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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1385380 | YP_009141600.1 | 100.000 | 201 | 0 | 0 | 1 | 201 | 1 | 201 | 3.55e-143 | 407 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1385380 | sp|Q9BBT5|RR4_LOTJA | 95.522 | 201 | 9 | 0 | 1 | 201 | 1 | 201 | 8.95e-140 | 391 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1385380 | A0A0F6NLD0 | 100.000 | 201 | 0 | 0 | 1 | 201 | 1 | 201 | 1.70e-143 | 407 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1354350 | Msa1385380 | 0.825390 | 4.812380e-54 | -8.615850e-47 |
| Msa1354380 | Msa1385380 | 0.810980 | 8.800490e-51 | -8.615850e-47 |
| Msa1354390 | Msa1385380 | 0.805512 | 1.287930e-49 | -8.615850e-47 |
| Msa1354950 | Msa1385380 | 0.812198 | 4.782427e-51 | -8.615850e-47 |
| Msa1366010 | Msa1385380 | 0.821471 | 3.966953e-53 | -8.615850e-47 |
| Msa1366050 | Msa1385380 | 0.832384 | 9.748600e-56 | -8.615850e-47 |
| Msa1368270 | Msa1385380 | 0.816687 | 4.864462e-52 | -8.615850e-47 |
| Msa1368290 | Msa1385380 | 0.816879 | 4.404896e-52 | -8.615850e-47 |
| Msa1368300 | Msa1385380 | 0.817736 | 2.824767e-52 | -8.615850e-47 |
| Msa1380640 | Msa1385380 | 0.830456 | 2.906826e-55 | -8.615850e-47 |
| Msa1380710 | Msa1385380 | 0.804389 | 2.211944e-49 | -8.615850e-47 |
| Msa1385380 | Msa1398700 | 0.801387 | 9.221080e-49 | -8.615850e-47 |
| Msa1385380 | Msa1398720 | 0.810790 | 9.676125e-51 | -8.615850e-47 |
| Msa1269410 | Msa1385380 | 0.822872 | 1.876967e-53 | -8.615850e-47 |
| Msa0931140 | Msa1385380 | 0.801871 | 7.339028e-49 | -8.615850e-47 |
| Msa0931240 | Msa1385380 | 0.802147 | 6.439022e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1385380 | MtrunA17_Chr7g0229301 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1385380 | MtrunA17_Chr6g0454441 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1385380 | MtrunA17_Chr4g0016451 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1385380 | MtrunA17_Chr6g0466281 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1385380 | MtrunA17_CPg0493311 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1385380 | MtrunA17_Chr7g0229661 | 84.080 | 201 | 13 | 1 | 1 | 201 | 1 | 182 | 1.89e-115 | 327 |
| Msa1385380 | MtrunA17_Chr4g0015291 | 97.436 | 156 | 4 | 0 | 1 | 156 | 1 | 156 | 3.32e-108 | 307 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1385380 | ATCG00380.1 | 88.060 | 201 | 24 | 0 | 1 | 201 | 1 | 201 | 2.12e-126 | 355 |
Find 33 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCAAATAATAGATAGTAAA+TGG | 0.189787 | tig0020748:-56203 | Msa1385380:CDS |
| GATTGACTAATCCTTTATAT+TGG | 0.284280 | tig0020748:+56223 | None:intergenic |
| CTTGATCCATTCCAATATAA+AGG | 0.291752 | tig0020748:-56234 | Msa1385380:CDS |
| CTTAAATACGTTCGTATCGC+TGG | 0.342652 | tig0020748:-56534 | Msa1385380:CDS |
| ACAATTACTTGAAATGCGTT+TGG | 0.359489 | tig0020748:-56478 | Msa1385380:CDS |
| TTTGAAAATTAATGAATTGC+TGG | 0.365999 | tig0020748:-56175 | Msa1385380:CDS |
| ATGGATTGGCAATTCTTCGC+GGG | 0.450528 | tig0020748:+56263 | None:intergenic |
| TACCAGGACTAACTAGTAAA+CGG | 0.463029 | tig0020748:-56677 | Msa1385380:CDS |
| TGAGGTTTGCAACGATAACT+TGG | 0.468099 | tig0020748:+56354 | None:intergenic |
| ACTAATCCTTTATATTGGAA+TGG | 0.475526 | tig0020748:+56228 | None:intergenic |
| GTCTGTGGTTAACTAATTGA+CGG | 0.477609 | tig0020748:+56409 | None:intergenic |
| TCAAATAATAGATAGTAAAT+GGG | 0.487910 | tig0020748:-56202 | Msa1385380:CDS |
| ATAATAGATAGTAAATGGGT+TGG | 0.504615 | tig0020748:-56198 | Msa1385380:CDS |
| CTAAGTTCGCTTCCAACTGT+AGG | 0.508663 | tig0020748:+56654 | None:intergenic |
| GGATCAAGAGTCAAATGGAT+TGG | 0.511159 | tig0020748:+56249 | None:intergenic |
| GGAAAAGCGAAAGGTTCAAC+CGG | 0.516182 | tig0020748:-56513 | Msa1385380:CDS |
| TCTGTGGTTAACTAATTGAC+GGG | 0.521261 | tig0020748:+56410 | None:intergenic |
| GGCCGTTTACTAGTTAGTCC+TGG | 0.527000 | tig0020748:+56675 | None:intergenic |
| AATGGATTGGCAATTCTTCG+CGG | 0.545268 | tig0020748:+56262 | None:intergenic |
| TCAAGATATTATTACAGCGA+AGG | 0.559737 | tig0020748:-56334 | Msa1385380:CDS |
| TTCGCTGTAATAATATCTTG+AGG | 0.560954 | tig0020748:+56336 | None:intergenic |
| TAATTGTAGTAAAACTTGAC+CGG | 0.568250 | tig0020748:+56494 | None:intergenic |
| ACTAGTAAACGGCCTACAGT+TGG | 0.568372 | tig0020748:-56666 | Msa1385380:CDS |
| CAAGATATTATTACAGCGAA+GGG | 0.569002 | tig0020748:-56333 | Msa1385380:CDS |
| TTAACTAATTGACGGGCTTG+AGG | 0.581554 | tig0020748:+56417 | None:intergenic |
| GGAATGGATCAAGAGTCAAA+TGG | 0.582974 | tig0020748:+56244 | None:intergenic |
| GATTGGCAATTCTTCGCGGG+GGG | 0.584547 | tig0020748:+56266 | None:intergenic |
| TGGATTGGCAATTCTTCGCG+GGG | 0.610754 | tig0020748:+56264 | None:intergenic |
| TGTTTATGTCACGTTACAGA+GGG | 0.632465 | tig0020748:-56734 | None:intergenic |
| GTGTTTATGTCACGTTACAG+AGG | 0.633128 | tig0020748:-56735 | None:intergenic |
| CGTATCGCTGGAAAAGCGAA+AGG | 0.633501 | tig0020748:-56522 | Msa1385380:CDS |
| CATTAACTAAAACATGTCTG+TGG | 0.663264 | tig0020748:+56394 | None:intergenic |
| GGATTGGCAATTCTTCGCGG+GGG | 0.681198 | tig0020748:+56265 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATCAAATAATAGATAGTAAA+TGG | - | tig0020748:56672-56691 | Msa1385380:CDS | 15.0% |
| !! | TCAAATAATAGATAGTAAAT+GGG | - | tig0020748:56673-56692 | Msa1385380:CDS | 15.0% |
| !! | TTTGAAAATTAATGAATTGC+TGG | - | tig0020748:56700-56719 | Msa1385380:CDS | 20.0% |
| !! | CAAAAATTGCGTTTTCATTA+TGG | - | tig0020748:56299-56318 | Msa1385380:CDS | 25.0% |
| ! | TAATTGTAGTAAAACTTGAC+CGG | + | tig0020748:56384-56403 | None:intergenic | 25.0% |
| !!! | GATAACATACTTTTTCGATT+GGG | - | tig0020748:56419-56438 | Msa1385380:CDS | 25.0% |
| ! | ACTAATCCTTTATATTGGAA+TGG | + | tig0020748:56650-56669 | None:intergenic | 25.0% |
| ! | GATTGACTAATCCTTTATAT+TGG | + | tig0020748:56655-56674 | None:intergenic | 25.0% |
| ! | ATAATAGATAGTAAATGGGT+TGG | - | tig0020748:56677-56696 | Msa1385380:CDS | 25.0% |
| TTTCAAAAAAATACGTCGTC+TGG | - | tig0020748:56169-56188 | Msa1385380:CDS | 30.0% | |
| TTCAAAAAAATACGTCGTCT+GGG | - | tig0020748:56170-56189 | Msa1385380:CDS | 30.0% | |
| ACAATTACTTGAAATGCGTT+TGG | - | tig0020748:56397-56416 | Msa1385380:CDS | 30.0% | |
| !!! | GGATAACATACTTTTTCGAT+TGG | - | tig0020748:56418-56437 | Msa1385380:CDS | 30.0% |
| CATTAACTAAAACATGTCTG+TGG | + | tig0020748:56484-56503 | None:intergenic | 30.0% | |
| !!! | CACAGACATGTTTTAGTTAA+TGG | - | tig0020748:56482-56501 | Msa1385380:CDS | 30.0% |
| TTCGCTGTAATAATATCTTG+AGG | + | tig0020748:56542-56561 | None:intergenic | 30.0% | |
| TCAAGATATTATTACAGCGA+AGG | - | tig0020748:56541-56560 | Msa1385380:CDS | 30.0% | |
| CAAGATATTATTACAGCGAA+GGG | - | tig0020748:56542-56561 | Msa1385380:CDS | 30.0% | |
| CTTGATCCATTCCAATATAA+AGG | - | tig0020748:56641-56660 | Msa1385380:CDS | 30.0% | |
| !!! | CGACGTATTTTTTTGAAACG+AGG | + | tig0020748:56167-56186 | None:intergenic | 35.0% |
| TCAAAAAAATACGTCGTCTG+GGG | - | tig0020748:56171-56190 | Msa1385380:CDS | 35.0% | |
| TACCAGGACTAACTAGTAAA+CGG | - | tig0020748:56198-56217 | Msa1385380:CDS | 35.0% | |
| !!! | CATACTTTTTCGATTGGGTA+TGG | - | tig0020748:56424-56443 | Msa1385380:CDS | 35.0% |
| TCTGTGGTTAACTAATTGAC+GGG | + | tig0020748:56468-56487 | None:intergenic | 35.0% | |
| GTCTGTGGTTAACTAATTGA+CGG | + | tig0020748:56469-56488 | None:intergenic | 35.0% | |
| CAAAAAAATACGTCGTCTGG+GGG | - | tig0020748:56172-56191 | Msa1385380:CDS | 40.0% | |
| !!! | ATTTTTTACTCGAGCGCGAT+TGG | + | tig0020748:56250-56269 | None:intergenic | 40.0% |
| CTTAAATACGTTCGTATCGC+TGG | - | tig0020748:56341-56360 | Msa1385380:CDS | 40.0% | |
| !! | TTAACTAATTGACGGGCTTG+AGG | + | tig0020748:56461-56480 | None:intergenic | 40.0% |
| TGAGGTTTGCAACGATAACT+TGG | + | tig0020748:56524-56543 | None:intergenic | 40.0% | |
| !! | AATGGATTGGCAATTCTTCG+CGG | + | tig0020748:56616-56635 | None:intergenic | 40.0% |
| GGATCAAGAGTCAAATGGAT+TGG | + | tig0020748:56629-56648 | None:intergenic | 40.0% | |
| GGAATGGATCAAGAGTCAAA+TGG | + | tig0020748:56634-56653 | None:intergenic | 40.0% | |
| ACTAGTAAACGGCCTACAGT+TGG | - | tig0020748:56209-56228 | Msa1385380:CDS | 45.0% | |
| CTAAGTTCGCTTCCAACTGT+AGG | + | tig0020748:56224-56243 | None:intergenic | 45.0% | |
| GGAAAAGCGAAAGGTTCAAC+CGG | - | tig0020748:56362-56381 | Msa1385380:CDS | 45.0% | |
| !! | ATGGATTGGCAATTCTTCGC+GGG | + | tig0020748:56615-56634 | None:intergenic | 45.0% |
| GGCCGTTTACTAGTTAGTCC+TGG | + | tig0020748:56203-56222 | None:intergenic | 50.0% | |
| CGTATCGCTGGAAAAGCGAA+AGG | - | tig0020748:56353-56372 | Msa1385380:CDS | 50.0% | |
| !! | TGGATTGGCAATTCTTCGCG+GGG | + | tig0020748:56614-56633 | None:intergenic | 50.0% |
| GATTGGCAATTCTTCGCGGG+GGG | + | tig0020748:56612-56631 | None:intergenic | 55.0% | |
| ! | GGATTGGCAATTCTTCGCGG+GGG | + | tig0020748:56613-56632 | None:intergenic | 55.0% |
| CGTCGTCTGGGGGCTTTACC+AGG | - | tig0020748:56182-56201 | Msa1385380:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0020748 | gene | 56146 | 56751 | 56146 | ID=Msa1385380;Name=Msa1385380 |
| tig0020748 | mRNA | 56146 | 56751 | 56146 | ID=Msa1385380-mRNA-1;Parent=Msa1385380;Name=Msa1385380-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|201 |
| tig0020748 | exon | 56146 | 56751 | 56146 | ID=Msa1385380-mRNA-1:exon:9557;Parent=Msa1385380-mRNA-1 |
| tig0020748 | CDS | 56146 | 56751 | 56146 | ID=Msa1385380-mRNA-1:cds;Parent=Msa1385380-mRNA-1 |
| Gene Sequence |
| Protein sequence |
