215281 | 61.538 | 104 | 40 | 0 | 1 | 104 | 3 | 106 | 3.54e-46 | 153 |
| Msa0179180 | MtrunA17_Chr6g0457431 | 44.654 | 159 | 83 | 2 | 1 | 159 | 3 | 156 | 1.95e-45 | 147 |
| Msa0179180 | MtrunA17_Chr6g0469271 | 46.565 | 131 | 55 | 3 | 1 | 125 | 3 | 124 | 7.54e-38 | 129 |
| Msa0179180 | MtrunA17_Chr6g0470651 | 43.307 | 127 | 65 | 2 | 1 | 125 | 3 | 124 | 4.25e-35 | 122 |
| Msa0179180 | MtrunA17_Chr6g0470631 | 41.732 | 127 | 67 | 2 | 1 | 125 | 3 | 124 | 9.72e-34 | 119 |
| Msa0179180 | MtrunA17_Chr1g0209841 | 36.875 | 160 | 86 | 5 | 1 | 157 | 3 | 150 | 2.09e-30 | 110 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0179180 | AT3G49940.1 | 68.644 | 118 | 35 | 1 | 1 | 118 | 1 | 116 | 5.34e-54 | 172 |
| Msa0179180 | AT5G67420.2 | 67.241 | 116 | 36 | 1 | 1 | 116 | 1 | 114 | 4.20e-53 | 169 |
| Msa0179180 | AT5G67420.1 | 67.241 | 116 | 36 | 1 | 1 | 116 | 1 | 114 | 4.20e-53 | 169 |
| Msa0179180 | AT4G37540.1 | 60.902 | 133 | 47 | 2 | 1 | 129 | 1 | 132 | 1.87e-50 | 162 |
| Msa0179180 | AT3G02550.1 | 61.538 | 104 | 40 | 0 | 1 | 104 | 3 | 106 | 3.24e-46 | 152 |
| Msa0179180 | AT1G67100.1 | 60.000 | 105 | 42 | 0 | 1 | 105 | 3 | 107 | 5.88e-44 | 145 |
| Msa0179180 | AT1G68510.1 | 41.279 | 172 | 91 | 3 | 1 | 164 | 3 | 172 | 1.05e-41 | 140 |
Find 46 sgRNAs with CRISPR-Local
Find 51 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCAACAGCAAGAGTTTATTT+TGG | 0.186602 | 1_4:-66609006 | Msa0179180:CDS |
| AGCCCAACTGCTCCATTTAC+TGG | 0.215944 | 1_4:+66609167 | None:intergenic |
| TTTATGACATACATGATCTT+TGG | 0.296751 | 1_4:+66609405 | None:intergenic |
| AGAACTATAAATCCAGTAAA+TGG | 0.325401 | 1_4:-66609179 | Msa0179180:CDS |
| ATGGAGCAGTTGGGCTGTTA+TGG | 0.333353 | 1_4:-66609160 | Msa0179180:CDS |
| GTCTTTGTCACCAAGTTCTT+CGG | 0.371969 | 1_4:-66609470 | Msa0179180:CDS |
| TGTAATGAAGAAGCACAATC+TGG | 0.379276 | 1_4:-66608975 | Msa0179180:CDS |
| GATCTTTGGTTGGGAGGAAC+AGG | 0.395798 | 1_4:+66609419 | None:intergenic |
| GACATACATGATCTTTGGTT+GGG | 0.427328 | 1_4:+66609410 | None:intergenic |
| CACTTATGTATGAAGCTGTT+GGG | 0.452221 | 1_4:-66609202 | Msa0179180:CDS |
| TGGCGTTAGCCTGTGCTTGT+GGG | 0.452316 | 1_4:+66609495 | None:intergenic |
| TCCACACCTAACAACTGATC+AGG | 0.464754 | 1_4:+66609062 | None:intergenic |
| GGTGGCACGGCCGAAGAACT+TGG | 0.467396 | 1_4:+66609460 | None:intergenic |
| AATCCAGTAAATGGAGCAGT+TGG | 0.467406 | 1_4:-66609170 | Msa0179180:CDS |
| GCACTCCCTGATCAGTTGTT+AGG | 0.477941 | 1_4:-66609068 | Msa0179180:CDS |
| GTGGCGTTAGCCTGTGCTTG+TGG | 0.478831 | 1_4:+66609494 | None:intergenic |
| TGACATACATGATCTTTGGT+TGG | 0.489850 | 1_4:+66609409 | None:intergenic |
| CCCTGATCAGTTGTTAGGTG+TGG | 0.497837 | 1_4:-66609063 | Msa0179180:CDS |
| CCAAAATAAACTCTTGCTGT+TGG | 0.526318 | 1_4:+66609006 | None:intergenic |
| ATCCAGTAAATGGAGCAGTT+GGG | 0.536591 | 1_4:-66609169 | Msa0179180:CDS |
| TCACTTATGTATGAAGCTGT+TGG | 0.539852 | 1_4:-66609203 | Msa0179180:CDS |
| TGCATCCCTTTCTCAAAACT+CGG | 0.542491 | 1_4:+66609561 | None:intergenic |
| GAACAAGTGCTGAGAGGTAA+CGG | 0.548928 | 1_4:-66609104 | Msa0179180:CDS |
| GATACAAAACCCACAAGCAC+AGG | 0.556238 | 1_4:-66609504 | Msa0179180:CDS |
| TATAATAAAATGAGTTGCAA+CGG | 0.559441 | 1_4:-66609587 | None:intergenic |
| TTTGAGAAAGGGATGCAGTG+AGG | 0.560200 | 1_4:-66609555 | Msa0179180:CDS |
| CAGCTTCATACATAAGTGAC+TGG | 0.569517 | 1_4:+66609207 | None:intergenic |
| GTAATGAAGAAGCACAATCT+GGG | 0.578649 | 1_4:-66608974 | Msa0179180:CDS |
| ATACATGATCTTTGGTTGGG+AGG | 0.585857 | 1_4:+66609413 | None:intergenic |
| AGTACTCTAGAGTGGTGAGA+AGG | 0.591970 | 1_4:-66608941 | Msa0179180:CDS |
| GGCTGTTATGGACTGGAAAG+TGG | 0.603769 | 1_4:-66609148 | Msa0179180:CDS |
| GAAAAGACATGAGGGTGGCA+CGG | 0.613200 | 1_4:+66609447 | None:intergenic |
| CGTGCGGAGACACGAGTCTG+AGG | 0.614177 | 1_4:-66608894 | None:intergenic |
| GCAGTTGGGCTGTTATGGAC+TGG | 0.615948 | 1_4:-66609155 | Msa0179180:CDS |
| CCACACCTAACAACTGATCA+GGG | 0.634962 | 1_4:+66609063 | None:intergenic |
| GATTTCACAGTACTCTAGAG+TGG | 0.637833 | 1_4:-66608949 | Msa0179180:CDS |
| AAGTGGCAATTCTGTCAACT+TGG | 0.652925 | 1_4:-66609131 | Msa0179180:CDS |
| CCAAGCAGAAAAGCAACGTG+CGG | 0.655633 | 1_4:-66608910 | Msa0179180:CDS |
| CAGGTGAAAGAAAAGACATG+AGG | 0.660626 | 1_4:+66609438 | None:intergenic |
| AGGTGAAAGAAAAGACATGA+GGG | 0.666800 | 1_4:+66609439 | None:intergenic |
| TAACAACTGATCAGGGAGTG+CGG | 0.677605 | 1_4:+66609070 | None:intergenic |
| TGCTACGAGATTGTCTAACG+TGG | 0.685370 | 1_4:-66609526 | Msa0179180:CDS |
| GAACTTGGTGACAAAGACAG+TGG | 0.712149 | 1_4:+66609475 | None:intergenic |
| TGAAAGAAAAGACATGAGGG+TGG | 0.725920 | 1_4:+66609442 | None:intergenic |
| GGTGTTGAACAAGTGCTGAG+AGG | 0.756300 | 1_4:-66609110 | Msa0179180:CDS |
| CAAGTGCTGAGAGGTAACGG+CGG | 0.757236 | 1_4:-66609101 | Msa0179180:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ACTAATTTGTATGTATATAT+AGG | - | chr1_4:66609164-66609183 | Msa0179180:CDS | 15.0% |
| !!! | ACAAATTAGTTTGATGTATT+TGG | + | chr1_4:66609154-66609173 | None:intergenic | 20.0% |
| !! | ATTCAATTACTCTATATTAC+AGG | - | chr1_4:66609238-66609257 | Msa0179180:intron | 20.0% |
| ! | TTTATGACATACATGATCTT+TGG | + | chr1_4:66609072-66609091 | None:intergenic | 25.0% |
| ! | AGAACTATAAATCCAGTAAA+TGG | - | chr1_4:66609295-66609314 | Msa0179180:intron | 25.0% |
| !! | CAACAGCAAGAGTTTATTTT+GGG | - | chr1_4:66609469-66609488 | Msa0179180:CDS | 30.0% |
| AGGTGAAAGAAAAGACATGA+GGG | + | chr1_4:66609038-66609057 | None:intergenic | 35.0% | |
| GACATACATGATCTTTGGTT+GGG | + | chr1_4:66609067-66609086 | None:intergenic | 35.0% | |
| TGACATACATGATCTTTGGT+TGG | + | chr1_4:66609068-66609087 | None:intergenic | 35.0% | |
| TCACTTATGTATGAAGCTGT+TGG | - | chr1_4:66609271-66609290 | Msa0179180:intron | 35.0% | |
| CACTTATGTATGAAGCTGTT+GGG | - | chr1_4:66609272-66609291 | Msa0179180:intron | 35.0% | |
| ! | CCAAAATAAACTCTTGCTGT+TGG | + | chr1_4:66609471-66609490 | None:intergenic | 35.0% |
| ! | CCAACAGCAAGAGTTTATTT+TGG | - | chr1_4:66609468-66609487 | Msa0179180:CDS | 35.0% |
| ! | TGTAATGAAGAAGCACAATC+TGG | - | chr1_4:66609499-66609518 | Msa0179180:CDS | 35.0% |
| ! | GTAATGAAGAAGCACAATCT+GGG | - | chr1_4:66609500-66609519 | Msa0179180:CDS | 35.0% |
| TGCATCCCTTTCTCAAAACT+CGG | + | chr1_4:66608916-66608935 | None:intergenic | 40.0% | |
| GTCTTTGTCACCAAGTTCTT+CGG | - | chr1_4:66609004-66609023 | Msa0179180:CDS | 40.0% | |
| TGAAAGAAAAGACATGAGGG+TGG | + | chr1_4:66609035-66609054 | None:intergenic | 40.0% | |
| CAGGTGAAAGAAAAGACATG+AGG | + | chr1_4:66609039-66609058 | None:intergenic | 40.0% | |
| ATACATGATCTTTGGTTGGG+AGG | + | chr1_4:66609064-66609083 | None:intergenic | 40.0% | |
| CAGCTTCATACATAAGTGAC+TGG | + | chr1_4:66609270-66609289 | None:intergenic | 40.0% | |
| AATCCAGTAAATGGAGCAGT+TGG | - | chr1_4:66609304-66609323 | Msa0179180:intron | 40.0% | |
| ATCCAGTAAATGGAGCAGTT+GGG | - | chr1_4:66609305-66609324 | Msa0179180:intron | 40.0% | |
| AAGTGGCAATTCTGTCAACT+TGG | - | chr1_4:66609343-66609362 | Msa0179180:intron | 40.0% | |
| ! | GATTTCACAGTACTCTAGAG+TGG | - | chr1_4:66609525-66609544 | Msa0179180:CDS | 40.0% |
| !!! | GGTTGCCGAGTTTTGAGAAA+GGG | - | chr1_4:66608908-66608927 | Msa0179180:CDS | 45.0% |
| TTTGAGAAAGGGATGCAGTG+AGG | - | chr1_4:66608919-66608938 | Msa0179180:CDS | 45.0% | |
| TGCTACGAGATTGTCTAACG+TGG | - | chr1_4:66608948-66608967 | Msa0179180:CDS | 45.0% | |
| GATACAAAACCCACAAGCAC+AGG | - | chr1_4:66608970-66608989 | Msa0179180:CDS | 45.0% | |
| ! | GAACTTGGTGACAAAGACAG+TGG | + | chr1_4:66609002-66609021 | None:intergenic | 45.0% |
| !! | GAACAAGTGCTGAGAGGTAA+CGG | - | chr1_4:66609370-66609389 | Msa0179180:intron | 45.0% |
| TAACAACTGATCAGGGAGTG+CGG | + | chr1_4:66609407-66609426 | None:intergenic | 45.0% | |
| CCACACCTAACAACTGATCA+GGG | + | chr1_4:66609414-66609433 | None:intergenic | 45.0% | |
| TCCACACCTAACAACTGATC+AGG | + | chr1_4:66609415-66609434 | None:intergenic | 45.0% | |
| !! | AGTACTCTAGAGTGGTGAGA+AGG | - | chr1_4:66609533-66609552 | Msa0179180:CDS | 45.0% |
| !!! | CGGTTGCCGAGTTTTGAGAA+AGG | - | chr1_4:66608907-66608926 | Msa0179180:CDS | 50.0% |
| GAAAAGACATGAGGGTGGCA+CGG | + | chr1_4:66609030-66609049 | None:intergenic | 50.0% | |
| GATCTTTGGTTGGGAGGAAC+AGG | + | chr1_4:66609058-66609077 | None:intergenic | 50.0% | |
| AGCCCAACTGCTCCATTTAC+TGG | + | chr1_4:66609310-66609329 | None:intergenic | 50.0% | |
| ATGGAGCAGTTGGGCTGTTA+TGG | - | chr1_4:66609314-66609333 | Msa0179180:intron | 50.0% | |
| !! | GGCTGTTATGGACTGGAAAG+TGG | - | chr1_4:66609326-66609345 | Msa0179180:intron | 50.0% |
| !! | GGTGTTGAACAAGTGCTGAG+AGG | - | chr1_4:66609364-66609383 | Msa0179180:intron | 50.0% |
| GCACTCCCTGATCAGTTGTT+AGG | - | chr1_4:66609406-66609425 | Msa0179180:intron | 50.0% | |
| CCCTGATCAGTTGTTAGGTG+TGG | - | chr1_4:66609411-66609430 | Msa0179180:intron | 50.0% | |
| CCAAGCAGAAAAGCAACGTG+CGG | - | chr1_4:66609564-66609583 | Msa0179180:CDS | 50.0% | |
| ! | TGGCGTTAGCCTGTGCTTGT+GGG | + | chr1_4:66608982-66609001 | None:intergenic | 55.0% |
| GCAGTTGGGCTGTTATGGAC+TGG | - | chr1_4:66609319-66609338 | Msa0179180:intron | 55.0% | |
| !! | CAAGTGCTGAGAGGTAACGG+CGG | - | chr1_4:66609373-66609392 | Msa0179180:intron | 55.0% |
| !!! | CCGCACGTTGCTTTTCTGCT+TGG | + | chr1_4:66609567-66609586 | None:intergenic | 55.0% |
| ! | GTGGCGTTAGCCTGTGCTTG+TGG | + | chr1_4:66608983-66609002 | None:intergenic | 60.0% |
| GGTGGCACGGCCGAAGAACT+TGG | + | chr1_4:66609017-66609036 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 66608896 | 66609600 | 66608896 | ID=Msa0179180;Name=Msa0179180 |
| chr1_4 | mRNA | 66608896 | 66609600 | 66608896 | ID=Msa0179180-mRNA-1;Parent=Msa0179180;Name=Msa0179180-mRNA-1;_AED=0.09;_eAED=0.10;_QI=0|0|0|1|1|1|2|0|174 |
| chr1_4 | exon | 66609417 | 66609600 | 66609417 | ID=Msa0179180-mRNA-1:exon:21863;Parent=Msa0179180-mRNA-1 |
| chr1_4 | exon | 66608896 | 66609236 | 66608896 | ID=Msa0179180-mRNA-1:exon:21862;Parent=Msa0179180-mRNA-1 |
| chr1_4 | CDS | 66609417 | 66609600 | 66609417 | ID=Msa0179180-mRNA-1:cds;Parent=Msa0179180-mRNA-1 |
| chr1_4 | CDS | 66608896 | 66609236 | 66608896 | ID=Msa0179180-mRNA-1:cds;Parent=Msa0179180-mRNA-1 |
| Gene Sequence |
| Protein sequence |
