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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1447500 | sp|Q8RWD5|SCD2_ARATH | 42.197 | 346 | 123 | 9 | 1 | 272 | 1 | 343 | 2.50e-48 | 172 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1447500 | A0A1S2Y1V7 | 68.239 | 318 | 45 | 10 | 1 | 272 | 1 | 308 | 3.80e-111 | 340 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0838240 | Msa1447500 | 0.801966 | 7.015434e-49 | -8.615850e-47 |
| Msa1389420 | Msa1447500 | 0.820795 | 5.680102e-53 | -8.615850e-47 |
| Msa1391340 | Msa1447500 | 0.821704 | 3.504514e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1447500 | MtrunA17_Chr3g0131741 | 43.567 | 342 | 116 | 10 | 1 | 272 | 1 | 335 | 9.60e-46 | 162 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1447500 | AT5G13260.1 | 44.848 | 330 | 113 | 7 | 1 | 272 | 1 | 319 | 6.58e-58 | 194 |
| Msa1447500 | AT3G48860.1 | 42.197 | 346 | 123 | 9 | 1 | 272 | 1 | 343 | 6.46e-50 | 172 |
| Msa1447500 | AT3G48860.2 | 42.197 | 346 | 123 | 9 | 1 | 272 | 1 | 343 | 2.54e-49 | 172 |
| Msa1447500 | AT5G23700.2 | 41.433 | 321 | 135 | 9 | 1 | 272 | 1 | 317 | 8.35e-46 | 162 |
| Msa1447500 | AT5G23700.1 | 41.433 | 321 | 135 | 9 | 1 | 272 | 1 | 317 | 1.56e-45 | 161 |
| Msa1447500 | AT5G23700.3 | 41.745 | 321 | 131 | 11 | 1 | 272 | 1 | 314 | 6.90e-45 | 160 |
| Msa1447500 | AT3G48860.3 | 46.667 | 180 | 56 | 3 | 130 | 272 | 13 | 189 | 2.46e-36 | 134 |
| Msa1447500 | AT4G25070.1 | 50.000 | 92 | 46 | 0 | 181 | 272 | 441 | 532 | 6.74e-21 | 92.8 |
| Msa1447500 | AT4G25070.2 | 50.000 | 92 | 46 | 0 | 181 | 272 | 443 | 534 | 6.81e-21 | 92.8 |
| Msa1447500 | AT4G08630.2 | 32.035 | 231 | 111 | 6 | 88 | 272 | 339 | 569 | 4.82e-17 | 81.6 |
Find 169 sgRNAs with CRISPR-Local
Find 1730 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGAAGTTGATCAAAATG+GGG | 0.647952 | tig0031776:-16177 | Msa1447500:three_prime_UTR |
| AAAAGGCCAAGGAGGAGTGC+TGG | 0.500766 | tig0031776:-20921 | Msa1447500:three_prime_UTR |
| AAAGGCCAAGGAGGAGTGCT+GGG | 0.544245 | tig0031776:-20920 | Msa1447500:three_prime_UTR |
| AAATAACTTATAAATTTCAT+TGG | 0.339939 | tig0031776:+27730 | Msa1447500:intergenic |
| AACAAGGGCTTTCGGAGCTG+CGG | 0.556604 | tig0031776:-16238 | Msa1447500:three_prime_UTR |
| AACAATCTCAAATGGAAGAG+GGG | 0.634059 | tig0031776:+20957 | Msa1447500:intergenic |
| AACCTCGTCACGAAGAGTTG+AGG | 0.621673 | tig0031776:+37185 | Msa1447500:intergenic |
| AACTATGCTTTCAGTTGAAA+TGG | 0.296371 | tig0031776:-20649 | Msa1447500:three_prime_UTR |
| AACTCCATCCTTCGAGTCCC+TGG | 0.420750 | tig0031776:+27999 | Msa1447500:intergenic |
| AAGAATCTGACCGCATGAGA+AGG | 0.561668 | tig0031776:+37609 | Msa1447500:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGATTAGAAAAAGGTGAATG+AGG | + | tig0031776:16285-16304 | Msa1447500:intergenic | 30.0% | |
| AATGTATGTTAATGTTCGTC+CGG | - | tig0031776:16335-16354 | Msa1447500:intron | 30.0% | |
| TTGGGCTTAGTATTATGAAT+GGG | + | tig0031776:16438-16457 | Msa1447500:intergenic | 30.0% | |
| TTTGGGCTTAGTATTATGAA+TGG | + | tig0031776:16439-16458 | Msa1447500:intergenic | 30.0% | |
| ATACTAAGCCCAAAGATAAA+AGG | - | tig0031776:16445-16464 | Msa1447500:intron | 30.0% | |
| GATTATTCATTTGTGAAGGA+TGG | + | tig0031776:16532-16551 | Msa1447500:intergenic | 30.0% | |
| TACAGATTTCTGTTTGATAC+CGG | - | tig0031776:16573-16592 | Msa1447500:intron | 30.0% | |
| CTTGTTCAACCAAAAGATTT+AGG | - | tig0031776:16597-16616 | Msa1447500:intron | 30.0% | |
| GGAGCAATAGTATATGTATA+TGG | + | tig0031776:16753-16772 | Msa1447500:intergenic | 30.0% | |
| TATCATTAGCTATGGGAATA+TGG | - | tig0031776:17017-17036 | Msa1447500:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0031776 | gene | 15817 | 38024 | 15817 | ID=Msa1447500;Name=Msa1447500 |
| tig0031776 | mRNA | 15817 | 38024 | 15817 | ID=Msa1447500-mRNA-1;Parent=Msa1447500;Name=Msa1447500-mRNA-1;_AED=0.14;_eAED=0.14;_QI=90|0.92|1|1|0.76|0.71|14|1279|282 |
| tig0031776 | exon | 15817 | 16263 | 15817 | ID=Msa1447500-mRNA-1:exon:15943;Parent=Msa1447500-mRNA-1 |
| tig0031776 | exon | 16718 | 16844 | 16718 | ID=Msa1447500-mRNA-1:exon:15942;Parent=Msa1447500-mRNA-1 |
| tig0031776 | exon | 17126 | 17166 | 17126 | ID=Msa1447500-mRNA-1:exon:15941;Parent=Msa1447500-mRNA-1 |
| tig0031776 | exon | 17268 | 17309 | 17268 | ID=Msa1447500-mRNA-1:exon:15940;Parent=Msa1447500-mRNA-1 |
| tig0031776 | exon | 20307 | 20417 | 20307 | ID=Msa1447500-mRNA-1:exon:15939;Parent=Msa1447500-mRNA-1 |
| tig0031776 | exon | 20459 | 20744 | 20459 | ID=Msa1447500-mRNA-1:exon:15938;Parent=Msa1447500-mRNA-1 |
| tig0031776 | exon | 20914 | 21030 | 20914 | ID=Msa1447500-mRNA-1:exon:15937;Parent=Msa1447500-mRNA-1 |
| tig0031776 | exon | 27638 | 27889 | 27638 | ID=Msa1447500-mRNA-1:exon:15936;Parent=Msa1447500-mRNA-1 |
| tig0031776 | exon | 27963 | 28037 | 27963 | ID=Msa1447500-mRNA-1:exon:15935;Parent=Msa1447500-mRNA-1 |
| tig0031776 | exon | 34055 | 34082 | 34055 | ID=Msa1447500-mRNA-1:exon:15934;Parent=Msa1447500-mRNA-1 |
| tig0031776 | exon | 34165 | 34214 | 34165 | ID=Msa1447500-mRNA-1:exon:15933;Parent=Msa1447500-mRNA-1 |
| tig0031776 | exon | 37188 | 37263 | 37188 | ID=Msa1447500-mRNA-1:exon:15932;Parent=Msa1447500-mRNA-1 |
| tig0031776 | exon | 37375 | 37535 | 37375 | ID=Msa1447500-mRNA-1:exon:15931;Parent=Msa1447500-mRNA-1 |
| tig0031776 | exon | 37620 | 38024 | 37620 | ID=Msa1447500-mRNA-1:exon:15930;Parent=Msa1447500-mRNA-1 |
| tig0031776 | five_prime_UTR | 37935 | 38024 | 37935 | ID=Msa1447500-mRNA-1:five_prime_utr;Parent=Msa1447500-mRNA-1 |
| tig0031776 | CDS | 37620 | 37934 | 37620 | ID=Msa1447500-mRNA-1:cds;Parent=Msa1447500-mRNA-1 |
| tig0031776 | CDS | 37375 | 37535 | 37375 | ID=Msa1447500-mRNA-1:cds;Parent=Msa1447500-mRNA-1 |
| tig0031776 | CDS | 37188 | 37263 | 37188 | ID=Msa1447500-mRNA-1:cds;Parent=Msa1447500-mRNA-1 |
| tig0031776 | CDS | 34165 | 34214 | 34165 | ID=Msa1447500-mRNA-1:cds;Parent=Msa1447500-mRNA-1 |
| tig0031776 | CDS | 34055 | 34082 | 34055 | ID=Msa1447500-mRNA-1:cds;Parent=Msa1447500-mRNA-1 |
| tig0031776 | CDS | 27963 | 28037 | 27963 | ID=Msa1447500-mRNA-1:cds;Parent=Msa1447500-mRNA-1 |
| tig0031776 | CDS | 27746 | 27889 | 27746 | ID=Msa1447500-mRNA-1:cds;Parent=Msa1447500-mRNA-1 |
| tig0031776 | three_prime_UTR | 27638 | 27745 | 27638 | ID=Msa1447500-mRNA-1:three_prime_utr;Parent=Msa1447500-mRNA-1 |
| tig0031776 | three_prime_UTR | 20914 | 21030 | 20914 | ID=Msa1447500-mRNA-1:three_prime_utr;Parent=Msa1447500-mRNA-1 |
| tig0031776 | three_prime_UTR | 20459 | 20744 | 20459 | ID=Msa1447500-mRNA-1:three_prime_utr;Parent=Msa1447500-mRNA-1 |
| tig0031776 | three_prime_UTR | 20307 | 20417 | 20307 | ID=Msa1447500-mRNA-1:three_prime_utr;Parent=Msa1447500-mRNA-1 |
| tig0031776 | three_prime_UTR | 17268 | 17309 | 17268 | ID=Msa1447500-mRNA-1:three_prime_utr;Parent=Msa1447500-mRNA-1 |
| tig0031776 | three_prime_UTR | 17126 | 17166 | 17126 | ID=Msa1447500-mRNA-1:three_prime_utr;Parent=Msa1447500-mRNA-1 |
| tig0031776 | three_prime_UTR | 16718 | 16844 | 16718 | ID=Msa1447500-mRNA-1:three_prime_utr;Parent=Msa1447500-mRNA-1 |
| tig0031776 | three_prime_UTR | 15817 | 16263 | 15817 | ID=Msa1447500-mRNA-1:three_prime_utr;Parent=Msa1447500-mRNA-1 |
| Gene Sequence |
>Msa1447500 ATGGAGCGAAGAGGAACAGAGAGTCCGGTTTCGATCCGGCAGTGGAGTAGTGAATCGGGGAATGTGATATCGTCCCCATCACGACATGCTCGCTCATCTTCCCTCACCGGAATTTCAACCATTAAAAGGACTCAGAATGTTGCTGCCAAAGCTGCTGCTCAACGCCTCGCACAAGTAATGGCTTCCCAGGTTGCCGACAATGAAGATGACGAAGATGACGACGACGATCTAGGATTTCGCTACAGTGCTCCTCCGCCTCTCACTCTCACCAGGAAGTCCGCCACTACTCATACTCACAGATCTCCTTCTCATGCGTTAGCTCGGAACCTTCCTGTAGACGAACCAATGTATGTTAATGTTCGTCCGGCAGTAGCACCTAATAATAATAATAATAAACCACCGCTGAACCAGAGGACCCCAGCTACTGTTCTGCCAATAGACCCTCCCATTCATAATACTAAGCCCAAAGATAAAAGATTTCTGTTTGATACCGGACTTGTTCAACCAAAAGATTTAGGAGACAACCGTGAGGCCTCAACTCTTCGTGACGAGGTTGCTTCCCTTGGAGAAGGAGCATCTTTGGAAGCTAAACTCTTGAGCAGAAAGGAGGCAGCATTGCGTCAAAGAGAGGCCACACTTAAAAGTTCCAGGGACTCGAAGGATGGAGTTGATAAGGAAATCACATCTCTACAGGCTGAAGTTGAGAATGCAAAAGTAGAGACTGGAGCCACAATGAGACAGCTGAATGGGGTTGAATCCGAAGTGAAAACTCTGCGATCAATGACACAGAGAATGATATTAACTCAGAAAGAAATGGTACGTACTTCTGCAGTTTCTGGAATCCAATGA |
| Protein sequence |
>Msa1447500 MERRGTESPVSIRQWSSESGNVISSPSRHARSSSLTGISTIKRTQNVAAKAAAQRLAQVMASQVADNEDDEDDDDDLGFRYSAPPPLTLTRKSATTHTHRSPSHALARNLPVDEPMYVNVRPAVAPNNNNNKPPLNQRTPATVLPIDPPIHNTKPKDKRFLFDTGLVQPKDLGDNREASTLRDEVASLGEGASLEAKLLSRKEAALRQREATLKSSRDSKDGVDKEITSLQAEVENAKVETGATMRQLNGVESEVKTLRSMTQRMILTQKEMVRTSAVSGIQ* |
