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.gene41500.t1 | PNX98523.1 | 70.2 | 161 | 48 | 0 | 1 | 161 | 1 | 161 | 4.90E-54 | 220.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene41500.t1 | Q9FJK3 | 44.2 | 154 | 86 | 0 | 1 | 154 | 1 | 154 | 5.2e-28 | 125.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene41500.t1 | A0A2K3N650 | 70.2 | 161 | 48 | 0 | 1 | 161 | 1 | 161 | 3.6e-54 | 220.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene41500.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.gene41500.t1 | MTR_2g035580 | 67.089 | 158 | 52 | 0 | 1 | 158 | 1 | 158 | 8.72e-64 | 193 |
| MS.gene41500.t1 | MTR_3g467080 | 49.689 | 161 | 80 | 1 | 1 | 160 | 1 | 161 | 1.05e-48 | 155 |
| MS.gene41500.t1 | MTR_3g466980 | 46.250 | 160 | 86 | 0 | 1 | 160 | 1 | 160 | 1.00e-46 | 152 |
| MS.gene41500.t1 | MTR_4g063790 | 47.239 | 163 | 85 | 1 | 1 | 162 | 1 | 163 | 3.39e-46 | 149 |
| MS.gene41500.t1 | MTR_3g031100 | 45.399 | 163 | 88 | 1 | 1 | 162 | 1 | 163 | 4.49e-39 | 133 |
| MS.gene41500.t1 | MTR_3g065100 | 44.805 | 154 | 85 | 0 | 1 | 154 | 1 | 154 | 1.81e-36 | 126 |
| MS.gene41500.t1 | MTR_2g016210 | 42.073 | 164 | 92 | 2 | 1 | 161 | 1 | 164 | 1.89e-36 | 126 |
| MS.gene41500.t1 | MTR_3g465410 | 46.269 | 134 | 71 | 1 | 29 | 161 | 1 | 134 | 5.04e-35 | 119 |
| MS.gene41500.t1 | MTR_5g075380 | 35.294 | 153 | 99 | 0 | 1 | 153 | 1 | 153 | 6.93e-35 | 119 |
| MS.gene41500.t1 | MTR_3g031240 | 41.718 | 163 | 92 | 2 | 1 | 160 | 1 | 163 | 7.78e-33 | 115 |
| MS.gene41500.t1 | MTR_4g032620 | 37.662 | 154 | 95 | 1 | 1 | 153 | 1 | 154 | 1.82e-32 | 115 |
| MS.gene41500.t1 | MTR_3g466830 | 44.079 | 152 | 73 | 3 | 7 | 152 | 6 | 151 | 4.10e-32 | 112 |
| MS.gene41500.t1 | MTR_4g031910 | 42.581 | 155 | 88 | 1 | 1 | 154 | 1 | 155 | 6.30e-32 | 114 |
| MS.gene41500.t1 | MTR_8g036130 | 39.490 | 157 | 92 | 2 | 1 | 154 | 1 | 157 | 1.64e-28 | 105 |
| MS.gene41500.t1 | MTR_1g090697 | 35.714 | 154 | 98 | 1 | 1 | 154 | 1 | 153 | 6.85e-28 | 102 |
| MS.gene41500.t1 | MTR_5g047580 | 35.897 | 156 | 99 | 1 | 1 | 156 | 1 | 155 | 6.70e-27 | 99.4 |
| MS.gene41500.t1 | MTR_4g032260 | 40.000 | 155 | 92 | 1 | 1 | 154 | 1 | 155 | 5.30e-26 | 97.1 |
| MS.gene41500.t1 | MTR_4g028720 | 39.216 | 153 | 92 | 1 | 1 | 153 | 1 | 152 | 9.76e-26 | 96.3 |
| MS.gene41500.t1 | MTR_1g077390 | 35.294 | 153 | 98 | 1 | 1 | 153 | 1 | 152 | 1.77e-25 | 95.9 |
| MS.gene41500.t1 | MTR_7g011950 | 37.255 | 153 | 95 | 1 | 1 | 153 | 1 | 152 | 2.75e-24 | 92.8 |
| MS.gene41500.t1 | MTR_1g090783 | 32.895 | 152 | 101 | 1 | 7 | 158 | 6 | 156 | 5.31e-24 | 92.0 |
| MS.gene41500.t1 | MTR_4g032290 | 39.490 | 157 | 94 | 1 | 7 | 162 | 7 | 163 | 7.57e-24 | 93.6 |
| MS.gene41500.t1 | MTR_1g084950 | 38.961 | 154 | 93 | 1 | 1 | 154 | 1 | 153 | 1.56e-23 | 90.5 |
| MS.gene41500.t1 | MTR_1g077320 | 34.641 | 153 | 99 | 1 | 1 | 153 | 1 | 152 | 2.81e-23 | 90.1 |
| MS.gene41500.t1 | MTR_3g466890 | 38.255 | 149 | 80 | 3 | 7 | 149 | 6 | 148 | 1.58e-22 | 88.2 |
| MS.gene41500.t1 | MTR_2g035610 | 37.190 | 121 | 76 | 0 | 1 | 121 | 1 | 121 | 1.29e-21 | 84.7 |
| MS.gene41500.t1 | MTR_1g090710 | 33.333 | 156 | 100 | 3 | 1 | 154 | 1 | 154 | 1.29e-20 | 83.2 |
| MS.gene41500.t1 | MTR_3g466930 | 39.062 | 128 | 66 | 3 | 32 | 153 | 2 | 123 | 3.09e-17 | 73.9 |
| MS.gene41500.t1 | MTR_3g466900 | 37.500 | 128 | 68 | 3 | 32 | 153 | 2 | 123 | 1.09e-16 | 72.4 |
| MS.gene41500.t1 | MTR_1g077300 | 32.500 | 160 | 105 | 2 | 1 | 160 | 1 | 157 | 3.10e-15 | 69.3 |
| MS.gene41500.t1 | MTR_4g028800 | 40.000 | 70 | 40 | 1 | 1 | 70 | 1 | 68 | 3.26e-14 | 64.3 |
| MS.gene41500.t1 | MTR_5g047560 | 27.273 | 154 | 95 | 2 | 1 | 154 | 1 | 137 | 4.15e-12 | 60.5 |
| MS.gene41500.t1 | MTR_6g018920 | 35.514 | 107 | 59 | 4 | 8 | 105 | 8 | 113 | 3.12e-11 | 60.5 |
| MS.gene41500.t1 | MTR_4g019670 | 29.565 | 115 | 71 | 2 | 11 | 122 | 14 | 121 | 5.57e-11 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene41500.t1 | AT5G48670 | 44.156 | 154 | 86 | 0 | 1 | 154 | 1 | 154 | 7.18e-33 | 119 |
| MS.gene41500.t1 | AT3G05860 | 39.597 | 149 | 90 | 0 | 1 | 149 | 1 | 149 | 4.27e-31 | 111 |
| MS.gene41500.t1 | AT3G05860 | 39.597 | 149 | 90 | 0 | 1 | 149 | 1 | 149 | 1.29e-30 | 111 |
| MS.gene41500.t1 | AT3G05860 | 39.597 | 149 | 90 | 0 | 1 | 149 | 1 | 149 | 1.40e-30 | 111 |
| MS.gene41500.t1 | AT1G65330 | 39.375 | 160 | 87 | 2 | 7 | 161 | 6 | 160 | 5.69e-29 | 107 |
| MS.gene41500.t1 | AT1G65300 | 36.364 | 154 | 96 | 2 | 4 | 156 | 3 | 155 | 9.47e-25 | 97.1 |
| MS.gene41500.t1 | AT1G31640 | 39.241 | 158 | 81 | 6 | 6 | 156 | 5 | 154 | 6.52e-23 | 94.0 |
| MS.gene41500.t1 | AT5G27810 | 44.944 | 89 | 49 | 0 | 29 | 117 | 1 | 89 | 7.88e-23 | 87.8 |
| MS.gene41500.t1 | AT1G22590 | 30.864 | 162 | 101 | 2 | 1 | 158 | 1 | 155 | 7.24e-21 | 84.0 |
| MS.gene41500.t1 | AT1G31630 | 35.252 | 139 | 83 | 2 | 7 | 142 | 6 | 140 | 4.43e-20 | 85.5 |
| MS.gene41500.t1 | AT2G28700 | 37.864 | 103 | 64 | 0 | 1 | 103 | 1 | 103 | 5.06e-19 | 82.4 |
| MS.gene41500.t1 | AT5G27960 | 31.613 | 155 | 106 | 0 | 7 | 161 | 5 | 159 | 1.11e-18 | 81.3 |
| MS.gene41500.t1 | AT5G26650 | 31.613 | 155 | 106 | 0 | 7 | 161 | 5 | 159 | 1.37e-18 | 81.6 |
| MS.gene41500.t1 | AT5G26630 | 30.435 | 161 | 112 | 0 | 1 | 161 | 1 | 161 | 1.00e-16 | 74.3 |
| MS.gene41500.t1 | AT5G06500 | 30.000 | 130 | 83 | 2 | 1 | 126 | 1 | 126 | 2.72e-14 | 68.6 |
| MS.gene41500.t1 | AT2G40210 | 28.777 | 139 | 98 | 1 | 1 | 139 | 1 | 138 | 2.43e-12 | 63.9 |
| MS.gene41500.t1 | AT5G26580 | 28.662 | 157 | 98 | 3 | 1 | 157 | 1 | 143 | 1.93e-11 | 61.2 |
Find 33 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CACCATCTGGACTTCTTCTT+TGG | 0.146388 | 3.1:+51546123 | None:intergenic |
| ATCATTCATTTCATTCTTCT+TGG | 0.187611 | 3.1:+51545979 | None:intergenic |
| CTCCATTTCAATCTTCATCT+TGG | 0.285395 | 3.1:+51545828 | None:intergenic |
| GAAAGGCAACATTTGGAAAA+AGG | 0.291917 | 3.1:-51546461 | MS.gene41500:CDS |
| TTCTTTGTTCGACTTCCTTA+AGG | 0.340784 | 3.1:+51545867 | None:intergenic |
| TTTGTTTCTTTAACTTCTCT+AGG | 0.340953 | 3.1:+51546011 | None:intergenic |
| AATGAAATGAATGATCTAAT+TGG | 0.349404 | 3.1:-51545971 | MS.gene41500:CDS |
| TCCATTTCAATCTTCATCTT+GGG | 0.367020 | 3.1:+51545829 | None:intergenic |
| TCGAAGAGAAAGGCAACATT+TGG | 0.402575 | 3.1:-51546468 | MS.gene41500:CDS |
| TGAACTTGTCCAACACCATC+TGG | 0.408010 | 3.1:+51546110 | None:intergenic |
| ATTCATACGGGTGAATTGAA+TGG | 0.413638 | 3.1:-51545941 | MS.gene41500:CDS |
| ATCTGGACTTCTTCTTTGGA+TGG | 0.436613 | 3.1:+51546127 | None:intergenic |
| AATGAACTCACCACCTTATG+TGG | 0.447211 | 3.1:-51546205 | MS.gene41500:CDS |
| TTGTTTCTTTAACTTCTCTA+GGG | 0.453550 | 3.1:+51546012 | None:intergenic |
| AATTGGTCAATTCATTCATA+CGG | 0.459890 | 3.1:-51545954 | MS.gene41500:CDS |
| GCTTATTGTTGAGAACCTTA+AGG | 0.479647 | 3.1:-51545882 | MS.gene41500:CDS |
| ACATACATCAATTCCACATA+AGG | 0.491397 | 3.1:+51546192 | None:intergenic |
| AACTGATGACTCGAAGAGAA+AGG | 0.544142 | 3.1:-51546478 | MS.gene41500:CDS |
| AAAATCGATGGTGGATCATG+AGG | 0.552677 | 3.1:-51546062 | MS.gene41500:CDS |
| ATTGGTCAATTCATTCATAC+GGG | 0.554460 | 3.1:-51545953 | MS.gene41500:CDS |
| GGGTGAATTGAATGGAAATG+TGG | 0.577744 | 3.1:-51545933 | MS.gene41500:CDS |
| AAGTCGAACAAAGAATCGAA+TGG | 0.588974 | 3.1:-51545859 | MS.gene41500:CDS |
| AGAAGAAGTCCAGATGGTGT+TGG | 0.590630 | 3.1:-51546119 | MS.gene41500:CDS |
| ATTTGAACAAAGAAAATCGA+TGG | 0.602892 | 3.1:-51546074 | MS.gene41500:CDS |
| AAATCGATGGTGGATCATGA+GGG | 0.613825 | 3.1:-51546061 | MS.gene41500:CDS |
| TGTATGTGGTATAATCTATG+AGG | 0.618109 | 3.1:-51546176 | MS.gene41500:CDS |
| TACATCAATTCCACATAAGG+TGG | 0.624843 | 3.1:+51546195 | None:intergenic |
| TGAACAAAGAAAATCGATGG+TGG | 0.625312 | 3.1:-51546071 | MS.gene41500:CDS |
| ATCCAAAGAAGAAGTCCAGA+TGG | 0.628220 | 3.1:-51546125 | MS.gene41500:CDS |
| GGAAAACAACACTCAAGCAA+TGG | 0.638025 | 3.1:-51546155 | MS.gene41500:CDS |
| TTATGTGGAATTGATGTATG+TGG | 0.644295 | 3.1:-51546190 | MS.gene41500:CDS |
| GGTGAATTGAATGGAAATGT+GGG | 0.647108 | 3.1:-51545932 | MS.gene41500:CDS |
| TGGATCATGAGGGCTTCTTG+AGG | 0.648158 | 3.1:-51546051 | MS.gene41500:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATTTGCTTCATAAAAATTA+AGG | + | chr3.1:51545935-51545954 | None:intergenic | 15.0% |
| !! | AATGAAATGAATGATCTAAT+TGG | - | chr3.1:51546374-51546393 | MS.gene41500:intron | 20.0% |
| !! | ACTTTATACTATAAATGACA+TGG | + | chr3.1:51546057-51546076 | None:intergenic | 20.0% |
| !! | TGATGTTCATAAATTTCTAA+TGG | + | chr3.1:51545975-51545994 | None:intergenic | 20.0% |
| ! | AATTGGTCAATTCATTCATA+CGG | - | chr3.1:51546391-51546410 | MS.gene41500:intron | 25.0% |
| ! | ATCATTCATTTCATTCTTCT+TGG | + | chr3.1:51546369-51546388 | None:intergenic | 25.0% |
| ! | ATTTGAACAAAGAAAATCGA+TGG | - | chr3.1:51546271-51546290 | MS.gene41500:intron | 25.0% |
| !! | GATTTTCTTTGTTCAAATTC+AGG | + | chr3.1:51546269-51546288 | None:intergenic | 25.0% |
| !! | TTGTTTCTTTAACTTCTCTA+GGG | + | chr3.1:51546336-51546355 | None:intergenic | 25.0% |
| !! | TTTGTTTCTTTAACTTCTCT+AGG | + | chr3.1:51546337-51546356 | None:intergenic | 25.0% |
| ACATACATCAATTCCACATA+AGG | + | chr3.1:51546156-51546175 | None:intergenic | 30.0% | |
| ACATTTGGAAAAAGGAAACA+AGG | - | chr3.1:51545892-51545911 | MS.gene41500:CDS | 30.0% | |
| ATTGGTCAATTCATTCATAC+GGG | - | chr3.1:51546392-51546411 | MS.gene41500:intron | 30.0% | |
| TGTATGTGGTATAATCTATG+AGG | - | chr3.1:51546169-51546188 | MS.gene41500:CDS | 30.0% | |
| TTATGTGGAATTGATGTATG+TGG | - | chr3.1:51546155-51546174 | MS.gene41500:CDS | 30.0% | |
| ! | TCAGTTTTACATTTCTCTGA+CGG | - | chr3.1:51546078-51546097 | MS.gene41500:CDS | 30.0% |
| AAGTCGAACAAAGAATCGAA+TGG | - | chr3.1:51546486-51546505 | MS.gene41500:CDS | 35.0% | |
| ATTCATACGGGTGAATTGAA+TGG | - | chr3.1:51546404-51546423 | MS.gene41500:intron | 35.0% | |
| GAAAGGCAACATTTGGAAAA+AGG | - | chr3.1:51545884-51545903 | MS.gene41500:CDS | 35.0% | |
| GCTTATTGTTGAGAACCTTA+AGG | - | chr3.1:51546463-51546482 | MS.gene41500:CDS | 35.0% | |
| GGTGAATTGAATGGAAATGT+GGG | - | chr3.1:51546413-51546432 | MS.gene41500:intron | 35.0% | |
| TACATCAATTCCACATAAGG+TGG | + | chr3.1:51546153-51546172 | None:intergenic | 35.0% | |
| TGAACAAAGAAAATCGATGG+TGG | - | chr3.1:51546274-51546293 | MS.gene41500:intron | 35.0% | |
| TTCTTTGTTCGACTTCCTTA+AGG | + | chr3.1:51546481-51546500 | None:intergenic | 35.0% | |
| !! | CTCTTGCTATGTTTTCAAAC+AGG | - | chr3.1:51546101-51546120 | MS.gene41500:CDS | 35.0% |
| AACTGATGACTCGAAGAGAA+AGG | - | chr3.1:51545867-51545886 | MS.gene41500:CDS | 40.0% | |
| AATGAACTCACCACCTTATG+TGG | - | chr3.1:51546140-51546159 | MS.gene41500:CDS | 40.0% | |
| ATCCAAAGAAGAAGTCCAGA+TGG | - | chr3.1:51546220-51546239 | MS.gene41500:CDS | 40.0% | |
| ATCTGGACTTCTTCTTTGGA+TGG | + | chr3.1:51546221-51546240 | None:intergenic | 40.0% | |
| GGAAAACAACACTCAAGCAA+TGG | - | chr3.1:51546190-51546209 | MS.gene41500:CDS | 40.0% | |
| GGGTGAATTGAATGGAAATG+TGG | - | chr3.1:51546412-51546431 | MS.gene41500:intron | 40.0% | |
| TCGAAGAGAAAGGCAACATT+TGG | - | chr3.1:51545877-51545896 | MS.gene41500:CDS | 40.0% | |
| !! | AAAATCGATGGTGGATCATG+AGG | - | chr3.1:51546283-51546302 | MS.gene41500:intron | 40.0% |
| !! | AAATCGATGGTGGATCATGA+GGG | - | chr3.1:51546284-51546303 | MS.gene41500:intron | 40.0% |
| !!! | CTTCTCTAGGGCTTTTGATA+TGG | + | chr3.1:51546324-51546343 | None:intergenic | 40.0% |
| AGAAGAAGTCCAGATGGTGT+TGG | - | chr3.1:51546226-51546245 | MS.gene41500:intron | 45.0% | |
| CACCATCTGGACTTCTTCTT+TGG | + | chr3.1:51546225-51546244 | None:intergenic | 45.0% | |
| TGAACTTGTCCAACACCATC+TGG | + | chr3.1:51546238-51546257 | None:intergenic | 45.0% | |
| TGGATCATGAGGGCTTCTTG+AGG | - | chr3.1:51546294-51546313 | MS.gene41500:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 51545835 | 51546532 | 51545835 | ID=MS.gene41500 |
| chr3.1 | mRNA | 51545835 | 51546532 | 51545835 | ID=MS.gene41500.t1;Parent=MS.gene41500 |
| chr3.1 | exon | 51546454 | 51546532 | 51546454 | ID=MS.gene41500.t1.exon1;Parent=MS.gene41500.t1 |
| chr3.1 | CDS | 51546454 | 51546532 | 51546454 | ID=cds.MS.gene41500.t1;Parent=MS.gene41500.t1 |
| chr3.1 | exon | 51545835 | 51546244 | 51545835 | ID=MS.gene41500.t1.exon2;Parent=MS.gene41500.t1 |
| chr3.1 | CDS | 51545835 | 51546244 | 51545835 | ID=cds.MS.gene41500.t1;Parent=MS.gene41500.t1 |
| Gene Sequence |
| Protein sequence |
