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.gene023026.t1 | XP_013468829.1 | 92.5 | 159 | 12 | 0 | 1 | 159 | 1 | 159 | 4.70E-73 | 283.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene023026.t1 | Q9FJK3 | 45.5 | 156 | 84 | 1 | 1 | 155 | 1 | 156 | 1.1e-27 | 124.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene023026.t1 | A0A072VMQ1 | 92.5 | 159 | 12 | 0 | 1 | 159 | 1 | 159 | 3.4e-73 | 283.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene023026.t1 | TF | MADS-M-type |
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.gene023026.t1 | MTR_1g077320 | 92.453 | 159 | 12 | 0 | 1 | 159 | 1 | 159 | 2.79e-98 | 280 |
| MS.gene023026.t1 | MTR_4g028720 | 87.421 | 159 | 20 | 0 | 1 | 159 | 1 | 159 | 4.84e-95 | 272 |
| MS.gene023026.t1 | MTR_7g011950 | 89.308 | 159 | 17 | 0 | 1 | 159 | 1 | 159 | 4.95e-95 | 272 |
| MS.gene023026.t1 | MTR_1g077390 | 71.338 | 157 | 45 | 0 | 1 | 157 | 1 | 157 | 1.22e-78 | 230 |
| MS.gene023026.t1 | MTR_1g077300 | 75.472 | 159 | 37 | 1 | 1 | 159 | 1 | 157 | 8.58e-76 | 223 |
| MS.gene023026.t1 | MTR_5g047580 | 69.231 | 156 | 48 | 0 | 1 | 156 | 1 | 156 | 1.36e-74 | 220 |
| MS.gene023026.t1 | MTR_1g084950 | 73.718 | 156 | 41 | 0 | 1 | 156 | 1 | 156 | 1.56e-73 | 217 |
| MS.gene023026.t1 | MTR_1g090697 | 57.419 | 155 | 66 | 0 | 1 | 155 | 1 | 155 | 6.73e-59 | 180 |
| MS.gene023026.t1 | MTR_1g090710 | 55.769 | 156 | 68 | 1 | 1 | 155 | 1 | 156 | 5.11e-57 | 176 |
| MS.gene023026.t1 | MTR_5g047560 | 58.333 | 156 | 49 | 1 | 1 | 156 | 1 | 140 | 1.23e-56 | 174 |
| MS.gene023026.t1 | MTR_1g090783 | 55.556 | 153 | 68 | 0 | 3 | 155 | 2 | 154 | 4.36e-56 | 173 |
| MS.gene023026.t1 | MTR_3g065100 | 50.318 | 157 | 77 | 1 | 1 | 156 | 1 | 157 | 2.16e-39 | 133 |
| MS.gene023026.t1 | MTR_3g466980 | 43.791 | 153 | 85 | 1 | 1 | 152 | 1 | 153 | 2.00e-37 | 128 |
| MS.gene023026.t1 | MTR_5g075380 | 39.103 | 156 | 94 | 1 | 1 | 155 | 1 | 156 | 2.12e-37 | 126 |
| MS.gene023026.t1 | MTR_4g032620 | 38.065 | 155 | 94 | 2 | 1 | 153 | 1 | 155 | 8.57e-36 | 124 |
| MS.gene023026.t1 | MTR_3g466830 | 42.675 | 157 | 89 | 1 | 3 | 158 | 2 | 158 | 1.04e-33 | 116 |
| MS.gene023026.t1 | MTR_4g063790 | 38.365 | 159 | 96 | 2 | 1 | 157 | 1 | 159 | 5.17e-33 | 115 |
| MS.gene023026.t1 | MTR_4g031910 | 44.000 | 150 | 82 | 2 | 1 | 148 | 1 | 150 | 1.30e-32 | 115 |
| MS.gene023026.t1 | MTR_3g466890 | 40.909 | 154 | 90 | 1 | 3 | 155 | 2 | 155 | 6.68e-31 | 109 |
| MS.gene023026.t1 | MTR_3g031240 | 35.849 | 159 | 100 | 2 | 1 | 157 | 1 | 159 | 2.23e-30 | 108 |
| MS.gene023026.t1 | MTR_8g036130 | 37.736 | 159 | 95 | 2 | 1 | 155 | 1 | 159 | 1.16e-29 | 108 |
| MS.gene023026.t1 | MTR_4g032260 | 42.500 | 160 | 90 | 2 | 1 | 158 | 1 | 160 | 1.54e-29 | 106 |
| MS.gene023026.t1 | MTR_2g016210 | 38.994 | 159 | 95 | 2 | 1 | 157 | 1 | 159 | 1.32e-28 | 105 |
| MS.gene023026.t1 | MTR_4g032290 | 40.994 | 161 | 93 | 2 | 1 | 159 | 1 | 161 | 1.22e-27 | 103 |
| MS.gene023026.t1 | MTR_3g031100 | 36.076 | 158 | 97 | 3 | 1 | 155 | 1 | 157 | 1.06e-26 | 100 |
| MS.gene023026.t1 | MTR_3g467080 | 32.298 | 161 | 107 | 2 | 1 | 159 | 1 | 161 | 7.86e-26 | 96.7 |
| MS.gene023026.t1 | MTR_2g035610 | 42.735 | 117 | 66 | 1 | 1 | 116 | 1 | 117 | 3.40e-25 | 94.0 |
| MS.gene023026.t1 | MTR_2g035580 | 32.258 | 155 | 104 | 1 | 1 | 154 | 1 | 155 | 1.53e-21 | 85.5 |
| MS.gene023026.t1 | MTR_3g465410 | 34.351 | 131 | 84 | 2 | 29 | 157 | 1 | 131 | 1.02e-20 | 82.8 |
| MS.gene023026.t1 | MTR_4g028800 | 46.575 | 73 | 37 | 1 | 1 | 73 | 1 | 71 | 2.98e-19 | 77.0 |
| MS.gene023026.t1 | MTR_3g466930 | 36.800 | 125 | 78 | 1 | 32 | 155 | 2 | 126 | 3.54e-19 | 78.6 |
| MS.gene023026.t1 | MTR_3g466900 | 38.095 | 126 | 75 | 2 | 32 | 155 | 2 | 126 | 1.57e-18 | 77.0 |
| MS.gene023026.t1 | MTR_4g019670 | 32.895 | 152 | 95 | 3 | 1 | 148 | 1 | 149 | 1.45e-17 | 79.0 |
| MS.gene023026.t1 | MTR_7g106510 | 35.185 | 108 | 69 | 1 | 3 | 109 | 6 | 113 | 2.86e-16 | 75.1 |
| MS.gene023026.t1 | MTR_7g055800 | 33.333 | 114 | 49 | 2 | 1 | 114 | 1 | 87 | 3.52e-14 | 64.7 |
| MS.gene023026.t1 | MTR_7g055790 | 37.615 | 109 | 51 | 2 | 1 | 109 | 59 | 150 | 1.87e-12 | 61.6 |
| MS.gene023026.t1 | MTR_1g033370 | 41.489 | 94 | 54 | 1 | 64 | 156 | 28 | 121 | 3.05e-12 | 60.5 |
| MS.gene023026.t1 | MTR_3g093900 | 26.974 | 152 | 106 | 2 | 3 | 151 | 6 | 155 | 3.56e-12 | 63.5 |
| MS.gene023026.t1 | MTR_1g033930 | 38.542 | 96 | 58 | 1 | 64 | 158 | 22 | 117 | 3.65e-12 | 60.1 |
| MS.gene023026.t1 | MTR_7g055940 | 34.286 | 105 | 42 | 3 | 1 | 105 | 1 | 78 | 5.15e-12 | 58.5 |
| MS.gene023026.t1 | MTR_6g005450 | 30.357 | 112 | 72 | 3 | 1 | 106 | 1 | 112 | 1.17e-11 | 61.6 |
| MS.gene023026.t1 | MTR_1g033790 | 39.583 | 96 | 57 | 1 | 64 | 158 | 22 | 117 | 1.80e-11 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene023026.t1 | AT5G48670 | 45.513 | 156 | 84 | 1 | 1 | 155 | 1 | 156 | 3.77e-33 | 119 |
| MS.gene023026.t1 | AT3G05860 | 39.597 | 149 | 89 | 1 | 1 | 148 | 1 | 149 | 3.90e-31 | 111 |
| MS.gene023026.t1 | AT3G05860 | 39.597 | 149 | 89 | 1 | 1 | 148 | 1 | 149 | 2.06e-30 | 110 |
| MS.gene023026.t1 | AT5G26630 | 40.000 | 160 | 95 | 1 | 1 | 159 | 1 | 160 | 2.60e-30 | 109 |
| MS.gene023026.t1 | AT3G05860 | 39.597 | 149 | 89 | 1 | 1 | 148 | 1 | 149 | 2.79e-30 | 110 |
| MS.gene023026.t1 | AT1G65300 | 36.054 | 147 | 93 | 1 | 3 | 148 | 2 | 148 | 3.72e-27 | 103 |
| MS.gene023026.t1 | AT1G65330 | 36.735 | 147 | 92 | 1 | 3 | 148 | 2 | 148 | 1.10e-26 | 101 |
| MS.gene023026.t1 | AT5G26650 | 35.294 | 153 | 98 | 1 | 4 | 155 | 2 | 154 | 4.67e-24 | 96.3 |
| MS.gene023026.t1 | AT5G27960 | 43.925 | 107 | 59 | 1 | 4 | 109 | 2 | 108 | 1.94e-23 | 94.0 |
| MS.gene023026.t1 | AT1G22590 | 29.630 | 162 | 98 | 3 | 1 | 155 | 1 | 153 | 6.27e-21 | 84.0 |
| MS.gene023026.t1 | AT1G31630 | 29.032 | 155 | 108 | 2 | 3 | 156 | 2 | 155 | 1.07e-19 | 84.3 |
| MS.gene023026.t1 | AT5G27810 | 44.186 | 86 | 47 | 1 | 29 | 113 | 1 | 86 | 1.32e-19 | 79.3 |
| MS.gene023026.t1 | AT2G28700 | 35.252 | 139 | 87 | 2 | 1 | 138 | 1 | 137 | 1.95e-19 | 83.2 |
| MS.gene023026.t1 | AT1G31640 | 39.640 | 111 | 65 | 2 | 3 | 112 | 2 | 111 | 1.38e-18 | 82.0 |
| MS.gene023026.t1 | AT5G26580 | 38.532 | 109 | 54 | 1 | 1 | 109 | 1 | 96 | 3.46e-17 | 77.4 |
| MS.gene023026.t1 | AT5G58890 | 35.135 | 111 | 64 | 3 | 1 | 104 | 1 | 110 | 1.18e-13 | 67.0 |
| MS.gene023026.t1 | AT2G40210 | 38.835 | 103 | 58 | 2 | 1 | 100 | 1 | 101 | 1.52e-13 | 67.4 |
| MS.gene023026.t1 | AT5G06500 | 35.849 | 106 | 64 | 2 | 1 | 102 | 1 | 106 | 7.22e-12 | 61.6 |
Find 28 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTGCAAAAGGAAACTTTCC+TGG | 0.331570 | 7.2:-49947003 | None:intergenic |
| AACAGAGGTGTGGCCAAATC+TGG | 0.333286 | 7.2:+49946913 | MS.gene023026:CDS |
| TGTTGAATCATTGGAGATAA+AGG | 0.341938 | 7.2:-49946777 | None:intergenic |
| CTTGTCTTTGCTTTCTCAGT+TGG | 0.347479 | 7.2:-49947045 | None:intergenic |
| AGCCTTTCTTGTTGAATCAT+TGG | 0.353862 | 7.2:-49946786 | None:intergenic |
| CTCCAATGATTCAACAAGAA+AGG | 0.407412 | 7.2:+49946784 | MS.gene023026:CDS |
| AAATCTGGAGGAAGCAAAAC+AGG | 0.418438 | 7.2:+49946928 | MS.gene023026:CDS |
| CTTTAGTAATCTGTTGCAAA+AGG | 0.444882 | 7.2:-49947015 | None:intergenic |
| CAGAACTCATATATGAAAGA+TGG | 0.456034 | 7.2:+49946965 | MS.gene023026:CDS |
| TCTTTCTGATTTGAAAGACT+TGG | 0.461416 | 7.2:+49947141 | MS.gene023026:CDS |
| TCAGAAAGAGTGATATCATC+TGG | 0.482942 | 7.2:-49947127 | None:intergenic |
| TTTCACCTTCTTCCTAGTCA+TGG | 0.490416 | 7.2:-49946750 | None:intergenic |
| AGCTGAACATTCGTATGAGC+TGG | 0.525005 | 7.2:+49947083 | MS.gene023026:CDS |
| AGAGAACTCACTATTCTTTG+TGG | 0.526508 | 7.2:+49946848 | MS.gene023026:CDS |
| TGCAACAGATTACTAAAGCT+AGG | 0.531119 | 7.2:+49947020 | MS.gene023026:CDS |
| GCAACAGATTACTAAAGCTA+GGG | 0.532673 | 7.2:+49947021 | MS.gene023026:CDS |
| AGAACTCATATATGAAAGAT+GGG | 0.538835 | 7.2:+49946966 | MS.gene023026:CDS |
| GAAGGAAATTGATGACAAGA+TGG | 0.550366 | 7.2:+49947186 | MS.gene023026:CDS |
| CGAAGCCATGACTAGGAAGA+AGG | 0.551367 | 7.2:+49946745 | None:intergenic |
| GAAGAAAAGTATCATCAAGA+AGG | 0.556586 | 7.2:+49946823 | MS.gene023026:CDS |
| AGGATCGGAAATTATAGCAC+AGG | 0.559456 | 7.2:-49946879 | None:intergenic |
| GAAAGGCTTCCTACAAGAAG+AGG | 0.563850 | 7.2:+49946801 | MS.gene023026:CDS |
| TCGGAAATTATAGCACAGGC+TGG | 0.570119 | 7.2:-49946875 | None:intergenic |
| TACATTGCGAAGCCATGACT+AGG | 0.618148 | 7.2:+49946738 | None:intergenic |
| TTGATTCTAAAACAGAGGTG+TGG | 0.633348 | 7.2:+49946903 | MS.gene023026:CDS |
| AAGCAAAACAGGTGATTGAG+AGG | 0.635256 | 7.2:+49946939 | MS.gene023026:CDS |
| AGAGGTGTGGCCAAATCTGG+AGG | 0.647190 | 7.2:+49946916 | MS.gene023026:CDS |
| CTGGTACCTGCAAAACAACA+CGG | 0.672567 | 7.2:+49947102 | MS.gene023026:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AGAACTCATATATGAAAGAT+GGG | + | chr7.2:49946966-49946985 | MS.gene023026:CDS | 25.0% |
| !! | GTTAATTGCAAAAAGTATGA+AGG | + | chr7.2:49947168-49947187 | MS.gene023026:CDS | 25.0% |
| !!! | TGTTTTAGAATCAAAAGGAT+CGG | - | chr7.2:49946897-49946916 | None:intergenic | 25.0% |
| CAGAACTCATATATGAAAGA+TGG | + | chr7.2:49946965-49946984 | MS.gene023026:CDS | 30.0% | |
| CTTTAGTAATCTGTTGCAAA+AGG | - | chr7.2:49947018-49947037 | None:intergenic | 30.0% | |
| TGTTGAATCATTGGAGATAA+AGG | - | chr7.2:49946780-49946799 | None:intergenic | 30.0% | |
| ! | TCTTTCTGATTTGAAAGACT+TGG | + | chr7.2:49947141-49947160 | MS.gene023026:CDS | 30.0% |
| !! | GAAGAAAAGTATCATCAAGA+AGG | + | chr7.2:49946823-49946842 | MS.gene023026:CDS | 30.0% |
| !!! | ACCTCTGTTTTAGAATCAAA+AGG | - | chr7.2:49946902-49946921 | None:intergenic | 30.0% |
| !!! | TCCTTTTGATTCTAAAACAG+AGG | + | chr7.2:49946898-49946917 | MS.gene023026:CDS | 30.0% |
| AGAGAACTCACTATTCTTTG+TGG | + | chr7.2:49946848-49946867 | MS.gene023026:CDS | 35.0% | |
| AGCCTTTCTTGTTGAATCAT+TGG | - | chr7.2:49946789-49946808 | None:intergenic | 35.0% | |
| CTCCAATGATTCAACAAGAA+AGG | + | chr7.2:49946784-49946803 | MS.gene023026:CDS | 35.0% | |
| GCAACAGATTACTAAAGCTA+GGG | + | chr7.2:49947021-49947040 | MS.gene023026:CDS | 35.0% | |
| TCAGAAAGAGTGATATCATC+TGG | - | chr7.2:49947130-49947149 | None:intergenic | 35.0% | |
| TGCAACAGATTACTAAAGCT+AGG | + | chr7.2:49947020-49947039 | MS.gene023026:CDS | 35.0% | |
| ! | ACTTTTCTTCCTCTTCTTGT+AGG | - | chr7.2:49946813-49946832 | None:intergenic | 35.0% |
| ! | GAAGGAAATTGATGACAAGA+TGG | + | chr7.2:49947186-49947205 | MS.gene023026:CDS | 35.0% |
| !! | TTGATTCTAAAACAGAGGTG+TGG | + | chr7.2:49946903-49946922 | MS.gene023026:CDS | 35.0% |
| AAATCTGGAGGAAGCAAAAC+AGG | + | chr7.2:49946928-49946947 | MS.gene023026:CDS | 40.0% | |
| AAGCAAAACAGGTGATTGAG+AGG | + | chr7.2:49946939-49946958 | MS.gene023026:CDS | 40.0% | |
| AGGATCGGAAATTATAGCAC+AGG | - | chr7.2:49946882-49946901 | None:intergenic | 40.0% | |
| CTTGTCTTTGCTTTCTCAGT+TGG | - | chr7.2:49947048-49947067 | None:intergenic | 40.0% | |
| GTTGCAAAAGGAAACTTTCC+TGG | - | chr7.2:49947006-49947025 | None:intergenic | 40.0% | |
| TGGGAGAAAAAATGTGAACC+AGG | + | chr7.2:49946985-49947004 | MS.gene023026:CDS | 40.0% | |
| ! | TGTTTTGCTTCCTCCAGATT+TGG | - | chr7.2:49946929-49946948 | None:intergenic | 40.0% |
| AGCTGAACATTCGTATGAGC+TGG | + | chr7.2:49947083-49947102 | MS.gene023026:CDS | 45.0% | |
| CTGGTACCTGCAAAACAACA+CGG | + | chr7.2:49947102-49947121 | MS.gene023026:CDS | 45.0% | |
| GAAAGGCTTCCTACAAGAAG+AGG | + | chr7.2:49946801-49946820 | MS.gene023026:CDS | 45.0% | |
| TCGGAAATTATAGCACAGGC+TGG | - | chr7.2:49946878-49946897 | None:intergenic | 45.0% | |
| ! | AACAGAGGTGTGGCCAAATC+TGG | + | chr7.2:49946913-49946932 | MS.gene023026:CDS | 50.0% |
| ! | AGAGGTGTGGCCAAATCTGG+AGG | + | chr7.2:49946916-49946935 | MS.gene023026:CDS | 55.0% |
| !!! | CTGGCACCGTGTTGTTTTGC+AGG | - | chr7.2:49947111-49947130 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.2 | gene | 49946752 | 49947231 | 49946752 | ID=MS.gene023026 |
| chr7.2 | mRNA | 49946752 | 49947231 | 49946752 | ID=MS.gene023026.t1;Parent=MS.gene023026 |
| chr7.2 | exon | 49946752 | 49947231 | 49946752 | ID=MS.gene023026.t1.exon1;Parent=MS.gene023026.t1 |
| chr7.2 | CDS | 49946752 | 49947231 | 49946752 | ID=cds.MS.gene023026.t1;Parent=MS.gene023026.t1 |
| Gene Sequence |
| Protein sequence |
