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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1349950 | PNX98707.1 | 83.333 | 36 | 6 | 0 | 1 | 36 | 1 | 36 | 3.15e-11 | 65.1 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1349950 | A0A2K3N6M7 | 83.333 | 36 | 6 | 0 | 1 | 36 | 1 | 36 | 1.50e-11 | 65.1 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1109810 | Msa1349950 | 0.812942 | 3.288554e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1349950 | MtrunA17_Chr7g0239941 | 85.714 | 49 | 5 | 1 | 1 | 49 | 1 | 47 | 1.79e-11 | 55.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 38 sgRNAs with CRISPR-Local
Find 52 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGTGGTGCTGGTGGTATTAT+TGG | 0.196705 | tig0011093:-11618 | Msa1349950:CDS |
| GGTGGTGGTGGTGGAGGTGG+AGG | 0.275682 | tig0011093:-11696 | Msa1349950:CDS |
| CGCGATGGTGGTGGTGGTTA+TGG | 0.284900 | tig0011093:+11664 | Msa1349950:intergenic |
| GCAGGAGGAGGAGGTGGAGC+TGG | 0.350243 | tig0011093:-11561 | Msa1349950:CDS |
| GCTGGTGGTATTATTGGTGG+TGG | 0.356929 | tig0011093:-11612 | Msa1349950:CDS |
| TATGGAAGTGGTGGTGGTGG+TGG | 0.373035 | tig0011093:-11708 | Msa1349950:CDS |
| GGTGGAGCTGGAGGAGGAAT+TGG | 0.377469 | tig0011093:-11549 | Msa1349950:CDS |
| GCATTTGACGGCGGCGGCGG+TGG | 0.383679 | tig0011093:-11585 | Msa1349950:CDS |
| GGAGGAGGTGGAGCTGGAGG+AGG | 0.393762 | tig0011093:-11555 | Msa1349950:CDS |
| GGAGCATTTGACGGCGGCGG+CGG | 0.394801 | tig0011093:-11588 | Msa1349950:CDS |
| GGCGGCGGTGGAGCAGGAGG+AGG | 0.409794 | tig0011093:-11573 | Msa1349950:CDS |
| GGCGGTGGAGCAGGAGGAGG+AGG | 0.414186 | tig0011093:-11570 | Msa1349950:CDS |
| GACGGCGGCGGCGGTGGAGC+AGG | 0.416288 | tig0011093:-11579 | Msa1349950:CDS |
| CTGGTGGTATTATTGGTGGT+GGG | 0.419481 | tig0011093:-11611 | Msa1349950:CDS |
| AGTTTGTTATGCCGAGTAAT+GGG | 0.420854 | tig0011093:-11744 | Msa1349950:CDS |
| ATGGGAGTCCGGCCAGCATA+TGG | 0.424081 | tig0011093:-11726 | Msa1349950:CDS |
| GGTGGAGCAGGAGGAGGAGG+TGG | 0.442728 | tig0011093:-11567 | Msa1349950:CDS |
| GATGGTGGTGGTGGTTATGG+TGG | 0.468577 | tig0011093:+11667 | Msa1349950:intergenic |
| CCAGCATATGGAAGTGGTGG+TGG | 0.473614 | tig0011093:-11714 | Msa1349950:CDS |
| GCATATGGAAGTGGTGGTGG+TGG | 0.474765 | tig0011093:-11711 | Msa1349950:CDS |
| GAGTTTGTTATGCCGAGTAA+TGG | 0.476794 | tig0011093:-11745 | Msa1349950:CDS |
| GGAGGAGGAGGTGGAGCTGG+AGG | 0.492518 | tig0011093:-11558 | Msa1349950:CDS |
| GGTGCTGGTGGTATTATTGG+TGG | 0.508201 | tig0011093:-11615 | Msa1349950:CDS |
| CCACCACCACTTCCATATGC+TGG | 0.514952 | tig0011093:+11714 | Msa1349950:intergenic |
| GGCGGCGGCGGTGGAGCAGG+AGG | 0.518402 | tig0011093:-11576 | Msa1349950:CDS |
| GTCCGGCCAGCATATGGAAG+TGG | 0.520830 | tig0011093:-11720 | Msa1349950:CDS |
| GGTGGTATTATTGGTGGTGG+GGG | 0.529021 | tig0011093:-11609 | Msa1349950:CDS |
| TGGTGGTATTATTGGTGGTG+GGG | 0.530900 | tig0011093:-11610 | Msa1349950:CDS |
| CATCGTGAGCGCGATGGTGG+TGG | 0.532788 | tig0011093:+11655 | Msa1349950:intergenic |
| CGTGAGCGCGATGGTGGTGG+TGG | 0.545666 | tig0011093:+11658 | Msa1349950:intergenic |
| CACCACTTCCATATGCTGGC+CGG | 0.561249 | tig0011093:+11718 | Msa1349950:intergenic |
| ATGGTGGTGGTGGTTATGGT+GGG | 0.565602 | tig0011093:+11668 | Msa1349950:intergenic |
| TATGCCGAGTAATGGGAGTC+CGG | 0.565702 | tig0011093:-11737 | Msa1349950:CDS |
| CTCCATCGTGAGCGCGATGG+TGG | 0.574612 | tig0011093:+11652 | Msa1349950:intergenic |
| CTGGCCGGACTCCCATTACT+CGG | 0.593494 | tig0011093:+11733 | Msa1349950:intergenic |
| CGGCCAGCATATGGAAGTGG+TGG | 0.614087 | tig0011093:-11717 | Msa1349950:CDS |
| CACCACCATCGCGCTCACGA+TGG | 0.622984 | tig0011093:-11654 | Msa1349950:CDS |
| ATTATGATAAATATCACGAA+TGG | 0.627209 | tig0011093:+11801 | Msa1349940:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTATGATAAATATCACGAA+TGG | + | tig0011093:11548-11567 | None:intergenic | 20.0% |
| !! | AGTTTGTTATGCCGAGTAAT+GGG | - | tig0011093:11602-11621 | Msa1349950:CDS | 35.0% |
| !! | GAGTTTGTTATGCCGAGTAA+TGG | - | tig0011093:11601-11620 | Msa1349950:CDS | 40.0% |
| ! | CTCACGATGGAGTAGTTTTT+GGG | - | tig0011093:11705-11724 | Msa1349950:CDS | 40.0% |
| ! | TCACGATGGAGTAGTTTTTG+GGG | - | tig0011093:11706-11725 | Msa1349950:CDS | 40.0% |
| ! | GCTCACGATGGAGTAGTTTT+TGG | - | tig0011093:11704-11723 | Msa1349950:CDS | 45.0% |
| !! | CACGATGGAGTAGTTTTTGG+GGG | - | tig0011093:11707-11726 | Msa1349950:CDS | 45.0% |
| ! | CTGGTGGTATTATTGGTGGT+GGG | - | tig0011093:11735-11754 | Msa1349950:CDS | 45.0% |
| !! | TGGTGGTATTATTGGTGGTG+GGG | - | tig0011093:11736-11755 | Msa1349950:CDS | 45.0% |
| ! | TATGCCGAGTAATGGGAGTC+CGG | - | tig0011093:11609-11628 | Msa1349950:CDS | 50.0% |
| !! | ATGGTGGTGGTGGTTATGGT+GGG | + | tig0011093:11681-11700 | Msa1349950:intergenic | 50.0% |
| !! | GATGGAGTAGTTTTTGGGGG+TGG | - | tig0011093:11710-11729 | Msa1349950:CDS | 50.0% |
| !! | GGTGGTGCTGGTGGTATTAT+TGG | - | tig0011093:11728-11747 | Msa1349950:CDS | 50.0% |
| !! | GGTGCTGGTGGTATTATTGG+TGG | - | tig0011093:11731-11750 | Msa1349950:CDS | 50.0% |
| GCTGGTGGTATTATTGGTGG+TGG | - | tig0011093:11734-11753 | Msa1349950:CDS | 50.0% | |
| !! | GGTGGTATTATTGGTGGTGG+GGG | - | tig0011093:11737-11756 | Msa1349950:CDS | 50.0% |
| CACCACTTCCATATGCTGGC+CGG | + | tig0011093:11631-11650 | Msa1349950:intergenic | 55.0% | |
| CCACCACCACTTCCATATGC+TGG | + | tig0011093:11635-11654 | Msa1349950:intergenic | 55.0% | |
| CCAGCATATGGAAGTGGTGG+TGG | - | tig0011093:11632-11651 | Msa1349950:CDS | 55.0% | |
| !! | GCATATGGAAGTGGTGGTGG+TGG | - | tig0011093:11635-11654 | Msa1349950:CDS | 55.0% |
| !! | TATGGAAGTGGTGGTGGTGG+TGG | - | tig0011093:11638-11657 | Msa1349950:CDS | 55.0% |
| !! | GATGGTGGTGGTGGTTATGG+TGG | + | tig0011093:11682-11701 | Msa1349950:intergenic | 55.0% |
| !! | GTAGTTTTTGGGGGTGGTGC+TGG | - | tig0011093:11716-11735 | Msa1349950:CDS | 55.0% |
| CTGGCCGGACTCCCATTACT+CGG | + | tig0011093:11616-11635 | Msa1349950:intergenic | 60.0% | |
| ATGGGAGTCCGGCCAGCATA+TGG | - | tig0011093:11620-11639 | Msa1349950:CDS | 60.0% | |
| GTCCGGCCAGCATATGGAAG+TGG | - | tig0011093:11626-11645 | Msa1349950:CDS | 60.0% | |
| CGGCCAGCATATGGAAGTGG+TGG | - | tig0011093:11629-11648 | Msa1349950:CDS | 60.0% | |
| !! | CGCGATGGTGGTGGTGGTTA+TGG | + | tig0011093:11685-11704 | Msa1349950:intergenic | 60.0% |
| CTACTCCATCGTGAGCGCGA+TGG | + | tig0011093:11700-11719 | Msa1349950:intergenic | 60.0% | |
| !! | GTTTTTGGGGGTGGTGCTGG+TGG | - | tig0011093:11719-11738 | Msa1349950:CDS | 60.0% |
| !! | GGTGGTGGGGGAGCATTTGA+CGG | - | tig0011093:11749-11768 | Msa1349950:CDS | 60.0% |
| GGTGGAGCTGGAGGAGGAAT+TGG | - | tig0011093:11797-11816 | Msa1349950:CDS | 60.0% | |
| !! | GGAAGTGGTGGTGGTGGTGG+TGG | - | tig0011093:11641-11660 | Msa1349950:CDS | 65.0% |
| !! | AGTGGTGGTGGTGGTGGTGG+AGG | - | tig0011093:11644-11663 | Msa1349950:CDS | 65.0% |
| ! | CATCGTGAGCGCGATGGTGG+TGG | + | tig0011093:11694-11713 | Msa1349950:intergenic | 65.0% |
| CACCACCATCGCGCTCACGA+TGG | - | tig0011093:11692-11711 | Msa1349950:CDS | 65.0% | |
| CTCCATCGTGAGCGCGATGG+TGG | + | tig0011093:11697-11716 | Msa1349950:intergenic | 65.0% | |
| !! | GGTGGGGGAGCATTTGACGG+CGG | - | tig0011093:11752-11771 | Msa1349950:CDS | 65.0% |
| !! | GGTGGTGGTGGTGGTGGAGG+TGG | - | tig0011093:11647-11666 | Msa1349950:CDS | 70.0% |
| !! | GGTGGTGGTGGTGGAGGTGG+AGG | - | tig0011093:11650-11669 | Msa1349950:CDS | 70.0% |
| !! | CGTGAGCGCGATGGTGGTGG+TGG | + | tig0011093:11691-11710 | Msa1349950:intergenic | 70.0% |
| !! | GGGGGAGCATTTGACGGCGG+CGG | - | tig0011093:11755-11774 | Msa1349950:CDS | 70.0% |
| ! | GGAGCATTTGACGGCGGCGG+CGG | - | tig0011093:11758-11777 | Msa1349950:CDS | 70.0% |
| GGTGGAGCAGGAGGAGGAGG+TGG | - | tig0011093:11779-11798 | Msa1349950:CDS | 70.0% | |
| GCAGGAGGAGGAGGTGGAGC+TGG | - | tig0011093:11785-11804 | Msa1349950:CDS | 70.0% | |
| GGAGGAGGAGGTGGAGCTGG+AGG | - | tig0011093:11788-11807 | Msa1349950:CDS | 70.0% | |
| GGAGGAGGTGGAGCTGGAGG+AGG | - | tig0011093:11791-11810 | Msa1349950:CDS | 70.0% | |
| GCATTTGACGGCGGCGGCGG+TGG | - | tig0011093:11761-11780 | Msa1349950:CDS | 75.0% | |
| GGCGGTGGAGCAGGAGGAGG+AGG | - | tig0011093:11776-11795 | Msa1349950:CDS | 75.0% | |
| ! | GGCGGCGGTGGAGCAGGAGG+AGG | - | tig0011093:11773-11792 | Msa1349950:CDS | 80.0% |
| ! | GACGGCGGCGGCGGTGGAGC+AGG | - | tig0011093:11767-11786 | Msa1349950:CDS | 85.0% |
| ! | GGCGGCGGCGGTGGAGCAGG+AGG | - | tig0011093:11770-11789 | Msa1349950:CDS | 85.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0011093 | gene | 11539 | 11829 | 11539 | ID=Msa1349950;Name=Msa1349950 |
| tig0011093 | mRNA | 11539 | 11829 | 11539 | ID=Msa1349950-mRNA-1;Parent=Msa1349950;Name=Msa1349950-mRNA-1;_AED=0.25;_eAED=0.27;_QI=0|-1|0|1|-1|1|1|0|96 |
| tig0011093 | exon | 11539 | 11829 | 11539 | ID=Msa1349950-mRNA-1:exon:7185;Parent=Msa1349950-mRNA-1 |
| tig0011093 | CDS | 11539 | 11829 | 11539 | ID=Msa1349950-mRNA-1:cds;Parent=Msa1349950-mRNA-1 |
| Gene Sequence |
| Protein sequence |
