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.gene72636.t1 | AES95290.1 | 64.5 | 211 | 45 | 3 | 1 | 201 | 1 | 191 | 4.10E-50 | 208 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene72636.t1 | G7K023 | 64.5 | 211 | 45 | 3 | 1 | 201 | 1 | 191 | 3.0e-50 | 208.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene72636.t1 | TF | C2H2 |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene72636.t1 | MTR_5g023900 | 74.408 | 211 | 24 | 3 | 1 | 201 | 1 | 191 | 4.60e-104 | 298 |
| MS.gene72636.t1 | MTR_5g023880 | 71.144 | 201 | 29 | 4 | 1 | 201 | 1 | 172 | 5.42e-93 | 269 |
| MS.gene72636.t1 | MTR_5g023870 | 55.975 | 159 | 30 | 4 | 1 | 159 | 1 | 119 | 7.16e-50 | 158 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 68 sgRNAs with CRISPR-Local
Find 89 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGTAGTTGGGTTGGTTTCTT+TGG | 0.162115 | 5.4:-15377525 | None:intergenic |
| TTCTCGGAAGGGTTAGGTTT+AGG | 0.237072 | 5.4:-15377446 | None:intergenic |
| AACCGCTCTCGAAGTCTTAA+TGG | 0.238654 | 5.4:+15377589 | MS.gene72636:CDS |
| CCTTCAAAGTTCTTTAAGTA+TGG | 0.240152 | 5.4:+15377547 | MS.gene72636:CDS |
| TGTTTGCATCTATAACAATT+TGG | 0.250606 | 5.4:-15377731 | None:intergenic |
| GTAGTTGGGTTGGTTTCTTT+GGG | 0.266039 | 5.4:-15377524 | None:intergenic |
| TCTCGGAAGGGTTAGGTTTA+GGG | 0.267292 | 5.4:-15377445 | None:intergenic |
| AATGGTTTGTCAGCAGCTTC+TGG | 0.287143 | 5.4:+15377818 | MS.gene72636:CDS |
| TTGAGGGGACTTGTTGTTGG+TGG | 0.289994 | 5.4:-15377477 | None:intergenic |
| TCTGATGAAGGCGAAGGTTT+AGG | 0.328241 | 5.4:+15378404 | MS.gene72636:CDS |
| ATACATCACTCTTCTTCATT+AGG | 0.332064 | 5.4:-15378449 | None:intergenic |
| GTCTTGAGGGGACTTGTTGT+TGG | 0.343036 | 5.4:-15377480 | None:intergenic |
| TAGTTGGGTTGGTTTCTTTG+GGG | 0.344689 | 5.4:-15377523 | None:intergenic |
| GTTGAATTCTCGGAAGGGTT+AGG | 0.378551 | 5.4:-15377452 | None:intergenic |
| CTCTTCCTCCTCTTCATAGC+TGG | 0.393408 | 5.4:-15377671 | None:intergenic |
| AAAGAACTTTGAAGGGTAGT+TGG | 0.393444 | 5.4:-15377539 | None:intergenic |
| TGAGGGGACTTGTTGTTGGT+GGG | 0.402381 | 5.4:-15377476 | None:intergenic |
| AGGGGACTTGTTGTTGGTGG+GGG | 0.408399 | 5.4:-15377474 | None:intergenic |
| AATGGGAAGCTGGCAGCTAA+TGG | 0.418097 | 5.4:+15377629 | MS.gene72636:CDS |
| AGGTGGGGTGGTTGTTGATG+TGG | 0.426505 | 5.4:-15377858 | None:intergenic |
| AAGAACTTTGAAGGGTAGTT+GGG | 0.431057 | 5.4:-15377538 | None:intergenic |
| GAGTTCAGAGCTCGTGAGAA+TGG | 0.435144 | 5.4:+15377611 | MS.gene72636:CDS |
| ACCTCAACCTGATCAATATG+AGG | 0.437745 | 5.4:+15377877 | MS.gene72636:CDS |
| TAACAATTTGGATATATAGA+AGG | 0.438362 | 5.4:-15377719 | None:intergenic |
| CATCAGAGGGAGGGTCTTGA+GGG | 0.445658 | 5.4:-15377493 | None:intergenic |
| CCATACTTAAAGAACTTTGA+AGG | 0.446994 | 5.4:-15377547 | None:intergenic |
| CCCTCATATTGATCAGGTTG+AGG | 0.453934 | 5.4:-15377878 | None:intergenic |
| GAAGCTGCTGACAAACCATT+AGG | 0.476282 | 5.4:-15377815 | None:intergenic |
| GCAAACATGTGTTTCCCACT+TGG | 0.483219 | 5.4:+15377747 | MS.gene72636:CDS |
| ACTTTGAAGGGTAGTTGGGT+TGG | 0.489348 | 5.4:-15377534 | None:intergenic |
| GGTCCTCTATCTCCATTGGC+TGG | 0.500299 | 5.4:-15378337 | None:intergenic |
| CATATTGATCAGGTTGAGGT+GGG | 0.500892 | 5.4:-15377874 | None:intergenic |
| TCATCAGAGGGAGGGTCTTG+AGG | 0.508193 | 5.4:-15377494 | None:intergenic |
| AGTTCAGAGCTCGTGAGAAT+GGG | 0.512950 | 5.4:+15377612 | MS.gene72636:CDS |
| AGCTCGTGAGAATGGGAAGC+TGG | 0.512973 | 5.4:+15377619 | MS.gene72636:CDS |
| AGTTGGGTTGGTTTCTTTGG+GGG | 0.515909 | 5.4:-15377522 | None:intergenic |
| CATCACTCTTCTTCATTAGG+AGG | 0.517441 | 5.4:-15378446 | None:intergenic |
| GAGGGGTCCTCTATCTCCAT+TGG | 0.519182 | 5.4:-15378341 | None:intergenic |
| AAGCCAGCCAATGGAGATAG+AGG | 0.520626 | 5.4:+15378334 | MS.gene72636:CDS |
| GACTGCATTGATGAACCATA+TGG | 0.524295 | 5.4:+15377769 | MS.gene72636:CDS |
| TTGATCAGGTTGAGGTGGGG+TGG | 0.536734 | 5.4:-15377870 | None:intergenic |
| GAGGGGACTTGTTGTTGGTG+GGG | 0.544991 | 5.4:-15377475 | None:intergenic |
| TCAAAGTTCTTTAAGTATGG+AGG | 0.546799 | 5.4:+15377550 | MS.gene72636:CDS |
| CATACTTAAAGAACTTTGAA+GGG | 0.549185 | 5.4:-15377546 | None:intergenic |
| TCATATTGATCAGGTTGAGG+TGG | 0.558741 | 5.4:-15377875 | None:intergenic |
| AATGGAGAAGGTGGAAGTGA+TGG | 0.560233 | 5.4:+15377647 | MS.gene72636:CDS |
| TGATGATGAAAGCCAGCCAA+TGG | 0.578386 | 5.4:+15378325 | MS.gene72636:CDS |
| CTGGCAGCTAATGGAGAAGG+TGG | 0.580387 | 5.4:+15377638 | MS.gene72636:CDS |
| GAGTAATATTCGTGAAGTGA+AGG | 0.580783 | 5.4:+15377691 | MS.gene72636:CDS |
| GGGGTGGTTGTTGATGTGGA+AGG | 0.586960 | 5.4:-15377854 | None:intergenic |
| ATATTGATCAGGTTGAGGTG+GGG | 0.595131 | 5.4:-15377873 | None:intergenic |
| CTCCATTAAGACTTCGAGAG+CGG | 0.599694 | 5.4:-15377591 | None:intergenic |
| AAGCTGGCAGCTAATGGAGA+AGG | 0.602041 | 5.4:+15377635 | MS.gene72636:CDS |
| ATGGTCCAGCTATGAAGAGG+AGG | 0.603822 | 5.4:+15377666 | MS.gene72636:CDS |
| CTCGGATGCAACATCATCAG+AGG | 0.604023 | 5.4:-15378360 | None:intergenic |
| GGGGATTCATCATCAGAGGG+AGG | 0.610326 | 5.4:-15377503 | None:intergenic |
| TCGGATGCAACATCATCAGA+GGG | 0.613962 | 5.4:-15378359 | None:intergenic |
| ACTGCATCTGAGTCTGATGA+AGG | 0.623088 | 5.4:+15378392 | MS.gene72636:CDS |
| AATTTGGATATATAGAAGGA+TGG | 0.631395 | 5.4:-15377715 | None:intergenic |
| TCTGAGTCTGATGAAGGCGA+AGG | 0.633192 | 5.4:+15378398 | MS.gene72636:CDS |
| TTCATCAATGCAGTCCAAGT+GGG | 0.634799 | 5.4:-15377761 | None:intergenic |
| GTGATGGTCCAGCTATGAAG+AGG | 0.637063 | 5.4:+15377663 | MS.gene72636:CDS |
| GTTCATCAATGCAGTCCAAG+TGG | 0.645025 | 5.4:-15377762 | None:intergenic |
| AGATGCAGTATCATCAGACT+CGG | 0.649465 | 5.4:-15378378 | None:intergenic |
| CCTCAACCTGATCAATATGA+GGG | 0.650750 | 5.4:+15377878 | MS.gene72636:CDS |
| ATCAGAGGGAGGGTCTTGAG+GGG | 0.650850 | 5.4:-15377492 | None:intergenic |
| GGGATTCATCATCAGAGGGA+GGG | 0.659890 | 5.4:-15377502 | None:intergenic |
| CGGATGCAACATCATCAGAG+GGG | 0.768604 | 5.4:-15378358 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATAGTTTGAATTAGAAAATT+AGG | - | chr5.4:15377915-15377934 | None:intergenic | 15.0% |
| !! | TTATAATTATAATTGCTTCA+TGG | - | chr5.4:15378277-15378296 | None:intergenic | 15.0% |
| !! | AACATTACATAATTGAATCT+TGG | - | chr5.4:15378024-15378043 | None:intergenic | 20.0% |
| !! | TAACAATTTGGATATATAGA+AGG | - | chr5.4:15377722-15377741 | None:intergenic | 20.0% |
| !!! | AATGTTTTTCTTTTGTTACT+AGG | + | chr5.4:15378302-15378321 | MS.gene72636:intron | 20.0% |
| !!! | TTTTTCGCACTATAATTTTT+AGG | + | chr5.4:15377954-15377973 | MS.gene72636:intron | 20.0% |
| ! | AATTTGGATATATAGAAGGA+TGG | - | chr5.4:15377718-15377737 | None:intergenic | 25.0% |
| ! | CATACTTAAAGAACTTTGAA+GGG | - | chr5.4:15377549-15377568 | None:intergenic | 25.0% |
| ! | CATATATATGTTTGTGTGTA+TGG | - | chr5.4:15378126-15378145 | None:intergenic | 25.0% |
| ! | TGTTTGCATCTATAACAATT+TGG | - | chr5.4:15377734-15377753 | None:intergenic | 25.0% |
| ! | TTATGAGATCAAATTCATGT+AGG | + | chr5.4:15378169-15378188 | MS.gene72636:intron | 25.0% |
| AAAAATGGTGTTCTTCCATA+TGG | - | chr5.4:15377787-15377806 | None:intergenic | 30.0% | |
| CATTAGGATCACAACAAAAA+TGG | - | chr5.4:15377802-15377821 | None:intergenic | 30.0% | |
| CCATACTTAAAGAACTTTGA+AGG | - | chr5.4:15377550-15377569 | None:intergenic | 30.0% | |
| CCTTCAAAGTTCTTTAAGTA+TGG | + | chr5.4:15377547-15377566 | MS.gene72636:CDS | 30.0% | |
| TATATAGCCAATAAAACCCT+AGG | - | chr5.4:15377995-15378014 | None:intergenic | 30.0% | |
| TCAAAGTTCTTTAAGTATGG+AGG | + | chr5.4:15377550-15377569 | MS.gene72636:CDS | 30.0% | |
| !! | CATTTTTGTTGTGATCCTAA+TGG | + | chr5.4:15377800-15377819 | MS.gene72636:CDS | 30.0% |
| GAGTAATATTCGTGAAGTGA+AGG | + | chr5.4:15377691-15377710 | MS.gene72636:CDS | 35.0% | |
| ! | AAAGAACTTTGAAGGGTAGT+TGG | - | chr5.4:15377542-15377561 | None:intergenic | 35.0% |
| ! | AAGAACTTTGAAGGGTAGTT+GGG | - | chr5.4:15377541-15377560 | None:intergenic | 35.0% |
| ! | GTTTTACCCTCATATTGATC+AGG | - | chr5.4:15377887-15377906 | None:intergenic | 35.0% |
| ACCTCAACCTGATCAATATG+AGG | + | chr5.4:15377877-15377896 | MS.gene72636:CDS | 40.0% | |
| AGATGCAGTATCATCAGACT+CGG | - | chr5.4:15378381-15378400 | None:intergenic | 40.0% | |
| CCAATAAAACCCTAGGTCAT+TGG | - | chr5.4:15377988-15378007 | None:intergenic | 40.0% | |
| CCTCAACCTGATCAATATGA+GGG | + | chr5.4:15377878-15377897 | MS.gene72636:CDS | 40.0% | |
| TTCATCAATGCAGTCCAAGT+GGG | - | chr5.4:15377764-15377783 | None:intergenic | 40.0% | |
| ! | GACTGCATTGATGAACCATA+TGG | + | chr5.4:15377769-15377788 | MS.gene72636:CDS | 40.0% |
| !! | ATATTGATCAGGTTGAGGTG+GGG | - | chr5.4:15377876-15377895 | None:intergenic | 40.0% |
| !! | CATATTGATCAGGTTGAGGT+GGG | - | chr5.4:15377877-15377896 | None:intergenic | 40.0% |
| !! | CCAATGACCTAGGGTTTTAT+TGG | + | chr5.4:15377985-15378004 | MS.gene72636:intron | 40.0% |
| !! | GTAGTTGGGTTGGTTTCTTT+GGG | - | chr5.4:15377527-15377546 | None:intergenic | 40.0% |
| !! | TAGTTGGGTTGGTTTCTTTG+GGG | - | chr5.4:15377526-15377545 | None:intergenic | 40.0% |
| !! | TCATATTGATCAGGTTGAGG+TGG | - | chr5.4:15377878-15377897 | None:intergenic | 40.0% |
| AACCGCTCTCGAAGTCTTAA+TGG | + | chr5.4:15377589-15377608 | MS.gene72636:CDS | 45.0% | |
| AATGGAGAAGGTGGAAGTGA+TGG | + | chr5.4:15377647-15377666 | MS.gene72636:CDS | 45.0% | |
| ACTGCATCTGAGTCTGATGA+AGG | + | chr5.4:15378392-15378411 | MS.gene72636:CDS | 45.0% | |
| AGTTCAGAGCTCGTGAGAAT+GGG | + | chr5.4:15377612-15377631 | MS.gene72636:CDS | 45.0% | |
| CTCCATTAAGACTTCGAGAG+CGG | - | chr5.4:15377594-15377613 | None:intergenic | 45.0% | |
| GAAGCTGCTGACAAACCATT+AGG | - | chr5.4:15377818-15377837 | None:intergenic | 45.0% | |
| GCAAACATGTGTTTCCCACT+TGG | + | chr5.4:15377747-15377766 | MS.gene72636:CDS | 45.0% | |
| GTCAACACTCCAATGACCTA+GGG | + | chr5.4:15377976-15377995 | MS.gene72636:intron | 45.0% | |
| GTTCATCAATGCAGTCCAAG+TGG | - | chr5.4:15377765-15377784 | None:intergenic | 45.0% | |
| GTTGAATTCTCGGAAGGGTT+AGG | - | chr5.4:15377455-15377474 | None:intergenic | 45.0% | |
| TCGGATGCAACATCATCAGA+GGG | - | chr5.4:15378362-15378381 | None:intergenic | 45.0% | |
| TCTCGGAAGGGTTAGGTTTA+GGG | - | chr5.4:15377448-15377467 | None:intergenic | 45.0% | |
| TCTGATGAAGGCGAAGGTTT+AGG | + | chr5.4:15378404-15378423 | MS.gene72636:CDS | 45.0% | |
| TTCTCGGAAGGGTTAGGTTT+AGG | - | chr5.4:15377449-15377468 | None:intergenic | 45.0% | |
| TTGGGGGATTCATCATCAGA+GGG | - | chr5.4:15377509-15377528 | None:intergenic | 45.0% | |
| TTTGGGGGATTCATCATCAG+AGG | - | chr5.4:15377510-15377529 | None:intergenic | 45.0% | |
| ! | AATGGTTTGTCAGCAGCTTC+TGG | + | chr5.4:15377818-15377837 | MS.gene72636:CDS | 45.0% |
| ! | ACTTTGAAGGGTAGTTGGGT+TGG | - | chr5.4:15377537-15377556 | None:intergenic | 45.0% |
| ! | CCCTCATATTGATCAGGTTG+AGG | - | chr5.4:15377881-15377900 | None:intergenic | 45.0% |
| ! | TGATGATGAAAGCCAGCCAA+TGG | + | chr5.4:15378325-15378344 | MS.gene72636:CDS | 45.0% |
| !! | AGTTGGGTTGGTTTCTTTGG+GGG | - | chr5.4:15377525-15377544 | None:intergenic | 45.0% |
| !! | GGTAGTTGGGTTGGTTTCTT+TGG | - | chr5.4:15377528-15377547 | None:intergenic | 45.0% |
| !!! | TAATTTTTTTTTTAACTAAT+CGG | + | chr5.4:15378207-15378226 | MS.gene72636:intron | 5.0% |
| AAGCCAGCCAATGGAGATAG+AGG | + | chr5.4:15378334-15378353 | MS.gene72636:CDS | 50.0% | |
| AAGCTGGCAGCTAATGGAGA+AGG | + | chr5.4:15377635-15377654 | MS.gene72636:CDS | 50.0% | |
| AATGGGAAGCTGGCAGCTAA+TGG | + | chr5.4:15377629-15377648 | MS.gene72636:CDS | 50.0% | |
| ATGGTCCAGCTATGAAGAGG+AGG | + | chr5.4:15377666-15377685 | MS.gene72636:CDS | 50.0% | |
| CGGATGCAACATCATCAGAG+GGG | - | chr5.4:15378361-15378380 | None:intergenic | 50.0% | |
| CTCGGATGCAACATCATCAG+AGG | - | chr5.4:15378363-15378382 | None:intergenic | 50.0% | |
| CTCTTCCTCCTCTTCATAGC+TGG | - | chr5.4:15377674-15377693 | None:intergenic | 50.0% | |
| GAGTTCAGAGCTCGTGAGAA+TGG | + | chr5.4:15377611-15377630 | MS.gene72636:CDS | 50.0% | |
| GGGATTCATCATCAGAGGGA+GGG | - | chr5.4:15377505-15377524 | None:intergenic | 50.0% | |
| GGTCAACACTCCAATGACCT+AGG | + | chr5.4:15377975-15377994 | MS.gene72636:intron | 50.0% | |
| GTGATGGTCCAGCTATGAAG+AGG | + | chr5.4:15377663-15377682 | MS.gene72636:CDS | 50.0% | |
| TCTGAGTCTGATGAAGGCGA+AGG | + | chr5.4:15378398-15378417 | MS.gene72636:CDS | 50.0% | |
| TGGGGGTTGAATTCTCGGAA+GGG | - | chr5.4:15377460-15377479 | None:intergenic | 50.0% | |
| ! | AGACTTCGAGAGCGGTTTTC+AGG | - | chr5.4:15377586-15377605 | None:intergenic | 50.0% |
| ! | GTTGGTGGGGGTTGAATTCT+CGG | - | chr5.4:15377465-15377484 | None:intergenic | 50.0% |
| !! | GTCTTGAGGGGACTTGTTGT+TGG | - | chr5.4:15377483-15377502 | None:intergenic | 50.0% |
| !! | TGAGGGGACTTGTTGTTGGT+GGG | - | chr5.4:15377479-15377498 | None:intergenic | 50.0% |
| !! | TTGAGGGGACTTGTTGTTGG+TGG | - | chr5.4:15377480-15377499 | None:intergenic | 50.0% |
| AGCTCGTGAGAATGGGAAGC+TGG | + | chr5.4:15377619-15377638 | MS.gene72636:CDS | 55.0% | |
| AGGTGGGGTGGTTGTTGATG+TGG | - | chr5.4:15377861-15377880 | None:intergenic | 55.0% | |
| ATCAGAGGGAGGGTCTTGAG+GGG | - | chr5.4:15377495-15377514 | None:intergenic | 55.0% | |
| CATCAGAGGGAGGGTCTTGA+GGG | - | chr5.4:15377496-15377515 | None:intergenic | 55.0% | |
| CTGGCAGCTAATGGAGAAGG+TGG | + | chr5.4:15377638-15377657 | MS.gene72636:CDS | 55.0% | |
| GAGGGGTCCTCTATCTCCAT+TGG | - | chr5.4:15378344-15378363 | None:intergenic | 55.0% | |
| GGGGATTCATCATCAGAGGG+AGG | - | chr5.4:15377506-15377525 | None:intergenic | 55.0% | |
| GGGGTGGTTGTTGATGTGGA+AGG | - | chr5.4:15377857-15377876 | None:intergenic | 55.0% | |
| GGTCCTCTATCTCCATTGGC+TGG | - | chr5.4:15378340-15378359 | None:intergenic | 55.0% | |
| GTGGGGGTTGAATTCTCGGA+AGG | - | chr5.4:15377461-15377480 | None:intergenic | 55.0% | |
| TCATCAGAGGGAGGGTCTTG+AGG | - | chr5.4:15377497-15377516 | None:intergenic | 55.0% | |
| !! | AGGGGACTTGTTGTTGGTGG+GGG | - | chr5.4:15377477-15377496 | None:intergenic | 55.0% |
| !! | GAGGGGACTTGTTGTTGGTG+GGG | - | chr5.4:15377478-15377497 | None:intergenic | 55.0% |
| !! | TTGATCAGGTTGAGGTGGGG+TGG | - | chr5.4:15377873-15377892 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.4 | gene | 15377437 | 15378466 | 15377437 | ID=MS.gene72636 |
| chr5.4 | mRNA | 15377437 | 15378466 | 15377437 | ID=MS.gene72636.t1;Parent=MS.gene72636 |
| chr5.4 | exon | 15377437 | 15377899 | 15377437 | ID=MS.gene72636.t1.exon1;Parent=MS.gene72636.t1 |
| chr5.4 | CDS | 15377437 | 15377899 | 15377437 | ID=cds.MS.gene72636.t1;Parent=MS.gene72636.t1 |
| chr5.4 | exon | 15378324 | 15378466 | 15378324 | ID=MS.gene72636.t1.exon2;Parent=MS.gene72636.t1 |
| chr5.4 | CDS | 15378324 | 15378466 | 15378324 | ID=cds.MS.gene72636.t1;Parent=MS.gene72636.t1 |
| Gene Sequence |
| Protein sequence |
