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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1043810 | XP_003589210.1 | 92.632 | 95 | 7 | 0 | 1 | 95 | 1 | 95 | 1.06e-57 | 182 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1043810 | G7I3M6 | 92.632 | 95 | 7 | 0 | 1 | 95 | 1 | 95 | 5.07e-58 | 182 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0026470 | Msa1043810 | 0.877516 | 5.902678e-69 | -8.615850e-47 |
| Msa0145280 | Msa1043810 | 0.872863 | 2.292848e-67 | -8.615850e-47 |
| Msa0165540 | Msa1043810 | 0.810920 | 9.066023e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1043810 | MtrunA17_Chr1g0153601 | 92.632 | 95 | 7 | 0 | 1 | 95 | 1 | 95 | 9.77e-62 | 182 |
| Msa1043810 | MtrunA17_Chr1g0153581 | 90.526 | 95 | 9 | 0 | 1 | 95 | 1 | 95 | 6.50e-59 | 175 |
| Msa1043810 | MtrunA17_Chr1g0153561 | 84.211 | 95 | 15 | 0 | 1 | 95 | 1 | 95 | 3.42e-55 | 166 |
| Msa1043810 | MtrunA17_Chr1g0153611 | 67.021 | 94 | 30 | 1 | 1 | 94 | 1 | 93 | 6.18e-40 | 127 |
| Msa1043810 | MtrunA17_Chr1g0153551 | 48.387 | 93 | 43 | 1 | 1 | 88 | 1 | 93 | 1.90e-20 | 78.6 |
| Msa1043810 | MtrunA17_Chr1g0153541 | 41.748 | 103 | 52 | 1 | 1 | 95 | 1 | 103 | 8.14e-18 | 71.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 27 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TATCTCCTTAGCCGTGGTTT+TGG | 0.295002 | 7_2:+1962167 | Msa1043810:CDS |
| TGTTCCTTTCGAAGTTGATT+TGG | 0.344741 | 7_2:-1961959 | None:intergenic |
| AGCTTTCATGAAACAAAATA+TGG | 0.357016 | 7_2:-1962090 | None:intergenic |
| ACTGATTTGTCCGTCTTTGT+TGG | 0.364609 | 7_2:-1962117 | None:intergenic |
| CAAAATATGGCTCTCCATCC+AGG | 0.411421 | 7_2:-1962077 | None:intergenic |
| TGGTCCATAGGCACCGGCTT+TGG | 0.436522 | 7_2:-1961939 | None:intergenic |
| CAAACCAAAGCCGGTGCCTA+TGG | 0.455404 | 7_2:+1961935 | Msa1043810:CDS |
| AATGCCTGTGTTTATCCCTT+CGG | 0.462697 | 7_2:+1961911 | None:intergenic |
| ACCGGCTTTGGTTTGTCCGA+AGG | 0.472684 | 7_2:-1961927 | None:intergenic |
| CCGGCTTTGGTTTGTCCGAA+GGG | 0.495436 | 7_2:-1961926 | None:intergenic |
| TAGGTTCTTACTACCCTGGA+TGG | 0.528156 | 7_2:+1962063 | Msa1043810:CDS |
| TCGAAGTTGATTTGGTCCAT+AGG | 0.530320 | 7_2:-1961951 | None:intergenic |
| GATTTAGGTTCTTACTACCC+TGG | 0.543944 | 7_2:+1962059 | Msa1043810:CDS |
| TCTTGCCAAAACCACGGCTA+AGG | 0.544398 | 7_2:-1962172 | None:intergenic |
| CCCTTCGGACAAACCAAAGC+CGG | 0.550311 | 7_2:+1961926 | Msa1043810:CDS |
| TTGATTTGGTCCATAGGCAC+CGG | 0.550954 | 7_2:-1961945 | None:intergenic |
| AAAATATGGCTCTCCATCCA+GGG | 0.594858 | 7_2:-1962076 | None:intergenic |
| TGGACCAAATCAACTTCGAA+AGG | 0.599482 | 7_2:+1961955 | Msa1043810:CDS |
| GTTGATTATCTCCTTAGCCG+TGG | 0.610542 | 7_2:+1962161 | Msa1043810:CDS |
| AAAGCTGATGCCAACAAAGA+CGG | 0.620958 | 7_2:+1962107 | Msa1043810:CDS |
| ATTAGTTCTTGCCAAAACCA+CGG | 0.621014 | 7_2:-1962178 | None:intergenic |
| AAGGCAGATATCAATAAAGA+CGG | 0.625573 | 7_2:+1961999 | Msa1043810:CDS |
| AACAAAGACGGACAAATCAG+TGG | 0.638335 | 7_2:+1962119 | Msa1043810:CDS |
| TTGTCCGAAGGGATAAACAC+AGG | 0.660183 | 7_2:-1961915 | None:intergenic |
| AGACGGACAAATCAGTGGCG+AGG | 0.670203 | 7_2:+1962124 | Msa1043810:CDS |
| TAAAGACGGTCGTTACACAA+AGG | 0.678917 | 7_2:+1962013 | Msa1043810:CDS |
| AGACGGTCGTTACACAAAGG+AGG | 0.680084 | 7_2:+1962016 | Msa1043810:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAGGAACATTATCGAAAAAT+TGG | + | chr7_2:1961974-1961993 | Msa1043810:CDS | 25.0% |
| ! | CATTATCGAAAAATTGGAAA+AGG | + | chr7_2:1961980-1961999 | Msa1043810:CDS | 25.0% |
| !!! | AAAAAAGCTCTAAAGGATTT+AGG | + | chr7_2:1962044-1962063 | Msa1043810:CDS | 25.0% |
| ! | AGCTTTCATGAAACAAAATA+TGG | - | chr7_2:1962093-1962112 | None:intergenic | 25.0% |
| AAGGCAGATATCAATAAAGA+CGG | + | chr7_2:1961999-1962018 | Msa1043810:CDS | 30.0% | |
| ! | TGTTCCTTTCGAAGTTGATT+TGG | - | chr7_2:1961962-1961981 | None:intergenic | 35.0% |
| ! | GGAACTCAAAAAAGCTCTAA+AGG | + | chr7_2:1962037-1962056 | Msa1043810:CDS | 35.0% |
| !! | TCGAAGTTGATTTGGTCCAT+AGG | - | chr7_2:1961954-1961973 | None:intergenic | 40.0% |
| TGGACCAAATCAACTTCGAA+AGG | + | chr7_2:1961955-1961974 | Msa1043810:CDS | 40.0% | |
| TAAAGACGGTCGTTACACAA+AGG | + | chr7_2:1962013-1962032 | Msa1043810:CDS | 40.0% | |
| ! | GATTTAGGTTCTTACTACCC+TGG | + | chr7_2:1962059-1962078 | Msa1043810:CDS | 40.0% |
| AAAATATGGCTCTCCATCCA+GGG | - | chr7_2:1962079-1962098 | None:intergenic | 40.0% | |
| AAAGCTGATGCCAACAAAGA+CGG | + | chr7_2:1962107-1962126 | Msa1043810:CDS | 40.0% | |
| !! | ACTGATTTGTCCGTCTTTGT+TGG | - | chr7_2:1962120-1962139 | None:intergenic | 40.0% |
| AACAAAGACGGACAAATCAG+TGG | + | chr7_2:1962119-1962138 | Msa1043810:CDS | 40.0% | |
| TTGTCCGAAGGGATAAACAC+AGG | - | chr7_2:1961918-1961937 | None:intergenic | 45.0% | |
| !! | TTGATTTGGTCCATAGGCAC+CGG | - | chr7_2:1961948-1961967 | None:intergenic | 45.0% |
| TAGGTTCTTACTACCCTGGA+TGG | + | chr7_2:1962063-1962082 | Msa1043810:CDS | 45.0% | |
| CAAAATATGGCTCTCCATCC+AGG | - | chr7_2:1962080-1962099 | None:intergenic | 45.0% | |
| GTTGATTATCTCCTTAGCCG+TGG | + | chr7_2:1962161-1962180 | Msa1043810:CDS | 45.0% | |
| ! | TATCTCCTTAGCCGTGGTTT+TGG | + | chr7_2:1962167-1962186 | Msa1043810:CDS | 45.0% |
| AGACGGTCGTTACACAAAGG+AGG | + | chr7_2:1962016-1962035 | Msa1043810:CDS | 50.0% | |
| TCTTGCCAAAACCACGGCTA+AGG | - | chr7_2:1962175-1962194 | None:intergenic | 50.0% | |
| !! | CCGGCTTTGGTTTGTCCGAA+GGG | - | chr7_2:1961929-1961948 | None:intergenic | 55.0% |
| CCCTTCGGACAAACCAAAGC+CGG | + | chr7_2:1961926-1961945 | Msa1043810:CDS | 55.0% | |
| !! | ACCGGCTTTGGTTTGTCCGA+AGG | - | chr7_2:1961930-1961949 | None:intergenic | 55.0% |
| CAAACCAAAGCCGGTGCCTA+TGG | + | chr7_2:1961935-1961954 | Msa1043810:CDS | 55.0% | |
| AGACGGACAAATCAGTGGCG+AGG | + | chr7_2:1962124-1962143 | Msa1043810:CDS | 55.0% | |
| !! | TGGTCCATAGGCACCGGCTT+TGG | - | chr7_2:1961942-1961961 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 1961912 | 1962199 | 1961912 | ID=Msa1043810;Name=Msa1043810 |
| chr7_2 | mRNA | 1961912 | 1962199 | 1961912 | ID=Msa1043810-mRNA-1;Parent=Msa1043810;Name=Msa1043810-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|95 |
| chr7_2 | exon | 1961912 | 1962199 | 1961912 | ID=Msa1043810-mRNA-1:exon:398;Parent=Msa1043810-mRNA-1 |
| chr7_2 | CDS | 1961912 | 1962199 | 1961912 | ID=Msa1043810-mRNA-1:cds;Parent=Msa1043810-mRNA-1 |
| Gene Sequence |
| Protein sequence |
