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.gene04118.t1 | XP_003600453.1 | 77 | 126 | 29 | 0 | 25 | 150 | 159 | 284 | 2.90E-48 | 201.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene04118.t1 | Q9XIB5 | 28.7 | 129 | 82 | 3 | 27 | 150 | 97 | 220 | 1.1e-08 | 61.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene04118.t1 | G8A2Z4 | 77.0 | 126 | 29 | 0 | 25 | 150 | 159 | 284 | 2.1e-48 | 201.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene04118.t1 | TF | B3 |
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.gene04118.t1 | MTR_3g061350 | 76.984 | 126 | 29 | 0 | 25 | 150 | 159 | 284 | 3.57e-66 | 202 |
| MS.gene04118.t1 | MTR_3g061370 | 74.603 | 126 | 32 | 0 | 25 | 150 | 156 | 281 | 3.06e-61 | 190 |
| MS.gene04118.t1 | MTR_3g061340 | 72.222 | 126 | 35 | 0 | 25 | 150 | 149 | 274 | 3.96e-60 | 187 |
| MS.gene04118.t1 | MTR_3g061300 | 71.074 | 121 | 35 | 0 | 29 | 149 | 2 | 122 | 8.37e-60 | 181 |
| MS.gene04118.t1 | MTR_3g061310 | 63.077 | 130 | 46 | 1 | 23 | 150 | 156 | 285 | 3.50e-48 | 157 |
| MS.gene04118.t1 | MTR_3g061320 | 68.142 | 113 | 36 | 0 | 38 | 150 | 167 | 279 | 4.66e-46 | 151 |
| MS.gene04118.t1 | MTR_3g061330 | 67.021 | 94 | 30 | 1 | 25 | 117 | 158 | 251 | 2.19e-36 | 125 |
| MS.gene04118.t1 | MTR_8g103940 | 37.374 | 99 | 54 | 3 | 56 | 150 | 400 | 494 | 5.59e-13 | 65.5 |
| MS.gene04118.t1 | MTR_1g108780 | 37.736 | 106 | 54 | 5 | 49 | 150 | 192 | 289 | 8.63e-12 | 62.0 |
| MS.gene04118.t1 | MTR_1g108780 | 31.579 | 114 | 73 | 3 | 41 | 150 | 345 | 457 | 1.61e-11 | 61.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene04118.t1 | AT1G49480 | 28.682 | 129 | 82 | 3 | 27 | 150 | 97 | 220 | 7.64e-12 | 61.2 |
| MS.gene04118.t1 | AT1G49480 | 28.682 | 129 | 82 | 3 | 27 | 150 | 97 | 220 | 7.64e-12 | 61.2 |
| MS.gene04118.t1 | AT1G49480 | 28.682 | 129 | 82 | 3 | 27 | 150 | 97 | 220 | 7.64e-12 | 61.2 |
| MS.gene04118.t1 | AT3G18990 | 29.457 | 129 | 81 | 3 | 27 | 150 | 212 | 335 | 1.10e-11 | 61.6 |
| MS.gene04118.t1 | AT3G18990 | 29.457 | 129 | 81 | 3 | 27 | 150 | 212 | 335 | 1.77e-11 | 61.2 |
Find 19 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGAACTTCATCAATAAAT+TGG | 0.266413 | 3.2:-52478153 | MS.gene04118:CDS |
| GAAATTACTTCGTTGTTATG+AGG | 0.407954 | 3.2:-52477850 | MS.gene04118:CDS |
| AGTGGAAGTGGACTGAAATC+AGG | 0.429019 | 3.2:-52477783 | MS.gene04118:CDS |
| AGAATGTGGTACTGCAGATT+GGG | 0.448452 | 3.2:-52477890 | MS.gene04118:CDS |
| TCTCATAAAGCGTACTCATC+TGG | 0.452556 | 3.2:-52478065 | MS.gene04118:CDS |
| AAGAATGTGGTACTGCAGAT+TGG | 0.459475 | 3.2:-52477891 | MS.gene04118:CDS |
| GTACTCATCTGGTAGAAAAT+CGG | 0.481223 | 3.2:-52478054 | MS.gene04118:CDS |
| TACATTGCACACATATATGC+AGG | 0.482109 | 3.2:-52478196 | MS.gene04118:CDS |
| AAATTACTTCGTTGTTATGA+GGG | 0.500449 | 3.2:-52477849 | MS.gene04118:CDS |
| TCAATAACCCCATTTAAAAG+TGG | 0.503683 | 3.2:+52477924 | None:intergenic |
| AAATGGGGTTATTGAGAACA+AGG | 0.504796 | 3.2:-52477916 | MS.gene04118:CDS |
| GCCACAGGATGCTAGAGCTC+AGG | 0.519514 | 3.2:-52478131 | MS.gene04118:CDS |
| TGGTACTGCAGATTGGGAAA+AGG | 0.536643 | 3.2:-52477884 | MS.gene04118:CDS |
| TGCAGATTGGGAAAAGGTCA+TGG | 0.561983 | 3.2:-52477878 | MS.gene04118:CDS |
| GCCAACCCGCGGAAAAGCGA+CGG | 0.564559 | 3.2:+52477817 | None:intergenic |
| TTCATCAATAAATTGGCCAC+AGG | 0.565636 | 3.2:-52478146 | MS.gene04118:CDS |
| TCCTGAGCTCTAGCATCCTG+TGG | 0.590768 | 3.2:+52478130 | None:intergenic |
| TCATCTGGTAGAAAATCGGA+TGG | 0.649984 | 3.2:-52478050 | MS.gene04118:intron |
| TGAGAACAAGGATAAGAATG+TGG | 0.664188 | 3.2:-52477904 | MS.gene04118:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AGAAAAAAAAAATTAACTCT+TGG | + | chr3.2:52477742-52477761 | None:intergenic | 15.0% |
| !! | AAAGAACTTCATCAATAAAT+TGG | - | chr3.2:52477813-52477832 | MS.gene04118:CDS | 20.0% |
| !! | TTTATGAGAATTGTGAAAAA+AGG | + | chr3.2:52477890-52477909 | None:intergenic | 20.0% |
| ! | AAATTACTTCGTTGTTATGA+GGG | - | chr3.2:52478117-52478136 | MS.gene04118:CDS | 25.0% |
| GAAATTACTTCGTTGTTATG+AGG | - | chr3.2:52478116-52478135 | MS.gene04118:CDS | 30.0% | |
| TCAATAACCCCATTTAAAAG+TGG | + | chr3.2:52478045-52478064 | None:intergenic | 30.0% | |
| !! | AGTGTGTACCACTTTTAAAT+GGG | - | chr3.2:52478034-52478053 | MS.gene04118:intron | 30.0% |
| AAATGGGGTTATTGAGAACA+AGG | - | chr3.2:52478050-52478069 | MS.gene04118:intron | 35.0% | |
| GTACTCATCTGGTAGAAAAT+CGG | - | chr3.2:52477912-52477931 | MS.gene04118:CDS | 35.0% | |
| TACATTGCACACATATATGC+AGG | - | chr3.2:52477770-52477789 | MS.gene04118:CDS | 35.0% | |
| TGAGAACAAGGATAAGAATG+TGG | - | chr3.2:52478062-52478081 | MS.gene04118:CDS | 35.0% | |
| TTCATCAATAAATTGGCCAC+AGG | - | chr3.2:52477820-52477839 | MS.gene04118:CDS | 35.0% | |
| !! | CAGTGTGTACCACTTTTAAA+TGG | - | chr3.2:52478033-52478052 | MS.gene04118:intron | 35.0% |
| !! | GTGTGTACCACTTTTAAATG+GGG | - | chr3.2:52478035-52478054 | MS.gene04118:intron | 35.0% |
| !!! | CTCTTGTTTTTAAGTGGAAG+TGG | - | chr3.2:52478171-52478190 | MS.gene04118:CDS | 35.0% |
| AAGAATGTGGTACTGCAGAT+TGG | - | chr3.2:52478075-52478094 | MS.gene04118:CDS | 40.0% | |
| AGAATGTGGTACTGCAGATT+GGG | - | chr3.2:52478076-52478095 | MS.gene04118:CDS | 40.0% | |
| TCATCTGGTAGAAAATCGGA+TGG | - | chr3.2:52477916-52477935 | MS.gene04118:CDS | 40.0% | |
| TCTCATAAAGCGTACTCATC+TGG | - | chr3.2:52477901-52477920 | MS.gene04118:CDS | 40.0% | |
| TGGTAGAAAATCGGATGGTA+AGG | - | chr3.2:52477921-52477940 | MS.gene04118:CDS | 40.0% | |
| !!! | GGTTGGCTCTTGTTTTTAAG+TGG | - | chr3.2:52478165-52478184 | MS.gene04118:CDS | 40.0% |
| TAAAAACAAGAGCCAACCCG+CGG | + | chr3.2:52478163-52478182 | None:intergenic | 45.0% | |
| TGCAGATTGGGAAAAGGTCA+TGG | - | chr3.2:52478088-52478107 | MS.gene04118:CDS | 45.0% | |
| TGGTACTGCAGATTGGGAAA+AGG | - | chr3.2:52478082-52478101 | MS.gene04118:CDS | 45.0% | |
| !! | AGTGGAAGTGGACTGAAATC+AGG | - | chr3.2:52478183-52478202 | MS.gene04118:CDS | 45.0% |
| !!! | ATATGACCGTCGCTTTTCCG+CGG | - | chr3.2:52478143-52478162 | MS.gene04118:CDS | 50.0% |
| ! | TCCTGAGCTCTAGCATCCTG+TGG | + | chr3.2:52477839-52477858 | None:intergenic | 55.0% |
| !!! | TATGACCGTCGCTTTTCCGC+GGG | - | chr3.2:52478144-52478163 | MS.gene04118:CDS | 55.0% |
| GCCACAGGATGCTAGAGCTC+AGG | - | chr3.2:52477835-52477854 | MS.gene04118:CDS | 60.0% | |
| GCCAACCCGCGGAAAAGCGA+CGG | + | chr3.2:52478152-52478171 | None:intergenic | 65.0% | |
| !!! | ACCGTCGCTTTTCCGCGGGT+TGG | - | chr3.2:52478148-52478167 | MS.gene04118:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 52477719 | 52478269 | 52477719 | ID=MS.gene04118 |
| chr3.2 | mRNA | 52477719 | 52478269 | 52477719 | ID=MS.gene04118.t1;Parent=MS.gene04118 |
| chr3.2 | exon | 52478051 | 52478269 | 52478051 | ID=MS.gene04118.t1.exon1;Parent=MS.gene04118.t1 |
| chr3.2 | CDS | 52478051 | 52478269 | 52478051 | ID=cds.MS.gene04118.t1;Parent=MS.gene04118.t1 |
| chr3.2 | exon | 52477719 | 52477952 | 52477719 | ID=MS.gene04118.t1.exon2;Parent=MS.gene04118.t1 |
| chr3.2 | CDS | 52477719 | 52477952 | 52477719 | ID=cds.MS.gene04118.t1;Parent=MS.gene04118.t1 |
| Gene Sequence |
| Protein sequence |
