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.gene55964.t1 | XP_003594702.1 | 96.6 | 179 | 5 | 1 | 1 | 179 | 1 | 178 | 1.30E-87 | 332.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene55964.t1 | F4HWQ8 | 35.5 | 141 | 87 | 2 | 32 | 172 | 25 | 161 | 7.3e-15 | 82.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene55964.t1 | A2Q674 | 96.6 | 179 | 5 | 1 | 1 | 179 | 1 | 178 | 9.3e-88 | 332.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene04932 | MS.gene55964 | 0.818069 | 2.38E-52 | -1.69E-46 |
| MS.gene049549 | MS.gene55964 | 0.805115 | 1.56E-49 | -1.69E-46 |
| MS.gene050329 | MS.gene55964 | 0.804417 | 2.18E-49 | -1.69E-46 |
| MS.gene051552 | MS.gene55964 | 0.818854 | 1.58E-52 | -1.69E-46 |
| MS.gene052211 | MS.gene55964 | 0.812428 | 4.26E-51 | -1.69E-46 |
| MS.gene052606 | MS.gene55964 | 0.820172 | 7.89E-53 | -1.69E-46 |
| MS.gene053406 | MS.gene55964 | 0.818302 | 2.10E-52 | -1.69E-46 |
| MS.gene054742 | MS.gene55964 | 0.820208 | 7.75E-53 | -1.69E-46 |
| MS.gene056330 | MS.gene55964 | 0.824395 | 8.26E-54 | -1.69E-46 |
| MS.gene056590 | MS.gene55964 | 0.806335 | 8.65E-50 | -1.69E-46 |
| MS.gene056591 | MS.gene55964 | 0.806422 | 8.29E-50 | -1.69E-46 |
| MS.gene056680 | MS.gene55964 | 0.810698 | 1.01E-50 | -1.69E-46 |
| MS.gene058263 | MS.gene55964 | 0.848827 | 4.78E-60 | -1.69E-46 |
| MS.gene058418 | MS.gene55964 | 0.821553 | 3.80E-53 | -1.69E-46 |
| MS.gene05960 | MS.gene55964 | 0.817627 | 2.99E-52 | -1.69E-46 |
| MS.gene059891 | MS.gene55964 | 0.80929 | 2.04E-50 | -1.69E-46 |
| MS.gene059892 | MS.gene55964 | 0.816835 | 4.51E-52 | -1.69E-46 |
| MS.gene060087 | MS.gene55964 | 0.8156 | 8.51E-52 | -1.69E-46 |
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.gene55964.t1 | MTR_2g033630 | 96.648 | 179 | 5 | 1 | 1 | 179 | 1 | 178 | 4.77e-125 | 349 |
| MS.gene55964.t1 | MTR_4g122740 | 66.298 | 181 | 57 | 3 | 1 | 179 | 1 | 179 | 2.99e-82 | 241 |
| MS.gene55964.t1 | MTR_4g122720 | 50.802 | 187 | 84 | 1 | 1 | 179 | 1 | 187 | 9.79e-64 | 194 |
| MS.gene55964.t1 | MTR_4g122718 | 50.893 | 112 | 52 | 1 | 68 | 179 | 1 | 109 | 6.26e-39 | 129 |
| MS.gene55964.t1 | MTR_4g122890 | 37.640 | 178 | 103 | 4 | 5 | 177 | 1 | 175 | 4.30e-27 | 100 |
| MS.gene55964.t1 | MTR_4g122712 | 33.516 | 182 | 106 | 4 | 1 | 176 | 1 | 173 | 2.97e-23 | 90.9 |
| MS.gene55964.t1 | MTR_4g122750 | 34.302 | 172 | 100 | 3 | 6 | 177 | 15 | 173 | 6.50e-21 | 85.1 |
| MS.gene55964.t1 | MTR_4g122800 | 31.579 | 171 | 104 | 3 | 16 | 177 | 16 | 182 | 2.38e-19 | 81.3 |
| MS.gene55964.t1 | MTR_4g122660 | 31.073 | 177 | 118 | 4 | 3 | 177 | 2 | 176 | 7.30e-18 | 77.4 |
| MS.gene55964.t1 | MTR_4g122760 | 32.192 | 146 | 97 | 1 | 32 | 177 | 33 | 176 | 1.09e-16 | 73.9 |
| MS.gene55964.t1 | MTR_2g033740 | 30.968 | 155 | 98 | 2 | 31 | 176 | 32 | 186 | 2.69e-16 | 73.2 |
| MS.gene55964.t1 | MTR_2g033720 | 30.968 | 155 | 98 | 2 | 31 | 176 | 32 | 186 | 4.45e-16 | 72.8 |
| MS.gene55964.t1 | MTR_3g095980 | 30.814 | 172 | 112 | 5 | 11 | 177 | 7 | 176 | 4.00e-12 | 62.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene55964.t1 | AT3G17130 | 43.750 | 160 | 76 | 4 | 29 | 179 | 28 | 182 | 2.57e-38 | 130 |
| MS.gene55964.t1 | AT1G47960 | 35.616 | 146 | 90 | 2 | 32 | 177 | 25 | 166 | 1.86e-22 | 89.0 |
| MS.gene55964.t1 | AT1G47960 | 35.461 | 141 | 87 | 2 | 32 | 172 | 25 | 161 | 7.91e-20 | 82.8 |
| MS.gene55964.t1 | AT5G64620 | 27.586 | 174 | 113 | 5 | 17 | 178 | 8 | 180 | 4.99e-13 | 64.3 |
| MS.gene55964.t1 | AT3G17152 | 27.326 | 172 | 115 | 3 | 11 | 176 | 8 | 175 | 1.12e-12 | 63.5 |
| MS.gene55964.t1 | AT3G17150 | 27.119 | 177 | 126 | 2 | 1 | 177 | 8 | 181 | 1.25e-12 | 63.5 |
Find 27 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGGTTGTTATGTCACCTTTA+GGG | 0.220441 | 2.3:-56964490 | MS.gene55964:CDS |
| GGGGTTGTTATGTCACCTTT+AGG | 0.229357 | 2.3:-56964491 | MS.gene55964:CDS |
| GAGCAAGTGGGTTTGAGTTT+AGG | 0.264723 | 2.3:+56964789 | None:intergenic |
| GCTATAAATCAAAACCGGTT+TGG | 0.390286 | 2.3:-56964578 | MS.gene55964:CDS |
| TATTATTAAACAACTATTGA+AGG | 0.404982 | 2.3:-56964423 | MS.gene55964:CDS |
| GGAGCTACATAGGTCGTAGA+AGG | 0.415962 | 2.3:+56964814 | None:intergenic |
| AAATGATGAAACAATGGTTA+TGG | 0.416969 | 2.3:+56964925 | None:intergenic |
| GAATGTTGTTTACCATTACT+AGG | 0.433283 | 2.3:+56964741 | None:intergenic |
| GAAAACTACAGATCGTGAAA+TGG | 0.467104 | 2.3:-56964672 | MS.gene55964:CDS |
| GGAAGAGTGTACTTCACAAT+TGG | 0.475484 | 2.3:+56964614 | None:intergenic |
| GGTTGTTATGTCACCTTTAG+GGG | 0.492197 | 2.3:-56964489 | MS.gene55964:CDS |
| AGTTTAGGATGGAGCTACAT+AGG | 0.504787 | 2.3:+56964804 | None:intergenic |
| CTGATGCTATAAATCAAAAC+CGG | 0.505756 | 2.3:-56964583 | MS.gene55964:CDS |
| ATGTGAAAGGTATGGAAGCA+AGG | 0.520131 | 2.3:+56964882 | None:intergenic |
| AATGTTGTTTACCATTACTA+GGG | 0.522731 | 2.3:+56964742 | None:intergenic |
| AATAACTAGCAAATCCAAAC+CGG | 0.527876 | 2.3:+56964564 | None:intergenic |
| TTGAGATGATGTGAAAGGTA+TGG | 0.531143 | 2.3:+56964874 | None:intergenic |
| ATACCATTTCTATCCCCTAA+AGG | 0.536471 | 2.3:+56964476 | None:intergenic |
| ATTATTAAACAACTATTGAA+GGG | 0.542633 | 2.3:-56964422 | MS.gene55964:CDS |
| TCACCTTTAGGGGATAGAAA+TGG | 0.544897 | 2.3:-56964479 | MS.gene55964:CDS |
| CAAAGGTGTAGCCCTAGTAA+TGG | 0.545068 | 2.3:-56964753 | MS.gene55964:CDS |
| TAGGGCTACACCTTTGAGAT+CGG | 0.548198 | 2.3:+56964760 | None:intergenic |
| TTTATAGCATCAGCAGCTTG+TGG | 0.575094 | 2.3:+56964593 | None:intergenic |
| TATTGCAAATGATGAAACAA+TGG | 0.580448 | 2.3:+56964919 | None:intergenic |
| AAGTGGGTTTGAGTTTAGGA+TGG | 0.581840 | 2.3:+56964793 | None:intergenic |
| GAGCTACATAGGTCGTAGAA+GGG | 0.650219 | 2.3:+56964815 | None:intergenic |
| TTGGATTGAGATGATGTGAA+AGG | 0.681331 | 2.3:+56964869 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTATTAAACAACTATTGAA+GGG | - | chr2.3:56964931-56964950 | MS.gene55964:CDS | 15.0% |
| !! | TATTATTAAACAACTATTGA+AGG | - | chr2.3:56964930-56964949 | MS.gene55964:CDS | 15.0% |
| !!! | TATTTTATCTATTAAATCGT+TGG | + | chr2.3:56964506-56964525 | None:intergenic | 15.0% |
| !!! | CTTGTAATAAGAAATTTTCT+GGG | - | chr2.3:56964842-56964861 | MS.gene55964:CDS | 20.0% |
| !!! | TCTTGTAATAAGAAATTTTC+TGG | - | chr2.3:56964841-56964860 | MS.gene55964:CDS | 20.0% |
| !!! | TTGTAATAAGAAATTTTCTG+GGG | - | chr2.3:56964843-56964862 | MS.gene55964:CDS | 20.0% |
| ! | AAATGATGAAACAATGGTTA+TGG | + | chr2.3:56964431-56964450 | None:intergenic | 25.0% |
| ! | TATTGCAAATGATGAAACAA+TGG | + | chr2.3:56964437-56964456 | None:intergenic | 25.0% |
| !! | AATGTTGTTTACCATTACTA+GGG | + | chr2.3:56964614-56964633 | None:intergenic | 25.0% |
| AATAACTAGCAAATCCAAAC+CGG | + | chr2.3:56964792-56964811 | None:intergenic | 30.0% | |
| CTGATGCTATAAATCAAAAC+CGG | - | chr2.3:56964770-56964789 | MS.gene55964:CDS | 30.0% | |
| ! | GAATGTTGTTTACCATTACT+AGG | + | chr2.3:56964615-56964634 | None:intergenic | 30.0% |
| ATACCATTTCTATCCCCTAA+AGG | + | chr2.3:56964880-56964899 | None:intergenic | 35.0% | |
| GAAAACTACAGATCGTGAAA+TGG | - | chr2.3:56964681-56964700 | MS.gene55964:CDS | 35.0% | |
| GCTATAAATCAAAACCGGTT+TGG | - | chr2.3:56964775-56964794 | MS.gene55964:CDS | 35.0% | |
| TTGAGATGATGTGAAAGGTA+TGG | + | chr2.3:56964482-56964501 | None:intergenic | 35.0% | |
| TTGGATTGAGATGATGTGAA+AGG | + | chr2.3:56964487-56964506 | None:intergenic | 35.0% | |
| ! | TCGTGAAATGGAAAAAGCAT+TGG | - | chr2.3:56964693-56964712 | MS.gene55964:CDS | 35.0% |
| GGGTTGTTATGTCACCTTTA+GGG | - | chr2.3:56964863-56964882 | MS.gene55964:CDS | 40.0% | |
| GGTTGTTATGTCACCTTTAG+GGG | - | chr2.3:56964864-56964883 | MS.gene55964:CDS | 40.0% | |
| TTTATAGCATCAGCAGCTTG+TGG | + | chr2.3:56964763-56964782 | None:intergenic | 40.0% | |
| ! | AAGTGGGTTTGAGTTTAGGA+TGG | + | chr2.3:56964563-56964582 | None:intergenic | 40.0% |
| ! | AGTTTAGGATGGAGCTACAT+AGG | + | chr2.3:56964552-56964571 | None:intergenic | 40.0% |
| ! | ATGTGAAAGGTATGGAAGCA+AGG | + | chr2.3:56964474-56964493 | None:intergenic | 40.0% |
| ! | GGAAGAGTGTACTTCACAAT+TGG | + | chr2.3:56964742-56964761 | None:intergenic | 40.0% |
| ! | TCACCTTTAGGGGATAGAAA+TGG | - | chr2.3:56964874-56964893 | MS.gene55964:CDS | 40.0% |
| !!! | ACACCTTTGAGATCGGTTTT+TGG | + | chr2.3:56964589-56964608 | None:intergenic | 40.0% |
| GAGCTACATAGGTCGTAGAA+GGG | + | chr2.3:56964541-56964560 | None:intergenic | 45.0% | |
| GCTCCAAAAACCGATCTCAA+AGG | - | chr2.3:56964583-56964602 | MS.gene55964:CDS | 45.0% | |
| GGGGTTGTTATGTCACCTTT+AGG | - | chr2.3:56964862-56964881 | MS.gene55964:CDS | 45.0% | |
| ! | CAAAGGTGTAGCCCTAGTAA+TGG | - | chr2.3:56964600-56964619 | MS.gene55964:CDS | 45.0% |
| ! | GAGCAAGTGGGTTTGAGTTT+AGG | + | chr2.3:56964567-56964586 | None:intergenic | 45.0% |
| !! | TAGGGCTACACCTTTGAGAT+CGG | + | chr2.3:56964596-56964615 | None:intergenic | 45.0% |
| !!! | AGATCGGTTTTTGGAGCAAG+TGG | + | chr2.3:56964580-56964599 | None:intergenic | 45.0% |
| !!! | GATCGGTTTTTGGAGCAAGT+GGG | + | chr2.3:56964579-56964598 | None:intergenic | 45.0% |
| GGAGCTACATAGGTCGTAGA+AGG | + | chr2.3:56964542-56964561 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2.3 | gene | 56964418 | 56964957 | 56964418 | ID=MS.gene55964 |
| chr2.3 | mRNA | 56964418 | 56964957 | 56964418 | ID=MS.gene55964.t1;Parent=MS.gene55964 |
| chr2.3 | exon | 56964418 | 56964957 | 56964418 | ID=MS.gene55964.t1.exon1;Parent=MS.gene55964.t1 |
| chr2.3 | CDS | 56964418 | 56964957 | 56964418 | ID=cds.MS.gene55964.t1;Parent=MS.gene55964.t1 |
| Gene Sequence |
| Protein sequence |
