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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1380650 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1380650 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1380650 | 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 | Msa1380650 | 0.840332 | 9.266215e-58 | -8.615850e-47 |
| Msa1354380 | Msa1380650 | 0.818762 | 1.654814e-52 | -8.615850e-47 |
| Msa1354390 | Msa1380650 | 0.834203 | 3.433708e-56 | -8.615850e-47 |
| Msa1354900 | Msa1380650 | 0.821931 | 3.105470e-53 | -8.615850e-47 |
| Msa1354930 | Msa1380650 | 0.801422 | 9.073783e-49 | -8.615850e-47 |
| Msa1354950 | Msa1380650 | 0.836058 | 1.169134e-56 | -8.615850e-47 |
| Msa1355100 | Msa1380650 | 0.807528 | 4.836033e-50 | -8.615850e-47 |
| Msa1366000 | Msa1380650 | 0.825886 | 3.670436e-54 | -8.615850e-47 |
| Msa1366010 | Msa1380650 | 0.836204 | 1.073179e-56 | -8.615850e-47 |
| Msa1366050 | Msa1380650 | 0.842020 | 3.336408e-58 | -8.615850e-47 |
| Msa1368270 | Msa1380650 | 0.830916 | 2.243344e-55 | -8.615850e-47 |
| Msa1368290 | Msa1380650 | 0.833352 | 5.602653e-56 | -8.615850e-47 |
| Msa1368300 | Msa1380650 | 0.828451 | 8.926907e-55 | -8.615850e-47 |
| Msa1380640 | Msa1380650 | 0.836208 | 1.070874e-56 | -8.615850e-47 |
| Msa1380650 | Msa1380710 | 0.839099 | 1.940218e-57 | -8.615850e-47 |
| Msa1380650 | Msa1394060 | 0.805304 | 1.424210e-49 | -8.615850e-47 |
| Msa1380650 | Msa1394230 | 0.808869 | 2.505067e-50 | -8.615850e-47 |
| Msa1380650 | Msa1398720 | 0.816774 | 4.649786e-52 | -8.615850e-47 |
| Msa1269400 | Msa1380650 | 0.817929 | 2.555046e-52 | -8.615850e-47 |
| Msa1269410 | Msa1380650 | 0.853517 | 2.267466e-61 | -8.615850e-47 |
| Msa1269420 | Msa1380650 | 0.822150 | 2.763397e-53 | -8.615850e-47 |
| Msa0983720 | Msa1380650 | 0.810288 | 1.241914e-50 | -8.615850e-47 |
| Msa1086070 | Msa1380650 | 0.801369 | 9.302453e-49 | -8.615850e-47 |
| Msa1086140 | Msa1380650 | 0.812742 | 3.637331e-51 | -8.615850e-47 |
| Msa1086180 | Msa1380650 | 0.817382 | 3.394207e-52 | -8.615850e-47 |
| Msa1086450 | Msa1380650 | 0.813223 | 2.853106e-51 | -8.615850e-47 |
| Msa1086470 | Msa1380650 | 0.805752 | 1.147184e-49 | -8.615850e-47 |
| Msa0268170 | Msa1380650 | 0.806056 | 9.901916e-50 | -8.615850e-47 |
| Msa0268390 | Msa1380650 | 0.826862 | 2.149555e-54 | -8.615850e-47 |
| Msa0268410 | Msa1380650 | 0.805089 | 1.579547e-49 | -8.615850e-47 |
| Msa0268550 | Msa1380650 | 0.806577 | 7.689025e-50 | -8.615850e-47 |
| Msa0268580 | Msa1380650 | 0.812952 | 3.271708e-51 | -8.615850e-47 |
| Msa0268740 | Msa1380650 | 0.800578 | 1.349783e-48 | -8.615850e-47 |
| Msa0268840 | Msa1380650 | 0.802310 | 5.959823e-49 | -8.615850e-47 |
| Msa0268940 | Msa1380650 | 0.807833 | 4.165988e-50 | -8.615850e-47 |
| Msa0269050 | Msa1380650 | 0.808145 | 3.576752e-50 | -8.615850e-47 |
| Msa0344330 | Msa1380650 | 0.816253 | 6.082175e-52 | -8.615850e-47 |
| Msa0483990 | Msa1380650 | 0.818964 | 1.489222e-52 | -8.615850e-47 |
| Msa0582510 | Msa1380650 | 0.812666 | 3.780441e-51 | -8.615850e-47 |
| Msa0582520 | Msa1380650 | 0.816716 | 4.792245e-52 | -8.615850e-47 |
| Msa0582660 | Msa1380650 | 0.807398 | 5.154710e-50 | -8.615850e-47 |
| Msa0582690 | Msa1380650 | 0.811129 | 8.170371e-51 | -8.615850e-47 |
| Msa0582700 | Msa1380650 | 0.808350 | 3.233373e-50 | -8.615850e-47 |
| Msa0582750 | Msa1380650 | 0.802899 | 4.506689e-49 | -8.615850e-47 |
| Msa0582780 | Msa1380650 | 0.817757 | 2.794196e-52 | -8.615850e-47 |
| Msa0582810 | Msa1380650 | 0.804449 | 2.149122e-49 | -8.615850e-47 |
| Msa0582820 | Msa1380650 | 0.804094 | 2.547176e-49 | -8.615850e-47 |
| Msa0582910 | Msa1380650 | 0.804214 | 2.404690e-49 | -8.615850e-47 |
| Msa0867640 | Msa1380650 | 0.814687 | 1.357287e-51 | -8.615850e-47 |
| Msa0924870 | Msa1380650 | 0.819079 | 1.401678e-52 | -8.615850e-47 |
| Msa0931070 | Msa1380650 | 0.808821 | 2.565291e-50 | -8.615850e-47 |
| Msa0931130 | Msa1380650 | 0.806880 | 6.635030e-50 | -8.615850e-47 |
| Msa0931140 | Msa1380650 | 0.805786 | 1.128265e-49 | -8.615850e-47 |
| Msa0931210 | Msa1380650 | 0.807749 | 4.340996e-50 | -8.615850e-47 |
| Msa0931240 | Msa1380650 | 0.808771 | 2.628862e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1380650 | MtrunA17_Chr7g0229301 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1380650 | MtrunA17_Chr6g0454441 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1380650 | MtrunA17_Chr4g0016451 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1380650 | MtrunA17_Chr6g0466281 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1380650 | MtrunA17_CPg0493311 | 97.512 | 201 | 5 | 0 | 1 | 201 | 1 | 201 | 1.37e-143 | 398 |
| Msa1380650 | MtrunA17_Chr7g0229661 | 84.080 | 201 | 13 | 1 | 1 | 201 | 1 | 182 | 1.89e-115 | 327 |
| Msa1380650 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1380650 | 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 | tig0020386:+75209 | Msa1380650:CDS |
| GATTGACTAATCCTTTATAT+TGG | 0.284280 | tig0020386:-75189 | None:intergenic |
| CTTGATCCATTCCAATATAA+AGG | 0.291752 | tig0020386:+75178 | Msa1380650:CDS |
| CTTAAATACGTTCGTATCGC+TGG | 0.342652 | tig0020386:+74878 | Msa1380650:CDS |
| ACAATTACTTGAAATGCGTT+TGG | 0.359489 | tig0020386:+74934 | Msa1380650:CDS |
| TTTGAAAATTAATGAATTGC+TGG | 0.365999 | tig0020386:+75237 | Msa1380650:CDS |
| ATGGATTGGCAATTCTTCGC+GGG | 0.450528 | tig0020386:-75149 | None:intergenic |
| TACCAGGACTAACTAGTAAA+CGG | 0.463029 | tig0020386:+74735 | Msa1380650:CDS |
| TGAGGTTTGCAACGATAACT+TGG | 0.468099 | tig0020386:-75058 | None:intergenic |
| ACTAATCCTTTATATTGGAA+TGG | 0.475526 | tig0020386:-75184 | None:intergenic |
| GTCTGTGGTTAACTAATTGA+CGG | 0.477609 | tig0020386:-75003 | None:intergenic |
| TCAAATAATAGATAGTAAAT+GGG | 0.487910 | tig0020386:+75210 | Msa1380650:CDS |
| ATAATAGATAGTAAATGGGT+TGG | 0.504615 | tig0020386:+75214 | Msa1380650:CDS |
| CTAAGTTCGCTTCCAACTGT+AGG | 0.508663 | tig0020386:-74758 | None:intergenic |
| GGATCAAGAGTCAAATGGAT+TGG | 0.511159 | tig0020386:-75163 | None:intergenic |
| GGAAAAGCGAAAGGTTCAAC+CGG | 0.516182 | tig0020386:+74899 | Msa1380650:CDS |
| TCTGTGGTTAACTAATTGAC+GGG | 0.521261 | tig0020386:-75002 | None:intergenic |
| GGCCGTTTACTAGTTAGTCC+TGG | 0.527000 | tig0020386:-74737 | None:intergenic |
| AATGGATTGGCAATTCTTCG+CGG | 0.545268 | tig0020386:-75150 | None:intergenic |
| TCAAGATATTATTACAGCGA+AGG | 0.559737 | tig0020386:+75078 | Msa1380650:CDS |
| TTCGCTGTAATAATATCTTG+AGG | 0.560954 | tig0020386:-75076 | None:intergenic |
| TAATTGTAGTAAAACTTGAC+CGG | 0.568250 | tig0020386:-74918 | None:intergenic |
| ACTAGTAAACGGCCTACAGT+TGG | 0.568372 | tig0020386:+74746 | Msa1380650:CDS |
| CAAGATATTATTACAGCGAA+GGG | 0.569002 | tig0020386:+75079 | Msa1380650:CDS |
| TTAACTAATTGACGGGCTTG+AGG | 0.581554 | tig0020386:-74995 | None:intergenic |
| GGAATGGATCAAGAGTCAAA+TGG | 0.582974 | tig0020386:-75168 | None:intergenic |
| GATTGGCAATTCTTCGCGGG+GGG | 0.584547 | tig0020386:-75146 | None:intergenic |
| TGGATTGGCAATTCTTCGCG+GGG | 0.610754 | tig0020386:-75148 | None:intergenic |
| TGTTTATGTCACGTTACAGA+GGG | 0.632465 | tig0020386:+74678 | None:intergenic |
| GTGTTTATGTCACGTTACAG+AGG | 0.633128 | tig0020386:+74677 | None:intergenic |
| CGTATCGCTGGAAAAGCGAA+AGG | 0.633501 | tig0020386:+74890 | Msa1380650:CDS |
| CATTAACTAAAACATGTCTG+TGG | 0.663264 | tig0020386:-75018 | None:intergenic |
| GGATTGGCAATTCTTCGCGG+GGG | 0.681198 | tig0020386:-75147 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATCAAATAATAGATAGTAAA+TGG | + | tig0020386:75209-75228 | Msa1380650:CDS | 15.0% |
| !! | TCAAATAATAGATAGTAAAT+GGG | + | tig0020386:75210-75229 | Msa1380650:CDS | 15.0% |
| !! | TTTGAAAATTAATGAATTGC+TGG | + | tig0020386:75237-75256 | Msa1380650:CDS | 20.0% |
| !! | CAAAAATTGCGTTTTCATTA+TGG | + | tig0020386:74836-74855 | Msa1380650:CDS | 25.0% |
| ! | TAATTGTAGTAAAACTTGAC+CGG | - | tig0020386:74921-74940 | None:intergenic | 25.0% |
| !!! | GATAACATACTTTTTCGATT+GGG | + | tig0020386:74956-74975 | Msa1380650:CDS | 25.0% |
| ! | ACTAATCCTTTATATTGGAA+TGG | - | tig0020386:75187-75206 | None:intergenic | 25.0% |
| ! | GATTGACTAATCCTTTATAT+TGG | - | tig0020386:75192-75211 | None:intergenic | 25.0% |
| ! | ATAATAGATAGTAAATGGGT+TGG | + | tig0020386:75214-75233 | Msa1380650:CDS | 25.0% |
| TTTCAAAAAAATACGTCGTC+TGG | + | tig0020386:74706-74725 | Msa1380650:CDS | 30.0% | |
| TTCAAAAAAATACGTCGTCT+GGG | + | tig0020386:74707-74726 | Msa1380650:CDS | 30.0% | |
| ACAATTACTTGAAATGCGTT+TGG | + | tig0020386:74934-74953 | Msa1380650:CDS | 30.0% | |
| !!! | GGATAACATACTTTTTCGAT+TGG | + | tig0020386:74955-74974 | Msa1380650:CDS | 30.0% |
| CATTAACTAAAACATGTCTG+TGG | - | tig0020386:75021-75040 | None:intergenic | 30.0% | |
| !!! | CACAGACATGTTTTAGTTAA+TGG | + | tig0020386:75019-75038 | Msa1380650:CDS | 30.0% |
| TTCGCTGTAATAATATCTTG+AGG | - | tig0020386:75079-75098 | None:intergenic | 30.0% | |
| TCAAGATATTATTACAGCGA+AGG | + | tig0020386:75078-75097 | Msa1380650:CDS | 30.0% | |
| CAAGATATTATTACAGCGAA+GGG | + | tig0020386:75079-75098 | Msa1380650:CDS | 30.0% | |
| CTTGATCCATTCCAATATAA+AGG | + | tig0020386:75178-75197 | Msa1380650:CDS | 30.0% | |
| !!! | CGACGTATTTTTTTGAAACG+AGG | - | tig0020386:74704-74723 | None:intergenic | 35.0% |
| TCAAAAAAATACGTCGTCTG+GGG | + | tig0020386:74708-74727 | Msa1380650:CDS | 35.0% | |
| TACCAGGACTAACTAGTAAA+CGG | + | tig0020386:74735-74754 | Msa1380650:CDS | 35.0% | |
| !!! | CATACTTTTTCGATTGGGTA+TGG | + | tig0020386:74961-74980 | Msa1380650:CDS | 35.0% |
| TCTGTGGTTAACTAATTGAC+GGG | - | tig0020386:75005-75024 | None:intergenic | 35.0% | |
| GTCTGTGGTTAACTAATTGA+CGG | - | tig0020386:75006-75025 | None:intergenic | 35.0% | |
| CAAAAAAATACGTCGTCTGG+GGG | + | tig0020386:74709-74728 | Msa1380650:CDS | 40.0% | |
| !!! | ATTTTTTACTCGAGCGCGAT+TGG | - | tig0020386:74787-74806 | None:intergenic | 40.0% |
| CTTAAATACGTTCGTATCGC+TGG | + | tig0020386:74878-74897 | Msa1380650:CDS | 40.0% | |
| !! | TTAACTAATTGACGGGCTTG+AGG | - | tig0020386:74998-75017 | None:intergenic | 40.0% |
| TGAGGTTTGCAACGATAACT+TGG | - | tig0020386:75061-75080 | None:intergenic | 40.0% | |
| !! | AATGGATTGGCAATTCTTCG+CGG | - | tig0020386:75153-75172 | None:intergenic | 40.0% |
| GGATCAAGAGTCAAATGGAT+TGG | - | tig0020386:75166-75185 | None:intergenic | 40.0% | |
| GGAATGGATCAAGAGTCAAA+TGG | - | tig0020386:75171-75190 | None:intergenic | 40.0% | |
| ACTAGTAAACGGCCTACAGT+TGG | + | tig0020386:74746-74765 | Msa1380650:CDS | 45.0% | |
| CTAAGTTCGCTTCCAACTGT+AGG | - | tig0020386:74761-74780 | None:intergenic | 45.0% | |
| GGAAAAGCGAAAGGTTCAAC+CGG | + | tig0020386:74899-74918 | Msa1380650:CDS | 45.0% | |
| !! | ATGGATTGGCAATTCTTCGC+GGG | - | tig0020386:75152-75171 | None:intergenic | 45.0% |
| GGCCGTTTACTAGTTAGTCC+TGG | - | tig0020386:74740-74759 | None:intergenic | 50.0% | |
| CGTATCGCTGGAAAAGCGAA+AGG | + | tig0020386:74890-74909 | Msa1380650:CDS | 50.0% | |
| !! | TGGATTGGCAATTCTTCGCG+GGG | - | tig0020386:75151-75170 | None:intergenic | 50.0% |
| GATTGGCAATTCTTCGCGGG+GGG | - | tig0020386:75149-75168 | None:intergenic | 55.0% | |
| ! | GGATTGGCAATTCTTCGCGG+GGG | - | tig0020386:75150-75169 | None:intergenic | 55.0% |
| CGTCGTCTGGGGGCTTTACC+AGG | + | tig0020386:74719-74738 | Msa1380650:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0020386 | gene | 74683 | 75288 | 74683 | ID=Msa1380650;Name=Msa1380650 |
| tig0020386 | mRNA | 74683 | 75288 | 74683 | ID=Msa1380650-mRNA-1;Parent=Msa1380650;Name=Msa1380650-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|201 |
| tig0020386 | exon | 74683 | 75288 | 74683 | ID=Msa1380650-mRNA-1:exon:7173;Parent=Msa1380650-mRNA-1 |
| tig0020386 | CDS | 74683 | 75288 | 74683 | ID=Msa1380650-mRNA-1:cds;Parent=Msa1380650-mRNA-1 |
| Gene Sequence |
| Protein sequence |
