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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0947200 | XP_013442392.1 | 69.048 | 84 | 20 | 2 | 1 | 79 | 1 | 83 | 2.11e-26 | 105 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0947200 | A0A072TGE6 | 69.048 | 84 | 20 | 2 | 1 | 79 | 1 | 83 | 1.01e-26 | 105 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0946950 | Msa0947200 | 0.864633 | 1.056896e-64 | -8.615850e-47 |
| Msa0947120 | Msa0947200 | 0.963780 | 1.659867e-122 | -8.615850e-47 |
| Msa0947140 | Msa0947200 | 0.955089 | 6.754440e-113 | -8.615850e-47 |
| Msa0947200 | Msa0947250 | 0.988495 | 3.056054e-174 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0947200 | MtrunA17_Chr5g0421971 | 69.048 | 84 | 20 | 2 | 1 | 79 | 1 | 83 | 1.94e-30 | 105 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 27 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTTCAAAATAAACAGAAAA+AGG | 0.258915 | 6_3:-29706047 | None:intergenic |
| GAATGCATACCATTTGAAAA+AGG | 0.268980 | 6_3:-29706222 | None:intergenic |
| TTCATCAAATGTTGAATGTT+TGG | 0.271423 | 6_3:-29706434 | None:intergenic |
| GTGAGGAATGTTACATAAAA+AGG | 0.291799 | 6_3:-29706481 | None:intergenic |
| CATCGTATTCTTGCTCTTGA+TGG | 0.294445 | 6_3:+29706194 | Msa0947200:CDS |
| TCATCAAATGTTGAATGTTT+GGG | 0.308145 | 6_3:-29706433 | None:intergenic |
| ATCACTCATTACTTGTAATA+TGG | 0.326647 | 6_3:+29706130 | Msa0947200:exon |
| GTGAATGTGTGTTTGCTTGT+TGG | 0.383403 | 6_3:-29706080 | None:intergenic |
| CCGACAAGATTCAATTCAAA+AGG | 0.430763 | 6_3:+29706381 | Msa0947200:CDS |
| AATGTTTGGGCGAGTTCGCT+TGG | 0.457071 | 6_3:-29706420 | None:intergenic |
| AAAAGGCGATAAGGCGAAAT+GGG | 0.467083 | 6_3:-29706464 | None:intergenic |
| TTCAATTCAAAAGGTTACTC+GGG | 0.494752 | 6_3:+29706390 | Msa0947200:CDS |
| ATTCAATTCAAAAGGTTACT+CGG | 0.526470 | 6_3:+29706389 | Msa0947200:CDS |
| TGTGTTTGCTTGTTGGTGTG+TGG | 0.532745 | 6_3:-29706073 | None:intergenic |
| TATGTCCGTTGCTATTGCAT+TGG | 0.542831 | 6_3:+29706350 | Msa0947200:CDS |
| AAGAGCAAGAATACGATGAA+TGG | 0.543557 | 6_3:-29706189 | None:intergenic |
| GGCGATAAGGCGAAATGGGT+TGG | 0.554242 | 6_3:-29706460 | None:intergenic |
| TGTATGTATGTAGGAACTTG+TGG | 0.628148 | 6_3:+29706327 | Msa0947200:intron |
| CACAGCCAATGCAATAGCAA+CGG | 0.630578 | 6_3:-29706355 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TGTTTTGTTTATTTTCATAA+TGG | + | chr6_3:29706107-29706126 | Msa0947200:five_prime_UTR | 15.0% |
| !! | AAGAATAAGAGTTAAAAAAA+GGG | + | chr6_3:29706160-29706179 | Msa0947200:CDS | 15.0% |
| !! | GTTCAAAATAAACAGAAAAA+GGG | - | chr6_3:29706049-29706068 | None:intergenic | 20.0% |
| !! | TGTTCAAAATAAACAGAAAA+AGG | - | chr6_3:29706050-29706069 | None:intergenic | 20.0% |
| !! | GAAGAATAAGAGTTAAAAAA+AGG | + | chr6_3:29706159-29706178 | Msa0947200:CDS | 20.0% |
| !! | AAAATGAAAGAAAGAAGAAA+AGG | - | chr6_3:29706259-29706278 | None:intergenic | 20.0% |
| ! | ATCACTCATTACTTGTAATA+TGG | + | chr6_3:29706130-29706149 | Msa0947200:exon | 25.0% |
| ! | AATTGAATGTGTATGTATGT+AGG | + | chr6_3:29706318-29706337 | Msa0947200:intron | 25.0% |
| ! | ATTCAATTCAAAAGGTTACT+CGG | + | chr6_3:29706389-29706408 | Msa0947200:CDS | 25.0% |
| ! | TCATCAAATGTTGAATGTTT+GGG | - | chr6_3:29706436-29706455 | None:intergenic | 25.0% |
| ! | TTCATCAAATGTTGAATGTT+TGG | - | chr6_3:29706437-29706456 | None:intergenic | 25.0% |
| GAATGCATACCATTTGAAAA+AGG | - | chr6_3:29706225-29706244 | None:intergenic | 30.0% | |
| ! | CCTTTTGAATTGAATCTTGT+CGG | - | chr6_3:29706384-29706403 | None:intergenic | 30.0% |
| TTCAATTCAAAAGGTTACTC+GGG | + | chr6_3:29706390-29706409 | Msa0947200:CDS | 30.0% | |
| AAGAGCAAGAATACGATGAA+TGG | - | chr6_3:29706192-29706211 | None:intergenic | 35.0% | |
| !!! | ATGGAAGTGCCTTTTTCAAA+TGG | + | chr6_3:29706213-29706232 | Msa0947200:CDS | 35.0% |
| TGTATGTATGTAGGAACTTG+TGG | + | chr6_3:29706327-29706346 | Msa0947200:intron | 35.0% | |
| CCGACAAGATTCAATTCAAA+AGG | + | chr6_3:29706381-29706400 | Msa0947200:CDS | 35.0% | |
| GTGAATGTGTGTTTGCTTGT+TGG | - | chr6_3:29706083-29706102 | None:intergenic | 40.0% | |
| CATCGTATTCTTGCTCTTGA+TGG | + | chr6_3:29706194-29706213 | Msa0947200:CDS | 40.0% | |
| ! | TATGTCCGTTGCTATTGCAT+TGG | + | chr6_3:29706350-29706369 | Msa0947200:CDS | 40.0% |
| AAAAGGCGATAAGGCGAAAT+GGG | - | chr6_3:29706467-29706486 | None:intergenic | 40.0% | |
| AAAAAGGCGATAAGGCGAAA+TGG | - | chr6_3:29706468-29706487 | None:intergenic | 40.0% | |
| ! | TGTGTTTGCTTGTTGGTGTG+TGG | - | chr6_3:29706076-29706095 | None:intergenic | 45.0% |
| CACAGCCAATGCAATAGCAA+CGG | - | chr6_3:29706358-29706377 | None:intergenic | 45.0% | |
| AATGTTTGGGCGAGTTCGCT+TGG | - | chr6_3:29706423-29706442 | None:intergenic | 50.0% | |
| GGCGATAAGGCGAAATGGGT+TGG | - | chr6_3:29706463-29706482 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 29706031 | 29706493 | 29706031 | ID=Msa0947200;Name=Msa0947200 |
| chr6_3 | mRNA | 29706031 | 29706493 | 29706031 | ID=Msa0947200-mRNA-1;Parent=Msa0947200;Name=Msa0947200-mRNA-1;_AED=0.03;_eAED=0.18;_QI=118|1|0.5|1|1|1|2|0|79 |
| chr6_3 | exon | 29706031 | 29706234 | 29706031 | ID=Msa0947200-mRNA-1:exon:7857;Parent=Msa0947200-mRNA-1 |
| chr6_3 | exon | 29706340 | 29706493 | 29706340 | ID=Msa0947200-mRNA-1:exon:7858;Parent=Msa0947200-mRNA-1 |
| chr6_3 | five_prime_UTR | 29706031 | 29706148 | 29706031 | ID=Msa0947200-mRNA-1:five_prime_utr;Parent=Msa0947200-mRNA-1 |
| chr6_3 | CDS | 29706149 | 29706234 | 29706149 | ID=Msa0947200-mRNA-1:cds;Parent=Msa0947200-mRNA-1 |
| chr6_3 | CDS | 29706340 | 29706493 | 29706340 | ID=Msa0947200-mRNA-1:cds;Parent=Msa0947200-mRNA-1 |
| Gene Sequence |
| Protein sequence |
