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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0947120 | 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0902020 | Msa0947120 | 0.805601 | 1.233554e-49 | -8.615850e-47 |
| Msa0946950 | Msa0947120 | 0.883797 | 3.309035e-71 | -8.615850e-47 |
| Msa0947010 | Msa0947120 | 0.808088 | 3.677169e-50 | -8.615850e-47 |
| Msa0947120 | Msa0947140 | 0.979938 | 4.426261e-149 | -8.615850e-47 |
| Msa0947120 | Msa0947200 | 0.963780 | 1.659867e-122 | -8.615850e-47 |
| Msa0947120 | Msa0947250 | 0.973632 | 9.287979e-137 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0947120 | 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:-29621225 | None:intergenic |
| GAATGCATACCATTTGAAAA+AGG | 0.268980 | 6_3:-29621400 | None:intergenic |
| TTCATCAAATGTTGAATGTT+TGG | 0.271423 | 6_3:-29621612 | None:intergenic |
| GTGAGGAATGTTACATAAAA+AGG | 0.291799 | 6_3:-29621659 | None:intergenic |
| CATCGTATTCTTGCTCTTGA+TGG | 0.294445 | 6_3:+29621372 | Msa0947120:CDS |
| TCATCAAATGTTGAATGTTT+GGG | 0.308145 | 6_3:-29621611 | None:intergenic |
| ATCACTCATTACTTGTAATA+TGG | 0.326647 | 6_3:+29621308 | Msa0947120:exon |
| GTGAATGTGTGTTTGCTTGT+TGG | 0.383403 | 6_3:-29621258 | None:intergenic |
| CCGACAAGATTCAATTCAAA+AGG | 0.430763 | 6_3:+29621559 | Msa0947120:CDS |
| AATGTTTGGGCGAGTTCGCT+TGG | 0.457071 | 6_3:-29621598 | None:intergenic |
| AAAAGGCGATAAGGCGAAAT+GGG | 0.467083 | 6_3:-29621642 | None:intergenic |
| TTCAATTCAAAAGGTTACTC+GGG | 0.494752 | 6_3:+29621568 | Msa0947120:CDS |
| TATGTTCGTTGCTATTGCAT+TGG | 0.513814 | 6_3:+29621528 | Msa0947120:CDS |
| ATTCAATTCAAAAGGTTACT+CGG | 0.526470 | 6_3:+29621567 | Msa0947120:CDS |
| TGTGTTTGCTTGTTGGTGTG+TGG | 0.532745 | 6_3:-29621251 | None:intergenic |
| AAGAGCAAGAATACGATGAA+TGG | 0.543557 | 6_3:-29621367 | None:intergenic |
| GGCGATAAGGCGAAATGGGT+TGG | 0.554242 | 6_3:-29621638 | None:intergenic |
| TGTATGTATGTAGGAACTTG+TGG | 0.628148 | 6_3:+29621505 | Msa0947120:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TGTTTTGTTTATTTTCATAA+TGG | + | chr6_3:29621285-29621304 | Msa0947120:five_prime_UTR | 15.0% |
| !! | AAGAATAAGAGTTAAAAAAA+GGG | + | chr6_3:29621338-29621357 | Msa0947120:CDS | 15.0% |
| !! | GTTCAAAATAAACAGAAAAA+GGG | - | chr6_3:29621227-29621246 | None:intergenic | 20.0% |
| !! | TGTTCAAAATAAACAGAAAA+AGG | - | chr6_3:29621228-29621247 | None:intergenic | 20.0% |
| !! | GAAGAATAAGAGTTAAAAAA+AGG | + | chr6_3:29621337-29621356 | Msa0947120:CDS | 20.0% |
| !! | AAAATGAAAGAAAGAAGAAA+AGG | - | chr6_3:29621437-29621456 | None:intergenic | 20.0% |
| ! | ATCACTCATTACTTGTAATA+TGG | + | chr6_3:29621308-29621327 | Msa0947120:exon | 25.0% |
| ! | AATTGAATGTGTATGTATGT+AGG | + | chr6_3:29621496-29621515 | Msa0947120:intron | 25.0% |
| ! | ATTCAATTCAAAAGGTTACT+CGG | + | chr6_3:29621567-29621586 | Msa0947120:CDS | 25.0% |
| ! | TCATCAAATGTTGAATGTTT+GGG | - | chr6_3:29621614-29621633 | None:intergenic | 25.0% |
| ! | TTCATCAAATGTTGAATGTT+TGG | - | chr6_3:29621615-29621634 | None:intergenic | 25.0% |
| GAATGCATACCATTTGAAAA+AGG | - | chr6_3:29621403-29621422 | None:intergenic | 30.0% | |
| ! | CCTTTTGAATTGAATCTTGT+CGG | - | chr6_3:29621562-29621581 | None:intergenic | 30.0% |
| TTCAATTCAAAAGGTTACTC+GGG | + | chr6_3:29621568-29621587 | Msa0947120:CDS | 30.0% | |
| AAGAGCAAGAATACGATGAA+TGG | - | chr6_3:29621370-29621389 | None:intergenic | 35.0% | |
| !!! | ATGGAAGTGCCTTTTTCAAA+TGG | + | chr6_3:29621391-29621410 | Msa0947120:CDS | 35.0% |
| TGTATGTATGTAGGAACTTG+TGG | + | chr6_3:29621505-29621524 | Msa0947120:intron | 35.0% | |
| ! | TATGTTCGTTGCTATTGCAT+TGG | + | chr6_3:29621528-29621547 | Msa0947120:CDS | 35.0% |
| CCGACAAGATTCAATTCAAA+AGG | + | chr6_3:29621559-29621578 | Msa0947120:CDS | 35.0% | |
| GTGAATGTGTGTTTGCTTGT+TGG | - | chr6_3:29621261-29621280 | None:intergenic | 40.0% | |
| CATCGTATTCTTGCTCTTGA+TGG | + | chr6_3:29621372-29621391 | Msa0947120:CDS | 40.0% | |
| AAAAGGCGATAAGGCGAAAT+GGG | - | chr6_3:29621645-29621664 | None:intergenic | 40.0% | |
| AAAAAGGCGATAAGGCGAAA+TGG | - | chr6_3:29621646-29621665 | None:intergenic | 40.0% | |
| ! | TGTGTTTGCTTGTTGGTGTG+TGG | - | chr6_3:29621254-29621273 | None:intergenic | 45.0% |
| AATGTTTGGGCGAGTTCGCT+TGG | - | chr6_3:29621601-29621620 | None:intergenic | 50.0% | |
| GGCGATAAGGCGAAATGGGT+TGG | - | chr6_3:29621641-29621660 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 29621209 | 29621671 | 29621209 | ID=Msa0947120;Name=Msa0947120 |
| chr6_3 | mRNA | 29621209 | 29621671 | 29621209 | ID=Msa0947120-mRNA-1;Parent=Msa0947120;Name=Msa0947120-mRNA-1;_AED=0.03;_eAED=0.18;_QI=118|1|0.5|1|1|1|2|0|79 |
| chr6_3 | exon | 29621209 | 29621412 | 29621209 | ID=Msa0947120-mRNA-1:exon:7829;Parent=Msa0947120-mRNA-1 |
| chr6_3 | exon | 29621518 | 29621671 | 29621518 | ID=Msa0947120-mRNA-1:exon:7830;Parent=Msa0947120-mRNA-1 |
| chr6_3 | five_prime_UTR | 29621209 | 29621326 | 29621209 | ID=Msa0947120-mRNA-1:five_prime_utr;Parent=Msa0947120-mRNA-1 |
| chr6_3 | CDS | 29621327 | 29621412 | 29621327 | ID=Msa0947120-mRNA-1:cds;Parent=Msa0947120-mRNA-1 |
| chr6_3 | CDS | 29621518 | 29621671 | 29621518 | ID=Msa0947120-mRNA-1:cds;Parent=Msa0947120-mRNA-1 |
| Gene Sequence |
| Protein sequence |
