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 |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0947140 | 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 | Msa0947140 | 0.880444 | 5.460959e-70 | -8.615850e-47 |
| Msa0947010 | Msa0947140 | 0.810840 | 9.436819e-51 | -8.615850e-47 |
| Msa0947120 | Msa0947140 | 0.979938 | 4.426261e-149 | -8.615850e-47 |
| Msa0947140 | Msa0947200 | 0.955089 | 6.754440e-113 | -8.615850e-47 |
| Msa0947140 | Msa0947250 | 0.969064 | 1.410081e-129 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0947140 | 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 18 sgRNAs with CRISPR-Local
Find 26 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTTCAAAATAAACAGAAAA+AGG | 0.258915 | 6_3:-29633226 | None:intergenic |
| GAATGCATACCATTTGAAAA+AGG | 0.268980 | 6_3:-29633401 | None:intergenic |
| TTCATCAAATGTTGAATGTT+TGG | 0.271423 | 6_3:-29633613 | None:intergenic |
| GTGAGGAATGTTACATAAAA+AGG | 0.291799 | 6_3:-29633660 | None:intergenic |
| CATCGTATTCTTGCTCTTGA+TGG | 0.294445 | 6_3:+29633373 | Msa0947140:CDS |
| TCATCAAATGTTGAATGTTT+GGG | 0.308145 | 6_3:-29633612 | None:intergenic |
| ATCACTCATTACTTGTAATA+TGG | 0.326647 | 6_3:+29633309 | Msa0947140:exon |
| GTGAATGTGTGTTTGCTTGT+TGG | 0.383403 | 6_3:-29633259 | None:intergenic |
| CCGACAAGATTCAATTCAAA+AGG | 0.430763 | 6_3:+29633560 | Msa0947140:CDS |
| AATGTTTGGGCGAGTTCGCT+TGG | 0.457071 | 6_3:-29633599 | None:intergenic |
| AAAAGGCGATAAGGCGAAAT+GGG | 0.467083 | 6_3:-29633643 | None:intergenic |
| TTCAATTCAAAAGGTTACTC+GGG | 0.494752 | 6_3:+29633569 | Msa0947140:CDS |
| TATGTTCGTTGCTATTGCAT+TGG | 0.513814 | 6_3:+29633529 | Msa0947140:CDS |
| ATTCAATTCAAAAGGTTACT+CGG | 0.526470 | 6_3:+29633568 | Msa0947140:CDS |
| TGTGTTTGCTTGTTGGTGTG+TGG | 0.532745 | 6_3:-29633252 | None:intergenic |
| AAGAGCAAGAATACGATGAA+TGG | 0.543557 | 6_3:-29633368 | None:intergenic |
| GGCGATAAGGCGAAATGGGT+TGG | 0.554242 | 6_3:-29633639 | None:intergenic |
| TGTATGTATGTAGGAACTTG+TGG | 0.628148 | 6_3:+29633506 | Msa0947140:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TGTTTTGTTTATTTTCATAA+TGG | + | chr6_3:29633286-29633305 | Msa0947140:five_prime_UTR | 15.0% |
| !! | AAGAATAAGAGTTAAAAAAA+GGG | + | chr6_3:29633339-29633358 | Msa0947140:CDS | 15.0% |
| !! | GTTCAAAATAAACAGAAAAA+GGG | - | chr6_3:29633228-29633247 | None:intergenic | 20.0% |
| !! | TGTTCAAAATAAACAGAAAA+AGG | - | chr6_3:29633229-29633248 | None:intergenic | 20.0% |
| !! | GAAGAATAAGAGTTAAAAAA+AGG | + | chr6_3:29633338-29633357 | Msa0947140:CDS | 20.0% |
| !! | AAAATGAAAGAAAGAAGAAA+AGG | - | chr6_3:29633438-29633457 | None:intergenic | 20.0% |
| ! | ATCACTCATTACTTGTAATA+TGG | + | chr6_3:29633309-29633328 | Msa0947140:exon | 25.0% |
| ! | AATTGAATGTGTATGTATGT+AGG | + | chr6_3:29633497-29633516 | Msa0947140:intron | 25.0% |
| ! | ATTCAATTCAAAAGGTTACT+CGG | + | chr6_3:29633568-29633587 | Msa0947140:CDS | 25.0% |
| ! | TCATCAAATGTTGAATGTTT+GGG | - | chr6_3:29633615-29633634 | None:intergenic | 25.0% |
| ! | TTCATCAAATGTTGAATGTT+TGG | - | chr6_3:29633616-29633635 | None:intergenic | 25.0% |
| GAATGCATACCATTTGAAAA+AGG | - | chr6_3:29633404-29633423 | None:intergenic | 30.0% | |
| ! | CCTTTTGAATTGAATCTTGT+CGG | - | chr6_3:29633563-29633582 | None:intergenic | 30.0% |
| TTCAATTCAAAAGGTTACTC+GGG | + | chr6_3:29633569-29633588 | Msa0947140:CDS | 30.0% | |
| AAGAGCAAGAATACGATGAA+TGG | - | chr6_3:29633371-29633390 | None:intergenic | 35.0% | |
| !!! | ATGGAAGTGCCTTTTTCAAA+TGG | + | chr6_3:29633392-29633411 | Msa0947140:CDS | 35.0% |
| TGTATGTATGTAGGAACTTG+TGG | + | chr6_3:29633506-29633525 | Msa0947140:intron | 35.0% | |
| ! | TATGTTCGTTGCTATTGCAT+TGG | + | chr6_3:29633529-29633548 | Msa0947140:CDS | 35.0% |
| CCGACAAGATTCAATTCAAA+AGG | + | chr6_3:29633560-29633579 | Msa0947140:CDS | 35.0% | |
| GTGAATGTGTGTTTGCTTGT+TGG | - | chr6_3:29633262-29633281 | None:intergenic | 40.0% | |
| CATCGTATTCTTGCTCTTGA+TGG | + | chr6_3:29633373-29633392 | Msa0947140:CDS | 40.0% | |
| AAAAGGCGATAAGGCGAAAT+GGG | - | chr6_3:29633646-29633665 | None:intergenic | 40.0% | |
| AAAAAGGCGATAAGGCGAAA+TGG | - | chr6_3:29633647-29633666 | None:intergenic | 40.0% | |
| ! | TGTGTTTGCTTGTTGGTGTG+TGG | - | chr6_3:29633255-29633274 | None:intergenic | 45.0% |
| AATGTTTGGGCGAGTTCGCT+TGG | - | chr6_3:29633602-29633621 | None:intergenic | 50.0% | |
| GGCGATAAGGCGAAATGGGT+TGG | - | chr6_3:29633642-29633661 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 29633210 | 29633672 | 29633210 | ID=Msa0947140;Name=Msa0947140 |
| chr6_3 | mRNA | 29633210 | 29633672 | 29633210 | ID=Msa0947140-mRNA-1;Parent=Msa0947140;Name=Msa0947140-mRNA-1;_AED=0.03;_eAED=0.18;_QI=118|1|0.5|1|1|1|2|0|79 |
| chr6_3 | exon | 29633210 | 29633413 | 29633210 | ID=Msa0947140-mRNA-1:exon:7831;Parent=Msa0947140-mRNA-1 |
| chr6_3 | exon | 29633519 | 29633672 | 29633519 | ID=Msa0947140-mRNA-1:exon:7832;Parent=Msa0947140-mRNA-1 |
| chr6_3 | five_prime_UTR | 29633210 | 29633327 | 29633210 | ID=Msa0947140-mRNA-1:five_prime_utr;Parent=Msa0947140-mRNA-1 |
| chr6_3 | CDS | 29633328 | 29633413 | 29633328 | ID=Msa0947140-mRNA-1:cds;Parent=Msa0947140-mRNA-1 |
| chr6_3 | CDS | 29633519 | 29633672 | 29633519 | ID=Msa0947140-mRNA-1:cds;Parent=Msa0947140-mRNA-1 |
| Gene Sequence |
| Protein sequence |
