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.gene001498.t1 | RHN47981.1 | 92.4 | 172 | 13 | 0 | 1 | 172 | 1 | 172 | 1.50E-88 | 335.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene001498.t1 | Q9SZL8 | 33.5 | 170 | 110 | 2 | 6 | 172 | 69 | 238 | 6.6e-21 | 102.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene001498.t1 | A0A396H640 | 92.4 | 172 | 13 | 0 | 1 | 172 | 1 | 172 | 1.1e-88 | 335.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene001498.t1 | TF | FAR1 |
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.gene001498.t1 | MTR_5g039760 | 73.837 | 172 | 21 | 1 | 1 | 172 | 1 | 148 | 5.21e-88 | 256 |
| MS.gene001498.t1 | MTR_7g074790 | 65.318 | 173 | 41 | 2 | 1 | 173 | 1 | 154 | 1.07e-74 | 223 |
| MS.gene001498.t1 | MTR_7g061980 | 68.333 | 120 | 37 | 1 | 1 | 120 | 1 | 119 | 6.46e-57 | 174 |
| MS.gene001498.t1 | MTR_0402s0040 | 43.976 | 166 | 87 | 5 | 10 | 172 | 26 | 188 | 3.14e-34 | 125 |
| MS.gene001498.t1 | MTR_4g102720 | 31.138 | 167 | 80 | 3 | 7 | 173 | 4 | 135 | 1.19e-24 | 95.9 |
| MS.gene001498.t1 | MTR_4g069880 | 60.317 | 63 | 25 | 0 | 1 | 63 | 1 | 63 | 4.70e-22 | 84.7 |
| MS.gene001498.t1 | MTR_6g051425 | 28.652 | 178 | 117 | 4 | 3 | 172 | 8 | 183 | 1.03e-19 | 84.7 |
| MS.gene001498.t1 | MTR_2g070590 | 41.905 | 105 | 58 | 3 | 10 | 112 | 17 | 120 | 2.26e-18 | 76.6 |
| MS.gene001498.t1 | MTR_2g099430 | 48.315 | 89 | 43 | 3 | 33 | 120 | 26 | 112 | 2.29e-18 | 76.6 |
| MS.gene001498.t1 | MTR_5g015480 | 40.650 | 123 | 70 | 3 | 10 | 130 | 56 | 177 | 3.64e-18 | 79.3 |
| MS.gene001498.t1 | MTR_1g019850 | 34.328 | 134 | 80 | 3 | 10 | 142 | 70 | 196 | 4.04e-18 | 79.0 |
| MS.gene001498.t1 | MTR_6g017200 | 43.373 | 83 | 45 | 2 | 10 | 91 | 58 | 139 | 2.70e-15 | 69.7 |
| MS.gene001498.t1 | MTR_7g113010 | 38.281 | 128 | 62 | 4 | 10 | 135 | 457 | 569 | 3.28e-14 | 69.7 |
| MS.gene001498.t1 | MTR_1g013060 | 28.824 | 170 | 116 | 2 | 7 | 171 | 21 | 190 | 1.11e-13 | 66.6 |
| MS.gene001498.t1 | MTR_2g014100 | 26.630 | 184 | 113 | 4 | 8 | 172 | 45 | 225 | 2.99e-13 | 65.9 |
| MS.gene001498.t1 | MTR_4g067290 | 35.455 | 110 | 67 | 3 | 9 | 117 | 55 | 161 | 1.18e-12 | 63.9 |
| MS.gene001498.t1 | MTR_4g067290 | 35.455 | 110 | 67 | 3 | 9 | 117 | 55 | 161 | 1.35e-12 | 63.9 |
| MS.gene001498.t1 | MTR_4g067290 | 35.455 | 110 | 67 | 3 | 9 | 117 | 75 | 181 | 1.82e-12 | 63.9 |
| MS.gene001498.t1 | MTR_4g067290 | 35.455 | 110 | 67 | 3 | 9 | 117 | 75 | 181 | 1.83e-12 | 63.9 |
| MS.gene001498.t1 | MTR_4g067290 | 35.455 | 110 | 67 | 3 | 9 | 117 | 73 | 179 | 1.86e-12 | 63.9 |
| MS.gene001498.t1 | MTR_0558s0020 | 25.543 | 184 | 115 | 4 | 8 | 172 | 37 | 217 | 2.80e-12 | 63.5 |
| MS.gene001498.t1 | MTR_4g067290 | 35.455 | 110 | 67 | 3 | 9 | 117 | 115 | 221 | 3.11e-12 | 63.5 |
| MS.gene001498.t1 | MTR_2g098880 | 33.036 | 112 | 65 | 3 | 9 | 114 | 72 | 179 | 6.54e-12 | 62.4 |
| MS.gene001498.t1 | MTR_2g098880 | 33.036 | 112 | 65 | 3 | 9 | 114 | 60 | 167 | 6.72e-12 | 62.4 |
| MS.gene001498.t1 | MTR_1g083640 | 25.000 | 184 | 116 | 4 | 8 | 172 | 52 | 232 | 1.37e-11 | 61.6 |
| MS.gene001498.t1 | MTR_5g076070 | 28.750 | 160 | 112 | 2 | 13 | 170 | 56 | 215 | 1.88e-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.gene001498.t1 | AT4G38180 | 33.529 | 170 | 110 | 2 | 6 | 172 | 69 | 238 | 9.22e-22 | 91.7 |
| MS.gene001498.t1 | AT5G18960 | 38.462 | 104 | 49 | 2 | 9 | 111 | 42 | 131 | 1.41e-14 | 70.9 |
| MS.gene001498.t1 | AT5G18960 | 38.462 | 104 | 49 | 2 | 9 | 111 | 42 | 131 | 1.41e-14 | 70.9 |
| MS.gene001498.t1 | AT4G15090 | 27.950 | 161 | 113 | 3 | 3 | 162 | 44 | 202 | 4.35e-14 | 69.7 |
| MS.gene001498.t1 | AT4G15090 | 27.950 | 161 | 113 | 3 | 3 | 162 | 44 | 202 | 4.35e-14 | 69.7 |
| MS.gene001498.t1 | AT4G15090 | 27.950 | 161 | 113 | 3 | 3 | 162 | 44 | 202 | 4.35e-14 | 69.7 |
| MS.gene001498.t1 | AT4G15090 | 27.950 | 161 | 113 | 3 | 3 | 162 | 44 | 202 | 4.35e-14 | 69.7 |
| MS.gene001498.t1 | AT4G15090 | 27.950 | 161 | 113 | 3 | 3 | 162 | 44 | 202 | 4.35e-14 | 69.7 |
| MS.gene001498.t1 | AT3G06250 | 37.500 | 104 | 50 | 2 | 9 | 111 | 27 | 116 | 4.38e-14 | 69.7 |
| MS.gene001498.t1 | AT3G06250 | 37.500 | 104 | 50 | 2 | 9 | 111 | 27 | 116 | 4.38e-14 | 69.7 |
| MS.gene001498.t1 | AT3G06250 | 37.500 | 104 | 50 | 2 | 9 | 111 | 27 | 116 | 4.38e-14 | 69.7 |
| MS.gene001498.t1 | AT1G76320 | 31.884 | 138 | 82 | 4 | 14 | 150 | 1 | 127 | 8.13e-12 | 63.2 |
| MS.gene001498.t1 | AT1G76320 | 31.884 | 138 | 82 | 4 | 14 | 150 | 1 | 127 | 8.13e-12 | 63.2 |
| MS.gene001498.t1 | AT1G76320 | 31.884 | 138 | 82 | 4 | 14 | 150 | 1 | 127 | 8.53e-12 | 63.2 |
| MS.gene001498.t1 | AT3G59470 | 34.615 | 104 | 65 | 2 | 9 | 111 | 69 | 170 | 1.12e-11 | 61.6 |
| MS.gene001498.t1 | AT3G59470 | 34.615 | 104 | 65 | 2 | 9 | 111 | 69 | 170 | 1.12e-11 | 61.6 |
| MS.gene001498.t1 | AT3G59470 | 34.615 | 104 | 65 | 2 | 9 | 111 | 81 | 182 | 1.31e-11 | 61.6 |
| MS.gene001498.t1 | AT1G76320 | 31.884 | 138 | 82 | 4 | 14 | 150 | 1 | 127 | 1.32e-11 | 62.4 |
| MS.gene001498.t1 | AT3G07500 | 37.500 | 104 | 63 | 2 | 9 | 111 | 32 | 134 | 2.10e-11 | 60.5 |
| MS.gene001498.t1 | AT1G10240 | 29.070 | 172 | 110 | 6 | 10 | 172 | 48 | 216 | 3.09e-11 | 61.2 |
| MS.gene001498.t1 | AT1G10240 | 29.070 | 172 | 110 | 6 | 10 | 172 | 48 | 216 | 3.09e-11 | 61.2 |
| MS.gene001498.t1 | AT5G28530 | 24.852 | 169 | 123 | 3 | 8 | 172 | 53 | 221 | 4.45e-11 | 60.8 |
| MS.gene001498.t1 | AT5G28530 | 24.852 | 169 | 123 | 3 | 8 | 172 | 53 | 221 | 4.45e-11 | 60.8 |
| MS.gene001498.t1 | AT5G28530 | 24.852 | 169 | 123 | 3 | 8 | 172 | 53 | 221 | 4.54e-11 | 60.8 |
| MS.gene001498.t1 | AT5G28530 | 25.150 | 167 | 121 | 3 | 10 | 172 | 55 | 221 | 5.71e-11 | 60.5 |
| MS.gene001498.t1 | AT5G28530 | 25.150 | 167 | 121 | 3 | 10 | 172 | 55 | 221 | 5.76e-11 | 60.5 |
Find 32 sgRNAs with CRISPR-Local
Find 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTGTCTTAATCCAGAGTTAT+TGG | 0.153704 | 3.1:+74657540 | None:intergenic |
| TGGAAGAGGCTAAACAATTT+TGG | 0.190934 | 3.1:-74657894 | MS.gene001498:CDS |
| TGGAATGGGATTTGATAATA+TGG | 0.291396 | 3.1:-74657914 | MS.gene001498:CDS |
| ACAAGCATATGAAATTGATA+TGG | 0.409436 | 3.1:-74657563 | MS.gene001498:CDS |
| TATGGTTTACGTGTGGGCTT+CGG | 0.418417 | 3.1:-74657865 | MS.gene001498:CDS |
| AAGGAAGGGGTGAAGAATAC+AGG | 0.418578 | 3.1:-74657775 | MS.gene001498:CDS |
| ATGTAGGTTCGTTTGTTGTA+AGG | 0.422514 | 3.1:-74657794 | MS.gene001498:CDS |
| TGGCATCTATAAATGTTGAT+TGG | 0.446274 | 3.1:-74657948 | MS.gene001498:CDS |
| TCAAATCCCATTCCAACCTC+TGG | 0.449329 | 3.1:+74657922 | None:intergenic |
| CGAAGCATGTGTGTAGTCTC+TGG | 0.453868 | 3.1:+74657610 | None:intergenic |
| ATTGATATGGCCAATAACTC+TGG | 0.454000 | 3.1:-74657550 | MS.gene001498:CDS |
| GGTTCGTTTGTTGTAAGGAA+GGG | 0.477120 | 3.1:-74657789 | MS.gene001498:CDS |
| CTTGCTTATGGTTTACGTGT+GGG | 0.490896 | 3.1:-74657871 | MS.gene001498:CDS |
| TGGAAGCCAGAGGTTGGAAT+GGG | 0.504538 | 3.1:-74657928 | MS.gene001498:CDS |
| AGGTTCGTTTGTTGTAAGGA+AGG | 0.507670 | 3.1:-74657790 | MS.gene001498:CDS |
| ACACTTTCACGTTGTAAGAA+CGG | 0.515117 | 3.1:-74657685 | MS.gene001498:CDS |
| CAACTTATGAGCACGCATGC+AGG | 0.519824 | 3.1:-74657505 | MS.gene001498:CDS |
| GTTCGTTTGTTGTAAGGAAG+GGG | 0.523718 | 3.1:-74657788 | MS.gene001498:CDS |
| TATGTTCATCTAGAAACTCA+TGG | 0.526110 | 3.1:+74657650 | None:intergenic |
| GTTGATTGGAAGCCAGAGGT+TGG | 0.535516 | 3.1:-74657934 | MS.gene001498:CDS |
| GGGATTTGATAATATGGAAG+AGG | 0.538633 | 3.1:-74657908 | MS.gene001498:CDS |
| TTGGAAGCCAGAGGTTGGAA+TGG | 0.550618 | 3.1:-74657929 | MS.gene001498:CDS |
| GCTTGCTTATGGTTTACGTG+TGG | 0.553841 | 3.1:-74657872 | MS.gene001498:CDS |
| ACGTTGTAAGAACGGAAAGT+TGG | 0.570358 | 3.1:-74657677 | MS.gene001498:CDS |
| GCAGGGCATAAAGCTAATGT+AGG | 0.571886 | 3.1:-74657487 | MS.gene001498:CDS |
| AACTTATGAGCACGCATGCA+GGG | 0.587100 | 3.1:-74657504 | MS.gene001498:CDS |
| ACAGTACTGTAACATCATGT+AGG | 0.593717 | 3.1:-74657810 | MS.gene001498:CDS |
| GTGAAAGTGTAATTCTTGCA+AGG | 0.603620 | 3.1:+74657698 | None:intergenic |
| AAATGTTGATTGGAAGCCAG+AGG | 0.615417 | 3.1:-74657938 | MS.gene001498:CDS |
| AGGAAGGGGTGAAGAATACA+GGG | 0.640492 | 3.1:-74657774 | MS.gene001498:CDS |
| CGTGCTCATAAGTTGAAATG+TGG | 0.644531 | 3.1:+74657513 | None:intergenic |
| TAATGTAGGATTTACAGTGA+AGG | 0.654106 | 3.1:-74657473 | MS.gene001498:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ACAAGCATATGAAATTGATA+TGG | - | chr3.1:74657836-74657855 | MS.gene001498:CDS | 25.0% |
| TAATGTAGGATTTACAGTGA+AGG | - | chr3.1:74657926-74657945 | MS.gene001498:CDS | 30.0% | |
| TATGTTCATCTAGAAACTCA+TGG | + | chr3.1:74657752-74657771 | None:intergenic | 30.0% | |
| TGGCATCTATAAATGTTGAT+TGG | - | chr3.1:74657451-74657470 | MS.gene001498:CDS | 30.0% | |
| ! | TGGAATGGGATTTGATAATA+TGG | - | chr3.1:74657485-74657504 | MS.gene001498:CDS | 30.0% |
| ! | TTAGAGTACGTTTTACAAAC+AGG | - | chr3.1:74657559-74657578 | MS.gene001498:CDS | 30.0% |
| !!! | AAACAATTTTGGCTTGCTTA+TGG | - | chr3.1:74657516-74657535 | MS.gene001498:CDS | 30.0% |
| ACACTTTCACGTTGTAAGAA+CGG | - | chr3.1:74657714-74657733 | MS.gene001498:CDS | 35.0% | |
| ACAGTACTGTAACATCATGT+AGG | - | chr3.1:74657589-74657608 | MS.gene001498:CDS | 35.0% | |
| ATTGATATGGCCAATAACTC+TGG | - | chr3.1:74657849-74657868 | MS.gene001498:CDS | 35.0% | |
| CTGTCTTAATCCAGAGTTAT+TGG | + | chr3.1:74657862-74657881 | None:intergenic | 35.0% | |
| GGGATCAAAAATGCATATGA+AGG | - | chr3.1:74657645-74657664 | MS.gene001498:CDS | 35.0% | |
| ! | GGGATTTGATAATATGGAAG+AGG | - | chr3.1:74657491-74657510 | MS.gene001498:CDS | 35.0% |
| ! | GTGAAAGTGTAATTCTTGCA+AGG | + | chr3.1:74657704-74657723 | None:intergenic | 35.0% |
| ! | TGGAAGAGGCTAAACAATTT+TGG | - | chr3.1:74657505-74657524 | MS.gene001498:CDS | 35.0% |
| !! | ATGTAGGTTCGTTTGTTGTA+AGG | - | chr3.1:74657605-74657624 | MS.gene001498:CDS | 35.0% |
| ACGTTGTAAGAACGGAAAGT+TGG | - | chr3.1:74657722-74657741 | MS.gene001498:CDS | 40.0% | |
| CTTGCTTATGGTTTACGTGT+GGG | - | chr3.1:74657528-74657547 | MS.gene001498:CDS | 40.0% | |
| ! | AAATGTTGATTGGAAGCCAG+AGG | - | chr3.1:74657461-74657480 | MS.gene001498:CDS | 40.0% |
| ! | CGTGCTCATAAGTTGAAATG+TGG | + | chr3.1:74657889-74657908 | None:intergenic | 40.0% |
| ! | GTGTAGTCTCTGGATTTTGT+AGG | + | chr3.1:74657782-74657801 | None:intergenic | 40.0% |
| ! | TCTCTGGATTTTGTAGGTCA+TGG | + | chr3.1:74657776-74657795 | None:intergenic | 40.0% |
| !! | AGGTTCGTTTGTTGTAAGGA+AGG | - | chr3.1:74657609-74657628 | MS.gene001498:CDS | 40.0% |
| !! | GGTTCGTTTGTTGTAAGGAA+GGG | - | chr3.1:74657610-74657629 | MS.gene001498:CDS | 40.0% |
| !! | GTTCGTTTGTTGTAAGGAAG+GGG | - | chr3.1:74657611-74657630 | MS.gene001498:CDS | 40.0% |
| AACTTATGAGCACGCATGCA+GGG | - | chr3.1:74657895-74657914 | MS.gene001498:CDS | 45.0% | |
| AAGGAAGGGGTGAAGAATAC+AGG | - | chr3.1:74657624-74657643 | MS.gene001498:CDS | 45.0% | |
| AGGAAGGGGTGAAGAATACA+GGG | - | chr3.1:74657625-74657644 | MS.gene001498:CDS | 45.0% | |
| GCAGGGCATAAAGCTAATGT+AGG | - | chr3.1:74657912-74657931 | MS.gene001498:CDS | 45.0% | |
| GCTTGCTTATGGTTTACGTG+TGG | - | chr3.1:74657527-74657546 | MS.gene001498:CDS | 45.0% | |
| TATGGTTTACGTGTGGGCTT+CGG | - | chr3.1:74657534-74657553 | MS.gene001498:CDS | 45.0% | |
| TCAAATCCCATTCCAACCTC+TGG | + | chr3.1:74657480-74657499 | None:intergenic | 45.0% | |
| CAACTTATGAGCACGCATGC+AGG | - | chr3.1:74657894-74657913 | MS.gene001498:CDS | 50.0% | |
| CGAAGCATGTGTGTAGTCTC+TGG | + | chr3.1:74657792-74657811 | None:intergenic | 50.0% | |
| GTTGATTGGAAGCCAGAGGT+TGG | - | chr3.1:74657465-74657484 | MS.gene001498:CDS | 50.0% | |
| TGGAAGCCAGAGGTTGGAAT+GGG | - | chr3.1:74657471-74657490 | MS.gene001498:CDS | 50.0% | |
| TTGGAAGCCAGAGGTTGGAA+TGG | - | chr3.1:74657470-74657489 | MS.gene001498:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 74657450 | 74657971 | 74657450 | ID=MS.gene001498 |
| chr3.1 | mRNA | 74657450 | 74657971 | 74657450 | ID=MS.gene001498.t1;Parent=MS.gene001498 |
| chr3.1 | exon | 74657450 | 74657971 | 74657450 | ID=MS.gene001498.t1.exon1;Parent=MS.gene001498.t1 |
| chr3.1 | CDS | 74657450 | 74657971 | 74657450 | ID=cds.MS.gene001498.t1;Parent=MS.gene001498.t1 |
| Gene Sequence |
| Protein sequence |
