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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0062470 | XP_039683887.1 | 54.331 | 127 | 32 | 1 | 1 | 101 | 109 | 235 | 1.13e-34 | 136 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0062470 | A0A1S3UZQ2 | 38.710 | 124 | 50 | 1 | 5 | 102 | 101 | 224 | 1.16e-18 | 87.8 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0062470 | TF | FAR1 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0062470 | MtrunA17_Chr5g0441581 | 38.017 | 121 | 56 | 2 | 1 | 102 | 93 | 213 | 1.73e-17 | 76.3 |
| Msa0062470 | MtrunA17_Chr2g0296781 | 29.688 | 128 | 63 | 2 | 1 | 101 | 57 | 184 | 1.10e-11 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 23 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAAGATATCAATGGGTTTAA+AGG | 0.266552 | 1_2:-21949368 | Msa0062470:CDS |
| GAAAGATGTAAGAAACCTTA+TGG | 0.397122 | 1_2:-21949136 | Msa0062470:CDS |
| GACGTATTGCTTTAGCCATA+AGG | 0.416580 | 1_2:+21949121 | None:intergenic |
| TGCTCAGCTAAGATATCAAT+GGG | 0.432760 | 1_2:-21949376 | Msa0062470:CDS |
| TTGCTCAGCTAAGATATCAA+TGG | 0.437284 | 1_2:-21949377 | Msa0062470:CDS |
| TGGGTTTAAAGGAAGGTGTA+TGG | 0.474502 | 1_2:-21949357 | Msa0062470:CDS |
| TAAACGATGAGGCAGGGGTA+AGG | 0.490329 | 1_2:-21949224 | Msa0062470:intron |
| CTTATCTCATGACTATGATC+AGG | 0.504510 | 1_2:+21949316 | None:intergenic |
| CGGGAAGGAGGGAGACAGAT+GGG | 0.520059 | 1_2:-21949094 | Msa0062470:CDS |
| TTACGAGAATCTAACATTTG+TGG | 0.525014 | 1_2:-21949160 | Msa0062470:CDS |
| AAACGATGAGGCAGGGGTAA+GGG | 0.532620 | 1_2:-21949223 | Msa0062470:intron |
| GCTAAAGCAATACGTCATCT+CGG | 0.536447 | 1_2:-21949114 | Msa0062470:CDS |
| CTAAAGCAATACGTCATCTC+GGG | 0.536576 | 1_2:-21949113 | Msa0062470:CDS |
| ATATCAATGGGTTTAAAGGA+AGG | 0.548850 | 1_2:-21949364 | Msa0062470:CDS |
| CATAGTCATGAGATAAGTCT+AGG | 0.557062 | 1_2:-21949310 | Msa0062470:intron |
| TCGGGAAGGAGGGAGACAGA+TGG | 0.568376 | 1_2:-21949095 | Msa0062470:CDS |
| AATACGTCATCTCGGGAAGG+AGG | 0.580185 | 1_2:-21949106 | Msa0062470:CDS |
| TAATTATGAGGACGAATCCA+AGG | 0.586968 | 1_2:-21949411 | None:intergenic |
| ACCATCGGTATCACATACAA+TGG | 0.597205 | 1_2:+21949182 | None:intergenic |
| ATACGTCATCTCGGGAAGGA+GGG | 0.617453 | 1_2:-21949105 | Msa0062470:CDS |
| TGTTAGATTCTCGTAACCAT+CGG | 0.622431 | 1_2:+21949167 | None:intergenic |
| TCCATTGTATGTGATACCGA+TGG | 0.642466 | 1_2:-21949183 | Msa0062470:CDS |
| AGCAATACGTCATCTCGGGA+AGG | 0.649632 | 1_2:-21949109 | Msa0062470:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAAATTTGATAAACGATG+AGG | - | chr1_2:21949212-21949231 | Msa0062470:CDS | 20.0% |
| !!! | TAAATTACTTTTCTAGAATG+AGG | - | chr1_2:21949382-21949401 | Msa0062470:CDS | 20.0% |
| !!! | AAATTACTTTTCTAGAATGA+GGG | - | chr1_2:21949383-21949402 | Msa0062470:CDS | 20.0% |
| !! | TAAGATATCAATGGGTTTAA+AGG | - | chr1_2:21949079-21949098 | Msa0062470:CDS | 25.0% |
| ! | ATATCAATGGGTTTAAAGGA+AGG | - | chr1_2:21949083-21949102 | Msa0062470:CDS | 30.0% |
| AGATAAGTCTAGGTAAATCA+CGG | - | chr1_2:21949147-21949166 | Msa0062470:CDS | 30.0% | |
| TTACGAGAATCTAACATTTG+TGG | - | chr1_2:21949287-21949306 | Msa0062470:intron | 30.0% | |
| GAAAGATGTAAGAAACCTTA+TGG | - | chr1_2:21949311-21949330 | Msa0062470:CDS | 30.0% | |
| TTGCTCAGCTAAGATATCAA+TGG | - | chr1_2:21949070-21949089 | Msa0062470:CDS | 35.0% | |
| TGCTCAGCTAAGATATCAAT+GGG | - | chr1_2:21949071-21949090 | Msa0062470:CDS | 35.0% | |
| CTTATCTCATGACTATGATC+AGG | + | chr1_2:21949134-21949153 | None:intergenic | 35.0% | |
| CATAGTCATGAGATAAGTCT+AGG | - | chr1_2:21949137-21949156 | Msa0062470:CDS | 35.0% | |
| AATTTGATAAACGATGAGGC+AGG | - | chr1_2:21949216-21949235 | Msa0062470:intron | 35.0% | |
| ATTTGATAAACGATGAGGCA+GGG | - | chr1_2:21949217-21949236 | Msa0062470:intron | 35.0% | |
| TGTTAGATTCTCGTAACCAT+CGG | + | chr1_2:21949283-21949302 | None:intergenic | 35.0% | |
| ! | GAGCAAGTAACTCTTTTCCT+TGG | + | chr1_2:21949056-21949075 | None:intergenic | 40.0% |
| ! | TGGGTTTAAAGGAAGGTGTA+TGG | - | chr1_2:21949090-21949109 | Msa0062470:CDS | 40.0% |
| GTAAATCACGGTTGTTTGCT+GGG | - | chr1_2:21949159-21949178 | Msa0062470:CDS | 40.0% | |
| TTTGATAAACGATGAGGCAG+GGG | - | chr1_2:21949218-21949237 | Msa0062470:intron | 40.0% | |
| TCCATTGTATGTGATACCGA+TGG | - | chr1_2:21949264-21949283 | Msa0062470:intron | 40.0% | |
| ACCATCGGTATCACATACAA+TGG | + | chr1_2:21949268-21949287 | None:intergenic | 40.0% | |
| GACGTATTGCTTTAGCCATA+AGG | + | chr1_2:21949329-21949348 | None:intergenic | 40.0% | |
| GCTAAAGCAATACGTCATCT+CGG | - | chr1_2:21949333-21949352 | Msa0062470:CDS | 40.0% | |
| CTAAAGCAATACGTCATCTC+GGG | - | chr1_2:21949334-21949353 | Msa0062470:CDS | 40.0% | |
| GGTAAATCACGGTTGTTTGC+TGG | - | chr1_2:21949158-21949177 | Msa0062470:CDS | 45.0% | |
| TAAACGATGAGGCAGGGGTA+AGG | - | chr1_2:21949223-21949242 | Msa0062470:intron | 50.0% | |
| AAACGATGAGGCAGGGGTAA+GGG | - | chr1_2:21949224-21949243 | Msa0062470:intron | 50.0% | |
| AGCAATACGTCATCTCGGGA+AGG | - | chr1_2:21949338-21949357 | Msa0062470:CDS | 50.0% | |
| AATACGTCATCTCGGGAAGG+AGG | - | chr1_2:21949341-21949360 | Msa0062470:CDS | 50.0% | |
| ATACGTCATCTCGGGAAGGA+GGG | - | chr1_2:21949342-21949361 | Msa0062470:CDS | 50.0% | |
| TCGGGAAGGAGGGAGACAGA+TGG | - | chr1_2:21949352-21949371 | Msa0062470:CDS | 60.0% | |
| CGGGAAGGAGGGAGACAGAT+GGG | - | chr1_2:21949353-21949372 | Msa0062470:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 21949041 | 21949428 | 21949041 | ID=Msa0062470;Name=Msa0062470 |
| chr1_2 | mRNA | 21949041 | 21949428 | 21949041 | ID=Msa0062470-mRNA-1;Parent=Msa0062470;Name=Msa0062470-mRNA-1;_AED=0.58;_eAED=0.58;_QI=0|0|0|1|1|1|2|0|102 |
| chr1_2 | exon | 21949311 | 21949428 | 21949311 | ID=Msa0062470-mRNA-1:exon:8133;Parent=Msa0062470-mRNA-1 |
| chr1_2 | exon | 21949041 | 21949231 | 21949041 | ID=Msa0062470-mRNA-1:exon:8132;Parent=Msa0062470-mRNA-1 |
| chr1_2 | CDS | 21949311 | 21949428 | 21949311 | ID=Msa0062470-mRNA-1:cds;Parent=Msa0062470-mRNA-1 |
| chr1_2 | CDS | 21949041 | 21949231 | 21949041 | ID=Msa0062470-mRNA-1:cds;Parent=Msa0062470-mRNA-1 |
| Gene Sequence |
| Protein sequence |
