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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0483990 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0483990 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0483990 | 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 |
|---|---|---|---|---|
| Msa0268170 | Msa0483990 | 0.803947 | 2.733913e-49 | -8.615850e-47 |
| Msa0268390 | Msa0483990 | 0.820403 | 6.988457e-53 | -8.615850e-47 |
| Msa0268410 | Msa0483990 | 0.802001 | 6.899686e-49 | -8.615850e-47 |
| Msa0268550 | Msa0483990 | 0.816145 | 6.429133e-52 | -8.615850e-47 |
| Msa0268580 | Msa0483990 | 0.812821 | 3.496229e-51 | -8.615850e-47 |
| Msa0268720 | Msa0483990 | 0.806502 | 7.973830e-50 | -8.615850e-47 |
| Msa0268940 | Msa0483990 | 0.814352 | 1.609932e-51 | -8.615850e-47 |
| Msa0269050 | Msa0483990 | 0.801457 | 8.925054e-49 | -8.615850e-47 |
| Msa0344280 | Msa0483990 | 0.803865 | 2.842723e-49 | -8.615850e-47 |
| Msa0344300 | Msa0483990 | 0.807206 | 5.661713e-50 | -8.615850e-47 |
| Msa0483990 | Msa0582520 | 0.805122 | 1.554346e-49 | -8.615850e-47 |
| Msa0483990 | Msa0582630 | 0.800015 | 1.757183e-48 | -8.615850e-47 |
| Msa0483990 | Msa0582700 | 0.806912 | 6.531331e-50 | -8.615850e-47 |
| Msa0483990 | Msa0582750 | 0.801441 | 8.990512e-49 | -8.615850e-47 |
| Msa0483990 | Msa0582780 | 0.807771 | 4.294621e-50 | -8.615850e-47 |
| Msa0483990 | Msa0867640 | 0.813979 | 1.945738e-51 | -8.615850e-47 |
| Msa0483990 | Msa0924870 | 0.803184 | 3.934177e-49 | -8.615850e-47 |
| Msa0483990 | Msa0924990 | 0.800970 | 1.122396e-48 | -8.615850e-47 |
| Msa0483990 | Msa0931080 | 0.806787 | 6.940800e-50 | -8.615850e-47 |
| Msa0483990 | Msa0931140 | 0.804181 | 2.443005e-49 | -8.615850e-47 |
| Msa0483990 | Msa0931210 | 0.802460 | 5.551164e-49 | -8.615850e-47 |
| Msa0483990 | Msa0931240 | 0.803475 | 3.424396e-49 | -8.615850e-47 |
| Msa0483990 | Msa0931270 | 0.803934 | 2.750853e-49 | -8.615850e-47 |
| Msa0483990 | Msa0983720 | 0.804897 | 1.732851e-49 | -8.615850e-47 |
| Msa0483990 | Msa1086070 | 0.806216 | 9.161791e-50 | -8.615850e-47 |
| Msa0483990 | Msa1086180 | 0.810203 | 1.295510e-50 | -8.615850e-47 |
| Msa0483990 | Msa1086380 | 0.803819 | 2.906261e-49 | -8.615850e-47 |
| Msa0483990 | Msa1086450 | 0.808441 | 3.093032e-50 | -8.615850e-47 |
| Msa0483990 | Msa1143130 | 0.809052 | 2.289300e-50 | -8.615850e-47 |
| Msa0483990 | Msa1269400 | 0.800706 | 1.270687e-48 | -8.615850e-47 |
| Msa0483990 | Msa1269420 | 0.807750 | 4.338679e-50 | -8.615850e-47 |
| Msa0483990 | Msa1354350 | 0.837311 | 5.601838e-57 | -8.615850e-47 |
| Msa0483990 | Msa1354380 | 0.848718 | 5.125808e-60 | -8.615850e-47 |
| Msa0483990 | Msa1354390 | 0.842664 | 2.252746e-58 | -8.615850e-47 |
| Msa0483990 | Msa1354900 | 0.811977 | 5.344041e-51 | -8.615850e-47 |
| Msa0483990 | Msa1354930 | 0.807310 | 5.379292e-50 | -8.615850e-47 |
| Msa0483990 | Msa1354950 | 0.843606 | 1.263861e-58 | -8.615850e-47 |
| Msa0483990 | Msa1355070 | 0.812075 | 5.089159e-51 | -8.615850e-47 |
| Msa0483990 | Msa1355100 | 0.809805 | 1.578010e-50 | -8.615850e-47 |
| Msa0483990 | Msa1366000 | 0.851602 | 7.977651e-61 | -8.615850e-47 |
| Msa0483990 | Msa1366010 | 0.852856 | 3.508010e-61 | -8.615850e-47 |
| Msa0483990 | Msa1366040 | 0.810693 | 1.015485e-50 | -8.615850e-47 |
| Msa0483990 | Msa1366050 | 0.842893 | 1.957688e-58 | -8.615850e-47 |
| Msa0483990 | Msa1368270 | 0.874088 | 8.871427e-68 | -8.615850e-47 |
| Msa0483990 | Msa1368280 | 0.800189 | 1.619590e-48 | -8.615850e-47 |
| Msa0483990 | Msa1368290 | 0.860478 | 2.008285e-63 | -8.615850e-47 |
| Msa0483990 | Msa1368300 | 0.810162 | 1.322019e-50 | -8.615850e-47 |
| Msa0483990 | Msa1380590 | 0.804856 | 1.767433e-49 | -8.615850e-47 |
| Msa0483990 | Msa1380620 | 0.802108 | 6.559345e-49 | -8.615850e-47 |
| Msa0483990 | Msa1380640 | 0.836099 | 1.141467e-56 | -8.615850e-47 |
| Msa0483990 | Msa1380650 | 0.818964 | 1.489222e-52 | -8.615850e-47 |
| Msa0483990 | Msa1380710 | 0.819671 | 1.027722e-52 | -8.615850e-47 |
| Msa0483990 | Msa1385370 | 0.827762 | 1.307835e-54 | -8.615850e-47 |
| Msa0483990 | Msa1394060 | 0.804126 | 2.508605e-49 | -8.615850e-47 |
| Msa0483990 | Msa1394230 | 0.815349 | 9.675513e-52 | -8.615850e-47 |
| Msa0483990 | Msa1398700 | 0.815416 | 9.348067e-52 | -8.615850e-47 |
| Msa0483990 | Msa1398710 | 0.812518 | 4.072352e-51 | -8.615850e-47 |
| Msa0483990 | Msa1398720 | 0.836804 | 7.551137e-57 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0483990 | MtrunA17_Chr7g0229301 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa0483990 | MtrunA17_Chr6g0454441 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa0483990 | MtrunA17_Chr4g0016451 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa0483990 | MtrunA17_Chr6g0466281 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa0483990 | MtrunA17_CPg0493311 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa0483990 | MtrunA17_Chr7g0229661 | 84.080 | 201 | 13 | 1 | 1 | 201 | 1 | 182 | 1.89e-115 | 327 |
| Msa0483990 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0483990 | 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 | 3_4:+1097739 | Msa0483990:CDS |
| GATTGACTAATCCTTTATAT+TGG | 0.284280 | 3_4:-1097719 | None:intergenic |
| CTTGATCCATTCCAATATAA+AGG | 0.291752 | 3_4:+1097708 | Msa0483990:CDS |
| CTTAAATACGTTCGTATCGC+TGG | 0.342652 | 3_4:+1097408 | Msa0483990:CDS |
| ACAATTACTTGAAATGCGTT+TGG | 0.359489 | 3_4:+1097464 | Msa0483990:CDS |
| TTTGAAAATTAATGAATTGC+TGG | 0.365999 | 3_4:+1097767 | Msa0483990:CDS |
| ATGGATTGGCAATTCTTCGC+GGG | 0.450528 | 3_4:-1097679 | None:intergenic |
| TACCAGGACTAACTAGTAAA+CGG | 0.463029 | 3_4:+1097265 | Msa0483990:CDS |
| TGAGGTTTGCAACGATAACT+TGG | 0.468099 | 3_4:-1097588 | None:intergenic |
| ACTAATCCTTTATATTGGAA+TGG | 0.475526 | 3_4:-1097714 | None:intergenic |
| GTCTGTGGTTAACTAATTGA+CGG | 0.477609 | 3_4:-1097533 | None:intergenic |
| TCAAATAATAGATAGTAAAT+GGG | 0.487910 | 3_4:+1097740 | Msa0483990:CDS |
| ATAATAGATAGTAAATGGGT+TGG | 0.504615 | 3_4:+1097744 | Msa0483990:CDS |
| CTAAGTTCGCTTCCAACTGT+AGG | 0.508663 | 3_4:-1097288 | None:intergenic |
| GGATCAAGAGTCAAATGGAT+TGG | 0.511159 | 3_4:-1097693 | None:intergenic |
| GGAAAAGCGAAAGGTTCAAC+CGG | 0.516182 | 3_4:+1097429 | Msa0483990:CDS |
| TCTGTGGTTAACTAATTGAC+GGG | 0.521261 | 3_4:-1097532 | None:intergenic |
| GGCCGTTTACTAGTTAGTCC+TGG | 0.527000 | 3_4:-1097267 | None:intergenic |
| AATGGATTGGCAATTCTTCG+CGG | 0.545268 | 3_4:-1097680 | None:intergenic |
| TCAAGATATTATTACAGCGA+AGG | 0.559737 | 3_4:+1097608 | Msa0483990:CDS |
| TTCGCTGTAATAATATCTTG+AGG | 0.560954 | 3_4:-1097606 | None:intergenic |
| TAATTGTAGTAAAACTTGAC+CGG | 0.568250 | 3_4:-1097448 | None:intergenic |
| ACTAGTAAACGGCCTACAGT+TGG | 0.568372 | 3_4:+1097276 | Msa0483990:CDS |
| CAAGATATTATTACAGCGAA+GGG | 0.569002 | 3_4:+1097609 | Msa0483990:CDS |
| TTAACTAATTGACGGGCTTG+AGG | 0.581554 | 3_4:-1097525 | None:intergenic |
| GGAATGGATCAAGAGTCAAA+TGG | 0.582974 | 3_4:-1097698 | None:intergenic |
| GATTGGCAATTCTTCGCGGG+GGG | 0.584547 | 3_4:-1097676 | None:intergenic |
| TGGATTGGCAATTCTTCGCG+GGG | 0.610754 | 3_4:-1097678 | None:intergenic |
| TGTTTATGTCACGTTACAGA+GGG | 0.632465 | 3_4:+1097208 | None:intergenic |
| GTGTTTATGTCACGTTACAG+AGG | 0.633128 | 3_4:+1097207 | None:intergenic |
| CGTATCGCTGGAAAAGCGAA+AGG | 0.633501 | 3_4:+1097420 | Msa0483990:CDS |
| CATTAACTAAAACATGTCTG+TGG | 0.663264 | 3_4:-1097548 | None:intergenic |
| GGATTGGCAATTCTTCGCGG+GGG | 0.681198 | 3_4:-1097677 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATCAAATAATAGATAGTAAA+TGG | + | chr3_4:1097739-1097758 | Msa0483990:CDS | 15.0% |
| !! | TCAAATAATAGATAGTAAAT+GGG | + | chr3_4:1097740-1097759 | Msa0483990:CDS | 15.0% |
| !! | TTTGAAAATTAATGAATTGC+TGG | + | chr3_4:1097767-1097786 | Msa0483990:CDS | 20.0% |
| !! | CAAAAATTGCGTTTTCATTA+TGG | + | chr3_4:1097366-1097385 | Msa0483990:CDS | 25.0% |
| ! | TAATTGTAGTAAAACTTGAC+CGG | - | chr3_4:1097451-1097470 | None:intergenic | 25.0% |
| !!! | GATAACATACTTTTTCGATT+GGG | + | chr3_4:1097486-1097505 | Msa0483990:CDS | 25.0% |
| ! | ACTAATCCTTTATATTGGAA+TGG | - | chr3_4:1097717-1097736 | None:intergenic | 25.0% |
| ! | GATTGACTAATCCTTTATAT+TGG | - | chr3_4:1097722-1097741 | None:intergenic | 25.0% |
| ! | ATAATAGATAGTAAATGGGT+TGG | + | chr3_4:1097744-1097763 | Msa0483990:CDS | 25.0% |
| TTTCAAAAAAATACGTCGTC+TGG | + | chr3_4:1097236-1097255 | Msa0483990:CDS | 30.0% | |
| TTCAAAAAAATACGTCGTCT+GGG | + | chr3_4:1097237-1097256 | Msa0483990:CDS | 30.0% | |
| ACAATTACTTGAAATGCGTT+TGG | + | chr3_4:1097464-1097483 | Msa0483990:CDS | 30.0% | |
| !!! | GGATAACATACTTTTTCGAT+TGG | + | chr3_4:1097485-1097504 | Msa0483990:CDS | 30.0% |
| CATTAACTAAAACATGTCTG+TGG | - | chr3_4:1097551-1097570 | None:intergenic | 30.0% | |
| !!! | CACAGACATGTTTTAGTTAA+TGG | + | chr3_4:1097549-1097568 | Msa0483990:CDS | 30.0% |
| TTCGCTGTAATAATATCTTG+AGG | - | chr3_4:1097609-1097628 | None:intergenic | 30.0% | |
| TCAAGATATTATTACAGCGA+AGG | + | chr3_4:1097608-1097627 | Msa0483990:CDS | 30.0% | |
| CAAGATATTATTACAGCGAA+GGG | + | chr3_4:1097609-1097628 | Msa0483990:CDS | 30.0% | |
| CTTGATCCATTCCAATATAA+AGG | + | chr3_4:1097708-1097727 | Msa0483990:CDS | 30.0% | |
| !!! | CGACGTATTTTTTTGAAACG+AGG | - | chr3_4:1097234-1097253 | None:intergenic | 35.0% |
| TCAAAAAAATACGTCGTCTG+GGG | + | chr3_4:1097238-1097257 | Msa0483990:CDS | 35.0% | |
| TACCAGGACTAACTAGTAAA+CGG | + | chr3_4:1097265-1097284 | Msa0483990:CDS | 35.0% | |
| !!! | CATACTTTTTCGATTGGGTA+TGG | + | chr3_4:1097491-1097510 | Msa0483990:CDS | 35.0% |
| TCTGTGGTTAACTAATTGAC+GGG | - | chr3_4:1097535-1097554 | None:intergenic | 35.0% | |
| GTCTGTGGTTAACTAATTGA+CGG | - | chr3_4:1097536-1097555 | None:intergenic | 35.0% | |
| CAAAAAAATACGTCGTCTGG+GGG | + | chr3_4:1097239-1097258 | Msa0483990:CDS | 40.0% | |
| !!! | ATTTTTTACTCGAGCGCGAT+TGG | - | chr3_4:1097317-1097336 | None:intergenic | 40.0% |
| CTTAAATACGTTCGTATCGC+TGG | + | chr3_4:1097408-1097427 | Msa0483990:CDS | 40.0% | |
| !! | TTAACTAATTGACGGGCTTG+AGG | - | chr3_4:1097528-1097547 | None:intergenic | 40.0% |
| TGAGGTTTGCAACGATAACT+TGG | - | chr3_4:1097591-1097610 | None:intergenic | 40.0% | |
| !! | AATGGATTGGCAATTCTTCG+CGG | - | chr3_4:1097683-1097702 | None:intergenic | 40.0% |
| GGATCAAGAGTCAAATGGAT+TGG | - | chr3_4:1097696-1097715 | None:intergenic | 40.0% | |
| GGAATGGATCAAGAGTCAAA+TGG | - | chr3_4:1097701-1097720 | None:intergenic | 40.0% | |
| ACTAGTAAACGGCCTACAGT+TGG | + | chr3_4:1097276-1097295 | Msa0483990:CDS | 45.0% | |
| CTAAGTTCGCTTCCAACTGT+AGG | - | chr3_4:1097291-1097310 | None:intergenic | 45.0% | |
| GGAAAAGCGAAAGGTTCAAC+CGG | + | chr3_4:1097429-1097448 | Msa0483990:CDS | 45.0% | |
| !! | ATGGATTGGCAATTCTTCGC+GGG | - | chr3_4:1097682-1097701 | None:intergenic | 45.0% |
| GGCCGTTTACTAGTTAGTCC+TGG | - | chr3_4:1097270-1097289 | None:intergenic | 50.0% | |
| CGTATCGCTGGAAAAGCGAA+AGG | + | chr3_4:1097420-1097439 | Msa0483990:CDS | 50.0% | |
| !! | TGGATTGGCAATTCTTCGCG+GGG | - | chr3_4:1097681-1097700 | None:intergenic | 50.0% |
| GATTGGCAATTCTTCGCGGG+GGG | - | chr3_4:1097679-1097698 | None:intergenic | 55.0% | |
| ! | GGATTGGCAATTCTTCGCGG+GGG | - | chr3_4:1097680-1097699 | None:intergenic | 55.0% |
| CGTCGTCTGGGGGCTTTACC+AGG | + | chr3_4:1097249-1097268 | Msa0483990:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 1097213 | 1097818 | 1097213 | ID=Msa0483990;Name=Msa0483990 |
| chr3_4 | mRNA | 1097213 | 1097818 | 1097213 | ID=Msa0483990-mRNA-1;Parent=Msa0483990;Name=Msa0483990-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|201 |
| chr3_4 | exon | 1097213 | 1097818 | 1097213 | ID=Msa0483990-mRNA-1:exon:310;Parent=Msa0483990-mRNA-1 |
| chr3_4 | CDS | 1097213 | 1097818 | 1097213 | ID=Msa0483990-mRNA-1:cds;Parent=Msa0483990-mRNA-1 |
| Gene Sequence |
| Protein sequence |
