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.gene018926.t1 | XP_013459288.2 | 86.2 | 289 | 31 | 3 | 1 | 289 | 1 | 280 | 1.10E-136 | 496.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene018926.t1 | Q9CA66 | 56.1 | 132 | 54 | 1 | 154 | 281 | 135 | 266 | 3.3e-33 | 143.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene018926.t1 | A0A2K3L4M1 | 70.5 | 288 | 67 | 8 | 1 | 284 | 1 | 274 | 1.5e-98 | 369.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene018926.t1 | TF | RWP-RK |
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.gene018926.t1 | MTR_3g435550 | 87.245 | 196 | 21 | 2 | 94 | 289 | 1 | 192 | 3.96e-122 | 347 |
| MS.gene018926.t1 | MTR_3g091700 | 50.467 | 107 | 47 | 1 | 159 | 265 | 159 | 259 | 4.51e-30 | 114 |
| MS.gene018926.t1 | MTR_0140s0010 | 40.230 | 174 | 79 | 7 | 87 | 250 | 61 | 219 | 6.96e-27 | 105 |
| MS.gene018926.t1 | MTR_5g024070 | 36.719 | 128 | 73 | 2 | 140 | 260 | 188 | 314 | 1.73e-21 | 92.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene018926.t1 | AT1G18790 | 62.500 | 128 | 41 | 2 | 141 | 261 | 112 | 239 | 6.76e-50 | 166 |
| MS.gene018926.t1 | AT1G74480 | 61.207 | 116 | 40 | 2 | 147 | 257 | 127 | 242 | 7.19e-42 | 146 |
| MS.gene018926.t1 | AT5G66990 | 51.128 | 133 | 58 | 2 | 135 | 262 | 142 | 272 | 1.78e-40 | 142 |
| MS.gene018926.t1 | AT5G53040 | 53.704 | 108 | 44 | 2 | 154 | 261 | 148 | 249 | 1.28e-30 | 115 |
| MS.gene018926.t1 | AT4G35590 | 36.296 | 135 | 73 | 2 | 154 | 281 | 192 | 320 | 4.47e-19 | 85.9 |
| MS.gene018926.t1 | AT4G35590 | 36.296 | 135 | 73 | 2 | 154 | 281 | 242 | 370 | 6.48e-19 | 86.3 |
Find 50 sgRNAs with CRISPR-Local
Find 88 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTACTTGTACATTCTTTATA+AGG | 0.172964 | 3.1:+28343887 | None:intergenic |
| GATTATCATACGTAGAAAAT+TGG | 0.202707 | 3.1:+28344598 | None:intergenic |
| TTCAATGATTGGTCACATTA+TGG | 0.214480 | 3.1:-28344428 | MS.gene018926:CDS |
| TGATAACCTTCTATGCTTAA+TGG | 0.225802 | 3.1:+28344308 | None:intergenic |
| AGAGTTTCATTTCGAAATTC+AGG | 0.227635 | 3.1:+28344356 | None:intergenic |
| TTCCATGAAAGGATCAAAAT+TGG | 0.229603 | 3.1:+28344388 | None:intergenic |
| TCTCTAGCAGCTTGAGATAT+TGG | 0.323623 | 3.1:+28344000 | None:intergenic |
| AAGAAAAGGTGTAGGGATCT+TGG | 0.330015 | 3.1:-28343952 | MS.gene018926:CDS |
| GCTCATGGTTATGAGGTTAA+TGG | 0.347444 | 3.1:-28342930 | MS.gene018926:CDS |
| AGTTGTTGCTGGATATTATT+CGG | 0.354215 | 3.1:-28344163 | MS.gene018926:CDS |
| TACTTGTACATTCTTTATAA+GGG | 0.359802 | 3.1:+28343888 | None:intergenic |
| GGTGCAGGTACAAGTAATTC+AGG | 0.392094 | 3.1:+28344329 | None:intergenic |
| CCTGCACCATTAAGCATAGA+AGG | 0.395032 | 3.1:-28344314 | MS.gene018926:intron |
| TCAATGACAGACTATGGTTA+TGG | 0.408759 | 3.1:-28344219 | MS.gene018926:intron |
| GGCTTACACATTTGAAGAAA+AGG | 0.415724 | 3.1:-28343966 | MS.gene018926:CDS |
| CATTCTTTATAAGGGTTTGA+AGG | 0.417292 | 3.1:+28343896 | None:intergenic |
| TATGAGGTTAATGGAACAAC+AGG | 0.443913 | 3.1:-28342921 | MS.gene018926:CDS |
| ATCAAAATTGGTATCTTGCA+TGG | 0.445144 | 3.1:+28344400 | None:intergenic |
| ATGTGGAATGAAGTTGTTGC+TGG | 0.481485 | 3.1:-28344174 | MS.gene018926:CDS |
| CTGCTAGAGACCTTAATGTT+GGG | 0.489436 | 3.1:-28343987 | MS.gene018926:CDS |
| GAAAGAAATGAAGAAGGTAG+AGG | 0.489935 | 3.1:-28343032 | MS.gene018926:CDS |
| ATGAATGTGATGAGAAGATA+AGG | 0.493501 | 3.1:-28343075 | MS.gene018926:CDS |
| AATTGGAATGGAGGTTGCAA+TGG | 0.509497 | 3.1:+28344615 | None:intergenic |
| GCTTAGACAAGCATGTTTCA+AGG | 0.510842 | 3.1:-28342972 | MS.gene018926:CDS |
| CCTTCTATGCTTAATGGTGC+AGG | 0.511925 | 3.1:+28344314 | None:intergenic |
| ATTGCAGAAAGAAATGAAGA+AGG | 0.517898 | 3.1:-28343038 | MS.gene018926:CDS |
| AGAGAAGGCTCATGGTTATG+AGG | 0.522137 | 3.1:-28342937 | MS.gene018926:CDS |
| GCTGCTAGAGACCTTAATGT+TGG | 0.523622 | 3.1:-28343988 | MS.gene018926:CDS |
| AATGTGTAAGCCCAACATTA+AGG | 0.530566 | 3.1:+28343977 | None:intergenic |
| CACATTTGAAGAAAAGGTGT+AGG | 0.540159 | 3.1:-28343960 | MS.gene018926:CDS |
| AGGCTCATTAATTTCCTATG+TGG | 0.543250 | 3.1:+28343916 | None:intergenic |
| GAATTCAAAGGTGGCCACAT+AGG | 0.544869 | 3.1:-28343930 | MS.gene018926:CDS |
| TCAAAATTGGTATCTTGCAT+GGG | 0.545683 | 3.1:+28344401 | None:intergenic |
| TACTGGAGAAAATGTTGCAA+AGG | 0.556786 | 3.1:-28344112 | MS.gene018926:CDS |
| AGGCTAATTACAAGAAGAGA+AGG | 0.568624 | 3.1:-28342952 | MS.gene018926:CDS |
| TGTTGCAAAGGAAATTGTGA+AGG | 0.572064 | 3.1:-28344100 | MS.gene018926:CDS |
| ACATTTGAAGAAAAGGTGTA+GGG | 0.575896 | 3.1:-28343959 | MS.gene018926:CDS |
| TTATTGGTGGTGCAGGAGCA+AGG | 0.586089 | 3.1:-28343100 | MS.gene018926:intron |
| TCATATTTCAAAACCGTGAG+TGG | 0.589090 | 3.1:+28344666 | None:intergenic |
| AACTTGATGAAAACACAAAG+AGG | 0.589787 | 3.1:-28342994 | MS.gene018926:CDS |
| TTACAAGAAGAGAAGGCTCA+TGG | 0.590126 | 3.1:-28342945 | MS.gene018926:CDS |
| GTAGGGATCTTGGAATTCAA+AGG | 0.603743 | 3.1:-28343942 | MS.gene018926:CDS |
| TACGTAGAAAATTGGAATGG+AGG | 0.603829 | 3.1:+28344606 | None:intergenic |
| TCATACGTAGAAAATTGGAA+TGG | 0.613632 | 3.1:+28344603 | None:intergenic |
| GCAACAACTTCATTCCACAT+TGG | 0.626277 | 3.1:+28344177 | None:intergenic |
| GTTGCAAAGGAAATTGTGAA+GGG | 0.628143 | 3.1:-28344099 | MS.gene018926:CDS |
| GGAGAATGTTGATCCACTCA+CGG | 0.640251 | 3.1:-28344679 | MS.gene018926:CDS |
| TGAGAAGATAAGGAATGCTG+TGG | 0.656309 | 3.1:-28343065 | MS.gene018926:CDS |
| GCAGGTACAAGTAATTCAGG+TGG | 0.663503 | 3.1:+28344332 | None:intergenic |
| GGGATCTTGGAATTCAAAGG+TGG | 0.676630 | 3.1:-28343939 | MS.gene018926:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAAAAAAAAAAAAAAAAAAA+AGG | + | chr3.1:28343032-28343051 | None:intergenic | 0.0% |
| !! | ATTAATAACTCAAAAAATAT+GGG | + | chr3.1:28343673-28343692 | None:intergenic | 10.0% |
| !! | CTGTAAAAAAAATAAAAAAT+AGG | + | chr3.1:28343082-28343101 | None:intergenic | 10.0% |
| !! | TATTAATAACTCAAAAAATA+TGG | + | chr3.1:28343674-28343693 | None:intergenic | 10.0% |
| !!! | AATTTATTTATTTTGTTAAC+GGG | - | chr3.1:28343273-28343292 | MS.gene018926:intron | 10.0% |
| !!! | AATTTTTAAAGATAATTTCA+TGG | + | chr3.1:28343059-28343078 | None:intergenic | 10.0% |
| !!! | ATATATTTTAGAAAAATATG+AGG | - | chr3.1:28344113-28344132 | MS.gene018926:CDS | 10.0% |
| !!! | TTTTATTTATTAATTATTGG+TGG | - | chr3.1:28344418-28344437 | MS.gene018926:CDS | 10.0% |
| !!! | AAAAAGAAAATCATGATTTT+AGG | + | chr3.1:28344219-28344238 | None:intergenic | 15.0% |
| !!! | ATTTATTTATTTTGTTAACG+GGG | - | chr3.1:28343274-28343293 | MS.gene018926:intron | 15.0% |
| !! | AAAAAAAAAAAAGGAACTAG+TGG | + | chr3.1:28343023-28343042 | None:intergenic | 20.0% |
| !! | TACTTGTACATTCTTTATAA+GGG | + | chr3.1:28343646-28343665 | None:intergenic | 20.0% |
| !! | TGTTAAAAGTTATAGCAAAA+AGG | - | chr3.1:28344075-28344094 | MS.gene018926:CDS | 20.0% |
| !! | TTACTTGTACATTCTTTATA+AGG | + | chr3.1:28343647-28343666 | None:intergenic | 20.0% |
| !!! | CTTTTTCTTACTAATTTTTG+TGG | - | chr3.1:28344233-28344252 | MS.gene018926:intron | 20.0% |
| !!! | GGAATTGAAAAATCAATTTT+AGG | + | chr3.1:28344158-28344177 | None:intergenic | 20.0% |
| !!! | TAGGTTAATTTTCACTATAA+GGG | + | chr3.1:28344139-28344158 | None:intergenic | 20.0% |
| !!! | TTAGGTTAATTTTCACTATA+AGG | + | chr3.1:28344140-28344159 | None:intergenic | 20.0% |
| !!! | TTTTTTACAGATTCAATGAT+TGG | - | chr3.1:28343092-28343111 | MS.gene018926:intron | 20.0% |
| ! | AATTATTCAATGACAGACTA+TGG | - | chr3.1:28343306-28343325 | MS.gene018926:intron | 25.0% |
| ! | GATTATCATACGTAGAAAAT+TGG | + | chr3.1:28342936-28342955 | None:intergenic | 25.0% |
| !! | GGATAATAATTTTCCATGAA+AGG | + | chr3.1:28343157-28343176 | None:intergenic | 25.0% |
| !!! | TGTAGTGAATTGTTTTAATG+TGG | - | chr3.1:28344279-28344298 | MS.gene018926:intron | 25.0% |
| AAAAATCACATTGTGTAGTG+AGG | - | chr3.1:28343768-28343787 | MS.gene018926:intron | 30.0% | |
| AACTTGATGAAAACACAAAG+AGG | - | chr3.1:28344537-28344556 | MS.gene018926:intron | 30.0% | |
| AGAGTTTCATTTCGAAATTC+AGG | + | chr3.1:28343178-28343197 | None:intergenic | 30.0% | |
| AGTTGTTGCTGGATATTATT+CGG | - | chr3.1:28343368-28343387 | MS.gene018926:intron | 30.0% | |
| ATCAAAATTGGTATCTTGCA+TGG | + | chr3.1:28343134-28343153 | None:intergenic | 30.0% | |
| ATGAATGTGATGAGAAGATA+AGG | - | chr3.1:28344456-28344475 | MS.gene018926:intron | 30.0% | |
| ATTGCAGAAAGAAATGAAGA+AGG | - | chr3.1:28344493-28344512 | MS.gene018926:intron | 30.0% | |
| CAAGTCACAAAATTTAGAGA+TGG | + | chr3.1:28344179-28344198 | None:intergenic | 30.0% | |
| CATTCTTTATAAGGGTTTGA+AGG | + | chr3.1:28343638-28343657 | None:intergenic | 30.0% | |
| TCAAAATTGGTATCTTGCAT+GGG | + | chr3.1:28343133-28343152 | None:intergenic | 30.0% | |
| TCATACGTAGAAAATTGGAA+TGG | + | chr3.1:28342931-28342950 | None:intergenic | 30.0% | |
| TGATAACCTTCTATGCTTAA+TGG | + | chr3.1:28343226-28343245 | None:intergenic | 30.0% | |
| TTCCATGAAAGGATCAAAAT+TGG | + | chr3.1:28343146-28343165 | None:intergenic | 30.0% | |
| ! | ACATTTGAAGAAAAGGTGTA+GGG | - | chr3.1:28343572-28343591 | MS.gene018926:intron | 30.0% |
| ! | CATCTCTAAATTTTGTGACT+TGG | - | chr3.1:28344177-28344196 | MS.gene018926:CDS | 30.0% |
| ! | TTATGGTGATGCTAAAAATG+TGG | - | chr3.1:28343329-28343348 | MS.gene018926:intron | 30.0% |
| ! | TTCAATGATTGGTCACATTA+TGG | - | chr3.1:28343103-28343122 | MS.gene018926:intron | 30.0% |
| ! | TTTTCGATTAGCAACATTAC+TGG | - | chr3.1:28343402-28343421 | MS.gene018926:intron | 30.0% |
| !! | TACCAATTTTGATCCTTTCA+TGG | - | chr3.1:28343141-28343160 | MS.gene018926:intron | 30.0% |
| !! | TTATTAATTATTGGTGGTGC+AGG | - | chr3.1:28344424-28344443 | MS.gene018926:CDS | 30.0% |
| !! | TTTTCATCAAGTTGCAAATC+TGG | + | chr3.1:28344530-28344549 | None:intergenic | 30.0% |
| !!! | AAATTTTGTGACTTGGTAAG+CGG | - | chr3.1:28344184-28344203 | MS.gene018926:CDS | 30.0% |
| !!! | CACAATGTGATTTTTTGGTT+TGG | + | chr3.1:28343763-28343782 | None:intergenic | 30.0% |
| !!! | CACTACACAATGTGATTTTT+TGG | + | chr3.1:28343768-28343787 | None:intergenic | 30.0% |
| AATGTGTAAGCCCAACATTA+AGG | + | chr3.1:28343557-28343576 | None:intergenic | 35.0% | |
| AGGCTAATTACAAGAAGAGA+AGG | - | chr3.1:28344579-28344598 | MS.gene018926:CDS | 35.0% | |
| AGGCTCATTAATTTCCTATG+TGG | + | chr3.1:28343618-28343637 | None:intergenic | 35.0% | |
| ATGTTTGCGCAAGCAAATTA+TGG | + | chr3.1:28344329-28344348 | None:intergenic | 35.0% | |
| CTAAAAATGTGGTTCCAATG+TGG | - | chr3.1:28343340-28343359 | MS.gene018926:intron | 35.0% | |
| GAAAGAAATGAAGAAGGTAG+AGG | - | chr3.1:28344499-28344518 | MS.gene018926:intron | 35.0% | |
| GGCTTACACATTTGAAGAAA+AGG | - | chr3.1:28343565-28343584 | MS.gene018926:intron | 35.0% | |
| GTTGCAAAGGAAATTGTGAA+GGG | - | chr3.1:28343432-28343451 | MS.gene018926:intron | 35.0% | |
| TACGTAGAAAATTGGAATGG+AGG | + | chr3.1:28342928-28342947 | None:intergenic | 35.0% | |
| TACTGGAGAAAATGTTGCAA+AGG | - | chr3.1:28343419-28343438 | MS.gene018926:intron | 35.0% | |
| TATGAGGTTAATGGAACAAC+AGG | - | chr3.1:28344610-28344629 | MS.gene018926:CDS | 35.0% | |
| TCAATGACAGACTATGGTTA+TGG | - | chr3.1:28343312-28343331 | MS.gene018926:intron | 35.0% | |
| TCATATTTCAAAACCGTGAG+TGG | + | chr3.1:28342868-28342887 | None:intergenic | 35.0% | |
| TGTTGCAAAGGAAATTGTGA+AGG | - | chr3.1:28343431-28343450 | MS.gene018926:intron | 35.0% | |
| ! | CACATTTGAAGAAAAGGTGT+AGG | - | chr3.1:28343571-28343590 | MS.gene018926:intron | 35.0% |
| AATTGGAATGGAGGTTGCAA+TGG | + | chr3.1:28342919-28342938 | None:intergenic | 40.0% | |
| ATGTGGAATGAAGTTGTTGC+TGG | - | chr3.1:28343357-28343376 | MS.gene018926:intron | 40.0% | |
| ATTGTGTAGTGAGGAGATCT+AGG | - | chr3.1:28343777-28343796 | MS.gene018926:intron | 40.0% | |
| CTGCTAGAGACCTTAATGTT+GGG | - | chr3.1:28343544-28343563 | MS.gene018926:intron | 40.0% | |
| GCAACAACTTCATTCCACAT+TGG | + | chr3.1:28343357-28343376 | None:intergenic | 40.0% | |
| GCTCATGGTTATGAGGTTAA+TGG | - | chr3.1:28344601-28344620 | MS.gene018926:CDS | 40.0% | |
| GCTTAGACAAGCATGTTTCA+AGG | - | chr3.1:28344559-28344578 | MS.gene018926:CDS | 40.0% | |
| GTAGGGATCTTGGAATTCAA+AGG | - | chr3.1:28343589-28343608 | MS.gene018926:intron | 40.0% | |
| TCTCTAGCAGCTTGAGATAT+TGG | + | chr3.1:28343534-28343553 | None:intergenic | 40.0% | |
| TGAGAAGATAAGGAATGCTG+TGG | - | chr3.1:28344466-28344485 | MS.gene018926:intron | 40.0% | |
| TTACAAGAAGAGAAGGCTCA+TGG | - | chr3.1:28344586-28344605 | MS.gene018926:CDS | 40.0% | |
| TTGTGTAGTGAGGAGATCTA+GGG | - | chr3.1:28343778-28343797 | MS.gene018926:intron | 40.0% | |
| ! | AAGAAAAGGTGTAGGGATCT+TGG | - | chr3.1:28343579-28343598 | MS.gene018926:intron | 40.0% |
| AGAGAAGGCTCATGGTTATG+AGG | - | chr3.1:28344594-28344613 | MS.gene018926:CDS | 45.0% | |
| CCTGCACCATTAAGCATAGA+AGG | - | chr3.1:28343217-28343236 | MS.gene018926:intron | 45.0% | |
| CCTTCTATGCTTAATGGTGC+AGG | + | chr3.1:28343220-28343239 | None:intergenic | 45.0% | |
| GAATTCAAAGGTGGCCACAT+AGG | - | chr3.1:28343601-28343620 | MS.gene018926:intron | 45.0% | |
| GCAGGTACAAGTAATTCAGG+TGG | + | chr3.1:28343202-28343221 | None:intergenic | 45.0% | |
| GCTGCTAGAGACCTTAATGT+TGG | - | chr3.1:28343543-28343562 | MS.gene018926:intron | 45.0% | |
| GGAGAATGTTGATCCACTCA+CGG | - | chr3.1:28342852-28342871 | MS.gene018926:CDS | 45.0% | |
| GGGATCTTGGAATTCAAAGG+TGG | - | chr3.1:28343592-28343611 | MS.gene018926:intron | 45.0% | |
| GGTGCAGGTACAAGTAATTC+AGG | + | chr3.1:28343205-28343224 | None:intergenic | 45.0% | |
| !!! | ACATTTTATTTATTAATTAT+TGG | - | chr3.1:28344415-28344434 | MS.gene018926:CDS | 5.0% |
| !!! | TAATTTATTTATTTTGTTAA+CGG | - | chr3.1:28343272-28343291 | MS.gene018926:intron | 5.0% |
| !!! | TTTTTTAAAATGTTTTTTTT+TGG | - | chr3.1:28343843-28343862 | MS.gene018926:intron | 5.0% |
| !! | TTATTGGTGGTGCAGGAGCA+AGG | - | chr3.1:28344431-28344450 | MS.gene018926:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 28342850 | 28344703 | 28342850 | ID=MS.gene018926 |
| chr3.1 | mRNA | 28342850 | 28344703 | 28342850 | ID=MS.gene018926.t1;Parent=MS.gene018926 |
| chr3.1 | exon | 28344555 | 28344703 | 28344555 | ID=MS.gene018926.t1.exon1;Parent=MS.gene018926.t1 |
| chr3.1 | CDS | 28344555 | 28344703 | 28344555 | ID=cds.MS.gene018926.t1;Parent=MS.gene018926.t1 |
| chr3.1 | exon | 28344315 | 28344451 | 28344315 | ID=MS.gene018926.t1.exon2;Parent=MS.gene018926.t1 |
| chr3.1 | CDS | 28344315 | 28344451 | 28344315 | ID=cds.MS.gene018926.t1;Parent=MS.gene018926.t1 |
| chr3.1 | exon | 28343891 | 28344231 | 28343891 | ID=MS.gene018926.t1.exon3;Parent=MS.gene018926.t1 |
| chr3.1 | CDS | 28343891 | 28344231 | 28343891 | ID=cds.MS.gene018926.t1;Parent=MS.gene018926.t1 |
| chr3.1 | exon | 28342850 | 28343107 | 28342850 | ID=MS.gene018926.t1.exon4;Parent=MS.gene018926.t1 |
| chr3.1 | CDS | 28342850 | 28343107 | 28342850 | ID=cds.MS.gene018926.t1;Parent=MS.gene018926.t1 |
| Gene Sequence |
| Protein sequence |
