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.gene068776.t1 | AAV85438.1 | 95.9 | 73 | 3 | 0 | 1 | 73 | 1 | 73 | 6.70E-35 | 156 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene068776.t1 | Q01784 | 81.1 | 74 | 13 | 1 | 1 | 73 | 1 | 74 | 4.7e-29 | 127.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene068776.t1 | Q4G3U6 | 95.9 | 73 | 3 | 0 | 1 | 73 | 1 | 73 | 4.8e-35 | 156.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050315 | MS.gene068776 | 0.810555 | 1.09E-50 | -1.69E-46 |
| MS.gene050406 | MS.gene068776 | 0.812756 | 3.61E-51 | -1.69E-46 |
| MS.gene052134 | MS.gene068776 | 0.833988 | 3.89E-56 | -1.69E-46 |
| MS.gene052135 | MS.gene068776 | 0.818745 | 1.67E-52 | -1.69E-46 |
| MS.gene052589 | MS.gene068776 | 0.816978 | 4.18E-52 | -1.69E-46 |
| MS.gene052758 | MS.gene068776 | 0.812142 | 4.92E-51 | -1.69E-46 |
| MS.gene053330 | MS.gene068776 | 0.860673 | 1.75E-63 | -1.69E-46 |
| MS.gene053579 | MS.gene068776 | 0.825096 | 5.65E-54 | -1.69E-46 |
| MS.gene053971 | MS.gene068776 | 0.808612 | 2.84E-50 | -1.69E-46 |
| MS.gene054102 | MS.gene068776 | 0.829082 | 6.28E-55 | -1.69E-46 |
| MS.gene054110 | MS.gene068776 | 0.811145 | 8.10E-51 | -1.69E-46 |
| MS.gene054884 | MS.gene068776 | -0.802952 | 4.39E-49 | -1.69E-46 |
| MS.gene055370 | MS.gene068776 | 0.869248 | 3.57E-66 | -1.69E-46 |
| MS.gene056633 | MS.gene068776 | 0.881324 | 2.64E-70 | -1.69E-46 |
| MS.gene056664 | MS.gene068776 | 0.821504 | 3.90E-53 | -1.69E-46 |
| MS.gene057196 | MS.gene068776 | 0.80661 | 7.57E-50 | -1.69E-46 |
| MS.gene058746 | MS.gene068776 | 0.872012 | 4.41E-67 | -1.69E-46 |
| MS.gene059512 | MS.gene068776 | 0.832133 | 1.12E-55 | -1.69E-46 |
| MS.gene060087 | MS.gene068776 | -0.819022 | 1.44E-52 | -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.gene068776.t1 | MTR_2g079430 | 86.301 | 73 | 10 | 0 | 1 | 73 | 1 | 73 | 1.27e-36 | 117 |
| MS.gene068776.t1 | MTR_2g079440 | 63.514 | 74 | 24 | 2 | 1 | 73 | 1 | 72 | 4.95e-29 | 98.6 |
| MS.gene068776.t1 | MTR_6g075430 | 44.706 | 85 | 35 | 3 | 1 | 73 | 1 | 85 | 6.07e-16 | 65.9 |
| MS.gene068776.t1 | MTR_8g095375 | 36.000 | 75 | 45 | 2 | 1 | 73 | 1 | 74 | 7.33e-12 | 55.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 11 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGCAAGGACTTGTGAGCATT+TGG | 0.402994 | 2.3:-18266479 | MS.gene068776:CDS |
| TGCAGAAACATTGAAGTCTA+TGG | 0.420665 | 2.3:+18266371 | None:intergenic |
| GAATGAGGAAGAGGAAGCAC+AGG | 0.448809 | 2.3:+18267484 | None:intergenic |
| AACAAAGCACACTTAATAAG+TGG | 0.478955 | 2.3:-18266400 | MS.gene068776:CDS |
| CGACAAAGAGAATGAGGAAG+AGG | 0.505541 | 2.3:+18267475 | None:intergenic |
| CATTTGGCTGATACATATAG+AGG | 0.536909 | 2.3:-18266463 | MS.gene068776:CDS |
| ATGGAGAAGAGATCAGTAGC+TGG | 0.575142 | 2.3:-18267507 | MS.gene068776:CDS |
| TACGTGCGACAAAGAGAATG+AGG | 0.582959 | 2.3:+18267469 | None:intergenic |
| CAGCTAGCATCTGTGAAGCA+TGG | 0.627719 | 2.3:+18266439 | None:intergenic |
| CATGGATGCAGAAGAAATTG+TGG | 0.636627 | 2.3:-18266509 | MS.gene068776:intron |
| AAATTGTGGTGATTGAAGCA+AGG | 0.641556 | 2.3:-18266495 | MS.gene068776:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATATTCTAATATTGTTTAA+TGG | - | chr2.3:18267330-18267349 | MS.gene068776:intron | 10.0% |
| !! | AGCAACAATAATAATTAAAT+GGG | + | chr2.3:18266684-18266703 | None:intergenic | 15.0% |
| !! | CTTAATTAACAATATACTAA+AGG | + | chr2.3:18266748-18266767 | None:intergenic | 15.0% |
| !! | TATATAAATATTACTTTGTC+AGG | + | chr2.3:18266983-18267002 | None:intergenic | 15.0% |
| !!! | AATTAAGTTTTTTTTATAGC+AGG | - | chr2.3:18266761-18266780 | MS.gene068776:intron | 15.0% |
| !! | AAATAAAAAATCGACACATT+TGG | + | chr2.3:18266947-18266966 | None:intergenic | 20.0% |
| !! | ATTAACAATATACTAAAGGA+AGG | + | chr2.3:18266744-18266763 | None:intergenic | 20.0% |
| !! | CAGCAACAATAATAATTAAA+TGG | + | chr2.3:18266685-18266704 | None:intergenic | 20.0% |
| !! | TAATATTGTTTAATGGTACA+TGG | - | chr2.3:18267337-18267356 | MS.gene068776:intron | 20.0% |
| !!! | AAAGTATATCTTTAATTTCG+TGG | - | chr2.3:18266534-18266553 | MS.gene068776:intron | 20.0% |
| !!! | ACTAAGCAATTAAGTTTTAA+TGG | + | chr2.3:18267201-18267220 | None:intergenic | 20.0% |
| !!! | ATTTTTTATTTGTAAAGGTC+AGG | - | chr2.3:18266956-18266975 | MS.gene068776:intron | 20.0% |
| !!! | TCTTTCTCTGATTTAATTTT+TGG | - | chr2.3:18266631-18266650 | MS.gene068776:intron | 20.0% |
| !!! | TGTCGATTTTTTATTTGTAA+AGG | - | chr2.3:18266951-18266970 | MS.gene068776:intron | 20.0% |
| !!! | TAAGTTTTTTTTATAGCAGG+AGG | - | chr2.3:18266764-18266783 | MS.gene068776:intron | 25.0% |
| AAAAGACAAATTGAACCGTT+TGG | - | chr2.3:18266840-18266859 | MS.gene068776:intron | 30.0% | |
| AACAAAGCACACTTAATAAG+TGG | - | chr2.3:18267464-18267483 | MS.gene068776:intron | 30.0% | |
| AGACATCATGTCTAAAAGAA+AGG | - | chr2.3:18266569-18266588 | MS.gene068776:intron | 30.0% | |
| ! | CACATCTATTTCTTAGTGTA+TGG | - | chr2.3:18267065-18267084 | MS.gene068776:intron | 30.0% |
| ! | TAATTTAGAGTTTGATCGTG+CGG | - | chr2.3:18267095-18267114 | MS.gene068776:intron | 30.0% |
| AAATTGTGGTGATTGAAGCA+AGG | - | chr2.3:18267369-18267388 | MS.gene068776:intron | 35.0% | |
| CATCAATACGTAGAAATGTG+TGG | - | chr2.3:18266914-18266933 | MS.gene068776:intron | 35.0% | |
| CATTTGGCTGATACATATAG+AGG | - | chr2.3:18267401-18267420 | MS.gene068776:intron | 35.0% | |
| TGCAGAAACATTGAAGTCTA+TGG | + | chr2.3:18267496-18267515 | None:intergenic | 35.0% | |
| CATGGATGCAGAAGAAATTG+TGG | - | chr2.3:18267355-18267374 | MS.gene068776:intron | 40.0% | |
| GACAAATTGAACCGTTTGGA+CGG | - | chr2.3:18266844-18266863 | MS.gene068776:intron | 40.0% | |
| ! | TTGTCTGAAATCCGTCCAAA+CGG | + | chr2.3:18266858-18266877 | None:intergenic | 40.0% |
| AGCAAGGACTTGTGAGCATT+TGG | - | chr2.3:18267385-18267404 | MS.gene068776:intron | 45.0% | |
| ATGGAGAAGAGATCAGTAGC+TGG | - | chr2.3:18266357-18266376 | MS.gene068776:CDS | 45.0% | |
| CGACAAAGAGAATGAGGAAG+AGG | + | chr2.3:18266392-18266411 | None:intergenic | 45.0% | |
| TACGTGCGACAAAGAGAATG+AGG | + | chr2.3:18266398-18266417 | None:intergenic | 45.0% | |
| !! | TATAAAAAAAAAAAAAAAAG+AGG | + | chr2.3:18266490-18266509 | None:intergenic | 5.0% |
| !!! | AGAATATATTTTTTTTAAAT+AGG | + | chr2.3:18267318-18267337 | None:intergenic | 5.0% |
| !!! | GAATATATTTTTTTTAAATA+GGG | + | chr2.3:18267317-18267336 | None:intergenic | 5.0% |
| CAGCTAGCATCTGTGAAGCA+TGG | + | chr2.3:18267428-18267447 | None:intergenic | 50.0% | |
| ! | GAATGAGGAAGAGGAAGCAC+AGG | + | chr2.3:18266383-18266402 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2.3 | gene | 18266357 | 18267529 | 18266357 | ID=MS.gene068776 |
| chr2.3 | mRNA | 18266357 | 18267529 | 18266357 | ID=MS.gene068776.t1;Parent=MS.gene068776 |
| chr2.3 | exon | 18267472 | 18267529 | 18267472 | ID=MS.gene068776.t1.exon1;Parent=MS.gene068776.t1 |
| chr2.3 | CDS | 18267472 | 18267529 | 18267472 | ID=cds.MS.gene068776.t1;Parent=MS.gene068776.t1 |
| chr2.3 | exon | 18266357 | 18266520 | 18266357 | ID=MS.gene068776.t1.exon2;Parent=MS.gene068776.t1 |
| chr2.3 | CDS | 18266357 | 18266520 | 18266357 | ID=cds.MS.gene068776.t1;Parent=MS.gene068776.t1 |
| Gene Sequence |
| Protein sequence |
