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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1398710 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1398710 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1398710 | 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 | Msa1398710 | 0.839930 | 1.179737e-57 | -8.615850e-47 |
| Msa1354380 | Msa1398710 | 0.856458 | 3.174665e-62 | -8.615850e-47 |
| Msa1354390 | Msa1398710 | 0.848388 | 6.326979e-60 | -8.615850e-47 |
| Msa1354900 | Msa1398710 | 0.801637 | 8.198162e-49 | -8.615850e-47 |
| Msa1354950 | Msa1398710 | 0.812558 | 3.991013e-51 | -8.615850e-47 |
| Msa1355070 | Msa1398710 | 0.803850 | 2.863553e-49 | -8.615850e-47 |
| Msa1366000 | Msa1398710 | 0.829239 | 5.751817e-55 | -8.615850e-47 |
| Msa1366050 | Msa1398710 | 0.808109 | 3.639870e-50 | -8.615850e-47 |
| Msa1368270 | Msa1398710 | 0.842928 | 1.916756e-58 | -8.615850e-47 |
| Msa1368280 | Msa1398710 | 0.837109 | 6.310472e-57 | -8.615850e-47 |
| Msa1368290 | Msa1398710 | 0.841633 | 4.221073e-58 | -8.615850e-47 |
| Msa1368300 | Msa1398710 | 0.817795 | 2.739253e-52 | -8.615850e-47 |
| Msa1380640 | Msa1398710 | 0.827172 | 1.811585e-54 | -8.615850e-47 |
| Msa1380710 | Msa1398710 | 0.804197 | 2.425314e-49 | -8.615850e-47 |
| Msa1385370 | Msa1398710 | 0.817838 | 2.679673e-52 | -8.615850e-47 |
| Msa1398700 | Msa1398710 | 0.831180 | 1.931387e-55 | -8.615850e-47 |
| Msa1398710 | Msa1398720 | 0.814168 | 1.767175e-51 | -8.615850e-47 |
| Msa1269420 | Msa1398710 | 0.824724 | 6.910846e-54 | -8.615850e-47 |
| Msa0983720 | Msa1398710 | 0.801597 | 8.351840e-49 | -8.615850e-47 |
| Msa1086210 | Msa1398710 | 0.800451 | 1.432170e-48 | -8.615850e-47 |
| Msa1086910 | Msa1398710 | 0.803009 | 4.275940e-49 | -8.615850e-47 |
| Msa0268580 | Msa1398710 | 0.800661 | 1.298283e-48 | -8.615850e-47 |
| Msa1143180 | Msa1398710 | 0.812099 | 5.026884e-51 | -8.615850e-47 |
| Msa0483990 | Msa1398710 | 0.812518 | 4.072352e-51 | -8.615850e-47 |
| Msa0582780 | Msa1398710 | 0.806497 | 7.992294e-50 | -8.615850e-47 |
| Msa0867640 | Msa1398710 | 0.807679 | 4.492260e-50 | -8.615850e-47 |
| Msa0867650 | Msa1398710 | 0.817791 | 2.745362e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1398710 | MtrunA17_Chr7g0229301 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1398710 | MtrunA17_Chr6g0454441 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1398710 | MtrunA17_Chr4g0016451 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1398710 | MtrunA17_Chr6g0466281 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1398710 | MtrunA17_CPg0493311 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1398710 | MtrunA17_Chr7g0229661 | 84.080 | 201 | 13 | 1 | 1 | 201 | 1 | 182 | 1.89e-115 | 327 |
| Msa1398710 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1398710 | 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 | tig0022279:+47459 | Msa1398710:CDS |
| GATTGACTAATCCTTTATAT+TGG | 0.284280 | tig0022279:-47439 | None:intergenic |
| CTTGATCCATTCCAATATAA+AGG | 0.291752 | tig0022279:+47428 | Msa1398710:CDS |
| CTTAAATACGTTCGTATCGC+TGG | 0.342652 | tig0022279:+47128 | Msa1398710:CDS |
| ACAATTACTTGAAATGCGTT+TGG | 0.359489 | tig0022279:+47184 | Msa1398710:CDS |
| TTTGAAAATTAATGAATTGC+TGG | 0.365999 | tig0022279:+47487 | Msa1398710:CDS |
| ATGGATTGGCAATTCTTCGC+GGG | 0.450528 | tig0022279:-47399 | None:intergenic |
| TACCAGGACTAACTAGTAAA+CGG | 0.463029 | tig0022279:+46985 | Msa1398710:CDS |
| TGAGGTTTGCAACGATAACT+TGG | 0.468099 | tig0022279:-47308 | None:intergenic |
| ACTAATCCTTTATATTGGAA+TGG | 0.475526 | tig0022279:-47434 | None:intergenic |
| GTCTGTGGTTAACTAATTGA+CGG | 0.477609 | tig0022279:-47253 | None:intergenic |
| TCAAATAATAGATAGTAAAT+GGG | 0.487910 | tig0022279:+47460 | Msa1398710:CDS |
| ATAATAGATAGTAAATGGGT+TGG | 0.504615 | tig0022279:+47464 | Msa1398710:CDS |
| CTAAGTTCGCTTCCAACTGT+AGG | 0.508663 | tig0022279:-47008 | None:intergenic |
| GGATCAAGAGTCAAATGGAT+TGG | 0.511159 | tig0022279:-47413 | None:intergenic |
| GGAAAAGCGAAAGGTTCAAC+CGG | 0.516182 | tig0022279:+47149 | Msa1398710:CDS |
| TCTGTGGTTAACTAATTGAC+GGG | 0.521261 | tig0022279:-47252 | None:intergenic |
| GGCCGTTTACTAGTTAGTCC+TGG | 0.527000 | tig0022279:-46987 | None:intergenic |
| AATGGATTGGCAATTCTTCG+CGG | 0.545268 | tig0022279:-47400 | None:intergenic |
| TCAAGATATTATTACAGCGA+AGG | 0.559737 | tig0022279:+47328 | Msa1398710:CDS |
| TTCGCTGTAATAATATCTTG+AGG | 0.560954 | tig0022279:-47326 | None:intergenic |
| TAATTGTAGTAAAACTTGAC+CGG | 0.568250 | tig0022279:-47168 | None:intergenic |
| ACTAGTAAACGGCCTACAGT+TGG | 0.568372 | tig0022279:+46996 | Msa1398710:CDS |
| CAAGATATTATTACAGCGAA+GGG | 0.569002 | tig0022279:+47329 | Msa1398710:CDS |
| TTAACTAATTGACGGGCTTG+AGG | 0.581554 | tig0022279:-47245 | None:intergenic |
| GGAATGGATCAAGAGTCAAA+TGG | 0.582974 | tig0022279:-47418 | None:intergenic |
| GATTGGCAATTCTTCGCGGG+GGG | 0.584547 | tig0022279:-47396 | None:intergenic |
| TGGATTGGCAATTCTTCGCG+GGG | 0.610754 | tig0022279:-47398 | None:intergenic |
| TGTTTATGTCACGTTACAGA+GGG | 0.632465 | tig0022279:+46928 | None:intergenic |
| GTGTTTATGTCACGTTACAG+AGG | 0.633128 | tig0022279:+46927 | None:intergenic |
| CGTATCGCTGGAAAAGCGAA+AGG | 0.633501 | tig0022279:+47140 | Msa1398710:CDS |
| CATTAACTAAAACATGTCTG+TGG | 0.663264 | tig0022279:-47268 | None:intergenic |
| GGATTGGCAATTCTTCGCGG+GGG | 0.681198 | tig0022279:-47397 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATCAAATAATAGATAGTAAA+TGG | + | tig0022279:47459-47478 | Msa1398710:CDS | 15.0% |
| !! | TCAAATAATAGATAGTAAAT+GGG | + | tig0022279:47460-47479 | Msa1398710:CDS | 15.0% |
| !! | TTTGAAAATTAATGAATTGC+TGG | + | tig0022279:47487-47506 | Msa1398710:CDS | 20.0% |
| !! | CAAAAATTGCGTTTTCATTA+TGG | + | tig0022279:47086-47105 | Msa1398710:CDS | 25.0% |
| ! | TAATTGTAGTAAAACTTGAC+CGG | - | tig0022279:47171-47190 | None:intergenic | 25.0% |
| !!! | GATAACATACTTTTTCGATT+GGG | + | tig0022279:47206-47225 | Msa1398710:CDS | 25.0% |
| ! | ACTAATCCTTTATATTGGAA+TGG | - | tig0022279:47437-47456 | None:intergenic | 25.0% |
| ! | GATTGACTAATCCTTTATAT+TGG | - | tig0022279:47442-47461 | None:intergenic | 25.0% |
| ! | ATAATAGATAGTAAATGGGT+TGG | + | tig0022279:47464-47483 | Msa1398710:CDS | 25.0% |
| TTTCAAAAAAATACGTCGTC+TGG | + | tig0022279:46956-46975 | Msa1398710:CDS | 30.0% | |
| TTCAAAAAAATACGTCGTCT+GGG | + | tig0022279:46957-46976 | Msa1398710:CDS | 30.0% | |
| ACAATTACTTGAAATGCGTT+TGG | + | tig0022279:47184-47203 | Msa1398710:CDS | 30.0% | |
| !!! | GGATAACATACTTTTTCGAT+TGG | + | tig0022279:47205-47224 | Msa1398710:CDS | 30.0% |
| CATTAACTAAAACATGTCTG+TGG | - | tig0022279:47271-47290 | None:intergenic | 30.0% | |
| !!! | CACAGACATGTTTTAGTTAA+TGG | + | tig0022279:47269-47288 | Msa1398710:CDS | 30.0% |
| TTCGCTGTAATAATATCTTG+AGG | - | tig0022279:47329-47348 | None:intergenic | 30.0% | |
| TCAAGATATTATTACAGCGA+AGG | + | tig0022279:47328-47347 | Msa1398710:CDS | 30.0% | |
| CAAGATATTATTACAGCGAA+GGG | + | tig0022279:47329-47348 | Msa1398710:CDS | 30.0% | |
| CTTGATCCATTCCAATATAA+AGG | + | tig0022279:47428-47447 | Msa1398710:CDS | 30.0% | |
| !!! | CGACGTATTTTTTTGAAACG+AGG | - | tig0022279:46954-46973 | None:intergenic | 35.0% |
| TCAAAAAAATACGTCGTCTG+GGG | + | tig0022279:46958-46977 | Msa1398710:CDS | 35.0% | |
| TACCAGGACTAACTAGTAAA+CGG | + | tig0022279:46985-47004 | Msa1398710:CDS | 35.0% | |
| !!! | CATACTTTTTCGATTGGGTA+TGG | + | tig0022279:47211-47230 | Msa1398710:CDS | 35.0% |
| TCTGTGGTTAACTAATTGAC+GGG | - | tig0022279:47255-47274 | None:intergenic | 35.0% | |
| GTCTGTGGTTAACTAATTGA+CGG | - | tig0022279:47256-47275 | None:intergenic | 35.0% | |
| CAAAAAAATACGTCGTCTGG+GGG | + | tig0022279:46959-46978 | Msa1398710:CDS | 40.0% | |
| !!! | ATTTTTTACTCGAGCGCGAT+TGG | - | tig0022279:47037-47056 | None:intergenic | 40.0% |
| CTTAAATACGTTCGTATCGC+TGG | + | tig0022279:47128-47147 | Msa1398710:CDS | 40.0% | |
| !! | TTAACTAATTGACGGGCTTG+AGG | - | tig0022279:47248-47267 | None:intergenic | 40.0% |
| TGAGGTTTGCAACGATAACT+TGG | - | tig0022279:47311-47330 | None:intergenic | 40.0% | |
| !! | AATGGATTGGCAATTCTTCG+CGG | - | tig0022279:47403-47422 | None:intergenic | 40.0% |
| GGATCAAGAGTCAAATGGAT+TGG | - | tig0022279:47416-47435 | None:intergenic | 40.0% | |
| GGAATGGATCAAGAGTCAAA+TGG | - | tig0022279:47421-47440 | None:intergenic | 40.0% | |
| ACTAGTAAACGGCCTACAGT+TGG | + | tig0022279:46996-47015 | Msa1398710:CDS | 45.0% | |
| CTAAGTTCGCTTCCAACTGT+AGG | - | tig0022279:47011-47030 | None:intergenic | 45.0% | |
| GGAAAAGCGAAAGGTTCAAC+CGG | + | tig0022279:47149-47168 | Msa1398710:CDS | 45.0% | |
| !! | ATGGATTGGCAATTCTTCGC+GGG | - | tig0022279:47402-47421 | None:intergenic | 45.0% |
| GGCCGTTTACTAGTTAGTCC+TGG | - | tig0022279:46990-47009 | None:intergenic | 50.0% | |
| CGTATCGCTGGAAAAGCGAA+AGG | + | tig0022279:47140-47159 | Msa1398710:CDS | 50.0% | |
| !! | TGGATTGGCAATTCTTCGCG+GGG | - | tig0022279:47401-47420 | None:intergenic | 50.0% |
| GATTGGCAATTCTTCGCGGG+GGG | - | tig0022279:47399-47418 | None:intergenic | 55.0% | |
| ! | GGATTGGCAATTCTTCGCGG+GGG | - | tig0022279:47400-47419 | None:intergenic | 55.0% |
| CGTCGTCTGGGGGCTTTACC+AGG | + | tig0022279:46969-46988 | Msa1398710:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0022279 | gene | 46933 | 47538 | 46933 | ID=Msa1398710;Name=Msa1398710 |
| tig0022279 | mRNA | 46933 | 47538 | 46933 | ID=Msa1398710-mRNA-1;Parent=Msa1398710;Name=Msa1398710-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|201 |
| tig0022279 | exon | 46933 | 47538 | 46933 | ID=Msa1398710-mRNA-1:exon:16774;Parent=Msa1398710-mRNA-1 |
| tig0022279 | CDS | 46933 | 47538 | 46933 | ID=Msa1398710-mRNA-1:cds;Parent=Msa1398710-mRNA-1 |
| Gene Sequence |
| Protein sequence |
