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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0193620 | XP_024631567.1 | 96.774 | 186 | 4 | 1 | 1 | 184 | 13 | 198 | 3.53e-125 | 360 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0193620 | A0A396J251 | 96.774 | 186 | 4 | 1 | 1 | 184 | 13 | 198 | 1.69e-125 | 360 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0193620 | Msa0273670 | 0.971065 | 1.398428e-132 | -8.615850e-47 |
| Msa0193620 | Msa0575990 | 0.851742 | 7.280385e-61 | -8.615850e-47 |
| Msa0193620 | Msa0576100 | 0.852018 | 6.079837e-61 | -8.615850e-47 |
| Msa0193620 | Msa1085590 | 0.809777 | 1.600301e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0193620 | MtrunA17_Chr2g0283881 | 96.774 | 186 | 4 | 1 | 1 | 184 | 13 | 198 | 3.25e-129 | 360 |
| Msa0193620 | MtrunA17_Chr3g0106441 | 45.506 | 178 | 88 | 4 | 1 | 178 | 1 | 169 | 2.73e-45 | 147 |
| Msa0193620 | MtrunA17_Chr5g0432111 | 38.798 | 183 | 81 | 5 | 1 | 178 | 1 | 157 | 9.51e-33 | 115 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0193620 | AT1G29195.1 | 56.915 | 188 | 71 | 3 | 1 | 178 | 1 | 188 | 1.48e-67 | 204 |
| Msa0193620 | AT2G30230.1 | 40.642 | 187 | 89 | 6 | 1 | 178 | 1 | 174 | 6.96e-36 | 124 |
| Msa0193620 | AT1G06980.1 | 40.761 | 184 | 85 | 4 | 1 | 178 | 1 | 166 | 2.70e-35 | 122 |
Find 33 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGTTTCTTGAGAACATGTTT+TGG | 0.350154 | 2_1:+9443293 | None:intergenic |
| CACCTTCAGCGCAAGATGGC+GGG | 0.354822 | 2_1:-9443265 | Msa0193620:CDS |
| TGCTGTGTGGAGACCTCATT+TGG | 0.366621 | 2_1:-9442934 | Msa0193620:CDS |
| GGAGGGACAACAACAATCTT+AGG | 0.387106 | 2_1:+9443236 | None:intergenic |
| AACCGTTATAGAAGATTTGT+TGG | 0.403215 | 2_1:+9442894 | None:intergenic |
| GACCGTTGCAGTGTACTATA+CGG | 0.423911 | 2_1:+9443369 | None:intergenic |
| TTATCCGGTGGTGGCGGCGT+AGG | 0.442560 | 2_1:+9443167 | None:intergenic |
| GGTGGTGGCGGCGTAGGGAG+AGG | 0.457673 | 2_1:+9443173 | None:intergenic |
| TATCCGGTGGTGGCGGCGTA+GGG | 0.470582 | 2_1:+9443168 | None:intergenic |
| ACCCCGCCATCTTGCGCTGA+AGG | 0.489813 | 2_1:+9443263 | None:intergenic |
| TCTTGCGCTGAAGGTGAAGA+AGG | 0.505753 | 2_1:+9443272 | None:intergenic |
| TCTCCCTACGCCGCCACCAC+CGG | 0.509119 | 2_1:-9443171 | Msa0193620:CDS |
| GACTGAGATTCTGTCTGAGA+AGG | 0.517425 | 2_1:-9442991 | Msa0193620:CDS |
| TCACCTTCAGCGCAAGATGG+CGG | 0.520403 | 2_1:-9443266 | Msa0193620:CDS |
| CACCAACAAATCTTCTATAA+CGG | 0.521213 | 2_1:-9442896 | None:intergenic |
| CATCGAGAACAGTGCTATGT+TGG | 0.527832 | 2_1:-9443036 | Msa0193620:CDS |
| ACCTTCAGCGCAAGATGGCG+GGG | 0.527946 | 2_1:-9443264 | Msa0193620:CDS |
| CCACGTTGAAGATCAGCATC+GGG | 0.542465 | 2_1:+9443215 | None:intergenic |
| TCTTCACCTTCAGCGCAAGA+TGG | 0.556088 | 2_1:-9443269 | Msa0193620:CDS |
| ACCACGTTGAAGATCAGCAT+CGG | 0.572486 | 2_1:+9443214 | None:intergenic |
| GCGGCGTAGGGAGAGGCATG+AGG | 0.581998 | 2_1:+9443180 | None:intergenic |
| AGTCAGAGAGACAGAAGAAG+AGG | 0.589679 | 2_1:-9442963 | Msa0193620:CDS |
| TCAGAAATACTCTCCAAATG+AGG | 0.591665 | 2_1:+9442921 | None:intergenic |
| ACAAACAACGGTAGAAGTAA+CGG | 0.598405 | 2_1:-9443074 | Msa0193620:CDS |
| CGTTGAAGATCAGCATCGGG+AGG | 0.643072 | 2_1:+9443218 | None:intergenic |
| GTTGAAGATCAGCATCGGGA+GGG | 0.647155 | 2_1:+9443219 | None:intergenic |
| GAGAGAATATTAACAAACAA+CGG | 0.660955 | 2_1:-9443086 | Msa0193620:CDS |
| GGTCGAGTAGAAGAGATCAG+TGG | 0.670260 | 2_1:-9443350 | Msa0193620:CDS |
| ATCACATCAAGTGCTCCACA+TGG | 0.674792 | 2_1:+9443392 | None:intergenic |
| ATATCTTGCATTCTACCATG+TGG | 0.683335 | 2_1:-9443407 | Msa0193620:CDS |
| GAAGAGGACGTGTTGCTGTG+TGG | 0.686286 | 2_1:-9442947 | Msa0193620:CDS |
| ATCCGTATAGTACACTGCAA+CGG | 0.690119 | 2_1:-9443371 | Msa0193620:CDS |
| CCCGATGCTGATCTTCAACG+TGG | 0.691291 | 2_1:-9443215 | Msa0193620:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | GAGAGAATATTAACAAACAA+CGG | - | chr2_1:9443244-9443263 | Msa0193620:CDS | 25.0% |
| ! | GTTTCTTGAGAACATGTTTT+GGG | + | chr2_1:9443039-9443058 | None:intergenic | 30.0% |
| !!! | TGACGGTGATTATTTTTATC+CGG | + | chr2_1:9443181-9443200 | None:intergenic | 30.0% |
| ATATCTTGCATTCTACCATG+TGG | - | chr2_1:9442923-9442942 | Msa0193620:CDS | 35.0% | |
| ! | GGTTTCTTGAGAACATGTTT+TGG | + | chr2_1:9443040-9443059 | None:intergenic | 35.0% |
| !!! | TGATTATTTTTATCCGGTGG+TGG | + | chr2_1:9443175-9443194 | None:intergenic | 35.0% |
| ACAAACAACGGTAGAAGTAA+CGG | - | chr2_1:9443256-9443275 | Msa0193620:CDS | 35.0% | |
| TCAGAAATACTCTCCAAATG+AGG | + | chr2_1:9443412-9443431 | None:intergenic | 35.0% | |
| ATCCGTATAGTACACTGCAA+CGG | - | chr2_1:9442959-9442978 | Msa0193620:CDS | 40.0% | |
| !!! | TTATTTTTATCCGGTGGTGG+CGG | + | chr2_1:9443172-9443191 | None:intergenic | 40.0% |
| !!! | CGGTGATTATTTTTATCCGG+TGG | + | chr2_1:9443178-9443197 | None:intergenic | 40.0% |
| ATCACATCAAGTGCTCCACA+TGG | + | chr2_1:9442941-9442960 | None:intergenic | 45.0% | |
| GACCGTTGCAGTGTACTATA+CGG | + | chr2_1:9442964-9442983 | None:intergenic | 45.0% | |
| GGAGGGACAACAACAATCTT+AGG | + | chr2_1:9443097-9443116 | None:intergenic | 45.0% | |
| ACCACGTTGAAGATCAGCAT+CGG | + | chr2_1:9443119-9443138 | None:intergenic | 45.0% | |
| !! | CCGACGAGTTTTTGCTATGA+CGG | + | chr2_1:9443198-9443217 | None:intergenic | 45.0% |
| CCGTCATAGCAAAAACTCGT+CGG | - | chr2_1:9443195-9443214 | Msa0193620:CDS | 45.0% | |
| CATCGAGAACAGTGCTATGT+TGG | - | chr2_1:9443294-9443313 | Msa0193620:CDS | 45.0% | |
| GACTGAGATTCTGTCTGAGA+AGG | - | chr2_1:9443339-9443358 | Msa0193620:CDS | 45.0% | |
| AGTCAGAGAGACAGAAGAAG+AGG | - | chr2_1:9443367-9443386 | Msa0193620:CDS | 45.0% | |
| GGTCGAGTAGAAGAGATCAG+TGG | - | chr2_1:9442980-9442999 | Msa0193620:CDS | 50.0% | |
| TCTTGCGCTGAAGGTGAAGA+AGG | + | chr2_1:9443061-9443080 | None:intergenic | 50.0% | |
| TCTTCACCTTCAGCGCAAGA+TGG | - | chr2_1:9443061-9443080 | Msa0193620:CDS | 50.0% | |
| ! | GTTGAAGATCAGCATCGGGA+GGG | + | chr2_1:9443114-9443133 | None:intergenic | 50.0% |
| CCACGTTGAAGATCAGCATC+GGG | + | chr2_1:9443118-9443137 | None:intergenic | 50.0% | |
| TGCTGTGTGGAGACCTCATT+TGG | - | chr2_1:9443396-9443415 | Msa0193620:CDS | 50.0% | |
| TCACCTTCAGCGCAAGATGG+CGG | - | chr2_1:9443064-9443083 | Msa0193620:CDS | 55.0% | |
| ! | CGTTGAAGATCAGCATCGGG+AGG | + | chr2_1:9443115-9443134 | None:intergenic | 55.0% |
| CCCGATGCTGATCTTCAACG+TGG | - | chr2_1:9443115-9443134 | Msa0193620:CDS | 55.0% | |
| ! | GAAGAGGACGTGTTGCTGTG+TGG | - | chr2_1:9443383-9443402 | Msa0193620:CDS | 55.0% |
| CACCTTCAGCGCAAGATGGC+GGG | - | chr2_1:9443065-9443084 | Msa0193620:CDS | 60.0% | |
| ACCTTCAGCGCAAGATGGCG+GGG | - | chr2_1:9443066-9443085 | Msa0193620:CDS | 60.0% | |
| ACCCCGCCATCTTGCGCTGA+AGG | + | chr2_1:9443070-9443089 | None:intergenic | 65.0% | |
| !! | TATCCGGTGGTGGCGGCGTA+GGG | + | chr2_1:9443165-9443184 | None:intergenic | 65.0% |
| !! | TTATCCGGTGGTGGCGGCGT+AGG | + | chr2_1:9443166-9443185 | None:intergenic | 65.0% |
| ! | GCGGCGTAGGGAGAGGCATG+AGG | + | chr2_1:9443153-9443172 | None:intergenic | 70.0% |
| TCTCCCTACGCCGCCACCAC+CGG | - | chr2_1:9443159-9443178 | Msa0193620:CDS | 70.0% | |
| !! | GGTGGTGGCGGCGTAGGGAG+AGG | + | chr2_1:9443160-9443179 | None:intergenic | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 9442899 | 9443453 | 9442899 | ID=Msa0193620;Name=Msa0193620 |
| chr2_1 | mRNA | 9442899 | 9443453 | 9442899 | ID=Msa0193620-mRNA-1;Parent=Msa0193620;Name=Msa0193620-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|184 |
| chr2_1 | exon | 9442899 | 9443453 | 9442899 | ID=Msa0193620-mRNA-1:exon:4343;Parent=Msa0193620-mRNA-1 |
| chr2_1 | CDS | 9442899 | 9443453 | 9442899 | ID=Msa0193620-mRNA-1:cds;Parent=Msa0193620-mRNA-1 |
| Gene Sequence |
| Protein sequence |
