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.gene04116.t1 | RHN67483.1 | 60.4 | 169 | 63 | 3 | 2 | 169 | 55 | 220 | 4.80E-42 | 181 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene04116.t1 | Q9XIB5 | 29.5 | 129 | 84 | 4 | 45 | 170 | 97 | 221 | 9.2e-10 | 65.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene04116.t1 | G8A2Z5 | 69.8 | 126 | 37 | 1 | 43 | 168 | 149 | 273 | 3.4e-42 | 181.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene04116.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.gene04116.t1 | MTR_3g061370 | 60.355 | 169 | 63 | 3 | 2 | 169 | 116 | 281 | 3.74e-58 | 183 |
| MS.gene04116.t1 | MTR_3g061340 | 69.291 | 127 | 38 | 1 | 43 | 169 | 149 | 274 | 1.30e-57 | 182 |
| MS.gene04116.t1 | MTR_3g061350 | 57.396 | 169 | 68 | 3 | 2 | 169 | 119 | 284 | 1.27e-54 | 174 |
| MS.gene04116.t1 | MTR_3g061300 | 66.935 | 124 | 40 | 1 | 47 | 170 | 2 | 124 | 2.62e-54 | 168 |
| MS.gene04116.t1 | MTR_3g061320 | 68.421 | 114 | 35 | 1 | 56 | 169 | 167 | 279 | 9.13e-47 | 154 |
| MS.gene04116.t1 | MTR_3g061310 | 59.231 | 130 | 52 | 1 | 41 | 169 | 156 | 285 | 1.75e-46 | 154 |
| MS.gene04116.t1 | MTR_3g061330 | 56.618 | 136 | 56 | 2 | 2 | 136 | 118 | 251 | 4.18e-43 | 144 |
| MS.gene04116.t1 | MTR_8g103940 | 34.188 | 117 | 66 | 4 | 59 | 172 | 225 | 333 | 1.23e-14 | 71.2 |
| MS.gene04116.t1 | MTR_8g103940 | 37.391 | 115 | 67 | 3 | 59 | 170 | 383 | 495 | 7.24e-14 | 68.9 |
| MS.gene04116.t1 | MTR_1g108780 | 34.615 | 130 | 78 | 4 | 47 | 170 | 330 | 458 | 4.17e-12 | 63.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene04116.t1 | AT1G49480 | 29.457 | 129 | 84 | 4 | 45 | 170 | 97 | 221 | 1.69e-14 | 69.3 |
| MS.gene04116.t1 | AT1G49480 | 29.457 | 129 | 84 | 4 | 45 | 170 | 97 | 221 | 1.69e-14 | 69.3 |
| MS.gene04116.t1 | AT1G49480 | 29.457 | 129 | 84 | 4 | 45 | 170 | 97 | 221 | 1.69e-14 | 69.3 |
| MS.gene04116.t1 | AT3G18990 | 30.233 | 129 | 83 | 4 | 45 | 170 | 212 | 336 | 8.20e-14 | 68.6 |
| MS.gene04116.t1 | AT3G18990 | 30.233 | 129 | 83 | 4 | 45 | 170 | 212 | 336 | 8.45e-14 | 68.6 |
Find 22 sgRNAs with CRISPR-Local
Find 57 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACATTAGAGAACATATT+TGG | 0.246473 | 3.2:-52513376 | None:intergenic |
| TCCTGAGCTCTAGCATCTTT+TGG | 0.280232 | 3.2:-52513464 | None:intergenic |
| AAAGAACTTCATCAATGAAT+TGG | 0.387908 | 3.2:+52513441 | MS.gene04116:CDS |
| TATGTAACTGCAGATTTAAA+AGG | 0.392361 | 3.2:+52513684 | MS.gene04116:CDS |
| AGTATGTGATTCTGCAGATT+GGG | 0.463556 | 3.2:+52513727 | MS.gene04116:CDS |
| ACTTCAAACAGATACATTAA+CGG | 0.476013 | 3.2:-52513928 | None:intergenic |
| TTCACTTTCGCTTGCAAACA+AGG | 0.476076 | 3.2:-52513823 | None:intergenic |
| TGCAGATTGGGAAAAGATCA+TGG | 0.498577 | 3.2:+52513739 | MS.gene04116:CDS |
| GCCAAAAGATGCTAGAGCTC+AGG | 0.513948 | 3.2:+52513463 | MS.gene04116:CDS |
| CCAGCTTACTATCTACTGTA+TGG | 0.515143 | 3.2:-52513544 | None:intergenic |
| AATGGTTTCTATCTATCGGC+GGG | 0.522564 | 3.2:+52513795 | MS.gene04116:CDS |
| GAGTATGTGATTCTGCAGAT+TGG | 0.526064 | 3.2:+52513726 | MS.gene04116:CDS |
| TATTCAAGGACTTACTGCAT+TGG | 0.535397 | 3.2:-52512691 | None:intergenic |
| GTTTCTATCTATCGGCGGGT+TGG | 0.546695 | 3.2:+52513799 | MS.gene04116:CDS |
| AGCGAAAGTGAACTGCAACC+AGG | 0.561940 | 3.2:+52513834 | MS.gene04116:CDS |
| TCAAAGACACAAACATCTCC+TGG | 0.563620 | 3.2:-52513852 | None:intergenic |
| AAATGGTTTCTATCTATCGG+CGG | 0.576380 | 3.2:+52513794 | MS.gene04116:CDS |
| CCATACAGTAGATAGTAAGC+TGG | 0.603183 | 3.2:+52513544 | MS.gene04116:CDS |
| TTACTATCTACTGTATGGTG+AGG | 0.604910 | 3.2:-52513539 | None:intergenic |
| AGGAGTTATTGAGAACAAAG+AGG | 0.607683 | 3.2:+52513704 | MS.gene04116:CDS |
| TATATTGCACACATATACGC+AGG | 0.645825 | 3.2:+52513398 | MS.gene04116:CDS |
| GAAATTGATCTGTTCTAACG+AGG | 0.726190 | 3.2:+52513767 | MS.gene04116:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CATAAAATTATTTTTATTCA+AGG | - | chr3.2:52512708-52512727 | None:intergenic | 10.0% |
| !! | ATATATTATAGTGATTGATA+AGG | + | chr3.2:52513645-52513664 | MS.gene04116:intron | 15.0% |
| !!! | ATTATATGTTTTTATTTTGG+TGG | + | chr3.2:52513128-52513147 | MS.gene04116:intron | 15.0% |
| !!! | TGCATTATATGTTTTTATTT+TGG | + | chr3.2:52513125-52513144 | MS.gene04116:intron | 15.0% |
| !! | AAAACATTAGAGAACATATT+TGG | - | chr3.2:52513379-52513398 | None:intergenic | 20.0% |
| !! | GATGGTATTTATTTAACAAA+AGG | + | chr3.2:52513307-52513326 | MS.gene04116:intron | 20.0% |
| !! | TAAAAATGGTTTCTATCTAT+CGG | + | chr3.2:52513791-52513810 | MS.gene04116:CDS | 20.0% |
| !! | TTTACAAGAATTGTGAAAAA+AGG | - | chr3.2:52513518-52513537 | None:intergenic | 20.0% |
| !!! | TTATCCATTTTGTTTGTAAT+AGG | + | chr3.2:52512852-52512871 | MS.gene04116:intron | 20.0% |
| ! | AAAGAACTTCATCAATGAAT+TGG | + | chr3.2:52513441-52513460 | MS.gene04116:CDS | 25.0% |
| ! | AAAGTTCATGTCTTCAAAAA+AGG | + | chr3.2:52513903-52513922 | MS.gene04116:CDS | 25.0% |
| ! | AAGAATTGTGAAAAAAGGAT+TGG | - | chr3.2:52513513-52513532 | None:intergenic | 25.0% |
| ! | AAGTTCATGTCTTCAAAAAA+GGG | + | chr3.2:52513904-52513923 | MS.gene04116:CDS | 25.0% |
| ! | CTATCCTATTACAAACAAAA+TGG | - | chr3.2:52512859-52512878 | None:intergenic | 25.0% |
| ! | GTATTTATACATAGAATTGC+AGG | - | chr3.2:52513603-52513622 | None:intergenic | 25.0% |
| ! | TATGTAACTGCAGATTTAAA+AGG | + | chr3.2:52513684-52513703 | MS.gene04116:CDS | 25.0% |
| !! | ATTGCAGAATATATTTTGCA+CGG | - | chr3.2:52513248-52513267 | None:intergenic | 25.0% |
| !!! | GAAGGGTTTTTTTTTTTTGT+TGG | + | chr3.2:52512951-52512970 | MS.gene04116:intron | 25.0% |
| AATCTTACACTCAAGTATCA+TGG | + | chr3.2:52512737-52512756 | MS.gene04116:intron | 30.0% | |
| GTTCTTACTTAGTTTCATGA+TGG | + | chr3.2:52513289-52513308 | MS.gene04116:intron | 30.0% | |
| TATACATAGAATTGCAGGAA+TGG | - | chr3.2:52513598-52513617 | None:intergenic | 30.0% | |
| ! | TCATGAATCTTGATGTTTTC+AGG | - | chr3.2:52513344-52513363 | None:intergenic | 30.0% |
| AAATGGTTTCTATCTATCGG+CGG | + | chr3.2:52513794-52513813 | MS.gene04116:CDS | 35.0% | |
| AGGAGTTATTGAGAACAAAG+AGG | + | chr3.2:52513704-52513723 | MS.gene04116:CDS | 35.0% | |
| AGTATGTGATTCTGCAGATT+GGG | + | chr3.2:52513727-52513746 | MS.gene04116:CDS | 35.0% | |
| GAAATTGATCTGTTCTAACG+AGG | + | chr3.2:52513767-52513786 | MS.gene04116:CDS | 35.0% | |
| TATATTGCACACATATACGC+AGG | + | chr3.2:52513398-52513417 | MS.gene04116:CDS | 35.0% | |
| TATTCAAGGACTTACTGCAT+TGG | - | chr3.2:52512694-52512713 | None:intergenic | 35.0% | |
| TGTTCTAACGAGGCTAAAAA+TGG | + | chr3.2:52513777-52513796 | MS.gene04116:CDS | 35.0% | |
| TTACTATCTACTGTATGGTG+AGG | - | chr3.2:52513542-52513561 | None:intergenic | 35.0% | |
| AATCCACCTTTCAAAACCAC+GGG | + | chr3.2:52512885-52512904 | MS.gene04116:intron | 40.0% | |
| AATGGTTTCTATCTATCGGC+GGG | + | chr3.2:52513795-52513814 | MS.gene04116:CDS | 40.0% | |
| CAATCCACCTTTCAAAACCA+CGG | + | chr3.2:52512884-52512903 | MS.gene04116:intron | 40.0% | |
| CCAGCTTACTATCTACTGTA+TGG | - | chr3.2:52513547-52513566 | None:intergenic | 40.0% | |
| CCATACAGTAGATAGTAAGC+TGG | + | chr3.2:52513544-52513563 | MS.gene04116:CDS | 40.0% | |
| GAGTATGTGATTCTGCAGAT+TGG | + | chr3.2:52513726-52513745 | MS.gene04116:CDS | 40.0% | |
| GATGCATCTATCGTCAAGAA+GGG | + | chr3.2:52512934-52512953 | MS.gene04116:intron | 40.0% | |
| TCAAAGACACAAACATCTCC+TGG | - | chr3.2:52513855-52513874 | None:intergenic | 40.0% | |
| TGATGCATCTATCGTCAAGA+AGG | + | chr3.2:52512933-52512952 | MS.gene04116:intron | 40.0% | |
| TGCAGATTGGGAAAAGATCA+TGG | + | chr3.2:52513739-52513758 | MS.gene04116:CDS | 40.0% | |
| TTCACTTTCGCTTGCAAACA+AGG | - | chr3.2:52513826-52513845 | None:intergenic | 40.0% | |
| !!! | GGGCGAACAAAGATTTTTTG+TGG | - | chr3.2:52513181-52513200 | None:intergenic | 40.0% |
| ATCCACCTTTCAAAACCACG+GGG | + | chr3.2:52512886-52512905 | MS.gene04116:intron | 45.0% | |
| !! | TCCTGAGCTCTAGCATCTTT+TGG | - | chr3.2:52513467-52513486 | None:intergenic | 45.0% |
| AGCGAAAGTGAACTGCAACC+AGG | + | chr3.2:52513834-52513853 | MS.gene04116:CDS | 50.0% | |
| GCCAAAAGATGCTAGAGCTC+AGG | + | chr3.2:52513463-52513482 | MS.gene04116:CDS | 50.0% | |
| GTTTCTATCTATCGGCGGGT+TGG | + | chr3.2:52513799-52513818 | MS.gene04116:CDS | 50.0% | |
| TCCACCTTTCAAAACCACGG+GGG | + | chr3.2:52512887-52512906 | MS.gene04116:intron | 50.0% | |
| !!! | TAAGCCCCCGTGGTTTTGAA+AGG | - | chr3.2:52512894-52512913 | None:intergenic | 50.0% |
| TCAAAACCACGGGGGCTTAC+TGG | + | chr3.2:52512895-52512914 | MS.gene04116:intron | 55.0% | |
| ! | TTTTCCACCCGTGCAACGCA+CGG | - | chr3.2:52513202-52513221 | None:intergenic | 55.0% |
| TTGTTCGCCCGTGCGTTGCA+CGG | + | chr3.2:52513191-52513210 | MS.gene04116:intron | 60.0% | |
| TTTCCACCCGTGCAACGCAC+GGG | - | chr3.2:52513201-52513220 | None:intergenic | 60.0% | |
| !!! | GCCCCCGTGGTTTTGAAAGG+TGG | - | chr3.2:52512891-52512910 | None:intergenic | 60.0% |
| GTGCTTCCAGTAAGCCCCCG+TGG | - | chr3.2:52512904-52512923 | None:intergenic | 65.0% | |
| TGTTCGCCCGTGCGTTGCAC+GGG | + | chr3.2:52513192-52513211 | MS.gene04116:intron | 65.0% | |
| TCGCCCGTGCGTTGCACGGG+TGG | + | chr3.2:52513195-52513214 | MS.gene04116:intron | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 52512663 | 52513947 | 52512663 | ID=MS.gene04116 |
| chr3.2 | mRNA | 52512663 | 52513947 | 52512663 | ID=MS.gene04116.t1;Parent=MS.gene04116 |
| chr3.2 | exon | 52512663 | 52512698 | 52512663 | ID=MS.gene04116.t1.exon1;Parent=MS.gene04116.t1 |
| chr3.2 | CDS | 52512663 | 52512698 | 52512663 | ID=cds.MS.gene04116.t1;Parent=MS.gene04116.t1 |
| chr3.2 | exon | 52513329 | 52513565 | 52513329 | ID=MS.gene04116.t1.exon2;Parent=MS.gene04116.t1 |
| chr3.2 | CDS | 52513329 | 52513565 | 52513329 | ID=cds.MS.gene04116.t1;Parent=MS.gene04116.t1 |
| chr3.2 | exon | 52513684 | 52513947 | 52513684 | ID=MS.gene04116.t1.exon3;Parent=MS.gene04116.t1 |
| chr3.2 | CDS | 52513684 | 52513947 | 52513684 | ID=cds.MS.gene04116.t1;Parent=MS.gene04116.t1 |
| Gene Sequence |
| Protein sequence |
