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.gene46321.t1 | XP_024633392.1 | 97.8 | 223 | 5 | 0 | 1 | 223 | 129 | 351 | 1.80E-115 | 425.2 |
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.gene46321.t1 | A0A072VJK4 | 97.8 | 223 | 5 | 0 | 1 | 223 | 205 | 427 | 1.3e-115 | 425.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049369 | MS.gene46321 | 0.802387 | 5.75E-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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 42 sgRNAs with CRISPR-Local
Find 92 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAGAAGGATTTGGCTATATT+TGG | 0.149892 | 1.3:-42842074 | MS.gene46321:CDS |
| GAATTATAAGCTTGACTTAC+AGG | 0.172414 | 1.3:+42842885 | None:intergenic |
| AGAGAATTTCTTGTACATTT+TGG | 0.238907 | 1.3:-42842840 | MS.gene46321:CDS |
| TTTGGATTCTTTATTGCTTT+AGG | 0.283500 | 1.3:-42842056 | MS.gene46321:CDS |
| TCCATGAGCACTGAGATAAC+TGG | 0.352935 | 1.3:-42842939 | MS.gene46321:CDS |
| CTGAAGTGTACGAATGGTTT+TGG | 0.355223 | 1.3:-42843281 | MS.gene46321:CDS |
| TCAAGCTTATAATTCTATAA+AGG | 0.386303 | 1.3:-42842877 | MS.gene46321:CDS |
| AAGTACACGAACATTTCTTT+TGG | 0.405597 | 1.3:-42842030 | MS.gene46321:CDS |
| TGAGATAACTGGTAGTTTGA+TGG | 0.414550 | 1.3:-42842928 | MS.gene46321:CDS |
| TTCGTACACTTCAGGCTGTT+TGG | 0.429694 | 1.3:+42843290 | None:intergenic |
| AAATCTTCAATTGGATCATC+GGG | 0.443539 | 1.3:+42841990 | None:intergenic |
| CAAAACCATTCGTACACTTC+AGG | 0.449478 | 1.3:+42843282 | None:intergenic |
| TCCTTTGTTAATAAGTTTGA+AGG | 0.449982 | 1.3:-42843231 | MS.gene46321:CDS |
| GAAATCTTCAATTGGATCAT+CGG | 0.456727 | 1.3:+42841989 | None:intergenic |
| ATCCAATTGAAGATTTCATC+AGG | 0.465735 | 1.3:-42841983 | None:intergenic |
| GCTAAGGCTATCTGCTCCCT+TGG | 0.466582 | 1.3:-42843340 | MS.gene46321:CDS |
| ACCAGTTATCTCAGTGCTCA+TGG | 0.469402 | 1.3:+42842938 | None:intergenic |
| GTTAATAAGTTTGAAGGGGA+CGG | 0.473421 | 1.3:-42843225 | MS.gene46321:CDS |
| ACAAAGGACGTCACTACAGC+TGG | 0.474919 | 1.3:+42843246 | None:intergenic |
| TACCTGATGAAATCTTCAAT+TGG | 0.481210 | 1.3:+42841981 | None:intergenic |
| ATTGCTGCAATTGCTAAACT+TGG | 0.487614 | 1.3:-42842993 | MS.gene46321:CDS |
| TGCAATTGCTAAACTTGGCC+CGG | 0.494454 | 1.3:-42842988 | MS.gene46321:CDS |
| GTTGCAGCAGGCTATTGATA+AGG | 0.504330 | 1.3:-42842736 | MS.gene46321:CDS |
| TTAATAAGTTTGAAGGGGAC+GGG | 0.506571 | 1.3:-42843224 | MS.gene46321:CDS |
| TGCATTGGTCCAGTTTGCTA+AGG | 0.521404 | 1.3:-42843356 | None:intergenic |
| CTATTGATAAGGAGAAAATA+TGG | 0.523593 | 1.3:-42842725 | MS.gene46321:CDS |
| TTCTCTGATTAAGCTCTCCA+AGG | 0.529124 | 1.3:+42843323 | None:intergenic |
| CAATGCATGTAAGTGCAAGC+AGG | 0.534320 | 1.3:+42843012 | None:intergenic |
| GGTTCAGAAGCAGTTGCAGC+AGG | 0.535038 | 1.3:-42842748 | MS.gene46321:CDS |
| TATAATTCTATAAAGGATGT+TGG | 0.536506 | 1.3:-42842870 | MS.gene46321:CDS |
| CCTTTGTTAATAAGTTTGAA+GGG | 0.539411 | 1.3:-42843230 | MS.gene46321:CDS |
| CGTTGAGTGGGGTTCAGAAG+AGG | 0.568636 | 1.3:-42842790 | MS.gene46321:CDS |
| TGGTAGTTTGATGGACATGC+TGG | 0.577164 | 1.3:-42842919 | MS.gene46321:CDS |
| CCCTTCAAACTTATTAACAA+AGG | 0.580260 | 1.3:+42843230 | None:intergenic |
| TCTCTGATTAAGCTCTCCAA+GGG | 0.594955 | 1.3:+42843324 | None:intergenic |
| AGTTTGATGGACATGCTGGT+TGG | 0.601484 | 1.3:-42842915 | MS.gene46321:CDS |
| AAAGAAAACATACAAAGCAA+TGG | 0.602552 | 1.3:+42843188 | None:intergenic |
| CTTTGTTAATAAGTTTGAAG+GGG | 0.606418 | 1.3:-42843229 | MS.gene46321:CDS |
| GCTCTAAAAGCTGCAGCTCG+AGG | 0.619043 | 1.3:+42842816 | None:intergenic |
| AACAGCCTGAAGTGTACGAA+TGG | 0.620134 | 1.3:-42843287 | MS.gene46321:CDS |
| GACAACATCTGAAAGCATTG+AGG | 0.629336 | 1.3:-42842694 | MS.gene46321:intron |
| TTTAGAGCAAACGTTGAGTG+GGG | 0.635179 | 1.3:-42842801 | MS.gene46321:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTACAAAATATACAAATAAA+TGG | + | chr1.3:42843193-42843212 | None:intergenic | 10.0% |
| !! | AATATACAAATAAATGGAAA+AGG | + | chr1.3:42843187-42843206 | None:intergenic | 15.0% |
| !!! | TTTGTATATTTTGTAACAAA+AGG | - | chr1.3:42843197-42843216 | MS.gene46321:intron | 15.0% |
| !! | TAAAAAAATTATACAGTCAC+AGG | + | chr1.3:42842848-42842867 | None:intergenic | 20.0% |
| !! | TATAATTCTATAAAGGATGT+TGG | - | chr1.3:42842457-42842476 | MS.gene46321:intron | 20.0% |
| !! | TCAAGCTTATAATTCTATAA+AGG | - | chr1.3:42842450-42842469 | MS.gene46321:intron | 20.0% |
| !! | TGGTTTATGATAGAATATTA+TGG | - | chr1.3:42842902-42842921 | MS.gene46321:CDS | 20.0% |
| !! | TTCTATCATAAACCATATTT+CGG | + | chr1.3:42842897-42842916 | None:intergenic | 20.0% |
| ! | AAAATTCTTATTCATTCACG+TGG | - | chr1.3:42842809-42842828 | MS.gene46321:CDS | 25.0% |
| ! | AAAGAAAACATACAAAGCAA+TGG | + | chr1.3:42842142-42842161 | None:intergenic | 25.0% |
| ! | CCTTTGTTAATAAGTTTGAA+GGG | - | chr1.3:42842097-42842116 | MS.gene46321:intron | 25.0% |
| ! | CGTCTATTAATATAACATGA+AGG | + | chr1.3:42842214-42842233 | None:intergenic | 25.0% |
| ! | CTATTGATAAGGAGAAAATA+TGG | - | chr1.3:42842602-42842621 | MS.gene46321:intron | 25.0% |
| ! | CTTTGTTAATAAGTTTGAAG+GGG | - | chr1.3:42842098-42842117 | MS.gene46321:intron | 25.0% |
| ! | TCCTTTGTTAATAAGTTTGA+AGG | - | chr1.3:42842096-42842115 | MS.gene46321:intron | 25.0% |
| ! | TTTGGATTCTTTATTGCTTT+AGG | - | chr1.3:42843271-42843290 | MS.gene46321:CDS | 25.0% |
| !! | AACAAAGTATAGCTTTACTT+TGG | + | chr1.3:42842772-42842791 | None:intergenic | 25.0% |
| !! | AGAGAATTTCTTGTACATTT+TGG | - | chr1.3:42842487-42842506 | MS.gene46321:intron | 25.0% |
| !!! | AATGATTTTTTTTTCCAGCA+TGG | - | chr1.3:42843039-42843058 | MS.gene46321:CDS | 25.0% |
| AAAATCATTTCTATCCCTAG+TGG | + | chr1.3:42843028-42843047 | None:intergenic | 30.0% | |
| AAATCATTTCTATCCCTAGT+GGG | + | chr1.3:42843027-42843046 | None:intergenic | 30.0% | |
| AAATCTTCAATTGGATCATC+GGG | + | chr1.3:42843340-42843359 | None:intergenic | 30.0% | |
| CCCTTCAAACTTATTAACAA+AGG | + | chr1.3:42842100-42842119 | None:intergenic | 30.0% | |
| GAAATCTTCAATTGGATCAT+CGG | + | chr1.3:42843341-42843360 | None:intergenic | 30.0% | |
| GAATTATAAGCTTGACTTAC+AGG | + | chr1.3:42842445-42842464 | None:intergenic | 30.0% | |
| ! | AAGTACACGAACATTTCTTT+TGG | - | chr1.3:42843297-42843316 | MS.gene46321:CDS | 30.0% |
| ! | GTTGTTGTTGTATTGACATT+TGG | - | chr1.3:42842984-42843003 | MS.gene46321:CDS | 30.0% |
| ! | TAATGAGTTGAACCGAAATA+TGG | - | chr1.3:42842882-42842901 | MS.gene46321:CDS | 30.0% |
| !! | ATATTTTTGACTGAATTCCC+AGG | - | chr1.3:42842245-42842264 | MS.gene46321:intron | 30.0% |
| !! | TTCAGAAGAGGTTATTTTCT+GGG | - | chr1.3:42842549-42842568 | MS.gene46321:intron | 30.0% |
| AATCATTTCTATCCCTAGTG+GGG | + | chr1.3:42843026-42843045 | None:intergenic | 35.0% | |
| ATTGCTGCAATTGCTAAACT+TGG | - | chr1.3:42842334-42842353 | MS.gene46321:intron | 35.0% | |
| GAGAAGGATTTGGCTATATT+TGG | - | chr1.3:42843253-42843272 | MS.gene46321:CDS | 35.0% | |
| GCTTCAATTGAATGTTACCA+TGG | - | chr1.3:42843219-42843238 | MS.gene46321:CDS | 35.0% | |
| GTTAATAAGTTTGAAGGGGA+CGG | - | chr1.3:42842102-42842121 | MS.gene46321:intron | 35.0% | |
| TGAGATAACTGGTAGTTTGA+TGG | - | chr1.3:42842399-42842418 | MS.gene46321:intron | 35.0% | |
| TGATGTTGGATTGAATGTCA+AGG | - | chr1.3:42842704-42842723 | MS.gene46321:CDS | 35.0% | |
| TTAATAAGTTTGAAGGGGAC+GGG | - | chr1.3:42842103-42842122 | MS.gene46321:intron | 35.0% | |
| ! | CGAACATTTCTTTTGGCAAA+TGG | - | chr1.3:42843304-42843323 | MS.gene46321:CDS | 35.0% |
| !! | GGTTATTTTCTGGGTAAATC+TGG | - | chr1.3:42842558-42842577 | MS.gene46321:intron | 35.0% |
| !! | GTTCAGAAGAGGTTATTTTC+TGG | - | chr1.3:42842548-42842567 | MS.gene46321:intron | 35.0% |
| !! | TTTTGAAGACACTGTGGTTT+TGG | - | chr1.3:42842670-42842689 | MS.gene46321:intron | 35.0% |
| !!! | GATTTTTTTTTCCAGCATGG+AGG | - | chr1.3:42843042-42843061 | MS.gene46321:CDS | 35.0% |
| !!! | TTTTAGAGCAAACGTTGAGT+GGG | - | chr1.3:42842525-42842544 | MS.gene46321:intron | 35.0% |
| ATTGAATGTTACCATGGTGC+AGG | - | chr1.3:42843225-42843244 | MS.gene46321:CDS | 40.0% | |
| CAAAACCATTCGTACACTTC+AGG | + | chr1.3:42842048-42842067 | None:intergenic | 40.0% | |
| CATTACTTTCTACCCCACTA+GGG | - | chr1.3:42843011-42843030 | MS.gene46321:CDS | 40.0% | |
| CCCAGGTCTGAAAAAACTAA+GGG | - | chr1.3:42842262-42842281 | MS.gene46321:intron | 40.0% | |
| GACATTCAATCCAACATCAC+CGG | + | chr1.3:42842703-42842722 | None:intergenic | 40.0% | |
| TCATTACTTTCTACCCCACT+AGG | - | chr1.3:42843010-42843029 | MS.gene46321:CDS | 40.0% | |
| TCCCAGGTCTGAAAAAACTA+AGG | - | chr1.3:42842261-42842280 | MS.gene46321:intron | 40.0% | |
| TCTCTGATTAAGCTCTCCAA+GGG | + | chr1.3:42842006-42842025 | None:intergenic | 40.0% | |
| TTAAGCATATTCCTCCATGC+TGG | + | chr1.3:42843056-42843075 | None:intergenic | 40.0% | |
| TTCTCTGATTAAGCTCTCCA+AGG | + | chr1.3:42842007-42842026 | None:intergenic | 40.0% | |
| ! | CTGAAGTGTACGAATGGTTT+TGG | - | chr1.3:42842046-42842065 | MS.gene46321:CDS | 40.0% |
| ! | CTTTTGGCAAATGGTTTCGA+TGG | - | chr1.3:42843313-42843332 | MS.gene46321:CDS | 40.0% |
| ! | TGTGAGCAAGAAACTTTTGC+CGG | + | chr1.3:42842361-42842380 | None:intergenic | 40.0% |
| ! | TTTAGAGCAAACGTTGAGTG+GGG | - | chr1.3:42842526-42842545 | MS.gene46321:intron | 40.0% |
| !! | GACAACATCTGAAAGCATTG+AGG | - | chr1.3:42842633-42842652 | MS.gene46321:intron | 40.0% |
| !!! | ACCCTTAGTTTTTTCAGACC+TGG | + | chr1.3:42842266-42842285 | None:intergenic | 40.0% |
| !!! | CCCTTAGTTTTTTCAGACCT+GGG | + | chr1.3:42842265-42842284 | None:intergenic | 40.0% |
| !!! | CTTTTAGAGCAAACGTTGAG+TGG | - | chr1.3:42842524-42842543 | MS.gene46321:intron | 40.0% |
| !!! | GTTCAGTTTTGAAGACACTG+TGG | - | chr1.3:42842664-42842683 | MS.gene46321:intron | 40.0% |
| AACAGCCTGAAGTGTACGAA+TGG | - | chr1.3:42842040-42842059 | MS.gene46321:CDS | 45.0% | |
| ACATGAAGGAGCAAGAACAG+AGG | + | chr1.3:42842200-42842219 | None:intergenic | 45.0% | |
| ACCAGTTATCTCAGTGCTCA+TGG | + | chr1.3:42842392-42842411 | None:intergenic | 45.0% | |
| ATGTAGCCAACCTCACTTAG+TGG | - | chr1.3:42842938-42842957 | MS.gene46321:CDS | 45.0% | |
| CAATGCATGTAAGTGCAAGC+AGG | + | chr1.3:42842318-42842337 | None:intergenic | 45.0% | |
| GTTGCAGCAGGCTATTGATA+AGG | - | chr1.3:42842591-42842610 | MS.gene46321:intron | 45.0% | |
| TGCAATTGCTAAACTTGGCC+CGG | - | chr1.3:42842339-42842358 | MS.gene46321:intron | 45.0% | |
| TGTAGCCAACCTCACTTAGT+GGG | - | chr1.3:42842939-42842958 | MS.gene46321:CDS | 45.0% | |
| TTCGTACACTTCAGGCTGTT+TGG | + | chr1.3:42842040-42842059 | None:intergenic | 45.0% | |
| ! | ACTAAGTGAGGTTGGCTACA+TGG | + | chr1.3:42842939-42842958 | None:intergenic | 45.0% |
| ! | AGTTTGATGGACATGCTGGT+TGG | - | chr1.3:42842412-42842431 | MS.gene46321:intron | 45.0% |
| ! | GTGAGCAAGAAACTTTTGCC+GGG | + | chr1.3:42842360-42842379 | None:intergenic | 45.0% |
| ! | TGGTAGTTTGATGGACATGC+TGG | - | chr1.3:42842408-42842427 | MS.gene46321:intron | 45.0% |
| ! | TGTTACCATGGTGCAGGTTT+TGG | - | chr1.3:42843231-42843250 | MS.gene46321:CDS | 45.0% |
| !! | TCCATGAGCACTGAGATAAC+TGG | - | chr1.3:42842388-42842407 | MS.gene46321:intron | 45.0% |
| !!! | CTGTGGTTTTGGCACTAAAC+CGG | - | chr1.3:42842681-42842700 | MS.gene46321:intron | 45.0% |
| !!! | GCAGGTTTTGGAGAAGGATT+TGG | - | chr1.3:42843243-42843262 | MS.gene46321:CDS | 45.0% |
| AAGCCTCATCCCACTAAGTG+AGG | + | chr1.3:42842951-42842970 | None:intergenic | 50.0% | |
| ACAAAGGACGTCACTACAGC+TGG | + | chr1.3:42842084-42842103 | None:intergenic | 50.0% | |
| CAACCTCACTTAGTGGGATG+AGG | - | chr1.3:42842945-42842964 | MS.gene46321:CDS | 50.0% | |
| CTCATCCCACTAAGTGAGGT+TGG | + | chr1.3:42842947-42842966 | None:intergenic | 50.0% | |
| CTTCTCCAAAACCTGCACCA+TGG | + | chr1.3:42843239-42843258 | None:intergenic | 50.0% | |
| TCACTTAGTGGGATGAGGCT+TGG | - | chr1.3:42842950-42842969 | MS.gene46321:CDS | 50.0% | |
| TGGCACTAAACCGGTGATGT+TGG | - | chr1.3:42842690-42842709 | MS.gene46321:intron | 50.0% | |
| !!! | CATGGTGCAGGTTTTGGAGA+AGG | - | chr1.3:42843237-42843256 | MS.gene46321:CDS | 50.0% |
| CGTTGAGTGGGGTTCAGAAG+AGG | - | chr1.3:42842537-42842556 | MS.gene46321:intron | 55.0% | |
| GCTAAGGCTATCTGCTCCCT+TGG | - | chr1.3:42841987-42842006 | MS.gene46321:CDS | 55.0% | |
| GGTTCAGAAGCAGTTGCAGC+AGG | - | chr1.3:42842579-42842598 | MS.gene46321:intron | 55.0% | |
| !! | GCTCTAAAAGCTGCAGCTCG+AGG | + | chr1.3:42842514-42842533 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.3 | gene | 42841984 | 42843365 | 42841984 | ID=MS.gene46321 |
| chr1.3 | mRNA | 42841984 | 42843365 | 42841984 | ID=MS.gene46321.t1;Parent=MS.gene46321 |
| chr1.3 | exon | 42843201 | 42843365 | 42843201 | ID=MS.gene46321.t1.exon1;Parent=MS.gene46321.t1 |
| chr1.3 | CDS | 42843201 | 42843365 | 42843201 | ID=cds.MS.gene46321.t1;Parent=MS.gene46321.t1 |
| chr1.3 | exon | 42842695 | 42843082 | 42842695 | ID=MS.gene46321.t1.exon2;Parent=MS.gene46321.t1 |
| chr1.3 | CDS | 42842695 | 42843082 | 42842695 | ID=cds.MS.gene46321.t1;Parent=MS.gene46321.t1 |
| chr1.3 | exon | 42841984 | 42842102 | 42841984 | ID=MS.gene46321.t1.exon3;Parent=MS.gene46321.t1 |
| chr1.3 | CDS | 42841984 | 42842102 | 42841984 | ID=cds.MS.gene46321.t1;Parent=MS.gene46321.t1 |
| Gene Sequence |
| Protein sequence |
