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.gene06033.t1 | XP_013447142.1 | 98.4 | 189 | 3 | 0 | 1 | 189 | 1 | 189 | 3.90E-103 | 384 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene06033.t1 | P13240 | 59.6 | 183 | 70 | 1 | 7 | 189 | 6 | 184 | 7.1e-61 | 235.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene06033.t1 | A0A072TUG7 | 98.4 | 189 | 3 | 0 | 1 | 189 | 1 | 189 | 2.8e-103 | 384.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene06033 | MS.gene26474 | 0.807751 | 4.34E-50 | -1.69E-46 |
| MS.gene06033 | MS.gene44496 | 0.803503 | 3.38E-49 | -1.69E-46 |
| MS.gene06033 | MS.gene55764 | 0.958746 | 1.10E-116 | -1.69E-46 |
| MS.gene06033 | MS.gene61722 | 0.80681 | 6.86E-50 | -1.69E-46 |
| MS.gene06033 | MS.gene76883 | 0.800552 | 1.37E-48 | -1.69E-46 |
| MS.gene06033 | MS.gene90819 | 0.827267 | 1.72E-54 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene52084 | MS.gene06033 | PPI |
| MS.gene068294 | MS.gene06033 | PPI |
| MS.gene034592 | MS.gene06033 | PPI |
| MS.gene057717 | MS.gene06033 | PPI |
| MS.gene33679 | MS.gene06033 | PPI |
| MS.gene55766 | MS.gene06033 | PPI |
| MS.gene33420 | MS.gene06033 | PPI |
| MS.gene024359 | MS.gene06033 | PPI |
| MS.gene33426 | MS.gene06033 | PPI |
| MS.gene24971 | MS.gene06033 | PPI |
| MS.gene24973 | MS.gene06033 | PPI |
| MS.gene068578 | MS.gene06033 | PPI |
| MS.gene39163 | MS.gene06033 | PPI |
| MS.gene068291 | MS.gene06033 | PPI |
| MS.gene33418 | MS.gene06033 | PPI |
| MS.gene003512 | MS.gene06033 | PPI |
| MS.gene048891 | MS.gene06033 | PPI |
| MS.gene55764 | MS.gene06033 | PPI |
| MS.gene33676 | MS.gene06033 | PPI |
| MS.gene06033 | MS.gene068292 | PPI |
| MS.gene071329 | MS.gene06033 | PPI |
| MS.gene33681 | MS.gene06033 | PPI |
| MS.gene46462 | MS.gene06033 | PPI |
| MS.gene98692 | MS.gene06033 | PPI |
| MS.gene33424 | MS.gene06033 | PPI |
| MS.gene06035 | MS.gene06033 | PPI |
| MS.gene06033 | MS.gene90969 | PPI |
| MS.gene24969 | MS.gene06033 | PPI |
| MS.gene33677 | MS.gene06033 | PPI |
| MS.gene33680 | MS.gene06033 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene06033.t1 | MTR_8g099115 | 98.413 | 189 | 3 | 0 | 1 | 189 | 1 | 189 | 1.42e-139 | 387 |
| MS.gene06033.t1 | MTR_8g099135 | 63.830 | 188 | 62 | 2 | 2 | 189 | 4 | 185 | 1.19e-88 | 258 |
| MS.gene06033.t1 | MTR_4g073950 | 34.351 | 131 | 78 | 3 | 39 | 168 | 48 | 171 | 1.25e-17 | 77.0 |
| MS.gene06033.t1 | MTR_4g013335 | 33.835 | 133 | 77 | 3 | 41 | 172 | 57 | 179 | 3.06e-17 | 76.3 |
| MS.gene06033.t1 | MTR_4g122110 | 31.818 | 154 | 92 | 5 | 34 | 185 | 31 | 173 | 5.05e-17 | 75.1 |
| MS.gene06033.t1 | MTR_4g013320 | 33.835 | 133 | 79 | 3 | 41 | 172 | 58 | 182 | 6.74e-17 | 75.5 |
| MS.gene06033.t1 | MTR_4g013330 | 37.984 | 129 | 73 | 4 | 41 | 168 | 56 | 178 | 1.20e-16 | 74.7 |
| MS.gene06033.t1 | MTR_4g013310 | 32.353 | 136 | 81 | 4 | 41 | 174 | 58 | 184 | 4.29e-16 | 73.2 |
| MS.gene06033.t1 | MTR_3g034030 | 30.412 | 194 | 116 | 7 | 1 | 186 | 1 | 183 | 5.52e-16 | 72.8 |
| MS.gene06033.t1 | MTR_4g013325 | 33.835 | 133 | 79 | 3 | 41 | 172 | 58 | 182 | 1.11e-15 | 72.0 |
| MS.gene06033.t1 | MTR_1g054525 | 31.792 | 173 | 100 | 6 | 6 | 170 | 13 | 175 | 1.39e-15 | 71.6 |
| MS.gene06033.t1 | MTR_4g013350 | 33.333 | 129 | 77 | 3 | 41 | 168 | 56 | 176 | 3.73e-15 | 70.5 |
| MS.gene06033.t1 | MTR_4g122130 | 27.586 | 174 | 109 | 5 | 1 | 172 | 5 | 163 | 7.19e-15 | 69.7 |
| MS.gene06033.t1 | MTR_1g056370 | 30.994 | 171 | 99 | 6 | 8 | 168 | 4 | 165 | 1.51e-14 | 68.9 |
| MS.gene06033.t1 | MTR_4g013345 | 33.333 | 129 | 77 | 3 | 41 | 168 | 55 | 175 | 1.88e-14 | 68.6 |
| MS.gene06033.t1 | MTR_4g078885 | 29.897 | 194 | 117 | 7 | 1 | 186 | 1 | 183 | 2.05e-14 | 68.6 |
| MS.gene06033.t1 | MTR_4g049550 | 31.944 | 144 | 89 | 3 | 30 | 172 | 26 | 161 | 1.32e-13 | 66.2 |
| MS.gene06033.t1 | MTR_7g070390 | 29.932 | 147 | 73 | 4 | 39 | 174 | 50 | 177 | 3.43e-12 | 62.4 |
| MS.gene06033.t1 | MTR_7g093790 | 28.902 | 173 | 90 | 8 | 6 | 164 | 13 | 166 | 7.98e-12 | 61.6 |
| MS.gene06033.t1 | MTR_7g093870 | 32.540 | 126 | 75 | 5 | 41 | 162 | 47 | 166 | 1.07e-11 | 61.6 |
| MS.gene06033.t1 | MTR_4g013770 | 33.333 | 135 | 78 | 4 | 41 | 172 | 49 | 174 | 2.70e-11 | 60.1 |
| MS.gene06033.t1 | MTR_3g105640 | 30.178 | 169 | 108 | 5 | 7 | 172 | 10 | 171 | 3.82e-11 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene06033.t1 | AT4G23690 | 54.878 | 164 | 66 | 2 | 27 | 189 | 31 | 187 | 3.90e-62 | 191 |
| MS.gene06033.t1 | AT1G64160 | 50.581 | 172 | 72 | 3 | 19 | 189 | 23 | 182 | 2.06e-61 | 189 |
| MS.gene06033.t1 | AT4G11210 | 45.652 | 184 | 91 | 3 | 8 | 189 | 7 | 183 | 4.41e-56 | 175 |
| MS.gene06033.t1 | AT4G11190 | 44.565 | 184 | 94 | 2 | 7 | 189 | 7 | 183 | 1.92e-54 | 171 |
| MS.gene06033.t1 | AT4G11180 | 42.391 | 184 | 97 | 3 | 8 | 189 | 9 | 185 | 1.70e-44 | 146 |
| MS.gene06033.t1 | AT1G22900 | 32.484 | 157 | 95 | 4 | 11 | 164 | 23 | 171 | 2.83e-18 | 79.0 |
| MS.gene06033.t1 | AT2G21100 | 31.214 | 173 | 107 | 5 | 4 | 172 | 7 | 171 | 7.89e-15 | 69.7 |
| MS.gene06033.t1 | AT2G21100 | 31.214 | 173 | 107 | 5 | 4 | 172 | 7 | 171 | 7.89e-15 | 69.7 |
| MS.gene06033.t1 | AT5G42500 | 33.544 | 158 | 92 | 6 | 14 | 168 | 20 | 167 | 8.62e-15 | 69.3 |
| MS.gene06033.t1 | AT2G21110 | 32.061 | 131 | 84 | 2 | 39 | 168 | 39 | 165 | 1.10e-14 | 69.3 |
| MS.gene06033.t1 | AT1G65870 | 32.394 | 142 | 85 | 4 | 33 | 171 | 39 | 172 | 4.04e-14 | 67.8 |
| MS.gene06033.t1 | AT5G42510 | 32.704 | 159 | 89 | 6 | 14 | 168 | 20 | 164 | 8.52e-14 | 66.6 |
| MS.gene06033.t1 | AT1G58170 | 30.526 | 190 | 112 | 7 | 3 | 189 | 9 | 181 | 1.14e-13 | 66.6 |
| MS.gene06033.t1 | AT5G49040 | 27.222 | 180 | 114 | 5 | 2 | 172 | 3 | 174 | 5.46e-13 | 64.7 |
| MS.gene06033.t1 | AT3G13662 | 28.571 | 126 | 82 | 2 | 48 | 172 | 50 | 168 | 6.58e-13 | 64.3 |
| MS.gene06033.t1 | AT4G38700 | 28.646 | 192 | 118 | 9 | 7 | 186 | 6 | 190 | 1.92e-12 | 63.2 |
| MS.gene06033.t1 | AT3G13650 | 28.788 | 132 | 82 | 3 | 42 | 172 | 49 | 169 | 3.20e-12 | 62.8 |
| MS.gene06033.t1 | AT1G55210 | 28.070 | 171 | 100 | 6 | 4 | 162 | 1 | 160 | 3.29e-12 | 62.8 |
| MS.gene06033.t1 | AT1G55210 | 28.070 | 171 | 100 | 6 | 4 | 162 | 1 | 160 | 3.29e-12 | 62.8 |
| MS.gene06033.t1 | AT5G49030 | 27.407 | 135 | 89 | 3 | 39 | 172 | 48 | 174 | 5.64e-12 | 63.9 |
Find 38 sgRNAs with CRISPR-Local
Find 50 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTAGGGACATTTCGGTAAT+TGG | 0.217142 | 4.1:+4996003 | MS.gene06033:CDS |
| TTAGCAAACCAAAACCATTT+TGG | 0.234540 | 4.1:+4995784 | MS.gene06033:CDS |
| CCAAATCACCAAAATGGTTT+TGG | 0.244201 | 4.1:-4995792 | None:intergenic |
| CTCCAACAAGATCAAGAAAA+AGG | 0.244585 | 4.1:+4995635 | MS.gene06033:CDS |
| AAACAACCAAATCACCAAAA+TGG | 0.349103 | 4.1:-4995798 | None:intergenic |
| CTCTCAACAGATTCATTTGA+AGG | 0.380353 | 4.1:+4996066 | MS.gene06033:CDS |
| GAATAAGACTAGGGACATTT+CGG | 0.391298 | 4.1:+4995996 | MS.gene06033:CDS |
| CTTCAACTCTACTCAACATA+AGG | 0.398508 | 4.1:+4995939 | MS.gene06033:CDS |
| CTGGTGATTTCTTCATGACT+AGG | 0.418903 | 4.1:+4996031 | MS.gene06033:CDS |
| AGGAATATGTCAATGAGATT+AGG | 0.442216 | 4.1:-4995606 | None:intergenic |
| AACTTACACTCACGACCAAT+TGG | 0.452615 | 4.1:+4995847 | MS.gene06033:CDS |
| TTTGGTTTGCTAATATGGTT+CGG | 0.454869 | 4.1:-4995774 | None:intergenic |
| AAGTTATTGTCCAAAGTGAT+TGG | 0.456707 | 4.1:-4995829 | None:intergenic |
| AATCCTTGAGCACGACCAAT+TGG | 0.466958 | 4.1:-4995862 | None:intergenic |
| AGATTAACTTGTACGAATGT+TGG | 0.479766 | 4.1:+4996115 | MS.gene06033:CDS |
| AATTGTAGGCACACCGGCAT+GGG | 0.485148 | 4.1:+4995747 | MS.gene06033:CDS |
| TGATCTTGTTGGAGTGGCAG+AGG | 0.486276 | 4.1:-4995626 | None:intergenic |
| CGACCAATTGGTCGTGCTCA+AGG | 0.488935 | 4.1:+4995859 | MS.gene06033:CDS |
| TGGTGATTTCTTCATGACTA+GGG | 0.508367 | 4.1:+4996032 | MS.gene06033:CDS |
| AATGCCACATCAGCAATTGT+AGG | 0.509448 | 4.1:+4995733 | MS.gene06033:CDS |
| CAATTGTAGGCACACCGGCA+TGG | 0.515586 | 4.1:+4995746 | MS.gene06033:CDS |
| ATTTCGGTAATTGGTGGGAC+TGG | 0.519957 | 4.1:+4996012 | MS.gene06033:CDS |
| AGATTAGGAGCAAGAAGAAG+AGG | 0.538005 | 4.1:-4995591 | None:intergenic |
| TAAAACACCAATGTCTTGCA+TGG | 0.555621 | 4.1:-4995673 | None:intergenic |
| TCCCTAGTCTTATTCATCAA+AGG | 0.569008 | 4.1:-4995988 | None:intergenic |
| TTCAACTCTACTCAACATAA+GGG | 0.569068 | 4.1:+4995940 | MS.gene06033:CDS |
| AAATGAATCTGTTGAGAGAG+TGG | 0.569288 | 4.1:-4996061 | None:intergenic |
| TCCTTTGATGAATAAGACTA+GGG | 0.578401 | 4.1:+4995987 | MS.gene06033:CDS |
| ATGGTTCGGTTACCCCATGC+CGG | 0.588762 | 4.1:-4995760 | None:intergenic |
| GGGACATTTCGGTAATTGGT+GGG | 0.592368 | 4.1:+4996007 | MS.gene06033:CDS |
| AGGGACATTTCGGTAATTGG+TGG | 0.596783 | 4.1:+4996006 | MS.gene06033:CDS |
| ATCCTTTGATGAATAAGACT+AGG | 0.600343 | 4.1:+4995986 | MS.gene06033:CDS |
| TGTGCCTACAATTGCTGATG+TGG | 0.600935 | 4.1:-4995737 | None:intergenic |
| TCATAAACCATGCAAGACAT+TGG | 0.605259 | 4.1:+4995666 | MS.gene06033:CDS |
| TTTCATGACATTATTTACAA+CGG | 0.616702 | 4.1:+4995697 | MS.gene06033:CDS |
| GGTGATTTCTTCATGACTAG+GGG | 0.631660 | 4.1:+4996033 | MS.gene06033:CDS |
| ATCAGCAATTGTAGGCACAC+CGG | 0.631729 | 4.1:+4995741 | MS.gene06033:CDS |
| ATTGTAGGCACACCGGCATG+GGG | 0.649487 | 4.1:+4995748 | MS.gene06033:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTCATGACATTATTTACAA+CGG | + | chr4.1:4995697-4995716 | MS.gene06033:CDS | 20.0% |
| !!! | TTGAAGGTGAAGTTTATTTT+AGG | + | chr4.1:4996082-4996101 | MS.gene06033:CDS | 25.0% |
| AAACAACCAAATCACCAAAA+TGG | - | chr4.1:4995801-4995820 | None:intergenic | 30.0% | |
| AAGTTATTGTCCAAAGTGAT+TGG | - | chr4.1:4995832-4995851 | None:intergenic | 30.0% | |
| AGGAATATGTCAATGAGATT+AGG | - | chr4.1:4995609-4995628 | None:intergenic | 30.0% | |
| ATCCTTTGATGAATAAGACT+AGG | + | chr4.1:4995986-4996005 | MS.gene06033:CDS | 30.0% | |
| TCCAACAAGATCAAGAAAAA+GGG | + | chr4.1:4995636-4995655 | MS.gene06033:CDS | 30.0% | |
| TCCTTTGATGAATAAGACTA+GGG | + | chr4.1:4995987-4996006 | MS.gene06033:CDS | 30.0% | |
| TTCAACTCTACTCAACATAA+GGG | + | chr4.1:4995940-4995959 | MS.gene06033:CDS | 30.0% | |
| ! | AGAAAGAAATTTTCACTGCT+TGG | + | chr4.1:4995899-4995918 | MS.gene06033:CDS | 30.0% |
| ! | TTAGCAAACCAAAACCATTT+TGG | + | chr4.1:4995784-4995803 | MS.gene06033:CDS | 30.0% |
| !! | AGATTAACTTGTACGAATGT+TGG | + | chr4.1:4996115-4996134 | MS.gene06033:CDS | 30.0% |
| !! | TTTGGTTTGCTAATATGGTT+CGG | - | chr4.1:4995777-4995796 | None:intergenic | 30.0% |
| !! | TTTTGATGATCCAATCACTT+TGG | + | chr4.1:4995819-4995838 | MS.gene06033:CDS | 30.0% |
| !!! | ATGGTTTTGGTTTGCTAATA+TGG | - | chr4.1:4995782-4995801 | None:intergenic | 30.0% |
| AAATGAATCTGTTGAGAGAG+TGG | - | chr4.1:4996064-4996083 | None:intergenic | 35.0% | |
| CTCCAACAAGATCAAGAAAA+AGG | + | chr4.1:4995635-4995654 | MS.gene06033:CDS | 35.0% | |
| CTCTCAACAGATTCATTTGA+AGG | + | chr4.1:4996066-4996085 | MS.gene06033:CDS | 35.0% | |
| CTTCAACTCTACTCAACATA+AGG | + | chr4.1:4995939-4995958 | MS.gene06033:CDS | 35.0% | |
| GAATAAGACTAGGGACATTT+CGG | + | chr4.1:4995996-4996015 | MS.gene06033:CDS | 35.0% | |
| TAAAACACCAATGTCTTGCA+TGG | - | chr4.1:4995676-4995695 | None:intergenic | 35.0% | |
| TCATAAACCATGCAAGACAT+TGG | + | chr4.1:4995666-4995685 | MS.gene06033:CDS | 35.0% | |
| TGGTGATTTCTTCATGACTA+GGG | + | chr4.1:4996032-4996051 | MS.gene06033:CDS | 35.0% | |
| ! | AAGGGTAGCATAAATTTTGC+TGG | + | chr4.1:4995958-4995977 | MS.gene06033:CDS | 35.0% |
| ! | AATTGCTGATGTGGCATTTT+TGG | - | chr4.1:4995731-4995750 | None:intergenic | 35.0% |
| ! | CCAAATCACCAAAATGGTTT+TGG | - | chr4.1:4995795-4995814 | None:intergenic | 35.0% |
| ! | TTTTCTTGATCTTGTTGGAG+TGG | - | chr4.1:4995635-4995654 | None:intergenic | 35.0% |
| !! | CCAAAACCATTTTGGTGATT+TGG | + | chr4.1:4995792-4995811 | MS.gene06033:CDS | 35.0% |
| !! | TCCCTAGTCTTATTCATCAA+AGG | - | chr4.1:4995991-4996010 | None:intergenic | 35.0% |
| !!! | AGTTTATTTTAGGCTTCGTG+CGG | + | chr4.1:4996092-4996111 | MS.gene06033:CDS | 35.0% |
| AACTTACACTCACGACCAAT+TGG | + | chr4.1:4995847-4995866 | MS.gene06033:CDS | 40.0% | |
| AATGCCACATCAGCAATTGT+AGG | + | chr4.1:4995733-4995752 | MS.gene06033:CDS | 40.0% | |
| ACTAGGGACATTTCGGTAAT+TGG | + | chr4.1:4996003-4996022 | MS.gene06033:CDS | 40.0% | |
| AGATTAGGAGCAAGAAGAAG+AGG | - | chr4.1:4995594-4995613 | None:intergenic | 40.0% | |
| CTGGTGATTTCTTCATGACT+AGG | + | chr4.1:4996031-4996050 | MS.gene06033:CDS | 40.0% | |
| GGTGATTTCTTCATGACTAG+GGG | + | chr4.1:4996033-4996052 | MS.gene06033:CDS | 40.0% | |
| ! | GAAATTTTCACTGCTTGGCT+TGG | + | chr4.1:4995904-4995923 | MS.gene06033:CDS | 40.0% |
| ! | GCCCTTTTTCTTGATCTTGT+TGG | - | chr4.1:4995640-4995659 | None:intergenic | 40.0% |
| AATCCTTGAGCACGACCAAT+TGG | - | chr4.1:4995865-4995884 | None:intergenic | 45.0% | |
| AGGGACATTTCGGTAATTGG+TGG | + | chr4.1:4996006-4996025 | MS.gene06033:CDS | 45.0% | |
| ATCAGCAATTGTAGGCACAC+CGG | + | chr4.1:4995741-4995760 | MS.gene06033:CDS | 45.0% | |
| ATTTCGGTAATTGGTGGGAC+TGG | + | chr4.1:4996012-4996031 | MS.gene06033:CDS | 45.0% | |
| GGGACATTTCGGTAATTGGT+GGG | + | chr4.1:4996007-4996026 | MS.gene06033:CDS | 45.0% | |
| TGTGCCTACAATTGCTGATG+TGG | - | chr4.1:4995740-4995759 | None:intergenic | 45.0% | |
| AATTGTAGGCACACCGGCAT+GGG | + | chr4.1:4995747-4995766 | MS.gene06033:CDS | 50.0% | |
| TGATCTTGTTGGAGTGGCAG+AGG | - | chr4.1:4995629-4995648 | None:intergenic | 50.0% | |
| ATTGTAGGCACACCGGCATG+GGG | + | chr4.1:4995748-4995767 | MS.gene06033:CDS | 55.0% | |
| CAATTGTAGGCACACCGGCA+TGG | + | chr4.1:4995746-4995765 | MS.gene06033:CDS | 55.0% | |
| CGACCAATTGGTCGTGCTCA+AGG | + | chr4.1:4995859-4995878 | MS.gene06033:CDS | 55.0% | |
| !! | ATGGTTCGGTTACCCCATGC+CGG | - | chr4.1:4995763-4995782 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.1 | gene | 4995571 | 4996140 | 4995571 | ID=MS.gene06033 |
| chr4.1 | mRNA | 4995571 | 4996140 | 4995571 | ID=MS.gene06033.t1;Parent=MS.gene06033 |
| chr4.1 | exon | 4995571 | 4996140 | 4995571 | ID=MS.gene06033.t1.exon1;Parent=MS.gene06033.t1 |
| chr4.1 | CDS | 4995571 | 4996140 | 4995571 | ID=cds.MS.gene06033.t1;Parent=MS.gene06033.t1 |
| Gene Sequence |
| Protein sequence |
