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.gene48845.t1 | XP_003605334.1 | 98.1 | 159 | 3 | 0 | 1 | 159 | 1 | 159 | 3.30E-79 | 304.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene48845.t1 | Q9FJK3 | 46.2 | 156 | 83 | 1 | 1 | 155 | 1 | 156 | 3.5e-29 | 129.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene48845.t1 | G7JJI5 | 98.1 | 159 | 3 | 0 | 1 | 159 | 1 | 159 | 2.4e-79 | 304.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene48845.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.gene48845.t1 | MTR_4g028720 | 98.113 | 159 | 3 | 0 | 1 | 159 | 1 | 159 | 3.00e-114 | 320 |
| MS.gene48845.t1 | MTR_7g011950 | 91.824 | 159 | 13 | 0 | 1 | 159 | 1 | 159 | 1.46e-99 | 283 |
| MS.gene48845.t1 | MTR_1g077320 | 86.164 | 159 | 22 | 0 | 1 | 159 | 1 | 159 | 6.38e-92 | 264 |
| MS.gene48845.t1 | MTR_5g047580 | 71.154 | 156 | 45 | 0 | 1 | 156 | 1 | 156 | 1.64e-77 | 227 |
| MS.gene48845.t1 | MTR_1g077390 | 70.701 | 157 | 46 | 0 | 1 | 157 | 1 | 157 | 1.94e-77 | 227 |
| MS.gene48845.t1 | MTR_1g084950 | 76.282 | 156 | 37 | 0 | 1 | 156 | 1 | 156 | 3.46e-76 | 224 |
| MS.gene48845.t1 | MTR_1g077300 | 74.843 | 159 | 38 | 1 | 1 | 159 | 1 | 157 | 2.22e-73 | 217 |
| MS.gene48845.t1 | MTR_5g047560 | 59.615 | 156 | 47 | 1 | 1 | 156 | 1 | 140 | 1.71e-58 | 179 |
| MS.gene48845.t1 | MTR_1g090697 | 55.484 | 155 | 69 | 0 | 1 | 155 | 1 | 155 | 8.51e-58 | 177 |
| MS.gene48845.t1 | MTR_1g090710 | 53.205 | 156 | 72 | 1 | 1 | 155 | 1 | 156 | 9.57e-56 | 172 |
| MS.gene48845.t1 | MTR_1g090783 | 54.248 | 153 | 70 | 0 | 3 | 155 | 2 | 154 | 1.72e-54 | 169 |
| MS.gene48845.t1 | MTR_4g032620 | 40.000 | 155 | 91 | 2 | 1 | 153 | 1 | 155 | 1.75e-40 | 136 |
| MS.gene48845.t1 | MTR_3g466980 | 44.444 | 153 | 84 | 1 | 1 | 152 | 1 | 153 | 5.41e-39 | 132 |
| MS.gene48845.t1 | MTR_3g065100 | 47.771 | 157 | 81 | 1 | 1 | 156 | 1 | 157 | 5.44e-38 | 130 |
| MS.gene48845.t1 | MTR_4g063790 | 38.994 | 159 | 95 | 2 | 1 | 157 | 1 | 159 | 6.47e-35 | 120 |
| MS.gene48845.t1 | MTR_5g075380 | 37.179 | 156 | 97 | 1 | 1 | 155 | 1 | 156 | 4.13e-34 | 117 |
| MS.gene48845.t1 | MTR_3g466830 | 41.401 | 157 | 91 | 1 | 3 | 158 | 2 | 158 | 3.22e-33 | 115 |
| MS.gene48845.t1 | MTR_8g036130 | 38.994 | 159 | 93 | 2 | 1 | 155 | 1 | 159 | 1.24e-32 | 116 |
| MS.gene48845.t1 | MTR_3g466890 | 41.558 | 154 | 89 | 1 | 3 | 155 | 2 | 155 | 9.00e-32 | 111 |
| MS.gene48845.t1 | MTR_3g467080 | 35.802 | 162 | 100 | 3 | 1 | 159 | 1 | 161 | 4.74e-30 | 107 |
| MS.gene48845.t1 | MTR_4g031910 | 41.333 | 150 | 86 | 2 | 1 | 148 | 1 | 150 | 4.85e-30 | 109 |
| MS.gene48845.t1 | MTR_3g031240 | 34.591 | 159 | 102 | 2 | 1 | 157 | 1 | 159 | 2.45e-29 | 106 |
| MS.gene48845.t1 | MTR_4g032260 | 41.250 | 160 | 92 | 2 | 1 | 158 | 1 | 160 | 3.77e-29 | 105 |
| MS.gene48845.t1 | MTR_2g016210 | 38.365 | 159 | 96 | 2 | 1 | 157 | 1 | 159 | 7.66e-28 | 103 |
| MS.gene48845.t1 | MTR_4g032290 | 39.130 | 161 | 96 | 2 | 1 | 159 | 1 | 161 | 1.85e-26 | 100 |
| MS.gene48845.t1 | MTR_3g031100 | 34.395 | 157 | 101 | 2 | 1 | 155 | 1 | 157 | 1.07e-25 | 98.6 |
| MS.gene48845.t1 | MTR_2g035580 | 35.484 | 155 | 99 | 1 | 1 | 154 | 1 | 155 | 8.97e-25 | 94.0 |
| MS.gene48845.t1 | MTR_2g035610 | 40.678 | 118 | 69 | 1 | 1 | 117 | 1 | 118 | 3.03e-24 | 91.3 |
| MS.gene48845.t1 | MTR_3g465410 | 35.878 | 131 | 82 | 2 | 29 | 157 | 1 | 131 | 1.52e-22 | 87.8 |
| MS.gene48845.t1 | MTR_3g466900 | 38.400 | 125 | 76 | 1 | 32 | 155 | 2 | 126 | 1.03e-19 | 80.1 |
| MS.gene48845.t1 | MTR_3g466930 | 36.800 | 125 | 78 | 1 | 32 | 155 | 2 | 126 | 1.71e-19 | 79.3 |
| MS.gene48845.t1 | MTR_4g028800 | 45.833 | 72 | 37 | 1 | 1 | 72 | 1 | 70 | 8.69e-19 | 75.9 |
| MS.gene48845.t1 | MTR_4g019670 | 37.391 | 115 | 71 | 1 | 3 | 116 | 6 | 120 | 1.64e-18 | 81.6 |
| MS.gene48845.t1 | MTR_7g106510 | 37.963 | 108 | 66 | 1 | 3 | 109 | 6 | 113 | 6.52e-18 | 80.1 |
| MS.gene48845.t1 | MTR_1g033370 | 44.681 | 94 | 51 | 1 | 64 | 156 | 28 | 121 | 2.16e-14 | 65.9 |
| MS.gene48845.t1 | MTR_1g033790 | 42.857 | 98 | 55 | 1 | 62 | 158 | 20 | 117 | 2.97e-14 | 65.5 |
| MS.gene48845.t1 | MTR_1g033930 | 40.816 | 98 | 57 | 1 | 62 | 158 | 20 | 117 | 3.27e-14 | 65.5 |
| MS.gene48845.t1 | MTR_7g055800 | 32.479 | 117 | 52 | 2 | 1 | 117 | 1 | 90 | 6.90e-14 | 63.9 |
| MS.gene48845.t1 | MTR_3g093900 | 30.345 | 145 | 95 | 3 | 3 | 143 | 6 | 148 | 1.19e-12 | 64.7 |
| MS.gene48845.t1 | MTR_7g055790 | 37.615 | 109 | 51 | 2 | 1 | 109 | 59 | 150 | 3.77e-12 | 60.8 |
| MS.gene48845.t1 | MTR_7g055940 | 34.615 | 104 | 41 | 3 | 1 | 104 | 1 | 77 | 3.50e-11 | 56.6 |
| MS.gene48845.t1 | MTR_6g005450 | 30.189 | 106 | 68 | 3 | 1 | 100 | 1 | 106 | 3.59e-11 | 60.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene48845.t1 | AT5G48670 | 46.405 | 153 | 81 | 1 | 1 | 152 | 1 | 153 | 1.45e-33 | 120 |
| MS.gene48845.t1 | AT3G05860 | 38.926 | 149 | 90 | 1 | 1 | 148 | 1 | 149 | 9.96e-31 | 110 |
| MS.gene48845.t1 | AT3G05860 | 38.926 | 149 | 90 | 1 | 1 | 148 | 1 | 149 | 5.33e-30 | 109 |
| MS.gene48845.t1 | AT5G26630 | 38.750 | 160 | 97 | 1 | 1 | 159 | 1 | 160 | 7.61e-30 | 108 |
| MS.gene48845.t1 | AT3G05860 | 38.926 | 149 | 90 | 1 | 1 | 148 | 1 | 149 | 8.03e-30 | 109 |
| MS.gene48845.t1 | AT1G65300 | 36.620 | 142 | 89 | 1 | 3 | 143 | 2 | 143 | 1.27e-27 | 104 |
| MS.gene48845.t1 | AT1G65330 | 36.735 | 147 | 92 | 1 | 3 | 148 | 2 | 148 | 4.79e-27 | 102 |
| MS.gene48845.t1 | AT5G26650 | 33.987 | 153 | 100 | 1 | 4 | 155 | 2 | 154 | 1.93e-24 | 97.4 |
| MS.gene48845.t1 | AT5G27960 | 33.333 | 153 | 101 | 1 | 4 | 155 | 2 | 154 | 3.46e-23 | 93.2 |
| MS.gene48845.t1 | AT1G31630 | 29.677 | 155 | 107 | 2 | 3 | 156 | 2 | 155 | 8.36e-22 | 89.7 |
| MS.gene48845.t1 | AT1G22590 | 41.304 | 92 | 47 | 1 | 1 | 85 | 1 | 92 | 1.97e-21 | 85.5 |
| MS.gene48845.t1 | AT2G28700 | 33.557 | 149 | 98 | 1 | 1 | 148 | 1 | 149 | 2.92e-20 | 85.5 |
| MS.gene48845.t1 | AT5G27810 | 42.708 | 96 | 54 | 1 | 29 | 123 | 1 | 96 | 9.29e-20 | 79.7 |
| MS.gene48845.t1 | AT1G31640 | 31.333 | 150 | 101 | 2 | 3 | 151 | 2 | 150 | 1.74e-18 | 81.6 |
| MS.gene48845.t1 | AT5G26580 | 39.604 | 101 | 48 | 1 | 1 | 101 | 1 | 88 | 4.69e-18 | 79.7 |
| MS.gene48845.t1 | AT2G40210 | 36.667 | 120 | 71 | 2 | 1 | 117 | 1 | 118 | 1.35e-14 | 70.1 |
| MS.gene48845.t1 | AT5G06500 | 30.380 | 158 | 108 | 2 | 1 | 157 | 1 | 157 | 1.96e-14 | 68.6 |
| MS.gene48845.t1 | AT5G58890 | 35.417 | 96 | 55 | 2 | 1 | 89 | 1 | 96 | 3.09e-12 | 63.2 |
Find 25 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTGCAAAAGGAAACTTTCT+TGG | 0.256030 | 4.4:-74416051 | None:intergenic |
| AGCTGAACATTCTTATGATT+TGG | 0.274450 | 4.4:+74416131 | MS.gene48845:CDS |
| CGCCTTTCTTGTTGAATCAT+TGG | 0.287726 | 4.4:-74415834 | None:intergenic |
| ACCTTTCTTCCTCCGCTTGT+AGG | 0.316491 | 4.4:-74415858 | None:intergenic |
| TGTTTGGCTTCCTTTAGATT+TGG | 0.353502 | 4.4:-74415974 | None:intergenic |
| ATACCTCTCAATCATCTGTT+TGG | 0.362514 | 4.4:-74415990 | None:intergenic |
| TCAGAAACAGTCACATCATT+TGG | 0.401162 | 4.4:-74416175 | None:intergenic |
| CAGAGCTCATATATGAAAGA+TGG | 0.456034 | 4.4:+74416013 | MS.gene48845:CDS |
| CTCCAATGATTCAACAAGAA+AGG | 0.460238 | 4.4:+74415832 | MS.gene48845:CDS |
| TGTTTCTGATTTGAAAGACT+TGG | 0.473410 | 4.4:+74416189 | MS.gene48845:CDS |
| TGCAAAAGATTACTAAAGCT+AGG | 0.481563 | 4.4:+74416068 | MS.gene48845:CDS |
| GCAAAAGATTACTAAAGCTA+GGG | 0.487712 | 4.4:+74416069 | MS.gene48845:CDS |
| ACCTACAAGCGGAGGAAGAA+AGG | 0.494539 | 4.4:+74415857 | MS.gene48845:CDS |
| CAAAGTCATGGCTAGGAAGA+AGG | 0.502352 | 4.4:+74415793 | None:intergenic |
| AGAGGTGTGGCCAAATCTAA+AGG | 0.522555 | 4.4:+74415964 | MS.gene48845:CDS |
| AGAGAACTCACTATTCTTTG+TGG | 0.526508 | 4.4:+74415896 | MS.gene48845:CDS |
| GAAGGAAATTGATGACAAGA+TGG | 0.549956 | 4.4:+74416234 | MS.gene48845:CDS |
| TCGGAAATTATAGCACATGC+TGG | 0.559487 | 4.4:-74415923 | None:intergenic |
| AGAGCTCATATATGAAAGAT+GGG | 0.560272 | 4.4:+74416014 | MS.gene48845:CDS |
| TACATTGCAAAGTCATGGCT+AGG | 0.590557 | 4.4:+74415786 | None:intergenic |
| GAAGAAAGGTATCATCAAGA+AGG | 0.595296 | 4.4:+74415871 | MS.gene48845:CDS |
| GAAAGGCGACCTACAAGCGG+AGG | 0.629626 | 4.4:+74415849 | MS.gene48845:CDS |
| AAGCCAAACAGATGATTGAG+AGG | 0.630265 | 4.4:+74415987 | MS.gene48845:CDS |
| TTGATTCTAAAACAGAGGTG+TGG | 0.633348 | 4.4:+74415951 | MS.gene48845:CDS |
| CAAGAAAGGCGACCTACAAG+CGG | 0.654193 | 4.4:+74415846 | MS.gene48845:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GTTGATTGAAAAAAATATGA+AGG | + | chr4.4:74416216-74416235 | MS.gene48845:CDS | 20.0% |
| !! | CTTTAGTAATCTTTTGCAAA+AGG | - | chr4.4:74416066-74416085 | None:intergenic | 25.0% |
| !!! | TGTTTTAGAATCAAAAGGAT+CGG | - | chr4.4:74415945-74415964 | None:intergenic | 25.0% |
| AGAGCTCATATATGAAAGAT+GGG | + | chr4.4:74416014-74416033 | MS.gene48845:CDS | 30.0% | |
| AGCTGAACATTCTTATGATT+TGG | + | chr4.4:74416131-74416150 | MS.gene48845:CDS | 30.0% | |
| GCAAAAGATTACTAAAGCTA+GGG | + | chr4.4:74416069-74416088 | MS.gene48845:CDS | 30.0% | |
| TGCAAAAGATTACTAAAGCT+AGG | + | chr4.4:74416068-74416087 | MS.gene48845:CDS | 30.0% | |
| TTTGCAAAAGGAAACTTTCT+TGG | - | chr4.4:74416054-74416073 | None:intergenic | 30.0% | |
| ! | TGTTTCTGATTTGAAAGACT+TGG | + | chr4.4:74416189-74416208 | MS.gene48845:CDS | 30.0% |
| !!! | ACCTCTGTTTTAGAATCAAA+AGG | - | chr4.4:74415950-74415969 | None:intergenic | 30.0% |
| !!! | TCCTTTTGATTCTAAAACAG+AGG | + | chr4.4:74415946-74415965 | MS.gene48845:CDS | 30.0% |
| AGAGAACTCACTATTCTTTG+TGG | + | chr4.4:74415896-74415915 | MS.gene48845:CDS | 35.0% | |
| ATACCTCTCAATCATCTGTT+TGG | - | chr4.4:74415993-74416012 | None:intergenic | 35.0% | |
| CAGAGCTCATATATGAAAGA+TGG | + | chr4.4:74416013-74416032 | MS.gene48845:CDS | 35.0% | |
| CTCCAATGATTCAACAAGAA+AGG | + | chr4.4:74415832-74415851 | MS.gene48845:CDS | 35.0% | |
| TCAGAAACAGTCACATCATT+TGG | - | chr4.4:74416178-74416197 | None:intergenic | 35.0% | |
| ! | GAAGGAAATTGATGACAAGA+TGG | + | chr4.4:74416234-74416253 | MS.gene48845:CDS | 35.0% |
| ! | TGTTTGGCTTCCTTTAGATT+TGG | - | chr4.4:74415977-74415996 | None:intergenic | 35.0% |
| !! | GAAGAAAGGTATCATCAAGA+AGG | + | chr4.4:74415871-74415890 | MS.gene48845:CDS | 35.0% |
| !! | TTGATTCTAAAACAGAGGTG+TGG | + | chr4.4:74415951-74415970 | MS.gene48845:CDS | 35.0% |
| AAGCCAAACAGATGATTGAG+AGG | + | chr4.4:74415987-74416006 | MS.gene48845:CDS | 40.0% | |
| CGCCTTTCTTGTTGAATCAT+TGG | - | chr4.4:74415837-74415856 | None:intergenic | 40.0% | |
| TCGGAAATTATAGCACATGC+TGG | - | chr4.4:74415926-74415945 | None:intergenic | 40.0% | |
| !!! | TTGGCAGCTTGTTGTTTTGT+AGG | - | chr4.4:74416159-74416178 | None:intergenic | 40.0% |
| ! | AGAGGTGTGGCCAAATCTAA+AGG | + | chr4.4:74415964-74415983 | MS.gene48845:CDS | 45.0% |
| ACCTACAAGCGGAGGAAGAA+AGG | + | chr4.4:74415857-74415876 | MS.gene48845:CDS | 50.0% | |
| ACCTTTCTTCCTCCGCTTGT+AGG | - | chr4.4:74415861-74415880 | None:intergenic | 50.0% | |
| CAAGAAAGGCGACCTACAAG+CGG | + | chr4.4:74415846-74415865 | MS.gene48845:CDS | 50.0% | |
| GAAAGGCGACCTACAAGCGG+AGG | + | chr4.4:74415849-74415868 | MS.gene48845:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 74415800 | 74416279 | 74415800 | ID=MS.gene48845 |
| chr4.4 | mRNA | 74415800 | 74416279 | 74415800 | ID=MS.gene48845.t1;Parent=MS.gene48845 |
| chr4.4 | exon | 74415800 | 74416279 | 74415800 | ID=MS.gene48845.t1.exon1;Parent=MS.gene48845.t1 |
| chr4.4 | CDS | 74415800 | 74416279 | 74415800 | ID=cds.MS.gene48845.t1;Parent=MS.gene48845.t1 |
| Gene Sequence |
| Protein sequence |
