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.gene004939.t1 | XP_013468828.1 | 89.2 | 157 | 17 | 0 | 1 | 157 | 1 | 157 | 5.80E-68 | 266.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene004939.t1 | Q9FJK3 | 44.7 | 161 | 82 | 3 | 1 | 156 | 1 | 159 | 1.8e-25 | 117.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene004939.t1 | A0A072VXU8 | 89.2 | 157 | 17 | 0 | 1 | 157 | 1 | 157 | 4.2e-68 | 266.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene004939.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.gene004939.t1 | MTR_1g077300 | 89.172 | 157 | 17 | 0 | 1 | 157 | 1 | 157 | 3.55e-91 | 262 |
| MS.gene004939.t1 | MTR_1g077320 | 77.987 | 159 | 33 | 1 | 1 | 157 | 1 | 159 | 9.12e-82 | 238 |
| MS.gene004939.t1 | MTR_4g028720 | 77.358 | 159 | 34 | 1 | 1 | 157 | 1 | 159 | 3.35e-79 | 232 |
| MS.gene004939.t1 | MTR_7g011950 | 76.730 | 159 | 35 | 1 | 1 | 157 | 1 | 159 | 1.47e-78 | 230 |
| MS.gene004939.t1 | MTR_1g077390 | 70.064 | 157 | 45 | 1 | 1 | 155 | 1 | 157 | 2.03e-74 | 219 |
| MS.gene004939.t1 | MTR_1g084950 | 77.564 | 156 | 33 | 1 | 1 | 154 | 1 | 156 | 2.45e-74 | 219 |
| MS.gene004939.t1 | MTR_5g047580 | 71.154 | 156 | 43 | 1 | 1 | 154 | 1 | 156 | 7.40e-74 | 218 |
| MS.gene004939.t1 | MTR_5g047560 | 61.290 | 155 | 42 | 2 | 1 | 153 | 1 | 139 | 2.54e-56 | 173 |
| MS.gene004939.t1 | MTR_1g090783 | 57.143 | 154 | 64 | 1 | 2 | 153 | 1 | 154 | 3.48e-55 | 171 |
| MS.gene004939.t1 | MTR_1g090697 | 55.128 | 156 | 68 | 1 | 1 | 154 | 1 | 156 | 7.01e-55 | 170 |
| MS.gene004939.t1 | MTR_1g090710 | 52.229 | 157 | 72 | 1 | 1 | 154 | 1 | 157 | 1.91e-52 | 164 |
| MS.gene004939.t1 | MTR_5g075380 | 37.821 | 156 | 94 | 2 | 1 | 153 | 1 | 156 | 6.49e-35 | 119 |
| MS.gene004939.t1 | MTR_3g466980 | 41.830 | 153 | 86 | 2 | 1 | 150 | 1 | 153 | 1.06e-34 | 120 |
| MS.gene004939.t1 | MTR_4g063790 | 41.558 | 154 | 86 | 2 | 1 | 150 | 1 | 154 | 4.49e-34 | 117 |
| MS.gene004939.t1 | MTR_4g032620 | 37.013 | 154 | 93 | 2 | 1 | 150 | 1 | 154 | 7.30e-34 | 119 |
| MS.gene004939.t1 | MTR_3g065100 | 43.949 | 157 | 85 | 2 | 1 | 154 | 1 | 157 | 5.07e-32 | 114 |
| MS.gene004939.t1 | MTR_3g466830 | 41.772 | 158 | 89 | 2 | 2 | 156 | 1 | 158 | 1.94e-31 | 110 |
| MS.gene004939.t1 | MTR_3g031240 | 37.736 | 159 | 95 | 2 | 1 | 155 | 1 | 159 | 3.55e-31 | 110 |
| MS.gene004939.t1 | MTR_3g031100 | 38.217 | 157 | 93 | 3 | 1 | 153 | 1 | 157 | 4.30e-30 | 109 |
| MS.gene004939.t1 | MTR_8g036130 | 38.125 | 160 | 93 | 2 | 1 | 154 | 1 | 160 | 3.46e-29 | 107 |
| MS.gene004939.t1 | MTR_3g467080 | 36.478 | 159 | 97 | 2 | 1 | 155 | 1 | 159 | 3.74e-29 | 105 |
| MS.gene004939.t1 | MTR_4g031910 | 39.241 | 158 | 92 | 2 | 1 | 154 | 1 | 158 | 2.12e-28 | 105 |
| MS.gene004939.t1 | MTR_2g016210 | 37.013 | 154 | 93 | 2 | 1 | 150 | 1 | 154 | 1.14e-26 | 100 |
| MS.gene004939.t1 | MTR_3g466890 | 37.821 | 156 | 94 | 2 | 2 | 154 | 1 | 156 | 2.06e-26 | 98.2 |
| MS.gene004939.t1 | MTR_4g032290 | 38.509 | 161 | 95 | 2 | 1 | 157 | 1 | 161 | 3.26e-26 | 99.4 |
| MS.gene004939.t1 | MTR_4g032260 | 38.509 | 161 | 93 | 3 | 1 | 156 | 1 | 160 | 7.66e-26 | 96.7 |
| MS.gene004939.t1 | MTR_2g035610 | 43.478 | 115 | 64 | 1 | 1 | 114 | 1 | 115 | 4.42e-25 | 93.6 |
| MS.gene004939.t1 | MTR_3g465410 | 37.302 | 126 | 75 | 2 | 29 | 150 | 1 | 126 | 1.30e-21 | 85.1 |
| MS.gene004939.t1 | MTR_4g028800 | 50.000 | 74 | 35 | 1 | 1 | 74 | 1 | 72 | 6.03e-21 | 81.3 |
| MS.gene004939.t1 | MTR_4g019670 | 37.037 | 108 | 67 | 1 | 3 | 109 | 6 | 113 | 5.37e-20 | 85.9 |
| MS.gene004939.t1 | MTR_2g035580 | 36.364 | 154 | 93 | 3 | 1 | 150 | 1 | 153 | 2.80e-19 | 79.7 |
| MS.gene004939.t1 | MTR_7g106510 | 36.111 | 108 | 68 | 1 | 3 | 109 | 6 | 113 | 2.97e-19 | 83.6 |
| MS.gene004939.t1 | MTR_3g466900 | 36.508 | 126 | 77 | 2 | 32 | 154 | 2 | 127 | 2.14e-18 | 76.6 |
| MS.gene004939.t1 | MTR_3g466930 | 35.714 | 126 | 78 | 2 | 32 | 154 | 2 | 127 | 3.74e-18 | 75.9 |
| MS.gene004939.t1 | MTR_3g093900 | 31.579 | 133 | 83 | 3 | 3 | 132 | 6 | 133 | 1.54e-15 | 73.2 |
| MS.gene004939.t1 | MTR_7g055800 | 35.593 | 118 | 47 | 3 | 1 | 117 | 1 | 90 | 1.71e-15 | 67.8 |
| MS.gene004939.t1 | MTR_7g055790 | 39.640 | 111 | 48 | 2 | 1 | 110 | 59 | 151 | 2.07e-14 | 66.6 |
| MS.gene004939.t1 | MTR_1g033370 | 38.298 | 94 | 55 | 1 | 64 | 154 | 28 | 121 | 2.45e-13 | 63.2 |
| MS.gene004939.t1 | MTR_1g033930 | 39.394 | 99 | 55 | 2 | 62 | 156 | 20 | 117 | 8.30e-13 | 61.6 |
| MS.gene004939.t1 | MTR_1g033790 | 39.796 | 98 | 56 | 1 | 62 | 156 | 20 | 117 | 9.94e-13 | 61.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene004939.t1 | AT3G05860 | 41.667 | 132 | 76 | 1 | 1 | 131 | 1 | 132 | 6.32e-31 | 110 |
| MS.gene004939.t1 | AT3G05860 | 41.667 | 132 | 76 | 1 | 1 | 131 | 1 | 132 | 2.21e-30 | 110 |
| MS.gene004939.t1 | AT5G48670 | 45.161 | 155 | 78 | 3 | 1 | 150 | 1 | 153 | 2.42e-30 | 112 |
| MS.gene004939.t1 | AT5G26630 | 41.250 | 160 | 91 | 2 | 1 | 157 | 1 | 160 | 2.65e-30 | 109 |
| MS.gene004939.t1 | AT3G05860 | 41.667 | 132 | 76 | 1 | 1 | 131 | 1 | 132 | 3.63e-30 | 110 |
| MS.gene004939.t1 | AT1G65330 | 39.189 | 148 | 87 | 2 | 2 | 146 | 1 | 148 | 1.19e-28 | 107 |
| MS.gene004939.t1 | AT1G65300 | 36.184 | 152 | 94 | 2 | 2 | 150 | 1 | 152 | 3.15e-28 | 105 |
| MS.gene004939.t1 | AT5G26650 | 40.260 | 154 | 81 | 4 | 4 | 150 | 2 | 151 | 1.20e-26 | 103 |
| MS.gene004939.t1 | AT5G27960 | 45.045 | 111 | 60 | 1 | 4 | 113 | 2 | 112 | 2.24e-25 | 99.0 |
| MS.gene004939.t1 | AT1G22590 | 35.976 | 164 | 83 | 4 | 1 | 153 | 1 | 153 | 8.62e-24 | 91.3 |
| MS.gene004939.t1 | AT1G31630 | 31.847 | 157 | 99 | 4 | 2 | 153 | 1 | 154 | 1.26e-23 | 94.7 |
| MS.gene004939.t1 | AT1G31640 | 42.478 | 113 | 63 | 2 | 2 | 113 | 1 | 112 | 1.09e-21 | 90.5 |
| MS.gene004939.t1 | AT2G28700 | 35.036 | 137 | 88 | 1 | 1 | 136 | 1 | 137 | 2.38e-21 | 88.6 |
| MS.gene004939.t1 | AT5G27810 | 43.529 | 85 | 47 | 1 | 29 | 112 | 1 | 85 | 7.14e-19 | 77.4 |
| MS.gene004939.t1 | AT5G26580 | 40.000 | 115 | 54 | 2 | 1 | 115 | 1 | 100 | 3.54e-18 | 80.1 |
| MS.gene004939.t1 | AT2G40210 | 37.864 | 103 | 59 | 2 | 1 | 100 | 1 | 101 | 1.30e-11 | 61.6 |
Find 21 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCTGCAAGAGAAAAGTTTCT+TGG | 0.265401 | 1.4:+63358666 | None:intergenic |
| GAGCTAAAGATTCGTATAAT+TGG | 0.305787 | 1.4:-63358587 | MS.gene004939:CDS |
| CTCCTTTCTTCTTGAAGCAT+TGG | 0.353516 | 1.4:+63358883 | None:intergenic |
| TCTGAAACAGTCAAATCATC+TGG | 0.455315 | 1.4:+63358548 | None:intergenic |
| CTCCAATGCTTCAAGAAGAA+AGG | 0.468651 | 1.4:-63358885 | MS.gene004939:CDS |
| TACATTGCAAGGCCATGGTT+AGG | 0.498230 | 1.4:-63358931 | None:intergenic |
| CAAGGCCATGGTTAGGAAGA+AGG | 0.504438 | 1.4:-63358924 | None:intergenic |
| GACATACAGAAAGAGAAAGA+AGG | 0.512113 | 1.4:-63358861 | MS.gene004939:CDS |
| AGAGAACTCACTATTCTTTG+TGG | 0.526508 | 1.4:-63358821 | MS.gene004939:CDS |
| ACATACAGAAAGAGAAAGAA+GGG | 0.541098 | 1.4:-63358860 | MS.gene004939:CDS |
| TGCAGCAGATTACTAAAGCT+AGG | 0.546331 | 1.4:-63358649 | MS.gene004939:CDS |
| AAACAGTCAAATCATCTGGC+AGG | 0.548613 | 1.4:+63358552 | None:intergenic |
| AGGATCGGAAATTATAGCAC+AGG | 0.559456 | 1.4:+63358790 | None:intergenic |
| AGAGGTGTGGCCAAATCTGA+AGG | 0.570010 | 1.4:-63358753 | MS.gene004939:CDS |
| TCGGAAATTATAGCACAGGC+TGG | 0.570119 | 1.4:+63358794 | None:intergenic |
| AAAGAAGGGTATCATCAAGA+AGG | 0.577075 | 1.4:-63358846 | MS.gene004939:CDS |
| GCAGCAGATTACTAAAGCTA+GGG | 0.592338 | 1.4:-63358648 | MS.gene004939:CDS |
| AAGCAAAACAAGTGATTGAG+AGG | 0.592587 | 1.4:-63358730 | MS.gene004939:CDS |
| CTTCACCTTCTTCCTAACCA+TGG | 0.619990 | 1.4:+63358919 | None:intergenic |
| GAAACAAGACAATCGTGAGA+AGG | 0.628912 | 1.4:-63358609 | MS.gene004939:CDS |
| TTGATTCTAAAACAGAGGTG+TGG | 0.633348 | 1.4:-63358766 | MS.gene004939:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GATAATTGAGAAAAATATGA+AGG | - | chr1.4:63358876-63358895 | MS.gene004939:CDS | 20.0% |
| !!! | TGTTTTAGAATCAAAAGGAT+CGG | + | chr1.4:63358611-63358630 | None:intergenic | 25.0% |
| ACATACAGAAAGAGAAAGAA+GGG | - | chr1.4:63358523-63358542 | MS.gene004939:CDS | 30.0% | |
| GAGCTAAAGATTCGTATAAT+TGG | - | chr1.4:63358796-63358815 | MS.gene004939:CDS | 30.0% | |
| !!! | ACCTCTGTTTTAGAATCAAA+AGG | + | chr1.4:63358616-63358635 | None:intergenic | 30.0% |
| !!! | TCCTTTTGATTCTAAAACAG+AGG | - | chr1.4:63358612-63358631 | MS.gene004939:CDS | 30.0% |
| AAGCAAAACAAGTGATTGAG+AGG | - | chr1.4:63358653-63358672 | MS.gene004939:CDS | 35.0% | |
| AGAGAACTCACTATTCTTTG+TGG | - | chr1.4:63358562-63358581 | MS.gene004939:CDS | 35.0% | |
| GACATACAGAAAGAGAAAGA+AGG | - | chr1.4:63358522-63358541 | MS.gene004939:CDS | 35.0% | |
| ! | TCTGAAACAGTCAAATCATC+TGG | + | chr1.4:63358838-63358857 | None:intergenic | 35.0% |
| ! | TGTTTTGCTTCCTTCAGATT+TGG | + | chr1.4:63358643-63358662 | None:intergenic | 35.0% |
| !! | AAAGAAGGGTATCATCAAGA+AGG | - | chr1.4:63358537-63358556 | MS.gene004939:CDS | 35.0% |
| !! | TTGATTCTAAAACAGAGGTG+TGG | - | chr1.4:63358617-63358636 | MS.gene004939:CDS | 35.0% |
| AAACAGTCAAATCATCTGGC+AGG | + | chr1.4:63358834-63358853 | None:intergenic | 40.0% | |
| AGGATCGGAAATTATAGCAC+AGG | + | chr1.4:63358596-63358615 | None:intergenic | 40.0% | |
| CTCCAATGCTTCAAGAAGAA+AGG | - | chr1.4:63358498-63358517 | MS.gene004939:CDS | 40.0% | |
| CTCCTTTCTTCTTGAAGCAT+TGG | + | chr1.4:63358503-63358522 | None:intergenic | 40.0% | |
| GAAACAAGACAATCGTGAGA+AGG | - | chr1.4:63358774-63358793 | MS.gene004939:CDS | 40.0% | |
| GCAGCAGATTACTAAAGCTA+GGG | - | chr1.4:63358735-63358754 | MS.gene004939:CDS | 40.0% | |
| GCTGCAAGAGAAAAGTTTCT+TGG | + | chr1.4:63358720-63358739 | None:intergenic | 40.0% | |
| TGCAGCAGATTACTAAAGCT+AGG | - | chr1.4:63358734-63358753 | MS.gene004939:CDS | 40.0% | |
| TCGGAAATTATAGCACAGGC+TGG | + | chr1.4:63358592-63358611 | None:intergenic | 45.0% | |
| ! | AGAGGTGTGGCCAAATCTGA+AGG | - | chr1.4:63358630-63358649 | MS.gene004939:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 63358466 | 63358939 | 63358466 | ID=MS.gene004939 |
| chr1.4 | mRNA | 63358466 | 63358939 | 63358466 | ID=MS.gene004939.t1;Parent=MS.gene004939 |
| chr1.4 | exon | 63358466 | 63358939 | 63358466 | ID=MS.gene004939.t1.exon1;Parent=MS.gene004939.t1 |
| chr1.4 | CDS | 63358466 | 63358939 | 63358466 | ID=cds.MS.gene004939.t1;Parent=MS.gene004939.t1 |
| Gene Sequence |
| Protein sequence |
