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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1432760 | XP_003626377.2 | 97.159 | 176 | 5 | 0 | 1 | 176 | 1 | 176 | 5.69e-123 | 354 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1432760 | sp|O34569|YOAA_BACSU | 31.073 | 177 | 110 | 6 | 4 | 172 | 5 | 177 | 1.26e-16 | 76.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1432760 | G7L0S4 | 97.159 | 176 | 5 | 0 | 1 | 176 | 1 | 176 | 2.72e-123 | 354 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1432760 | TR | GNAT |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0027020 | Msa1432760 | -0.808899 | 2.468176e-50 | -8.615850e-47 |
| Msa0087550 | Msa1432760 | 0.811316 | 7.442551e-51 | -8.615850e-47 |
| Msa1350590 | Msa1432760 | -0.807446 | 5.033702e-50 | -8.615850e-47 |
| Msa1388690 | Msa1432760 | 0.927268 | 1.487967e-91 | -8.615850e-47 |
| Msa0134270 | Msa1432760 | 0.805018 | 1.634488e-49 | -8.615850e-47 |
| Msa0167160 | Msa1432760 | -0.801840 | 7.445787e-49 | -8.615850e-47 |
| Msa1271220 | Msa1432760 | -0.801355 | 9.362661e-49 | -8.615850e-47 |
| Msa1279060 | Msa1432760 | 0.817629 | 2.986631e-52 | -8.615850e-47 |
| Msa0372570 | Msa1432760 | -0.801460 | 8.909007e-49 | -8.615850e-47 |
| Msa0474560 | Msa1432760 | 0.807303 | 5.398792e-50 | -8.615850e-47 |
| Msa0476600 | Msa1432760 | -0.801569 | 8.465927e-49 | -8.615850e-47 |
| Msa0512950 | Msa1432760 | -0.813714 | 2.225431e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1432760 | MtrunA17_Chr7g0273661 | 96.795 | 156 | 5 | 0 | 1 | 156 | 1 | 156 | 1.02e-111 | 315 |
| Msa1432760 | MtrunA17_Chr7g0223361 | 57.955 | 176 | 73 | 1 | 1 | 176 | 1 | 175 | 1.42e-70 | 211 |
| Msa1432760 | MtrunA17_Chr7g0223351 | 60.345 | 174 | 67 | 2 | 1 | 174 | 1 | 172 | 1.54e-66 | 201 |
| Msa1432760 | MtrunA17_Chr1g0204971 | 46.784 | 171 | 86 | 2 | 4 | 171 | 19 | 187 | 2.83e-48 | 155 |
| Msa1432760 | MtrunA17_Chr5g0394621 | 43.023 | 172 | 95 | 1 | 3 | 171 | 16 | 187 | 1.86e-47 | 153 |
| Msa1432760 | MtrunA17_Chr1g0204951 | 45.614 | 171 | 88 | 2 | 4 | 171 | 19 | 187 | 4.20e-47 | 152 |
| Msa1432760 | MtrunA17_Chr5g0394631 | 43.636 | 165 | 90 | 1 | 4 | 165 | 17 | 181 | 1.61e-43 | 149 |
| Msa1432760 | MtrunA17_Chr5g0394631 | 44.000 | 175 | 89 | 5 | 4 | 171 | 226 | 398 | 5.36e-40 | 140 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1432760 | AT3G22560.1 | 54.819 | 166 | 73 | 1 | 8 | 171 | 7 | 172 | 3.68e-63 | 193 |
| Msa1432760 | AT2G32030.1 | 47.305 | 167 | 84 | 2 | 8 | 173 | 24 | 187 | 3.20e-57 | 178 |
| Msa1432760 | AT2G32020.1 | 47.126 | 174 | 88 | 2 | 1 | 173 | 12 | 182 | 4.66e-56 | 175 |
Find 42 sgRNAs with CRISPR-Local
Find 50 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGCTGTTGCTTCTAACTATT+GGG | 0.152318 | tig0027169:-55773 | Msa1432760:CDS |
| TTCTGATTTGTTAAGGTTGC+AGG | 0.201561 | tig0027169:-55692 | Msa1432760:CDS |
| ATGCTGTTGCTTCTAACTAT+TGG | 0.211993 | tig0027169:-55774 | Msa1432760:CDS |
| CAAGGCTTCTCAAAGAGTTT+TGG | 0.245031 | tig0027169:-55650 | Msa1432760:CDS |
| AGACATCTTTGATGAAAGTT+AGG | 0.305845 | tig0027169:+55905 | None:intergenic |
| CAAAGGTACCATCATGGATT+TGG | 0.335385 | tig0027169:-55578 | Msa1432760:CDS |
| AATAGATCATAAAGAGTAAC+AGG | 0.344936 | tig0027169:+55501 | None:intergenic |
| CGTTGACGATTTCATGTTAT+GGG | 0.361603 | tig0027169:-55989 | Msa1432760:CDS |
| TTCTAAGAACACCCTCTCTA+AGG | 0.383141 | tig0027169:+55614 | None:intergenic |
| ACGTTGACGATTTCATGTTA+TGG | 0.384226 | tig0027169:-55990 | Msa1432760:CDS |
| TCAACGTCTGTTAGCTTGAA+TGG | 0.418956 | tig0027169:+56006 | None:intergenic |
| GTTTCTGTGTATCCTTGGTC+AGG | 0.429314 | tig0027169:-55826 | Msa1432760:CDS |
| GACGATTTCATGTTATGGGC+AGG | 0.454598 | tig0027169:-55985 | Msa1432760:CDS |
| GACATCTTTGATGAAAGTTA+GGG | 0.457791 | tig0027169:+55906 | None:intergenic |
| CAGGAGACAAAATAATCAAC+AGG | 0.459432 | tig0027169:+55520 | None:intergenic |
| TGGCAAAGGTGGATCTATCT+AGG | 0.472926 | tig0027169:-56041 | Msa1432760:CDS |
| CGATTTCATGTTATGGGCAG+GGG | 0.502678 | tig0027169:-55983 | Msa1432760:CDS |
| GCTTCTAACTATTGGGGTCA+AGG | 0.506483 | tig0027169:-55766 | Msa1432760:CDS |
| TGTCTCAACGACCGTTCCAT+CGG | 0.512882 | tig0027169:-55853 | Msa1432760:CDS |
| ATCGAATGACGCCAAGGGTG+AGG | 0.527528 | tig0027169:+55877 | None:intergenic |
| GCTGTTGCTTCTAACTATTG+GGG | 0.550437 | tig0027169:-55772 | Msa1432760:CDS |
| AGAAAGTATACTTATATCAA+AGG | 0.562044 | tig0027169:-55595 | Msa1432760:CDS |
| CTTCTAACTATTGGGGTCAA+GGG | 0.563961 | tig0027169:-55765 | Msa1432760:CDS |
| ATCCTTGGTCAGGTGATGAT+AGG | 0.566062 | tig0027169:-55816 | Msa1432760:CDS |
| GATGGAAAACTTGCAATTCG+AGG | 0.572925 | tig0027169:-55936 | Msa1432760:CDS |
| TATGACCAACATGGCAAAGG+TGG | 0.575392 | tig0027169:-56052 | None:intergenic |
| ACGATTTCATGTTATGGGCA+GGG | 0.580454 | tig0027169:-55984 | Msa1432760:CDS |
| GATAGGTGCAAAGCTGACAT+AGG | 0.586688 | tig0027169:-55799 | Msa1432760:CDS |
| ATGGAAAACTTGCAATTCGA+GGG | 0.591968 | tig0027169:-55935 | Msa1432760:CDS |
| ATGTCTGCATACCTCACCCT+TGG | 0.593939 | tig0027169:-55888 | Msa1432760:CDS |
| AGACAGATCGAATGACGCCA+AGG | 0.595493 | tig0027169:+55871 | None:intergenic |
| TTATATCAAAGGTACCATCA+TGG | 0.596125 | tig0027169:-55584 | Msa1432760:CDS |
| TCATATGACCAACATGGCAA+AGG | 0.606489 | tig0027169:-56055 | None:intergenic |
| AAAGGCTGGGTTCCTTAGAG+AGG | 0.612674 | tig0027169:-55626 | Msa1432760:CDS |
| ATACACAGAAACAAAACCGA+TGG | 0.615405 | tig0027169:+55837 | None:intergenic |
| AAAGACAGCCAAATCCATGA+TGG | 0.623533 | tig0027169:+55570 | None:intergenic |
| CAGAAACAAAACCGATGGAA+CGG | 0.641063 | tig0027169:+55842 | None:intergenic |
| GACAGATCGAATGACGCCAA+GGG | 0.643672 | tig0027169:+55872 | None:intergenic |
| AAGGCTGGGTTCCTTAGAGA+GGG | 0.646930 | tig0027169:-55625 | Msa1432760:CDS |
| GAGACAAAATAATCAACAGG+AGG | 0.670315 | tig0027169:+55523 | None:intergenic |
| CACCTATCATCACCTGACCA+AGG | 0.677858 | tig0027169:+55814 | None:intergenic |
| ATCTATCTAGGATATCTCTG+AGG | 0.735761 | tig0027169:-56029 | Msa1432760:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATGATTTTTCTGATTTGTTA+AGG | - | tig0027169:55850-55869 | Msa1432760:CDS | 20.0% |
| !!! | AGAAAGTATACTTATATCAA+AGG | - | tig0027169:55954-55973 | Msa1432760:CDS | 20.0% |
| GACATCTTTGATGAAAGTTA+GGG | + | tig0027169:55646-55665 | None:intergenic | 30.0% | |
| AGACATCTTTGATGAAAGTT+AGG | + | tig0027169:55647-55666 | None:intergenic | 30.0% | |
| !!! | AGCAATTTTGATTGCTTTTG+TGG | + | tig0027169:55814-55833 | None:intergenic | 30.0% |
| ! | TTTTACTTACGTGGATAACA+AGG | - | tig0027169:55881-55900 | Msa1432760:CDS | 30.0% |
| !!! | TTCTCAAAGAGTTTTGGAAA+AGG | - | tig0027169:55905-55924 | Msa1432760:CDS | 30.0% |
| !! | TTATATCAAAGGTACCATCA+TGG | - | tig0027169:55965-55984 | Msa1432760:CDS | 30.0% |
| ! | ATCTATCTAGGATATCTCTG+AGG | - | tig0027169:55520-55539 | Msa1432760:CDS | 35.0% |
| ACGTTGACGATTTCATGTTA+TGG | - | tig0027169:55559-55578 | Msa1432760:CDS | 35.0% | |
| CGTTGACGATTTCATGTTAT+GGG | - | tig0027169:55560-55579 | Msa1432760:CDS | 35.0% | |
| AAGTAACCAAAAACATCCGA+TGG | - | tig0027169:55595-55614 | Msa1432760:CDS | 35.0% | |
| ! | AGTTTTCCATCGGATGTTTT+TGG | + | tig0027169:55604-55623 | None:intergenic | 35.0% |
| ! | TCGAATTGCAAGTTTTCCAT+CGG | + | tig0027169:55614-55633 | None:intergenic | 35.0% |
| ATGGAAAACTTGCAATTCGA+GGG | - | tig0027169:55614-55633 | Msa1432760:CDS | 35.0% | |
| ATACACAGAAACAAAACCGA+TGG | + | tig0027169:55715-55734 | None:intergenic | 35.0% | |
| !!! | GTTTTGTTTCTGTGTATCCT+TGG | - | tig0027169:55718-55737 | Msa1432760:CDS | 35.0% |
| ! | ATGCTGTTGCTTCTAACTAT+TGG | - | tig0027169:55775-55794 | Msa1432760:CDS | 35.0% |
| ! | TGCTGTTGCTTCTAACTATT+GGG | - | tig0027169:55776-55795 | Msa1432760:CDS | 35.0% |
| !! | TTCTGATTTGTTAAGGTTGC+AGG | - | tig0027169:55857-55876 | Msa1432760:CDS | 35.0% |
| !!! | AAAGAGTTTTGGAAAAGGCT+GGG | - | tig0027169:55910-55929 | Msa1432760:CDS | 35.0% |
| GAGACAAAATAATCAACAGG+AGG | + | tig0027169:56029-56048 | None:intergenic | 35.0% | |
| CAGGAGACAAAATAATCAAC+AGG | + | tig0027169:56032-56051 | None:intergenic | 35.0% | |
| ! | TCAACGTCTGTTAGCTTGAA+TGG | + | tig0027169:55546-55565 | None:intergenic | 40.0% |
| ACGATTTCATGTTATGGGCA+GGG | - | tig0027169:55565-55584 | Msa1432760:CDS | 40.0% | |
| GATGGAAAACTTGCAATTCG+AGG | - | tig0027169:55613-55632 | Msa1432760:CDS | 40.0% | |
| CAGAAACAAAACCGATGGAA+CGG | + | tig0027169:55710-55729 | None:intergenic | 40.0% | |
| ! | GCTGTTGCTTCTAACTATTG+GGG | - | tig0027169:55777-55796 | Msa1432760:CDS | 40.0% |
| CTTCTAACTATTGGGGTCAA+GGG | - | tig0027169:55784-55803 | Msa1432760:CDS | 40.0% | |
| ! | CAAGGCTTCTCAAAGAGTTT+TGG | - | tig0027169:55899-55918 | Msa1432760:CDS | 40.0% |
| !!! | CAAAGAGTTTTGGAAAAGGC+TGG | - | tig0027169:55909-55928 | Msa1432760:CDS | 40.0% |
| ! | TTCTAAGAACACCCTCTCTA+AGG | + | tig0027169:55938-55957 | None:intergenic | 40.0% |
| !! | CAAAGGTACCATCATGGATT+TGG | - | tig0027169:55971-55990 | Msa1432760:CDS | 40.0% |
| AAAGACAGCCAAATCCATGA+TGG | + | tig0027169:55982-56001 | None:intergenic | 40.0% | |
| TGGCAAAGGTGGATCTATCT+AGG | - | tig0027169:55508-55527 | Msa1432760:CDS | 45.0% | |
| GACGATTTCATGTTATGGGC+AGG | - | tig0027169:55564-55583 | Msa1432760:CDS | 45.0% | |
| CGATTTCATGTTATGGGCAG+GGG | - | tig0027169:55566-55585 | Msa1432760:CDS | 45.0% | |
| GTTTCTGTGTATCCTTGGTC+AGG | - | tig0027169:55723-55742 | Msa1432760:CDS | 45.0% | |
| ATCCTTGGTCAGGTGATGAT+AGG | - | tig0027169:55733-55752 | Msa1432760:CDS | 45.0% | |
| GATAGGTGCAAAGCTGACAT+AGG | - | tig0027169:55750-55769 | Msa1432760:CDS | 45.0% | |
| GCTTCTAACTATTGGGGTCA+AGG | - | tig0027169:55783-55802 | Msa1432760:CDS | 45.0% | |
| ! | GTTGCAGGCTTTTACTTACG+TGG | - | tig0027169:55872-55891 | Msa1432760:CDS | 45.0% |
| ATGTCTGCATACCTCACCCT+TGG | - | tig0027169:55661-55680 | Msa1432760:CDS | 50.0% | |
| GACAGATCGAATGACGCCAA+GGG | + | tig0027169:55680-55699 | None:intergenic | 50.0% | |
| AGACAGATCGAATGACGCCA+AGG | + | tig0027169:55681-55700 | None:intergenic | 50.0% | |
| TGTCTCAACGACCGTTCCAT+CGG | - | tig0027169:55696-55715 | Msa1432760:CDS | 50.0% | |
| CACCTATCATCACCTGACCA+AGG | + | tig0027169:55738-55757 | None:intergenic | 50.0% | |
| AAAGGCTGGGTTCCTTAGAG+AGG | - | tig0027169:55923-55942 | Msa1432760:CDS | 50.0% | |
| AAGGCTGGGTTCCTTAGAGA+GGG | - | tig0027169:55924-55943 | Msa1432760:CDS | 50.0% | |
| ATCGAATGACGCCAAGGGTG+AGG | + | tig0027169:55675-55694 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0027169 | gene | 55507 | 56064 | 55507 | ID=Msa1432760;Name=Msa1432760 |
| tig0027169 | mRNA | 55507 | 56064 | 55507 | ID=Msa1432760-mRNA-1;Parent=Msa1432760;Name=Msa1432760-mRNA-1;_AED=0.05;_eAED=0.05;_QI=0|-1|0|1|-1|1|1|0|185 |
| tig0027169 | exon | 55507 | 56064 | 55507 | ID=Msa1432760-mRNA-1:exon:8255;Parent=Msa1432760-mRNA-1 |
| tig0027169 | CDS | 55507 | 56064 | 55507 | ID=Msa1432760-mRNA-1:cds;Parent=Msa1432760-mRNA-1 |
| Gene Sequence |
| Protein sequence |
