Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1458990 | XP_003623323.1 | 89.308 | 159 | 11 | 1 | 1 | 159 | 1 | 153 | 6.57e-85 | 256 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1458990 | sp|Q9M041|BH140_ARATH | 65.854 | 82 | 27 | 1 | 22 | 103 | 28 | 108 | 3.84e-30 | 118 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1458990 | G7KSC0 | 89.308 | 159 | 11 | 1 | 1 | 159 | 1 | 153 | 3.14e-85 | 256 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1458990 | TF | bHLH |
| Gene ID | Type | Classification |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1458990 | MtrunA17_Chr7g0243041 | 89.308 | 159 | 11 | 1 | 1 | 159 | 1 | 153 | 6.04e-89 | 256 |
| Msa1458990 | MtrunA17_Chr3g0134001 | 61.765 | 68 | 26 | 0 | 24 | 91 | 163 | 230 | 1.14e-24 | 95.9 |
| Msa1458990 | MtrunA17_Chr8g0384141 | 62.121 | 66 | 25 | 0 | 28 | 93 | 110 | 175 | 2.88e-23 | 92.4 |
| Msa1458990 | MtrunA17_Chr8g0375121 | 55.294 | 85 | 36 | 1 | 24 | 108 | 124 | 206 | 2.64e-18 | 79.0 |
| Msa1458990 | MtrunA17_Chr5g0435021 | 66.038 | 53 | 18 | 0 | 39 | 91 | 225 | 277 | 3.72e-18 | 79.3 |
| Msa1458990 | MtrunA17_Chr5g0402161 | 62.857 | 70 | 26 | 0 | 28 | 97 | 133 | 202 | 4.91e-18 | 78.2 |
| Msa1458990 | MtrunA17_Chr1g0152651 | 48.101 | 79 | 35 | 2 | 15 | 93 | 263 | 335 | 7.42e-18 | 79.0 |
| Msa1458990 | MtrunA17_Chr5g0393721 | 47.500 | 80 | 34 | 1 | 34 | 105 | 226 | 305 | 2.11e-17 | 77.4 |
| Msa1458990 | MtrunA17_Chr1g0207301 | 42.105 | 95 | 44 | 2 | 26 | 112 | 285 | 376 | 4.18e-17 | 77.0 |
| Msa1458990 | MtrunA17_Chr1g0207311 | 42.424 | 99 | 48 | 2 | 15 | 105 | 180 | 277 | 5.70e-17 | 75.9 |
| Msa1458990 | MtrunA17_Chr8g0341421 | 56.757 | 74 | 32 | 0 | 29 | 102 | 325 | 398 | 3.89e-16 | 74.3 |
| Msa1458990 | MtrunA17_Chr2g0330641 | 50.000 | 78 | 39 | 0 | 28 | 105 | 286 | 363 | 8.97e-16 | 73.2 |
| Msa1458990 | MtrunA17_Chr3g0134741 | 50.769 | 65 | 28 | 1 | 29 | 93 | 230 | 290 | 1.13e-15 | 72.4 |
| Msa1458990 | MtrunA17_Chr4g0074161 | 40.000 | 85 | 45 | 2 | 7 | 91 | 187 | 265 | 2.36e-13 | 66.6 |
| Msa1458990 | MtrunA17_Chr3g0095391 | 34.677 | 124 | 63 | 5 | 25 | 139 | 302 | 416 | 3.25e-12 | 63.2 |
| Msa1458990 | MtrunA17_Chr1g0179061 | 41.935 | 62 | 36 | 0 | 39 | 100 | 177 | 238 | 3.71e-12 | 62.4 |
| Msa1458990 | MtrunA17_Chr1g0190731 | 49.057 | 53 | 27 | 0 | 39 | 91 | 200 | 252 | 1.70e-11 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1458990 | AT5G01305.1 | 65.854 | 82 | 27 | 1 | 22 | 103 | 28 | 108 | 1.84e-34 | 119 |
| Msa1458990 | AT3G21330.1 | 47.727 | 88 | 46 | 0 | 28 | 115 | 265 | 352 | 5.55e-22 | 90.9 |
| Msa1458990 | AT5G43175.1 | 42.553 | 94 | 46 | 1 | 26 | 111 | 126 | 219 | 2.96e-20 | 84.0 |
| Msa1458990 | AT4G00120.1 | 53.030 | 66 | 31 | 0 | 28 | 93 | 108 | 173 | 6.52e-20 | 82.4 |
| Msa1458990 | AT1G27740.1 | 43.878 | 98 | 48 | 3 | 2 | 93 | 132 | 228 | 6.60e-18 | 78.2 |
| Msa1458990 | AT4G33880.1 | 56.667 | 60 | 26 | 0 | 34 | 93 | 268 | 327 | 7.91e-18 | 79.3 |
| Msa1458990 | AT5G67060.1 | 63.235 | 68 | 25 | 0 | 24 | 91 | 114 | 181 | 8.82e-18 | 77.8 |
| Msa1458990 | AT5G67060.2 | 63.235 | 68 | 25 | 0 | 24 | 91 | 102 | 169 | 8.97e-18 | 77.4 |
| Msa1458990 | AT3G50330.1 | 63.235 | 68 | 25 | 0 | 24 | 91 | 111 | 178 | 1.58e-17 | 76.6 |
| Msa1458990 | AT5G09750.1 | 66.667 | 66 | 22 | 0 | 28 | 93 | 115 | 180 | 3.12e-17 | 75.9 |
| Msa1458990 | AT2G14760.1 | 55.000 | 60 | 27 | 0 | 34 | 93 | 239 | 298 | 1.72e-16 | 75.5 |
| Msa1458990 | AT1G66470.1 | 54.839 | 62 | 28 | 0 | 30 | 91 | 193 | 254 | 1.79e-16 | 75.1 |
| Msa1458990 | AT5G37800.1 | 60.784 | 51 | 20 | 0 | 41 | 91 | 210 | 260 | 2.64e-16 | 74.7 |
| Msa1458990 | AT4G30980.1 | 42.857 | 77 | 40 | 1 | 15 | 91 | 117 | 189 | 4.00e-14 | 68.6 |
| Msa1458990 | AT4G30980.2 | 42.857 | 77 | 40 | 1 | 15 | 91 | 165 | 237 | 5.16e-14 | 68.6 |
| Msa1458990 | AT2G24260.2 | 52.727 | 55 | 26 | 0 | 39 | 93 | 42 | 96 | 7.46e-14 | 67.0 |
| Msa1458990 | AT2G24260.1 | 54.717 | 53 | 24 | 0 | 39 | 91 | 145 | 197 | 2.27e-13 | 66.6 |
| Msa1458990 | AT2G14760.3 | 45.205 | 73 | 27 | 1 | 34 | 93 | 239 | 311 | 3.77e-13 | 66.2 |
| Msa1458990 | AT5G58010.1 | 41.772 | 79 | 42 | 1 | 13 | 91 | 84 | 158 | 2.22e-12 | 63.5 |
| Msa1458990 | AT4G28800.1 | 34.021 | 97 | 58 | 2 | 22 | 112 | 236 | 332 | 9.88e-11 | 59.3 |
Find 23 sgRNAs with CRISPR-Local
Find 26 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTAAAGAGAGAGGAGAAAA+AGG | 0.204891 | tig0039915:+3729 | Msa1458990:CDS |
| ATTAACTTTGTTGATAATAT+TGG | 0.286179 | tig0039915:+3964 | Msa1458990:CDS |
| TGTAACAACACTTATTCTTC+AGG | 0.295525 | tig0039915:+3700 | Msa1458990:CDS |
| TCTCTAGCTGCAACACTTTG+TGG | 0.303892 | tig0039915:-3796 | None:intergenic |
| GATCCCTGGTGGAAGTAAAT+TGG | 0.340425 | tig0039915:+3864 | Msa1458990:CDS |
| AAGTTTCACTGAACTTCCTT+TGG | 0.367586 | tig0039915:-3764 | None:intergenic |
| TCATTTGAAGAATAATGTTC+AGG | 0.411947 | tig0039915:-4006 | None:intergenic |
| AGTTTCTTAAGAAACAGATT+TGG | 0.417653 | tig0039915:+3926 | Msa1458990:CDS |
| GTAACAACACTTATTCTTCA+GGG | 0.451744 | tig0039915:+3701 | Msa1458990:CDS |
| TTTCATAGTGGCATCAAAGA+TGG | 0.476710 | tig0039915:-4124 | None:intergenic |
| GAAGACATAGAATCAGTGAT+AGG | 0.495589 | tig0039915:+3821 | Msa1458990:CDS |
| ATTGGACACTGTTTCAATGT+TGG | 0.507524 | tig0039915:+3882 | Msa1458990:CDS |
| GAATAAGTGTTGTTACAAAA+CGG | 0.528040 | tig0039915:-3694 | None:intergenic |
| AGGGTCATGTTTAAAGAGAG+AGG | 0.558108 | tig0039915:+3720 | Msa1458990:CDS |
| TTGAAGAATAATGTTCAGGA+AGG | 0.572521 | tig0039915:-4002 | None:intergenic |
| GTCTAATTAATATTTCATAG+TGG | 0.574341 | tig0039915:-4136 | None:intergenic |
| TGAAAACAGAACTGCTCTAG+TGG | 0.577339 | tig0039915:-4081 | None:intergenic |
| GTGTCCAATTTACTTCCACC+AGG | 0.595621 | tig0039915:-3868 | None:intergenic |
| ATAGACTCAAATGAACCTGA+AGG | 0.610939 | tig0039915:-4039 | None:intergenic |
| ATTCTTCAGAGTATGATCCC+TGG | 0.631016 | tig0039915:+3850 | Msa1458990:CDS |
| CTTCAGAGTATGATCCCTGG+TGG | 0.671280 | tig0039915:+3853 | Msa1458990:CDS |
| AACTGCTCTAGTGGTAACTG+TGG | 0.694715 | tig0039915:-4072 | None:intergenic |
| TGTCCAATTTACTTCCACCA+GGG | 0.712775 | tig0039915:-3867 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTAACTTTGTTGATAATAT+TGG | + | tig0039915:3964-3983 | Msa1458990:CDS | 15.0% |
| !! | AATGATAAAAATATTCCTTC+AGG | + | tig0039915:4024-4043 | Msa1458990:CDS | 20.0% |
| !! | GAATAAGTGTTGTTACAAAA+CGG | - | tig0039915:3697-3716 | None:intergenic | 25.0% |
| ! | AGTTTCTTAAGAAACAGATT+TGG | + | tig0039915:3926-3945 | Msa1458990:CDS | 25.0% |
| ! | TCATTTGAAGAATAATGTTC+AGG | - | tig0039915:4009-4028 | None:intergenic | 25.0% |
| TGTAACAACACTTATTCTTC+AGG | + | tig0039915:3700-3719 | Msa1458990:CDS | 30.0% | |
| GTAACAACACTTATTCTTCA+GGG | + | tig0039915:3701-3720 | Msa1458990:CDS | 30.0% | |
| TTTAAAGAGAGAGGAGAAAA+AGG | + | tig0039915:3729-3748 | Msa1458990:CDS | 30.0% | |
| TTAAAGAGAGAGGAGAAAAA+GGG | + | tig0039915:3730-3749 | Msa1458990:CDS | 30.0% | |
| TTGAAGAATAATGTTCAGGA+AGG | - | tig0039915:4005-4024 | None:intergenic | 30.0% | |
| ! | AAGGGTGTGAAAAAATCCAA+AGG | + | tig0039915:3748-3767 | Msa1458990:CDS | 35.0% |
| AAGTTTCACTGAACTTCCTT+TGG | - | tig0039915:3767-3786 | None:intergenic | 35.0% | |
| GAAGACATAGAATCAGTGAT+AGG | + | tig0039915:3821-3840 | Msa1458990:CDS | 35.0% | |
| ATTGGACACTGTTTCAATGT+TGG | + | tig0039915:3882-3901 | Msa1458990:CDS | 35.0% | |
| ATAGACTCAAATGAACCTGA+AGG | - | tig0039915:4042-4061 | None:intergenic | 35.0% | |
| TTTCATAGTGGCATCAAAGA+TGG | - | tig0039915:4127-4146 | None:intergenic | 35.0% | |
| AGGGTCATGTTTAAAGAGAG+AGG | + | tig0039915:3720-3739 | Msa1458990:CDS | 40.0% | |
| ATTCTTCAGAGTATGATCCC+TGG | + | tig0039915:3850-3869 | Msa1458990:CDS | 40.0% | |
| TGTCCAATTTACTTCCACCA+GGG | - | tig0039915:3870-3889 | None:intergenic | 40.0% | |
| TGAAAACAGAACTGCTCTAG+TGG | - | tig0039915:4084-4103 | None:intergenic | 40.0% | |
| ! | CTAGAGCAGTTCTGTTTTCA+AGG | + | tig0039915:4084-4103 | Msa1458990:CDS | 40.0% |
| TCTCTAGCTGCAACACTTTG+TGG | - | tig0039915:3799-3818 | None:intergenic | 45.0% | |
| GATCCCTGGTGGAAGTAAAT+TGG | + | tig0039915:3864-3883 | Msa1458990:CDS | 45.0% | |
| GTGTCCAATTTACTTCCACC+AGG | - | tig0039915:3871-3890 | None:intergenic | 45.0% | |
| AACTGCTCTAGTGGTAACTG+TGG | - | tig0039915:4075-4094 | None:intergenic | 45.0% | |
| CTTCAGAGTATGATCCCTGG+TGG | + | tig0039915:3853-3872 | Msa1458990:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0039915 | gene | 3673 | 4152 | 3673 | ID=Msa1458990;Name=Msa1458990 |
| tig0039915 | mRNA | 3673 | 4152 | 3673 | ID=Msa1458990-mRNA-1;Parent=Msa1458990;Name=Msa1458990-mRNA-1;_AED=0.00;_eAED=0.04;_QI=0|-1|0|1|-1|1|1|0|159 |
| tig0039915 | exon | 3673 | 4152 | 3673 | ID=Msa1458990-mRNA-1:exon:22058;Parent=Msa1458990-mRNA-1 |
| tig0039915 | CDS | 3673 | 4152 | 3673 | ID=Msa1458990-mRNA-1:cds;Parent=Msa1458990-mRNA-1 |
| Gene Sequence |
| Protein sequence |
