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.gene24729.t1 | XP_003625844.1 | 98.9 | 182 | 2 | 0 | 1 | 182 | 296 | 477 | 1.80E-92 | 348.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene24729.t1 | Q9CAX8 | 64.8 | 54 | 19 | 0 | 1 | 54 | 290 | 343 | 1.8e-08 | 60.8 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene24729.t1 | Q2HTG0 | 98.9 | 182 | 2 | 0 | 1 | 182 | 296 | 477 | 1.3e-92 | 348.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051388 | MS.gene24729 | 0.816945 | 4.26E-52 | -1.69E-46 |
| MS.gene051719 | MS.gene24729 | 0.805874 | 1.08E-49 | -1.69E-46 |
| MS.gene052020 | MS.gene24729 | 0.800667 | 1.29E-48 | -1.69E-46 |
| MS.gene052665 | MS.gene24729 | 0.805099 | 1.57E-49 | -1.69E-46 |
| MS.gene052863 | MS.gene24729 | 0.800867 | 1.18E-48 | -1.69E-46 |
| MS.gene052896 | MS.gene24729 | 0.83058 | 2.71E-55 | -1.69E-46 |
| MS.gene053144 | MS.gene24729 | 0.801637 | 8.20E-49 | -1.69E-46 |
| MS.gene053221 | MS.gene24729 | 0.802997 | 4.30E-49 | -1.69E-46 |
| MS.gene054584 | MS.gene24729 | 0.801625 | 8.24E-49 | -1.69E-46 |
| MS.gene055466 | MS.gene24729 | 0.809902 | 1.50E-50 | -1.69E-46 |
| MS.gene055468 | MS.gene24729 | 0.808024 | 3.79E-50 | -1.69E-46 |
| MS.gene055512 | MS.gene24729 | 0.800212 | 1.60E-48 | -1.69E-46 |
| MS.gene060587 | MS.gene24729 | 0.807042 | 6.13E-50 | -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.gene24729.t1 | MTR_7g104900 | 98.901 | 182 | 2 | 0 | 1 | 182 | 296 | 477 | 1.92e-130 | 374 |
| MS.gene24729.t1 | MTR_2g086580 | 35.204 | 196 | 97 | 6 | 1 | 182 | 272 | 451 | 4.15e-20 | 87.0 |
| MS.gene24729.t1 | MTR_4g052850 | 61.538 | 52 | 20 | 0 | 1 | 52 | 291 | 342 | 2.29e-13 | 67.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene24729.t1 | AT3G11490 | 33.516 | 182 | 85 | 5 | 1 | 182 | 290 | 435 | 1.09e-14 | 71.6 |
| MS.gene24729.t1 | AT5G22400 | 32.065 | 184 | 92 | 6 | 1 | 182 | 314 | 466 | 2.60e-14 | 70.5 |
Find 32 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGTCGTCATCAAAAGAATTT+AGG | 0.199052 | 7.1:+6767337 | None:intergenic |
| AACAGGGGAATTGCTCTTAT+TGG | 0.209429 | 7.1:-6766976 | MS.gene24729:CDS |
| GGTAGATGTTTGCAGACTTT+TGG | 0.259340 | 7.1:+6767164 | None:intergenic |
| CAAATTTGCTCTATGGCAAT+TGG | 0.299227 | 7.1:-6767078 | MS.gene24729:CDS |
| TGTCTCTCAAATTTGCTCTA+TGG | 0.337429 | 7.1:-6767085 | MS.gene24729:CDS |
| AAATTTGCTCTATGGCAATT+GGG | 0.376762 | 7.1:-6767077 | MS.gene24729:CDS |
| CTCTAGTGGAAATAGGTTGC+TGG | 0.380325 | 7.1:-6767130 | MS.gene24729:CDS |
| CAGGATCGGTGGAGAAGAAC+AGG | 0.382654 | 7.1:-6766993 | MS.gene24729:CDS |
| TTCAAGGATGAAAGTGAATA+CGG | 0.433037 | 7.1:-6767288 | MS.gene24729:CDS |
| AAAGAATTTAGGTTTGAAGA+GGG | 0.509307 | 7.1:+6767348 | None:intergenic |
| AGGGCTTTGTTGTGAAGGCT+CGG | 0.512525 | 7.1:+6767227 | None:intergenic |
| GATACAGACAAGTGTTCAGC+AGG | 0.515554 | 7.1:-6767012 | MS.gene24729:CDS |
| CTTTCATCCTTGAAAAGCAA+CGG | 0.527666 | 7.1:+6767297 | None:intergenic |
| AATAAATTCAAGATCCGAGT+TGG | 0.537228 | 7.1:-6766950 | MS.gene24729:CDS |
| GATCCGAGTTGGCTGAAGCT+TGG | 0.541926 | 7.1:-6766939 | MS.gene24729:CDS |
| AAAAGAATTTAGGTTTGAAG+AGG | 0.545936 | 7.1:+6767347 | None:intergenic |
| AATTTGCTCTATGGCAATTG+GGG | 0.553155 | 7.1:-6767076 | MS.gene24729:CDS |
| AGACAAGTGTTCAGCAGGAT+CGG | 0.558238 | 7.1:-6767007 | MS.gene24729:CDS |
| TATCAGAAGCATTCAACTGA+AGG | 0.560255 | 7.1:+6767031 | None:intergenic |
| ACGCCAAGCTTCAGCCAACT+CGG | 0.566606 | 7.1:+6766936 | None:intergenic |
| TGTGTAGGGCTTTGTTGTGA+AGG | 0.584574 | 7.1:+6767222 | None:intergenic |
| AATGACACTGAAAGAAAGAG+AGG | 0.594982 | 7.1:-6767391 | MS.gene24729:CDS |
| CAAGTGTTCAGCAGGATCGG+TGG | 0.605727 | 7.1:-6767004 | MS.gene24729:CDS |
| ATTTGAGAGACAACGCCGCA+AGG | 0.616817 | 7.1:+6767096 | None:intergenic |
| GCATACATCAGAGCAGTCAA+AGG | 0.627919 | 7.1:+6767450 | None:intergenic |
| CTGGTTGACAGTTGTCCTTG+CGG | 0.643744 | 7.1:-6767111 | MS.gene24729:CDS |
| AGGATCGGTGGAGAAGAACA+GGG | 0.661117 | 7.1:-6766992 | MS.gene24729:CDS |
| GATGACTGTGAAACTGAGAG+TGG | 0.687837 | 7.1:-6767189 | MS.gene24729:CDS |
| TCATTGCTACTAGAGTCTTG+AGG | 0.696604 | 7.1:+6767409 | None:intergenic |
| CGGAAATGATTACAGCGACG+AGG | 0.709785 | 7.1:-6767268 | MS.gene24729:CDS |
| GGATCGGTGGAGAAGAACAG+GGG | 0.723286 | 7.1:-6766991 | MS.gene24729:CDS |
| GCTTTGTTGTGAAGGCTCGG+CGG | 0.725223 | 7.1:+6767230 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAGAATTTAGGTTTGAAG+AGG | + | chr7.1:6767048-6767067 | None:intergenic | 25.0% |
| !! | AAAGAATTTAGGTTTGAAGA+GGG | + | chr7.1:6767047-6767066 | None:intergenic | 25.0% |
| !! | ATTTTATCTCTAGTGGAAAT+AGG | - | chr7.1:6767255-6767274 | MS.gene24729:CDS | 25.0% |
| !! | CATCTTTAAAAAGATGTGTA+GGG | + | chr7.1:6767187-6767206 | None:intergenic | 25.0% |
| !! | TCATCTTTAAAAAGATGTGT+AGG | + | chr7.1:6767188-6767207 | None:intergenic | 25.0% |
| !! | TCCACTAGAGATAAAATTTT+CGG | + | chr7.1:6767252-6767271 | None:intergenic | 25.0% |
| AATAAATTCAAGATCCGAGT+TGG | - | chr7.1:6767442-6767461 | MS.gene24729:CDS | 30.0% | |
| TTCAAGGATGAAAGTGAATA+CGG | - | chr7.1:6767104-6767123 | MS.gene24729:CDS | 30.0% | |
| ! | AAATTTGCTCTATGGCAATT+GGG | - | chr7.1:6767315-6767334 | MS.gene24729:CDS | 30.0% |
| ! | ACCGAAAATTTTATCTCTAG+TGG | - | chr7.1:6767248-6767267 | MS.gene24729:CDS | 30.0% |
| !!! | CTAAATTCTTTTGATGACGA+CGG | - | chr7.1:6767056-6767075 | MS.gene24729:CDS | 30.0% |
| !!! | TAAATTCTTTTGATGACGAC+GGG | - | chr7.1:6767057-6767076 | MS.gene24729:CDS | 30.0% |
| AATGACACTGAAAGAAAGAG+AGG | - | chr7.1:6767001-6767020 | MS.gene24729:CDS | 35.0% | |
| CGTCGTCATCAAAAGAATTT+AGG | + | chr7.1:6767058-6767077 | None:intergenic | 35.0% | |
| CTTTCATCCTTGAAAAGCAA+CGG | + | chr7.1:6767098-6767117 | None:intergenic | 35.0% | |
| ! | AATTTGCTCTATGGCAATTG+GGG | - | chr7.1:6767316-6767335 | MS.gene24729:CDS | 35.0% |
| ! | CAAATTTGCTCTATGGCAAT+TGG | - | chr7.1:6767314-6767333 | MS.gene24729:CDS | 35.0% |
| ! | TGTCTCTCAAATTTGCTCTA+TGG | - | chr7.1:6767307-6767326 | MS.gene24729:CDS | 35.0% |
| !! | TATCAGAAGCATTCAACTGA+AGG | + | chr7.1:6767364-6767383 | None:intergenic | 35.0% |
| AACAGGGGAATTGCTCTTAT+TGG | - | chr7.1:6767416-6767435 | MS.gene24729:CDS | 40.0% | |
| TCATTGCTACTAGAGTCTTG+AGG | + | chr7.1:6766986-6767005 | None:intergenic | 40.0% | |
| ! | GGTAGATGTTTGCAGACTTT+TGG | + | chr7.1:6767231-6767250 | None:intergenic | 40.0% |
| AGACAAGTGTTCAGCAGGAT+CGG | - | chr7.1:6767385-6767404 | MS.gene24729:CDS | 45.0% | |
| CTCTAGTGGAAATAGGTTGC+TGG | - | chr7.1:6767262-6767281 | MS.gene24729:CDS | 45.0% | |
| GATACAGACAAGTGTTCAGC+AGG | - | chr7.1:6767380-6767399 | MS.gene24729:CDS | 45.0% | |
| GATGACTGTGAAACTGAGAG+TGG | - | chr7.1:6767203-6767222 | MS.gene24729:CDS | 45.0% | |
| GCATACATCAGAGCAGTCAA+AGG | + | chr7.1:6766945-6766964 | None:intergenic | 45.0% | |
| !! | TGTGTAGGGCTTTGTTGTGA+AGG | + | chr7.1:6767173-6767192 | None:intergenic | 45.0% |
| !!! | CGATTCACCGTTGCTTTTCA+AGG | - | chr7.1:6767088-6767107 | MS.gene24729:CDS | 45.0% |
| AGGATCGGTGGAGAAGAACA+GGG | - | chr7.1:6767400-6767419 | MS.gene24729:CDS | 50.0% | |
| ATTTGAGAGACAACGCCGCA+AGG | + | chr7.1:6767299-6767318 | None:intergenic | 50.0% | |
| CGGAAATGATTACAGCGACG+AGG | - | chr7.1:6767124-6767143 | MS.gene24729:CDS | 50.0% | |
| CTGGTTGACAGTTGTCCTTG+CGG | - | chr7.1:6767281-6767300 | MS.gene24729:CDS | 50.0% | |
| !! | AGGGCTTTGTTGTGAAGGCT+CGG | + | chr7.1:6767168-6767187 | None:intergenic | 50.0% |
| ACGCCAAGCTTCAGCCAACT+CGG | + | chr7.1:6767459-6767478 | None:intergenic | 55.0% | |
| CAAGTGTTCAGCAGGATCGG+TGG | - | chr7.1:6767388-6767407 | MS.gene24729:CDS | 55.0% | |
| CAGGATCGGTGGAGAAGAAC+AGG | - | chr7.1:6767399-6767418 | MS.gene24729:CDS | 55.0% | |
| GGATCGGTGGAGAAGAACAG+GGG | - | chr7.1:6767401-6767420 | MS.gene24729:CDS | 55.0% | |
| ! | GATCCGAGTTGGCTGAAGCT+TGG | - | chr7.1:6767453-6767472 | MS.gene24729:CDS | 55.0% |
| ! | GCTTTGTTGTGAAGGCTCGG+CGG | + | chr7.1:6767165-6767184 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.1 | gene | 6766933 | 6767481 | 6766933 | ID=MS.gene24729 |
| chr7.1 | mRNA | 6766933 | 6767481 | 6766933 | ID=MS.gene24729.t1;Parent=MS.gene24729 |
| chr7.1 | exon | 6766933 | 6767481 | 6766933 | ID=MS.gene24729.t1.exon1;Parent=MS.gene24729.t1 |
| chr7.1 | CDS | 6766933 | 6767481 | 6766933 | ID=cds.MS.gene24729.t1;Parent=MS.gene24729.t1 |
| Gene Sequence |
| Protein sequence |
