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.gene08497.t1 | RHN39612.1 | 40.9 | 149 | 18 | 2 | 1 | 80 | 1 | 148 | 1.90E-18 | 101.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene08497.t1 | O81913 | 28.8 | 139 | 41 | 3 | 8 | 89 | 4 | 141 | 1.8e-09 | 63.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene08497.t1 | G7ZZI9 | 40.9 | 149 | 18 | 2 | 1 | 80 | 1 | 148 | 1.4e-18 | 101.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene08497.t1 | TF | NAC |
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.gene08497.t1 | MTR_8g023880 | 72.414 | 58 | 16 | 0 | 1 | 58 | 1 | 58 | 1.94e-25 | 95.5 |
| MS.gene08497.t1 | MTR_8g023860 | 64.000 | 50 | 18 | 0 | 7 | 56 | 12 | 61 | 4.50e-18 | 77.4 |
| MS.gene08497.t1 | MTR_8g023840 | 61.224 | 49 | 19 | 0 | 7 | 55 | 11 | 59 | 1.13e-16 | 73.6 |
| MS.gene08497.t1 | MTR_8g023900 | 57.143 | 49 | 21 | 0 | 7 | 55 | 12 | 60 | 4.32e-16 | 72.0 |
| MS.gene08497.t1 | MTR_8g023900 | 55.319 | 47 | 21 | 0 | 9 | 55 | 195 | 241 | 4.62e-13 | 63.5 |
| MS.gene08497.t1 | MTR_8g023930 | 53.061 | 49 | 23 | 0 | 7 | 55 | 24 | 72 | 1.96e-13 | 64.3 |
| MS.gene08497.t1 | MTR_3g088110 | 33.846 | 130 | 33 | 3 | 1 | 78 | 1 | 129 | 2.22e-13 | 63.9 |
| MS.gene08497.t1 | MTR_6g084430 | 31.496 | 127 | 33 | 3 | 6 | 79 | 4 | 129 | 3.64e-12 | 60.8 |
| MS.gene08497.t1 | MTR_6g012670 | 31.746 | 126 | 32 | 3 | 7 | 79 | 20 | 144 | 4.13e-12 | 60.5 |
| MS.gene08497.t1 | MTR_5g076850 | 32.031 | 128 | 31 | 3 | 6 | 78 | 5 | 131 | 8.41e-12 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene08497.t1 | AT1G01720 | 34.615 | 130 | 32 | 3 | 1 | 78 | 1 | 129 | 1.37e-13 | 64.3 |
| MS.gene08497.t1 | AT5G61430 | 31.538 | 130 | 35 | 3 | 2 | 78 | 11 | 139 | 2.04e-12 | 61.6 |
Find 14 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATCAAGCAACTTGTGATTT+AGG | 0.202235 | 8.2:+72012839 | None:intergenic |
| CTATGCACCATGGGATTTAC+CGG | 0.320849 | 8.2:-72012770 | MS.gene08497:CDS |
| ATCAACCTGAAAAGACCAAC+TGG | 0.432857 | 8.2:-72012393 | MS.gene08497:CDS |
| ACCTCAGCTTCAATGCCAAT+AGG | 0.501292 | 8.2:-72012904 | MS.gene08497:CDS |
| GGGTGAAATCTATAGCCTAT+TGG | 0.501855 | 8.2:+72012889 | None:intergenic |
| ATTGAAGCTGAGGTCTCCAT+TGG | 0.535295 | 8.2:+72012913 | None:intergenic |
| CACACAAGTTCTTGATCTGT+GGG | 0.546111 | 8.2:+72012868 | None:intergenic |
| GCCTATTGGCATTGAAGCTG+AGG | 0.555616 | 8.2:+72012903 | None:intergenic |
| ACACACAAGTTCTTGATCTG+TGG | 0.573644 | 8.2:+72012867 | None:intergenic |
| ATACTCATGCATAATCCAGT+TGG | 0.586289 | 8.2:+72012378 | None:intergenic |
| ATTCAACTTGTCTGATAACA+AGG | 0.619060 | 8.2:-72012354 | MS.gene08497:intron |
| ATATTACCCGGTAAATCCCA+TGG | 0.627670 | 8.2:+72012763 | None:intergenic |
| TATGCACCATGGGATTTACC+GGG | 0.653252 | 8.2:-72012769 | MS.gene08497:intron |
| ACACAAGTTCTTGATCTGTG+GGG | 0.806062 | 8.2:+72012869 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATATTTTTTTTTTTGCATTA+AGG | + | chr8.2:72012482-72012501 | None:intergenic | 10.0% |
| !!! | TTTTATGGGATTATATTAAA+TGG | - | chr8.2:72012528-72012547 | MS.gene08497:intron | 15.0% |
| !!! | TTTTATTCCTATAACATTAT+TGG | + | chr8.2:72012772-72012791 | None:intergenic | 15.0% |
| !!! | TTTTTTGTTTCTACTTTTAT+GGG | - | chr8.2:72012514-72012533 | MS.gene08497:intron | 15.0% |
| !!! | CTTTTTTGTTTCTACTTTTA+TGG | - | chr8.2:72012513-72012532 | MS.gene08497:intron | 20.0% |
| ! | AAGGTTTAAAAGAAAAAACC+CGG | - | chr8.2:72012695-72012714 | MS.gene08497:intron | 25.0% |
| ! | TAAAATCGAATGATTCAGAA+TGG | - | chr8.2:72012625-72012644 | MS.gene08497:intron | 25.0% |
| AGGAAGTAGAATATATTACC+CGG | + | chr8.2:72012462-72012481 | None:intergenic | 30.0% | |
| AGTTCAACAAAAGCAAAACA+AGG | - | chr8.2:72012676-72012695 | MS.gene08497:intron | 30.0% | |
| ATTCAACTTGTCTGATAACA+AGG | - | chr8.2:72012856-72012875 | MS.gene08497:CDS | 30.0% | |
| TTTAAAAGAAAAAACCCGGA+TGG | - | chr8.2:72012699-72012718 | MS.gene08497:intron | 30.0% | |
| ! | AACTTTTAAACTATGCACCA+TGG | - | chr8.2:72012430-72012449 | MS.gene08497:intron | 30.0% |
| ! | ACTTTTAAACTATGCACCAT+GGG | - | chr8.2:72012431-72012450 | MS.gene08497:intron | 30.0% |
| !! | AAAGGCACCAATAATGTTAT+AGG | - | chr8.2:72012762-72012781 | MS.gene08497:intron | 30.0% |
| ATACTCATGCATAATCCAGT+TGG | + | chr8.2:72012835-72012854 | None:intergenic | 35.0% | |
| CATCAAGCAACTTGTGATTT+AGG | + | chr8.2:72012374-72012393 | None:intergenic | 35.0% | |
| !!! | ATAATCCAGTTGGTCTTTTC+AGG | + | chr8.2:72012825-72012844 | None:intergenic | 35.0% |
| ACACAAGTTCTTGATCTGTG+GGG | + | chr8.2:72012344-72012363 | None:intergenic | 40.0% | |
| ACACACAAGTTCTTGATCTG+TGG | + | chr8.2:72012346-72012365 | None:intergenic | 40.0% | |
| ATATTACCCGGTAAATCCCA+TGG | + | chr8.2:72012450-72012469 | None:intergenic | 40.0% | |
| ATCAACCTGAAAAGACCAAC+TGG | - | chr8.2:72012817-72012836 | MS.gene08497:CDS | 40.0% | |
| CACACAAGTTCTTGATCTGT+GGG | + | chr8.2:72012345-72012364 | None:intergenic | 40.0% | |
| GAAAAAACCCGGATGGTTAT+TGG | - | chr8.2:72012706-72012725 | MS.gene08497:intron | 40.0% | |
| GATGGTGAAATCAAGACGAA+AGG | - | chr8.2:72012744-72012763 | MS.gene08497:intron | 40.0% | |
| GATGGTTATTGGAAGATCAC+TGG | - | chr8.2:72012717-72012736 | MS.gene08497:intron | 40.0% | |
| GGGTGAAATCTATAGCCTAT+TGG | + | chr8.2:72012324-72012343 | None:intergenic | 40.0% | |
| GTGATCTTCCAATAACCATC+CGG | + | chr8.2:72012717-72012736 | None:intergenic | 40.0% | |
| TGATCTTCCAATAACCATCC+GGG | + | chr8.2:72012716-72012735 | None:intergenic | 40.0% | |
| TGGAAGATCACTGGTAAAGA+TGG | - | chr8.2:72012726-72012745 | MS.gene08497:intron | 40.0% | |
| !!! | TTGGTCTTTTCAGGTTGATC+AGG | + | chr8.2:72012816-72012835 | None:intergenic | 40.0% |
| ACCTCAGCTTCAATGCCAAT+AGG | - | chr8.2:72012306-72012325 | MS.gene08497:CDS | 45.0% | |
| CTATGCACCATGGGATTTAC+CGG | - | chr8.2:72012440-72012459 | MS.gene08497:intron | 45.0% | |
| TATGCACCATGGGATTTACC+GGG | - | chr8.2:72012441-72012460 | MS.gene08497:intron | 45.0% | |
| ! | GCCTATTGGCATTGAAGCTG+AGG | + | chr8.2:72012310-72012329 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8.2 | gene | 72012300 | 72012932 | 72012300 | ID=MS.gene08497 |
| chr8.2 | mRNA | 72012300 | 72012932 | 72012300 | ID=MS.gene08497.t1;Parent=MS.gene08497 |
| chr8.2 | exon | 72012770 | 72012932 | 72012770 | ID=MS.gene08497.t1.exon1;Parent=MS.gene08497.t1 |
| chr8.2 | CDS | 72012770 | 72012932 | 72012770 | ID=cds.MS.gene08497.t1;Parent=MS.gene08497.t1 |
| chr8.2 | exon | 72012355 | 72012448 | 72012355 | ID=MS.gene08497.t1.exon2;Parent=MS.gene08497.t1 |
| chr8.2 | CDS | 72012355 | 72012448 | 72012355 | ID=cds.MS.gene08497.t1;Parent=MS.gene08497.t1 |
| chr8.2 | exon | 72012300 | 72012327 | 72012300 | ID=MS.gene08497.t1.exon3;Parent=MS.gene08497.t1 |
| chr8.2 | CDS | 72012300 | 72012327 | 72012300 | ID=cds.MS.gene08497.t1;Parent=MS.gene08497.t1 |
| Gene Sequence |
| Protein sequence |
