Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene40345.t1 | XP_003603592.1 | 93.5 | 170 | 5 | 1 | 1 | 164 | 1 | 170 | 2.20E-86 | 328.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene40345.t1 | Q67XG0 | 69.6 | 171 | 39 | 2 | 1 | 158 | 1 | 171 | 2.3e-60 | 233.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene40345.t1 | G7J2X4 | 93.5 | 170 | 5 | 1 | 1 | 164 | 1 | 170 | 1.6e-86 | 328.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049254 | MS.gene40345 | 0.802417 | 5.67E-49 | -1.69E-46 |
| MS.gene053900 | MS.gene40345 | 0.808357 | 3.22E-50 | -1.69E-46 |
| MS.gene055818 | MS.gene40345 | 0.805378 | 1.37E-49 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene40345.t1 | MTR_3g109420 | 93.529 | 170 | 5 | 1 | 1 | 164 | 1 | 170 | 5.72e-118 | 330 |
| MS.gene40345.t1 | MTR_1g008700 | 75.301 | 166 | 33 | 3 | 1 | 158 | 1 | 166 | 1.91e-85 | 248 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene40345.t1 | AT4G32690 | 69.591 | 171 | 39 | 2 | 1 | 158 | 1 | 171 | 6.17e-81 | 237 |
Find 37 sgRNAs with CRISPR-Local
Find 55 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCAAAACCAGTACGAATTCT+TGG | 0.289012 | 3.3:+89779542 | MS.gene40345:CDS |
| ATAGAACCTGTTGTAGAAAT+TGG | 0.299176 | 3.3:-89779373 | None:intergenic |
| AAAGTTAATCAACATTATCT+TGG | 0.353946 | 3.3:-89780148 | None:intergenic |
| GCTTCATGTGTCACAGGAAA+TGG | 0.391868 | 3.3:-89780060 | None:intergenic |
| GAGGAGGACCTCCCATTCTC+TGG | 0.415467 | 3.3:-89779566 | None:intergenic |
| TGCTTTGTCTTTATCAGACT+TGG | 0.418611 | 3.3:-89779517 | None:intergenic |
| CGAATTCTTGGTCCAGAGAA+TGG | 0.418706 | 3.3:+89779554 | MS.gene40345:CDS |
| TTTCCACCAATTTCTACAAC+AGG | 0.420675 | 3.3:+89779367 | MS.gene40345:CDS |
| CTTCCAGCTGCATCCTTGCA+AGG | 0.423236 | 3.3:-89780315 | None:intergenic |
| AAACAAGTTGGTGTCATCAA+TGG | 0.436122 | 3.3:-89779313 | None:intergenic |
| AAAGGTTAATGAAAGTTTGA+AGG | 0.487596 | 3.3:-89779347 | None:intergenic |
| ACTTCATATGCAACAAGCAT+TGG | 0.490000 | 3.3:+89780098 | MS.gene40345:CDS |
| TTCCAGCTGCATCCTTGCAA+GGG | 0.503260 | 3.3:-89780314 | None:intergenic |
| GAATTCTTGGTCCAGAGAAT+GGG | 0.505694 | 3.3:+89779555 | MS.gene40345:CDS |
| CACCCTTGCAAGGATGCAGC+TGG | 0.514180 | 3.3:+89780312 | MS.gene40345:CDS |
| TCTGGACCAAGAATTCGTAC+TGG | 0.524772 | 3.3:-89779548 | None:intergenic |
| TGTTGTAGAAATTGGTGGAA+AGG | 0.527682 | 3.3:-89779365 | None:intergenic |
| CTGCATCCTTGCAAGGGTGA+AGG | 0.528329 | 3.3:-89780308 | None:intergenic |
| TGCAAGAGAAGGCTTCTGAA+TGG | 0.530466 | 3.3:+89779262 | MS.gene40345:CDS |
| TCGGCAGCTTCATGTGTCAC+AGG | 0.536702 | 3.3:-89780066 | None:intergenic |
| GAACCTGTTGTAGAAATTGG+TGG | 0.539038 | 3.3:-89779370 | None:intergenic |
| GATGACGATGAGGAGTGGTT+TGG | 0.563976 | 3.3:+89779483 | MS.gene40345:CDS |
| CGATGTCTAGTAATTAGAGC+AGG | 0.568423 | 3.3:-89780036 | None:intergenic |
| CACATGAAGCTGCCGAGAGG+TGG | 0.582503 | 3.3:+89780073 | MS.gene40345:CDS |
| CCTCTGTATTCTCAGAGAAG+AGG | 0.592545 | 3.3:+89779585 | MS.gene40345:CDS |
| TCAAAGCCTTCACCCTTGCA+AGG | 0.595706 | 3.3:+89780302 | MS.gene40345:CDS |
| ACCAACTTGTTTCAAAAGCT+AGG | 0.598000 | 3.3:+89779324 | MS.gene40345:CDS |
| CTTGCAAGGATGCAGCTGGA+AGG | 0.604226 | 3.3:+89780316 | MS.gene40345:CDS |
| GATGCAGAATCTGCAAGAGA+AGG | 0.605698 | 3.3:+89779251 | None:intergenic |
| TTCTTGGTCCAGAGAATGGG+AGG | 0.632605 | 3.3:+89779558 | MS.gene40345:CDS |
| CATATGAAGTAACCACCTCT+CGG | 0.635321 | 3.3:-89780085 | None:intergenic |
| TAGAGTGTATGATGACGATG+AGG | 0.661998 | 3.3:+89779473 | MS.gene40345:intron |
| GAGAAGGCTTCTGAATGGAG+TGG | 0.664521 | 3.3:+89779267 | MS.gene40345:CDS |
| TGTATGATGACGATGAGGAG+TGG | 0.684110 | 3.3:+89779478 | MS.gene40345:CDS |
| CCTCTTCTCTGAGAATACAG+AGG | 0.698670 | 3.3:-89779585 | None:intergenic |
| CTTCTCTGAGAATACAGAGG+AGG | 0.701310 | 3.3:-89779582 | None:intergenic |
| TGACACATGAAGCTGCCGAG+AGG | 0.786257 | 3.3:+89780070 | MS.gene40345:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AGTCAATAATATTCTTTATT+TGG | + | chr3.3:89779855-89779874 | MS.gene40345:intron | 15.0% |
| !! | TATATGACCTAAATATATAT+AGG | - | chr3.3:89779957-89779976 | None:intergenic | 15.0% |
| !!! | CTTTTAGATTTTTAACTTTT+CGG | + | chr3.3:89779652-89779671 | MS.gene40345:intron | 15.0% |
| !!! | GTCAATAATATTCTTTATTT+GGG | + | chr3.3:89779856-89779875 | MS.gene40345:intron | 15.0% |
| !!! | TCAATAATATTCTTTATTTG+GGG | + | chr3.3:89779857-89779876 | MS.gene40345:intron | 15.0% |
| !!! | TTTGAAACCTATATATATTT+AGG | + | chr3.3:89779947-89779966 | MS.gene40345:intron | 15.0% |
| !! | AAAGTTAATCAACATTATCT+TGG | - | chr3.3:89780151-89780170 | None:intergenic | 20.0% |
| !! | ATATATCTCTAATAAATGTG+TGG | + | chr3.3:89779974-89779993 | MS.gene40345:intron | 20.0% |
| ! | AAAGGTTAATGAAAGTTTGA+AGG | - | chr3.3:89779350-89779369 | None:intergenic | 25.0% |
| ! | ACTAAGTTCATGACAATTAA+TGG | + | chr3.3:89779439-89779458 | MS.gene40345:intron | 25.0% |
| ! | ATATATAGGTTTCAAAGCTT+AGG | - | chr3.3:89779943-89779962 | None:intergenic | 25.0% |
| !! | TAATATTCTTTATTTGGGGA+TGG | + | chr3.3:89779861-89779880 | MS.gene40345:intron | 25.0% |
| !!! | AACCTGTGTTTTTACTTTTT+AGG | + | chr3.3:89780238-89780257 | MS.gene40345:intron | 25.0% |
| ATAGAACCTGTTGTAGAAAT+TGG | - | chr3.3:89779376-89779395 | None:intergenic | 30.0% | |
| GTCATGAACTTAGTAAAGAA+AGG | - | chr3.3:89779433-89779452 | None:intergenic | 30.0% | |
| TGCCTAAAAAGTAAAAACAC+AGG | - | chr3.3:89780243-89780262 | None:intergenic | 30.0% | |
| ! | TTGATTCTTCTTTTCAACTC+CGG | - | chr3.3:89780286-89780305 | None:intergenic | 30.0% |
| ACTTCATATGCAACAAGCAT+TGG | + | chr3.3:89780098-89780117 | MS.gene40345:CDS | 35.0% | |
| ATGTCCTGTAATGTGAAGTA+CGG | - | chr3.3:89780016-89780035 | None:intergenic | 35.0% | |
| TCAAAACCAGTACGAATTCT+TGG | + | chr3.3:89779542-89779561 | MS.gene40345:CDS | 35.0% | |
| TGCTTTGTCTTTATCAGACT+TGG | - | chr3.3:89779520-89779539 | None:intergenic | 35.0% | |
| TGTTGTAGAAATTGGTGGAA+AGG | - | chr3.3:89779368-89779387 | None:intergenic | 35.0% | |
| TTTCCACCAATTTCTACAAC+AGG | + | chr3.3:89779367-89779386 | MS.gene40345:CDS | 35.0% | |
| ! | ACCAACTTGTTTCAAAAGCT+AGG | + | chr3.3:89779324-89779343 | MS.gene40345:CDS | 35.0% |
| ! | ACTGCATATTTTCTTGTTGC+CGG | + | chr3.3:89780264-89780283 | MS.gene40345:CDS | 35.0% |
| !! | AAACAAGTTGGTGTCATCAA+TGG | - | chr3.3:89779316-89779335 | None:intergenic | 35.0% |
| CATATGAAGTAACCACCTCT+CGG | - | chr3.3:89780088-89780107 | None:intergenic | 40.0% | |
| CGATGTCTAGTAATTAGAGC+AGG | - | chr3.3:89780039-89780058 | None:intergenic | 40.0% | |
| GAACCTGTTGTAGAAATTGG+TGG | - | chr3.3:89779373-89779392 | None:intergenic | 40.0% | |
| GAATTCTTGGTCCAGAGAAT+GGG | + | chr3.3:89779555-89779574 | MS.gene40345:CDS | 40.0% | |
| GGGATGGTTAGTAAAATGAC+AGG | + | chr3.3:89779877-89779896 | MS.gene40345:intron | 40.0% | |
| ! | TAGAGTGTATGATGACGATG+AGG | + | chr3.3:89779473-89779492 | MS.gene40345:intron | 40.0% |
| !!! | GCCTAGCTTTTGAAACAAGT+TGG | - | chr3.3:89779328-89779347 | None:intergenic | 40.0% |
| CCTCTGTATTCTCAGAGAAG+AGG | + | chr3.3:89779585-89779604 | MS.gene40345:CDS | 45.0% | |
| CGAATTCTTGGTCCAGAGAA+TGG | + | chr3.3:89779554-89779573 | MS.gene40345:CDS | 45.0% | |
| GCTACCGTACTTCACATTAC+AGG | + | chr3.3:89780009-89780028 | MS.gene40345:intron | 45.0% | |
| GCTTCATGTGTCACAGGAAA+TGG | - | chr3.3:89780063-89780082 | None:intergenic | 45.0% | |
| TCTGGACCAAGAATTCGTAC+TGG | - | chr3.3:89779551-89779570 | None:intergenic | 45.0% | |
| TGCAAGAGAAGGCTTCTGAA+TGG | + | chr3.3:89779262-89779281 | MS.gene40345:CDS | 45.0% | |
| ! | CCTCTTCTCTGAGAATACAG+AGG | - | chr3.3:89779588-89779607 | None:intergenic | 45.0% |
| ! | CTTCTCTGAGAATACAGAGG+AGG | - | chr3.3:89779585-89779604 | None:intergenic | 45.0% |
| ! | TGTATGATGACGATGAGGAG+TGG | + | chr3.3:89779478-89779497 | MS.gene40345:CDS | 45.0% |
| GAGAAGGCTTCTGAATGGAG+TGG | + | chr3.3:89779267-89779286 | MS.gene40345:CDS | 50.0% | |
| GATGACGATGAGGAGTGGTT+TGG | + | chr3.3:89779483-89779502 | MS.gene40345:CDS | 50.0% | |
| TCAAAGCCTTCACCCTTGCA+AGG | + | chr3.3:89780302-89780321 | MS.gene40345:CDS | 50.0% | |
| TTCCAGCTGCATCCTTGCAA+GGG | - | chr3.3:89780317-89780336 | None:intergenic | 50.0% | |
| TTCTTGGTCCAGAGAATGGG+AGG | + | chr3.3:89779558-89779577 | MS.gene40345:CDS | 50.0% | |
| CTGCATCCTTGCAAGGGTGA+AGG | - | chr3.3:89780311-89780330 | None:intergenic | 55.0% | |
| CTTCCAGCTGCATCCTTGCA+AGG | - | chr3.3:89780318-89780337 | None:intergenic | 55.0% | |
| CTTGCAAGGATGCAGCTGGA+AGG | + | chr3.3:89780316-89780335 | MS.gene40345:CDS | 55.0% | |
| TCGGCAGCTTCATGTGTCAC+AGG | - | chr3.3:89780069-89780088 | None:intergenic | 55.0% | |
| TGACACATGAAGCTGCCGAG+AGG | + | chr3.3:89780070-89780089 | MS.gene40345:CDS | 55.0% | |
| CACATGAAGCTGCCGAGAGG+TGG | + | chr3.3:89780073-89780092 | MS.gene40345:CDS | 60.0% | |
| CACCCTTGCAAGGATGCAGC+TGG | + | chr3.3:89780312-89780331 | MS.gene40345:CDS | 60.0% | |
| GAGGAGGACCTCCCATTCTC+TGG | - | chr3.3:89779569-89779588 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 89779252 | 89780359 | 89779252 | ID=MS.gene40345 |
| chr3.3 | mRNA | 89779252 | 89780359 | 89779252 | ID=MS.gene40345.t1;Parent=MS.gene40345 |
| chr3.3 | exon | 89779252 | 89779388 | 89779252 | ID=MS.gene40345.t1.exon1;Parent=MS.gene40345.t1 |
| chr3.3 | CDS | 89779252 | 89779388 | 89779252 | ID=cds.MS.gene40345.t1;Parent=MS.gene40345.t1 |
| chr3.3 | exon | 89779476 | 89779606 | 89779476 | ID=MS.gene40345.t1.exon2;Parent=MS.gene40345.t1 |
| chr3.3 | CDS | 89779476 | 89779606 | 89779476 | ID=cds.MS.gene40345.t1;Parent=MS.gene40345.t1 |
| chr3.3 | exon | 89780031 | 89780157 | 89780031 | ID=MS.gene40345.t1.exon3;Parent=MS.gene40345.t1 |
| chr3.3 | CDS | 89780031 | 89780157 | 89780031 | ID=cds.MS.gene40345.t1;Parent=MS.gene40345.t1 |
| chr3.3 | exon | 89780260 | 89780359 | 89780260 | ID=MS.gene40345.t1.exon4;Parent=MS.gene40345.t1 |
| chr3.3 | CDS | 89780260 | 89780359 | 89780260 | ID=cds.MS.gene40345.t1;Parent=MS.gene40345.t1 |
| Gene Sequence |
| Protein sequence |
