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.gene79916.t1 | XP_024633575.1 | 76.8 | 259 | 45 | 4 | 1 | 247 | 1 | 256 | 1.20E-83 | 319.7 |
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.gene79916.t1 | A0A396IXT0 | 73.5 | 257 | 20 | 4 | 1 | 244 | 1 | 222 | 1.8e-68 | 268.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene79916.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.gene79916.t1 | MTR_3g084720 | 75.097 | 257 | 23 | 5 | 1 | 244 | 1 | 229 | 5.87e-100 | 291 |
| MS.gene79916.t1 | MTR_7g010470 | 56.250 | 80 | 34 | 1 | 169 | 247 | 1 | 80 | 2.03e-21 | 85.9 |
| MS.gene79916.t1 | MTR_6g055180 | 77.551 | 49 | 9 | 1 | 1 | 47 | 1 | 49 | 3.24e-16 | 72.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene79916.t1 | AT2G18490 | 56.923 | 65 | 28 | 0 | 128 | 192 | 147 | 211 | 4.64e-19 | 84.0 |
| MS.gene79916.t1 | AT2G18490 | 56.923 | 65 | 28 | 0 | 128 | 192 | 197 | 261 | 6.30e-19 | 84.3 |
| MS.gene79916.t1 | AT2G15740 | 51.948 | 77 | 33 | 1 | 125 | 201 | 219 | 291 | 2.41e-18 | 83.2 |
| MS.gene79916.t1 | AT5G22990 | 49.398 | 83 | 41 | 1 | 136 | 217 | 232 | 314 | 1.01e-17 | 81.3 |
| MS.gene79916.t1 | AT5G42640 | 50.000 | 68 | 30 | 1 | 129 | 192 | 218 | 285 | 3.50e-16 | 76.6 |
Find 29 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAGAGTCTTGAAGCACAATT+TGG | 0.219378 | 3.1:-65138054 | MS.gene79916:CDS |
| TCAGTTGGTACCAATAATTT+TGG | 0.290051 | 3.1:-65138108 | MS.gene79916:CDS |
| AGCATGACTACCAAAATTAT+TGG | 0.316188 | 3.1:+65138098 | None:intergenic |
| AGCCTACCACACAAGAAATA+TGG | 0.358104 | 3.1:-65137748 | MS.gene79916:CDS |
| TATTAATAATAATTATTTGA+AGG | 0.406891 | 3.1:+65137439 | None:intergenic |
| TTATCAGCACAAGCAATAAC+AGG | 0.430056 | 3.1:+65137544 | None:intergenic |
| ACAATCATAGATTGGTTCAA+TGG | 0.452424 | 3.1:-65138164 | MS.gene79916:CDS |
| TTCTAGGATTCGAAAGAGAC+CGG | 0.465129 | 3.1:-65137611 | MS.gene79916:CDS |
| AGCAATGAAAATATTGATGA+TGG | 0.472887 | 3.1:-65137781 | MS.gene79916:CDS |
| CAATATGAACAATCATAGAT+TGG | 0.479701 | 3.1:-65138172 | None:intergenic |
| AGAGTCTTGAAGCACAATTT+GGG | 0.488266 | 3.1:-65138053 | MS.gene79916:CDS |
| ATTTCTTGTGTGGTAGGCTG+TGG | 0.491007 | 3.1:+65137752 | None:intergenic |
| GATAAGCCTACATGGAGATC+AGG | 0.504896 | 3.1:+65137901 | None:intergenic |
| TCACATCCTGATCTCCATGT+AGG | 0.522755 | 3.1:-65137907 | MS.gene79916:CDS |
| ACCAACTGATGATGATGAAT+GGG | 0.541850 | 3.1:+65138122 | None:intergenic |
| GTCCATATTTCTTGTGTGGT+AGG | 0.551362 | 3.1:+65137746 | None:intergenic |
| ATGTTAACAAGAACGATATG+AGG | 0.552379 | 3.1:-65137819 | MS.gene79916:CDS |
| CTCTCACCCCTCTTCCAAGT+GGG | 0.558684 | 3.1:-65137480 | MS.gene79916:CDS |
| TACCAACTGATGATGATGAA+TGG | 0.562352 | 3.1:+65138121 | None:intergenic |
| AGATTGGTTCAATGGATGCA+TGG | 0.584866 | 3.1:-65138156 | MS.gene79916:CDS |
| GCTCTCACCCCTCTTCCAAG+TGG | 0.584935 | 3.1:-65137481 | MS.gene79916:CDS |
| TATGGTCCATATTTCTTGTG+TGG | 0.586966 | 3.1:+65137742 | None:intergenic |
| ACCCATTCATCATCATCAGT+TGG | 0.590463 | 3.1:-65138123 | MS.gene79916:CDS |
| CAGATTCAAAAGCTCAATGA+CGG | 0.593887 | 3.1:-65137583 | MS.gene79916:CDS |
| TCTAGGATTCGAAAGAGACC+GGG | 0.623769 | 3.1:-65137610 | MS.gene79916:CDS |
| TCCGGGAATCATAAAAGCGA+TGG | 0.628214 | 3.1:-65138076 | MS.gene79916:CDS |
| AAGTGGGATAAAAGTCAAGT+CGG | 0.648453 | 3.1:-65137464 | MS.gene79916:CDS |
| GACGACGACGATGTTGATGT+AGG | 0.650410 | 3.1:+65138024 | None:intergenic |
| ATTGTGACGATAAGCCTACA+TGG | 0.663326 | 3.1:+65137893 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AGCAATGAAAATATTGATGA+TGG | - | chr3.1:65137828-65137847 | MS.gene79916:CDS | 25.0% |
| ! | GAAAAAAGAGATACATTTCT+AGG | - | chr3.1:65137982-65138001 | MS.gene79916:CDS | 25.0% |
| !! | ATTTTGTTGCATTTTGAACA+TGG | + | chr3.1:65137894-65137913 | None:intergenic | 25.0% |
| !!! | CAAACGATTAATATTTTTGC+TGG | - | chr3.1:65137756-65137775 | MS.gene79916:CDS | 25.0% |
| AGCATGACTACCAAAATTAT+TGG | + | chr3.1:65137514-65137533 | None:intergenic | 30.0% | |
| ATGTTAACAAGAACGATATG+AGG | - | chr3.1:65137790-65137809 | MS.gene79916:CDS | 30.0% | |
| ! | ACAATCATAGATTGGTTCAA+TGG | - | chr3.1:65137445-65137464 | MS.gene79916:CDS | 30.0% |
| ! | TTGCATTTTGAACATGGATA+TGG | + | chr3.1:65137888-65137907 | None:intergenic | 30.0% |
| !! | TCAGTTGGTACCAATAATTT+TGG | - | chr3.1:65137501-65137520 | MS.gene79916:CDS | 30.0% |
| AAGTGGGATAAAAGTCAAGT+CGG | - | chr3.1:65138145-65138164 | MS.gene79916:CDS | 35.0% | |
| AGAGTCTTGAAGCACAATTT+GGG | - | chr3.1:65137556-65137575 | MS.gene79916:CDS | 35.0% | |
| CAGATTCAAAAGCTCAATGA+CGG | - | chr3.1:65138026-65138045 | MS.gene79916:CDS | 35.0% | |
| TATGGTCCATATTTCTTGTG+TGG | + | chr3.1:65137870-65137889 | None:intergenic | 35.0% | |
| TTATCAGCACAAGCAATAAC+AGG | + | chr3.1:65138068-65138087 | None:intergenic | 35.0% | |
| ! | ACCAACTGATGATGATGAAT+GGG | + | chr3.1:65137490-65137509 | None:intergenic | 35.0% |
| ! | TACCAACTGATGATGATGAA+TGG | + | chr3.1:65137491-65137510 | None:intergenic | 35.0% |
| !! | TAATTTTGGTAGTCATGCTC+CGG | - | chr3.1:65137515-65137534 | MS.gene79916:CDS | 35.0% |
| !! | TATTTTTGCTGGTGATGTTG+AGG | - | chr3.1:65137767-65137786 | MS.gene79916:CDS | 35.0% |
| ACCCATTCATCATCATCAGT+TGG | - | chr3.1:65137486-65137505 | MS.gene79916:CDS | 40.0% | |
| AGCCTACCACACAAGAAATA+TGG | - | chr3.1:65137861-65137880 | MS.gene79916:CDS | 40.0% | |
| ATTGTGACGATAAGCCTACA+TGG | + | chr3.1:65137719-65137738 | None:intergenic | 40.0% | |
| GAGAGTCTTGAAGCACAATT+TGG | - | chr3.1:65137555-65137574 | MS.gene79916:CDS | 40.0% | |
| GTCCATATTTCTTGTGTGGT+AGG | + | chr3.1:65137866-65137885 | None:intergenic | 40.0% | |
| ! | ACTTTTATCCCACTTGGAAG+AGG | + | chr3.1:65138140-65138159 | None:intergenic | 40.0% |
| ! | AGATTGGTTCAATGGATGCA+TGG | - | chr3.1:65137453-65137472 | MS.gene79916:CDS | 40.0% |
| ! | AGCTTTTGAATCTGAAGACC+CGG | + | chr3.1:65138020-65138039 | None:intergenic | 40.0% |
| ! | CTTTTATCCCACTTGGAAGA+GGG | + | chr3.1:65138139-65138158 | None:intergenic | 40.0% |
| ! | GACTTGACTTTTATCCCACT+TGG | + | chr3.1:65138146-65138165 | None:intergenic | 40.0% |
| ! | TTTTATCCCACTTGGAAGAG+GGG | + | chr3.1:65138138-65138157 | None:intergenic | 40.0% |
| !! | AATTTTGGTAGTCATGCTCC+GGG | - | chr3.1:65137516-65137535 | MS.gene79916:CDS | 40.0% |
| !! | TCCATCGCTTTTATGATTCC+CGG | + | chr3.1:65137537-65137556 | None:intergenic | 40.0% |
| !! | TTCTAGGATTCGAAAGAGAC+CGG | - | chr3.1:65137998-65138017 | MS.gene79916:CDS | 40.0% |
| ATTTCTTGTGTGGTAGGCTG+TGG | + | chr3.1:65137860-65137879 | None:intergenic | 45.0% | |
| GATAAGCCTACATGGAGATC+AGG | + | chr3.1:65137711-65137730 | None:intergenic | 45.0% | |
| TCACATCCTGATCTCCATGT+AGG | - | chr3.1:65137702-65137721 | MS.gene79916:CDS | 45.0% | |
| TCCGGGAATCATAAAAGCGA+TGG | - | chr3.1:65137533-65137552 | MS.gene79916:CDS | 45.0% | |
| ! | TCTAGGATTCGAAAGAGACC+GGG | - | chr3.1:65137999-65138018 | MS.gene79916:CDS | 45.0% |
| GACGACGACGATGTTGATGT+AGG | + | chr3.1:65137588-65137607 | None:intergenic | 50.0% | |
| CTCTCACCCCTCTTCCAAGT+GGG | - | chr3.1:65138129-65138148 | MS.gene79916:CDS | 55.0% | |
| GCTCTCACCCCTCTTCCAAG+TGG | - | chr3.1:65138128-65138147 | MS.gene79916:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 65137441 | 65138190 | 65137441 | ID=MS.gene79916 |
| chr3.1 | mRNA | 65137441 | 65138190 | 65137441 | ID=MS.gene79916.t1;Parent=MS.gene79916 |
| chr3.1 | exon | 65137441 | 65138190 | 65137441 | ID=MS.gene79916.t1.exon1;Parent=MS.gene79916.t1 |
| chr3.1 | CDS | 65137441 | 65138190 | 65137441 | ID=cds.MS.gene79916.t1;Parent=MS.gene79916.t1 |
| Gene Sequence |
| Protein sequence |
