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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0134600 | XP_013469781.1 | 96.757 | 185 | 6 | 0 | 2 | 186 | 1 | 185 | 5.93e-129 | 370 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0134600 | sp|P05332|YP20_BACLI | 33.929 | 168 | 102 | 3 | 24 | 185 | 8 | 172 | 8.11e-24 | 95.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0134600 | A0A072VP71 | 96.757 | 185 | 6 | 0 | 2 | 186 | 1 | 185 | 2.83e-129 | 370 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0134600 | TR | GNAT |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0134600 | Msa0475800 | 0.928021 | 5.197058e-92 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0134600 | MtrunA17_Chr1g0204971 | 96.757 | 185 | 6 | 0 | 2 | 186 | 1 | 185 | 5.46e-133 | 370 |
| Msa0134600 | MtrunA17_Chr1g0204951 | 84.865 | 185 | 28 | 0 | 2 | 186 | 1 | 185 | 2.91e-114 | 323 |
| Msa0134600 | MtrunA17_Chr5g0394621 | 62.903 | 186 | 65 | 2 | 2 | 185 | 1 | 184 | 9.78e-81 | 238 |
| Msa0134600 | MtrunA17_Chr5g0394631 | 60.109 | 183 | 69 | 2 | 2 | 182 | 1 | 181 | 3.00e-72 | 223 |
| Msa0134600 | MtrunA17_Chr5g0394631 | 53.846 | 195 | 82 | 5 | 1 | 189 | 207 | 399 | 4.74e-62 | 197 |
| Msa0134600 | MtrunA17_Chr7g0273661 | 48.718 | 156 | 75 | 2 | 20 | 173 | 4 | 156 | 3.41e-44 | 144 |
| Msa0134600 | MtrunA17_Chr7g0223361 | 39.881 | 168 | 99 | 2 | 18 | 185 | 2 | 167 | 1.71e-37 | 127 |
| Msa0134600 | MtrunA17_Chr7g0223351 | 41.212 | 165 | 94 | 3 | 23 | 187 | 7 | 168 | 2.54e-36 | 124 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0134600 | AT2G32020.1 | 52.727 | 165 | 73 | 3 | 23 | 186 | 18 | 178 | 1.32e-54 | 172 |
| Msa0134600 | AT2G32030.1 | 45.989 | 187 | 96 | 3 | 1 | 186 | 1 | 183 | 2.28e-54 | 171 |
| Msa0134600 | AT3G22560.1 | 41.420 | 169 | 92 | 2 | 19 | 183 | 2 | 167 | 4.33e-36 | 124 |
Find 47 sgRNAs with CRISPR-Local
Find 51 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAGAAAATATCTGTTCATTA+AGG | 0.174922 | 1_3:-66129748 | Msa0134600:CDS |
| TGTGGTTGAAGCTGCATTTA+AGG | 0.195666 | 1_3:-66129871 | Msa0134600:CDS |
| TTCTTTGAGCTCCATGTATT+GGG | 0.213171 | 1_3:-66129925 | Msa0134600:CDS |
| CTCTTCTTTAGCATCTGATT+TGG | 0.248198 | 1_3:+66130220 | None:intergenic |
| ATTCTTTGAGCTCCATGTAT+TGG | 0.293943 | 1_3:-66129926 | Msa0134600:CDS |
| GCCTCAAGCCTCTCCAAGTA+TGG | 0.329009 | 1_3:+66129843 | None:intergenic |
| GAGATTTGCTTGCTATGTTT+TGG | 0.329625 | 1_3:+66130048 | None:intergenic |
| CCTTATACAAACAAAGAAAA+AGG | 0.343403 | 1_3:-66130083 | Msa0134600:CDS |
| TGCCTTCGCGATAGAGCAAT+TGG | 0.346097 | 1_3:-66130008 | Msa0134600:CDS |
| GGGCAAAGGGATTGCCACTA+TGG | 0.352044 | 1_3:-66129904 | Msa0134600:CDS |
| TCAAGATCAGAAAGACTAAT+TGG | 0.352059 | 1_3:+66130161 | None:intergenic |
| TTTAGCATCTGATTTGGAAT+AGG | 0.367598 | 1_3:+66130226 | None:intergenic |
| AATTGGGTGTACCGAGTTCC+AGG | 0.375481 | 1_3:-66129991 | Msa0134600:CDS |
| AGAAAATATCTGTTCATTAA+GGG | 0.384110 | 1_3:-66129747 | Msa0134600:CDS |
| ATTTAAGGAGTTTCCATACT+TGG | 0.408342 | 1_3:-66129856 | Msa0134600:CDS |
| ACATAGCAAGCAAATCTCTA+TGG | 0.412043 | 1_3:-66130043 | Msa0134600:CDS |
| CAAAGGGTGTTGGAGAAGGC+TGG | 0.437360 | 1_3:-66129792 | Msa0134600:CDS |
| TACCGAGTTCCAGGTGTGTT+CGG | 0.452367 | 1_3:-66129982 | Msa0134600:CDS |
| TAATTGGTCGAAGAGAGATT+TGG | 0.457252 | 1_3:+66130177 | None:intergenic |
| CGGGACAAATCTGCTCAACT+TGG | 0.459831 | 1_3:-66129951 | Msa0134600:CDS |
| GGCATCTATCCGAACACACC+TGG | 0.486937 | 1_3:+66129973 | None:intergenic |
| AGCTCCATGTATTGGGGCAA+AGG | 0.494926 | 1_3:-66129918 | Msa0134600:CDS |
| AATCCCTTTGCCCCAATACA+TGG | 0.496567 | 1_3:+66129914 | None:intergenic |
| AGGTGTGTTCGGATAGATGC+CGG | 0.506000 | 1_3:-66129971 | Msa0134600:CDS |
| TTCTCAAAGGGTGTTGGAGA+AGG | 0.511828 | 1_3:-66129796 | Msa0134600:CDS |
| GCCTTCGCGATAGAGCAATT+GGG | 0.515394 | 1_3:-66130007 | Msa0134600:CDS |
| GCTCCATGTATTGGGGCAAA+GGG | 0.517436 | 1_3:-66129917 | Msa0134600:CDS |
| ATCTTGATGATGTTATGTTG+TGG | 0.524636 | 1_3:-66130145 | Msa0134600:CDS |
| AGGTTCCCAAGTGCAATACT+TGG | 0.527166 | 1_3:+66130103 | None:intergenic |
| CAAGTTGAGCAGATTTGTCC+CGG | 0.527345 | 1_3:+66129952 | None:intergenic |
| GAAAATATCTGTTCATTAAG+GGG | 0.536787 | 1_3:-66129746 | Msa0134600:CDS |
| TGTGGCTTCTCAAAGGGTGT+TGG | 0.546349 | 1_3:-66129802 | Msa0134600:CDS |
| TCCATACTTGGAGAGGCTTG+AGG | 0.557426 | 1_3:-66129844 | Msa0134600:CDS |
| CACATGTTTCACAACCATAG+TGG | 0.561077 | 1_3:+66129890 | None:intergenic |
| GCTTGAGGCTCGAGTTGATG+TGG | 0.569120 | 1_3:-66129829 | Msa0134600:CDS |
| TGGAAAATGTGGCTTCTCAA+AGG | 0.572207 | 1_3:-66129809 | Msa0134600:CDS |
| AGGAGTTTCCATACTTGGAG+AGG | 0.574247 | 1_3:-66129851 | Msa0134600:CDS |
| ATCCGAACACACCTGGAACT+CGG | 0.577234 | 1_3:+66129980 | None:intergenic |
| TCTTTGAGCTCCATGTATTG+GGG | 0.587210 | 1_3:-66129924 | Msa0134600:CDS |
| GGAAAATGTGGCTTCTCAAA+GGG | 0.588500 | 1_3:-66129808 | Msa0134600:CDS |
| AAGTGGCCAAGTATTGCACT+TGG | 0.595225 | 1_3:-66130109 | Msa0134600:CDS |
| GGTGTGTTCGGATAGATGCC+GGG | 0.599178 | 1_3:-66129970 | Msa0134600:CDS |
| GTGGACTAGTGATGCAAAAG+TGG | 0.603948 | 1_3:-66130126 | Msa0134600:CDS |
| ACCCAATTGCTCTATCGCGA+AGG | 0.616201 | 1_3:+66130006 | None:intergenic |
| TCGAGTTGATGTGGAAAATG+TGG | 0.669414 | 1_3:-66129820 | Msa0134600:CDS |
| AGTGGCCAAGTATTGCACTT+GGG | 0.670287 | 1_3:-66130108 | Msa0134600:CDS |
| CACTATGGTTGTGAAACATG+TGG | 0.680456 | 1_3:-66129889 | Msa0134600:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AGAAAATATCTGTTCATTAA+GGG | - | chr1_3:66130196-66130215 | Msa0134600:CDS | 20.0% |
| !!! | CCTTTTTCTTTGTTTGTATA+AGG | + | chr1_3:66129863-66129882 | None:intergenic | 25.0% |
| ! | CCTTATACAAACAAAGAAAA+AGG | - | chr1_3:66129860-66129879 | Msa0134600:CDS | 25.0% |
| ! | CAGAAAATATCTGTTCATTA+AGG | - | chr1_3:66130195-66130214 | Msa0134600:CDS | 25.0% |
| ! | GAAAATATCTGTTCATTAAG+GGG | - | chr1_3:66130197-66130216 | Msa0134600:CDS | 25.0% |
| !! | TTTAGCATCTGATTTGGAAT+AGG | + | chr1_3:66129720-66129739 | None:intergenic | 30.0% |
| TCAAGATCAGAAAGACTAAT+TGG | + | chr1_3:66129785-66129804 | None:intergenic | 30.0% | |
| !! | ATCTTGATGATGTTATGTTG+TGG | - | chr1_3:66129798-66129817 | Msa0134600:CDS | 30.0% |
| ATTTAAGGAGTTTCCATACT+TGG | - | chr1_3:66130087-66130106 | Msa0134600:CDS | 30.0% | |
| CTCTTCTTTAGCATCTGATT+TGG | + | chr1_3:66129726-66129745 | None:intergenic | 35.0% | |
| TAATTGGTCGAAGAGAGATT+TGG | + | chr1_3:66129769-66129788 | None:intergenic | 35.0% | |
| !!! | GAGATTTGCTTGCTATGTTT+TGG | + | chr1_3:66129898-66129917 | None:intergenic | 35.0% |
| ACATAGCAAGCAAATCTCTA+TGG | - | chr1_3:66129900-66129919 | Msa0134600:CDS | 35.0% | |
| ATTCTTTGAGCTCCATGTAT+TGG | - | chr1_3:66130017-66130036 | Msa0134600:CDS | 35.0% | |
| TTCTTTGAGCTCCATGTATT+GGG | - | chr1_3:66130018-66130037 | Msa0134600:CDS | 35.0% | |
| TCTTTGAGCTCCATGTATTG+GGG | - | chr1_3:66130019-66130038 | Msa0134600:CDS | 40.0% | |
| CACATGTTTCACAACCATAG+TGG | + | chr1_3:66130056-66130075 | None:intergenic | 40.0% | |
| CACTATGGTTGTGAAACATG+TGG | - | chr1_3:66130054-66130073 | Msa0134600:CDS | 40.0% | |
| TGTGGTTGAAGCTGCATTTA+AGG | - | chr1_3:66130072-66130091 | Msa0134600:CDS | 40.0% | |
| !! | TCGAGTTGATGTGGAAAATG+TGG | - | chr1_3:66130123-66130142 | Msa0134600:CDS | 40.0% |
| TGGAAAATGTGGCTTCTCAA+AGG | - | chr1_3:66130134-66130153 | Msa0134600:CDS | 40.0% | |
| GGAAAATGTGGCTTCTCAAA+GGG | - | chr1_3:66130135-66130154 | Msa0134600:CDS | 40.0% | |
| !! | GTGGACTAGTGATGCAAAAG+TGG | - | chr1_3:66129817-66129836 | Msa0134600:CDS | 45.0% |
| ! | AAGTGGCCAAGTATTGCACT+TGG | - | chr1_3:66129834-66129853 | Msa0134600:CDS | 45.0% |
| ! | AGTGGCCAAGTATTGCACTT+GGG | - | chr1_3:66129835-66129854 | Msa0134600:CDS | 45.0% |
| AGGTTCCCAAGTGCAATACT+TGG | + | chr1_3:66129843-66129862 | None:intergenic | 45.0% | |
| ! | CAAGTTGAGCAGATTTGTCC+CGG | + | chr1_3:66129994-66130013 | None:intergenic | 45.0% |
| AATCCCTTTGCCCCAATACA+TGG | + | chr1_3:66130032-66130051 | None:intergenic | 45.0% | |
| AGGAGTTTCCATACTTGGAG+AGG | - | chr1_3:66130092-66130111 | Msa0134600:CDS | 45.0% | |
| !! | TTCTCAAAGGGTGTTGGAGA+AGG | - | chr1_3:66130147-66130166 | Msa0134600:CDS | 45.0% |
| !!! | TGGAGAAGGCTGGTTTTGAA+AGG | - | chr1_3:66130161-66130180 | Msa0134600:CDS | 45.0% |
| !!! | GGAGAAGGCTGGTTTTGAAA+GGG | - | chr1_3:66130162-66130181 | Msa0134600:CDS | 45.0% |
| !!! | AAGGCTGGTTTTGAAAGGGA+AGG | - | chr1_3:66130166-66130185 | Msa0134600:CDS | 45.0% |
| TGCCTTCGCGATAGAGCAAT+TGG | - | chr1_3:66129935-66129954 | Msa0134600:CDS | 50.0% | |
| GCCTTCGCGATAGAGCAATT+GGG | - | chr1_3:66129936-66129955 | Msa0134600:CDS | 50.0% | |
| ACCCAATTGCTCTATCGCGA+AGG | + | chr1_3:66129940-66129959 | None:intergenic | 50.0% | |
| AATTGGGTGTACCGAGTTCC+AGG | - | chr1_3:66129952-66129971 | Msa0134600:CDS | 50.0% | |
| TACCGAGTTCCAGGTGTGTT+CGG | - | chr1_3:66129961-66129980 | Msa0134600:CDS | 50.0% | |
| ATCCGAACACACCTGGAACT+CGG | + | chr1_3:66129966-66129985 | None:intergenic | 50.0% | |
| AGGTGTGTTCGGATAGATGC+CGG | - | chr1_3:66129972-66129991 | Msa0134600:CDS | 50.0% | |
| CGGGACAAATCTGCTCAACT+TGG | - | chr1_3:66129992-66130011 | Msa0134600:CDS | 50.0% | |
| AGCTCCATGTATTGGGGCAA+AGG | - | chr1_3:66130025-66130044 | Msa0134600:CDS | 50.0% | |
| GCTCCATGTATTGGGGCAAA+GGG | - | chr1_3:66130026-66130045 | Msa0134600:CDS | 50.0% | |
| TCCATACTTGGAGAGGCTTG+AGG | - | chr1_3:66130099-66130118 | Msa0134600:CDS | 50.0% | |
| ! | TGTGGCTTCTCAAAGGGTGT+TGG | - | chr1_3:66130141-66130160 | Msa0134600:CDS | 50.0% |
| GGCATCTATCCGAACACACC+TGG | + | chr1_3:66129973-66129992 | None:intergenic | 55.0% | |
| GGTGTGTTCGGATAGATGCC+GGG | - | chr1_3:66129973-66129992 | Msa0134600:CDS | 55.0% | |
| GGGCAAAGGGATTGCCACTA+TGG | - | chr1_3:66130039-66130058 | Msa0134600:CDS | 55.0% | |
| GCCTCAAGCCTCTCCAAGTA+TGG | + | chr1_3:66130103-66130122 | None:intergenic | 55.0% | |
| !! | GCTTGAGGCTCGAGTTGATG+TGG | - | chr1_3:66130114-66130133 | Msa0134600:CDS | 55.0% |
| !! | CAAAGGGTGTTGGAGAAGGC+TGG | - | chr1_3:66130151-66130170 | Msa0134600:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 66129698 | 66130267 | 66129698 | ID=Msa0134600;Name=Msa0134600 |
| chr1_3 | mRNA | 66129698 | 66130267 | 66129698 | ID=Msa0134600-mRNA-1;Parent=Msa0134600;Name=Msa0134600-mRNA-1;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|189 |
| chr1_3 | exon | 66129698 | 66130267 | 66129698 | ID=Msa0134600-mRNA-1:exon:22544;Parent=Msa0134600-mRNA-1 |
| chr1_3 | CDS | 66129698 | 66130267 | 66129698 | ID=Msa0134600-mRNA-1:cds;Parent=Msa0134600-mRNA-1 |
| Gene Sequence |
| Protein sequence |
