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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0624830 | XP_013454572.1 | 82.000 | 50 | 9 | 0 | 1 | 50 | 3 | 52 | 4.62e-19 | 87.8 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0624830 | sp|Q9LRM4|MIP1B_ARATH | 55.814 | 43 | 19 | 0 | 5 | 47 | 30 | 72 | 7.03e-11 | 56.2 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0624830 | A0A072UHJ8 | 82.000 | 50 | 9 | 0 | 1 | 50 | 3 | 52 | 2.21e-19 | 87.8 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0624830 | TR | Others |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0366560 | Msa0624830 | 0.800380 | 1.481140e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0624830 | MtrunA17_Chr4g0002211 | 82.000 | 50 | 9 | 0 | 1 | 50 | 3 | 52 | 4.25e-23 | 87.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0624830 | AT3G21890.1 | 55.814 | 43 | 19 | 0 | 5 | 47 | 30 | 72 | 7.15e-12 | 56.2 |
| Msa0624830 | AT4G27310.1 | 45.161 | 62 | 34 | 0 | 4 | 65 | 3 | 64 | 5.09e-11 | 55.8 |
| Msa0624830 | AT5G54470.1 | 47.692 | 65 | 34 | 0 | 1 | 65 | 1 | 65 | 6.18e-11 | 55.5 |
| Msa0624830 | AT4G15248.1 | 50.000 | 42 | 21 | 0 | 6 | 47 | 32 | 73 | 8.78e-11 | 53.5 |
Find 15 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTGGTTTCGATTCAACAAT+AGG | 0.313181 | 4_3:-3595984 | None:intergenic |
| CCGATTCCGCCTTTCTCTGC+CGG | 0.365012 | 4_3:+3595410 | Msa0624830:CDS |
| ACAGGAGGTTCAACAACGTT+TGG | 0.425906 | 4_3:-3596002 | None:intergenic |
| ATGTTCAGTTTCGATTCAAC+AGG | 0.426479 | 4_3:-3596020 | None:intergenic |
| AGCTGCGACGACGCCGTTCA+CGG | 0.441391 | 4_3:+3595433 | Msa0624830:CDS |
| CCGGCAGAGAAAGGCGGAAT+CGG | 0.453844 | 4_3:-3595410 | None:intergenic |
| GATGTTCATACTTCAATCAA+TGG | 0.457481 | 4_3:-3596054 | None:intergenic |
| GAACGGCGTCGTCGCAGCTC+CGG | 0.476153 | 4_3:-3595429 | None:intergenic |
| GTCGCAGCTCCGGCAGAGAA+AGG | 0.496029 | 4_3:-3595419 | None:intergenic |
| ATGTTCATACTTCAATCAAT+GGG | 0.512136 | 4_3:-3596053 | None:intergenic |
| TTCAGTTTCGATTCAACAGG+AGG | 0.527986 | 4_3:-3596017 | None:intergenic |
| CAGAGAAAGGCGGAATCGGA+AGG | 0.554491 | 4_3:-3595406 | None:intergenic |
| GAGGAAGTTAGCGCCGTGAA+CGG | 0.601829 | 4_3:-3595446 | None:intergenic |
| GCAGCTCCGGCAGAGAAAGG+CGG | 0.638220 | 4_3:-3595416 | None:intergenic |
| GTTGAATCGAAACTGAACAT+TGG | 0.677759 | 4_3:+3596023 | Msa0624830:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AGATATAAGTAACAAAAATA+TGG | + | chr4_3:3595665-3595684 | Msa0624830:intron | 15.0% |
| !!! | AATTTTTGCGATATTTTTTT+CGG | + | chr4_3:3595700-3595719 | Msa0624830:intron | 15.0% |
| !! | AAGCATAAATTAAACTAATT+TGG | + | chr4_3:3595784-3595803 | Msa0624830:intron | 15.0% |
| !! | AATGCTATTAAAATTAAGTA+AGG | + | chr4_3:3595856-3595875 | Msa0624830:intron | 15.0% |
| !! | ACCAAAAACAATAAATTAAA+GGG | - | chr4_3:3595930-3595949 | None:intergenic | 15.0% |
| !! | AACCAAAAACAATAAATTAA+AGG | - | chr4_3:3595931-3595950 | None:intergenic | 15.0% |
| !! | TTATGATGTAATTATAGTTA+TGG | + | chr4_3:3595956-3595975 | Msa0624830:intron | 15.0% |
| !!! | GTTTTTCAACAATTTTTTTC+AGG | - | chr4_3:3595754-3595773 | None:intergenic | 20.0% |
| !!! | TAAAGGGTTAATTATGTTTT+TGG | - | chr4_3:3595914-3595933 | None:intergenic | 20.0% |
| !!! | ACCCTTTAATTTATTGTTTT+TGG | + | chr4_3:3595926-3595945 | Msa0624830:intron | 20.0% |
| ! | GTGTTAAGAACGTTATTAAA+AGG | - | chr4_3:3595730-3595749 | None:intergenic | 25.0% |
| ! | AAACTAATTTGGATTGAGTA+AGG | + | chr4_3:3595795-3595814 | Msa0624830:intron | 25.0% |
| !!! | TTTTGCGATATTTTTTTCGG+AGG | + | chr4_3:3595703-3595722 | Msa0624830:intron | 30.0% |
| !!! | TGAGTGCAGAAATTTTTTGT+AGG | + | chr4_3:3595826-3595845 | Msa0624830:intron | 30.0% |
| !!! | GAGTGCAGAAATTTTTTGTA+GGG | + | chr4_3:3595827-3595846 | Msa0624830:intron | 30.0% |
| AAGTAAGGACTAAACTTACA+AGG | + | chr4_3:3595871-3595890 | Msa0624830:intron | 30.0% | |
| ! | TTTGGTTTCGATTCAACAAT+AGG | - | chr4_3:3595987-3596006 | None:intergenic | 30.0% |
| ! | TTACAAGGTCGCAATTTTGT+AGG | + | chr4_3:3595886-3595905 | Msa0624830:intron | 35.0% |
| ! | TACAAGGTCGCAATTTTGTA+GGG | + | chr4_3:3595887-3595906 | Msa0624830:intron | 35.0% |
| ATGTTCAGTTTCGATTCAAC+AGG | - | chr4_3:3596023-3596042 | None:intergenic | 35.0% | |
| GTTGAATCGAAACTGAACAT+TGG | + | chr4_3:3596023-3596042 | Msa0624830:CDS | 35.0% | |
| TTCAGTTTCGATTCAACAGG+AGG | - | chr4_3:3596020-3596039 | None:intergenic | 40.0% | |
| ACAGGAGGTTCAACAACGTT+TGG | - | chr4_3:3596005-3596024 | None:intergenic | 45.0% | |
| !!! | TAAATATGAATTTTTTAAAA+CGG | + | chr4_3:3595632-3595651 | Msa0624830:intron | 5.0% |
| CAGAGAAAGGCGGAATCGGA+AGG | - | chr4_3:3595409-3595428 | None:intergenic | 55.0% | |
| GAGGAAGTTAGCGCCGTGAA+CGG | - | chr4_3:3595449-3595468 | None:intergenic | 55.0% | |
| CCGGCAGAGAAAGGCGGAAT+CGG | - | chr4_3:3595413-3595432 | None:intergenic | 60.0% | |
| CCGATTCCGCCTTTCTCTGC+CGG | + | chr4_3:3595410-3595429 | Msa0624830:CDS | 60.0% | |
| GCAGCTCCGGCAGAGAAAGG+CGG | - | chr4_3:3595419-3595438 | None:intergenic | 65.0% | |
| GTCGCAGCTCCGGCAGAGAA+AGG | - | chr4_3:3595422-3595441 | None:intergenic | 65.0% | |
| AGCTGCGACGACGCCGTTCA+CGG | + | chr4_3:3595433-3595452 | Msa0624830:CDS | 65.0% | |
| GAACGGCGTCGTCGCAGCTC+CGG | - | chr4_3:3595432-3595451 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 3595355 | 3596064 | 3595355 | ID=Msa0624830;Name=Msa0624830 |
| chr4_3 | mRNA | 3595355 | 3596064 | 3595355 | ID=Msa0624830-mRNA-1;Parent=Msa0624830;Name=Msa0624830-mRNA-1;_AED=0.59;_eAED=0.59;_QI=0|0|0|0.5|1|1|2|0|70 |
| chr4_3 | exon | 3595355 | 3595475 | 3595355 | ID=Msa0624830-mRNA-1:exon:862;Parent=Msa0624830-mRNA-1 |
| chr4_3 | exon | 3595973 | 3596064 | 3595973 | ID=Msa0624830-mRNA-1:exon:863;Parent=Msa0624830-mRNA-1 |
| chr4_3 | CDS | 3595355 | 3595475 | 3595355 | ID=Msa0624830-mRNA-1:cds;Parent=Msa0624830-mRNA-1 |
| chr4_3 | CDS | 3595973 | 3596064 | 3595973 | ID=Msa0624830-mRNA-1:cds;Parent=Msa0624830-mRNA-1 |
| Gene Sequence |
| Protein sequence |
