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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0485260 | XP_024636561.2 | 94.860 | 214 | 11 | 0 | 1 | 214 | 27 | 240 | 6.93e-139 | 398 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0485260 | A0A396IHZ0 | 94.860 | 214 | 11 | 0 | 1 | 214 | 27 | 240 | 3.31e-139 | 398 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000220 | Msa0485260 | 0.851221 | 1.022397e-60 | -8.615850e-47 |
| Msa0001040 | Msa0485260 | 0.829966 | 3.829706e-55 | -8.615850e-47 |
| Msa0001510 | Msa0485260 | 0.911628 | 4.904930e-83 | -8.615850e-47 |
| Msa0001540 | Msa0485260 | 0.821474 | 3.959958e-53 | -8.615850e-47 |
| Msa0002060 | Msa0485260 | 0.842392 | 2.659761e-58 | -8.615850e-47 |
| Msa0002110 | Msa0485260 | 0.843602 | 1.266794e-58 | -8.615850e-47 |
| Msa0002690 | Msa0485260 | 0.896286 | 4.266734e-76 | -8.615850e-47 |
| Msa0002700 | Msa0485260 | 0.885000 | 1.184892e-71 | -8.615850e-47 |
| Msa0003340 | Msa0485260 | 0.851751 | 7.238611e-61 | -8.615850e-47 |
| Msa0004180 | Msa0485260 | 0.922526 | 8.766460e-89 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0485260 | MtrunA17_Chr4g0063641 | 94.860 | 214 | 11 | 0 | 1 | 214 | 27 | 240 | 6.38e-143 | 398 |
Find 198 sgRNAs with CRISPR-Local
Find 421 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGGATTGATTGTAATTT+TGG | 0.076933 | 3_4:+2850519 | None:intergenic |
| AAACACAAACAAAGCCTGAA+GGG | 0.561088 | 3_4:-2851906 | Msa0485260:CDS |
| AAACATCCGAGAGCACTGCA+TGG | 0.641439 | 3_4:+2851134 | None:intergenic |
| AAATGCCAACTTTGCTCCAG+TGG | 0.542923 | 3_4:-2850201 | Msa0485260:three_prime_UTR |
| AAATTAGGGTTAGGGTTTGA+AGG | 0.397564 | 3_4:-2847676 | Msa0485260:three_prime_UTR |
| AAATTGCTTACAAAGATTAT+AGG | 0.254616 | 3_4:+2851868 | None:intergenic |
| AACAGTGCGGTTTCTGCCAC+TGG | 0.425550 | 3_4:+2850185 | Msa0485270:CDS |
| AACTTCAGAAACTTCATTGC+AGG | 0.317204 | 3_4:+2851212 | None:intergenic |
| AAGAAATCTAACCTTATGAA+CGG | 0.619120 | 3_4:-2848154 | Msa0485260:intron |
| AAGAAATGAATTTGCCCTTC+AGG | 0.307249 | 3_4:+2851892 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AATGGAAGTTACATGCAAAT+TGG | + | chr3_4:2847509-2847528 | None:intergenic | 30.0% | |
| TGTTCAATCCAAATTTCTCT+GGG | - | chr3_4:2847697-2847716 | Msa0485260:three_prime_UTR | 30.0% | |
| GTTAATATTAGTGACGTGAA+CGG | - | chr3_4:2847992-2848011 | Msa0485260:three_prime_UTR | 30.0% | |
| GAATTTCTATGTTGACAGTT+TGG | - | chr3_4:2848067-2848086 | Msa0485260:three_prime_UTR | 30.0% | |
| CAAAGGATCCAACAAAATTA+AGG | + | chr3_4:2848302-2848321 | Msa0485270:intron | 30.0% | |
| CTAGATGAATCAAAATCTTG+AGG | - | chr3_4:2848325-2848344 | Msa0485260:intron | 30.0% | |
| GGAAATGCAAAAAAGACTTA+AGG | + | chr3_4:2848383-2848402 | Msa0485270:intron | 30.0% | |
| TGTTTCTCAGATATCATGAA+GGG | + | chr3_4:2848781-2848800 | Msa0485270:intron | 30.0% | |
| ATATTAGAAGGAGAAAGATG+CGG | + | chr3_4:2848841-2848860 | Msa0485270:intron | 30.0% | |
| AGTGCAGAACTATATAACAT+AGG | + | chr3_4:2848912-2848931 | Msa0485270:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 2847401 | 2853853 | 2847401 | ID=Msa0485260;Name=Msa0485260 |
| chr3_4 | mRNA | 2847401 | 2853853 | 2847401 | ID=Msa0485260-mRNA-1;Parent=Msa0485260;Name=Msa0485260-mRNA-1;_AED=0.13;_eAED=0.13;_QI=54|1|1|1|0.7|0.63|11|1897|214 |
| chr3_4 | exon | 2847401 | 2848161 | 2847401 | ID=Msa0485260-mRNA-1:exon:991;Parent=Msa0485260-mRNA-1 |
| chr3_4 | exon | 2850164 | 2850813 | 2850164 | ID=Msa0485260-mRNA-1:exon:990;Parent=Msa0485260-mRNA-1 |
| chr3_4 | exon | 2850834 | 2851260 | 2850834 | ID=Msa0485260-mRNA-1:exon:989;Parent=Msa0485260-mRNA-1 |
| chr3_4 | exon | 2851600 | 2851733 | 2851600 | ID=Msa0485260-mRNA-1:exon:988;Parent=Msa0485260-mRNA-1 |
| chr3_4 | exon | 2851879 | 2851993 | 2851879 | ID=Msa0485260-mRNA-1:exon:987;Parent=Msa0485260-mRNA-1 |
| chr3_4 | exon | 2852069 | 2852139 | 2852069 | ID=Msa0485260-mRNA-1:exon:986;Parent=Msa0485260-mRNA-1 |
| chr3_4 | exon | 2852574 | 2852612 | 2852574 | ID=Msa0485260-mRNA-1:exon:985;Parent=Msa0485260-mRNA-1 |
| chr3_4 | exon | 2852710 | 2852792 | 2852710 | ID=Msa0485260-mRNA-1:exon:984;Parent=Msa0485260-mRNA-1 |
| chr3_4 | exon | 2853082 | 2853169 | 2853082 | ID=Msa0485260-mRNA-1:exon:983;Parent=Msa0485260-mRNA-1 |
| chr3_4 | exon | 2853487 | 2853614 | 2853487 | ID=Msa0485260-mRNA-1:exon:982;Parent=Msa0485260-mRNA-1 |
| chr3_4 | exon | 2853754 | 2853853 | 2853754 | ID=Msa0485260-mRNA-1:exon:981;Parent=Msa0485260-mRNA-1 |
| chr3_4 | five_prime_UTR | 2853800 | 2853853 | 2853800 | ID=Msa0485260-mRNA-1:five_prime_utr;Parent=Msa0485260-mRNA-1 |
| chr3_4 | CDS | 2853754 | 2853799 | 2853754 | ID=Msa0485260-mRNA-1:cds;Parent=Msa0485260-mRNA-1 |
| chr3_4 | CDS | 2853487 | 2853614 | 2853487 | ID=Msa0485260-mRNA-1:cds;Parent=Msa0485260-mRNA-1 |
| chr3_4 | CDS | 2853082 | 2853169 | 2853082 | ID=Msa0485260-mRNA-1:cds;Parent=Msa0485260-mRNA-1 |
| chr3_4 | CDS | 2852710 | 2852792 | 2852710 | ID=Msa0485260-mRNA-1:cds;Parent=Msa0485260-mRNA-1 |
| chr3_4 | CDS | 2852574 | 2852612 | 2852574 | ID=Msa0485260-mRNA-1:cds;Parent=Msa0485260-mRNA-1 |
| chr3_4 | CDS | 2852069 | 2852139 | 2852069 | ID=Msa0485260-mRNA-1:cds;Parent=Msa0485260-mRNA-1 |
| chr3_4 | CDS | 2851879 | 2851993 | 2851879 | ID=Msa0485260-mRNA-1:cds;Parent=Msa0485260-mRNA-1 |
| chr3_4 | CDS | 2851659 | 2851733 | 2851659 | ID=Msa0485260-mRNA-1:cds;Parent=Msa0485260-mRNA-1 |
| chr3_4 | three_prime_UTR | 2851600 | 2851658 | 2851600 | ID=Msa0485260-mRNA-1:three_prime_utr;Parent=Msa0485260-mRNA-1 |
| chr3_4 | three_prime_UTR | 2850834 | 2851260 | 2850834 | ID=Msa0485260-mRNA-1:three_prime_utr;Parent=Msa0485260-mRNA-1 |
| chr3_4 | three_prime_UTR | 2850164 | 2850813 | 2850164 | ID=Msa0485260-mRNA-1:three_prime_utr;Parent=Msa0485260-mRNA-1 |
| chr3_4 | three_prime_UTR | 2847401 | 2848161 | 2847401 | ID=Msa0485260-mRNA-1:three_prime_utr;Parent=Msa0485260-mRNA-1 |
| Gene Sequence |
>Msa0485260 ATGGCGACCACTTTGTTGTCCGTACACCGTTTTCTTCCCTCCCAAAGGAAAGAAAATGTTGGATACTTGAGTGGTTTCAAGAATTCATTGAGTGAAAGAGTTGTGTTCAATCCAAATTTCTCTGGGAGACAATTTACAGGAAGCCATGGAAACCGTTTTGTTGTTAACTCTCTGTTTGGAATTGGAAGGAAGGCGAAGAAGAGTATTGTCAGAGAGACTGTGATTCCTGAACCAGACTACAGAATTCCAGTTGTACTACTTGGTATAGCTGGTGGGTTAGTTTACACAGATAATCTAGTGCCTGCAGTACCTGTTGGTCTCCTTGGACTGCTTTTGTTGGTCCAGGCAACTAGAGTGAGATTTGTCTTTGATGATGAAGCTCTGGAGGTAAAGATAGGCGATCAGCTCGATGAATCGGGTGAGAATGCTTTTGTCGGTGGAAAAAATCGTTGGAAGTACTCAACCTTTGTTAATTGGGAATTCTGGTGGCCAAACTTCCCTATATTGGTTTACTTCAAGGAAACACAAACAAAGCCTGAAGGGCAAATTCATTTCTTCCCTATAATCTTTAATGGGAAGCAGCTTTATGACATTATGGTGGAAAGAGCTGGCTCTTCAAAAACTAGTGCCCCGAAAGAATCCTAA |
| Protein sequence |
>Msa0485260 MATTLLSVHRFLPSQRKENVGYLSGFKNSLSERVVFNPNFSGRQFTGSHGNRFVVNSLFGIGRKAKKSIVRETVIPEPDYRIPVVLLGIAGGLVYTDNLVPAVPVGLLGLLLLVQATRVRFVFDDEALEVKIGDQLDESGENAFVGGKNRWKYSTFVNWEFWWPNFPILVYFKETQTKPEGQIHFFPIIFNGKQLYDIMVERAGSSKTSAPKES* |
