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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1277930 | sp|F4HS99|REC1_ARATH | 62.185 | 357 | 114 | 6 | 5 | 350 | 193 | 539 | 9.95e-141 | 441 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1277930 | A0A396GGG4 | 95.787 | 356 | 7 | 1 | 5 | 352 | 184 | 539 | 0.0 | 710 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000220 | Msa1277930 | 0.806349 | 8.589103e-50 | -8.615850e-47 |
| Msa0000610 | Msa1277930 | 0.834579 | 2.762246e-56 | -8.615850e-47 |
| Msa0001510 | Msa1277930 | 0.862066 | 6.594510e-64 | -8.615850e-47 |
| Msa0002110 | Msa1277930 | 0.822968 | 1.782979e-53 | -8.615850e-47 |
| Msa0002690 | Msa1277930 | 0.860524 | 1.945349e-63 | -8.615850e-47 |
| Msa0002700 | Msa1277930 | 0.859762 | 3.304778e-63 | -8.615850e-47 |
| Msa0003340 | Msa1277930 | 0.847104 | 1.427699e-59 | -8.615850e-47 |
| Msa0004180 | Msa1277930 | 0.827408 | 1.590559e-54 | -8.615850e-47 |
| Msa0004340 | Msa1277930 | 0.801431 | 9.033692e-49 | -8.615850e-47 |
| Msa0005190 | Msa1277930 | 0.811591 | 6.484269e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1277930 | MtrunA17_Chr8g0346991 | 95.787 | 356 | 7 | 1 | 5 | 352 | 184 | 539 | 0.0 | 710 |
| Msa1277930 | MtrunA17_Chr2g0305491 | 46.629 | 356 | 181 | 2 | 7 | 354 | 173 | 527 | 3.60e-99 | 321 |
| Msa1277930 | MtrunA17_Chr4g0003101 | 47.953 | 342 | 154 | 5 | 15 | 343 | 216 | 546 | 2.90e-82 | 273 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1277930 | AT1G01320.3 | 62.185 | 357 | 114 | 6 | 5 | 350 | 193 | 539 | 7.95e-142 | 441 |
| Msa1277930 | AT1G01320.2 | 62.185 | 357 | 114 | 6 | 5 | 350 | 193 | 539 | 8.56e-142 | 441 |
| Msa1277930 | AT1G01320.1 | 62.185 | 357 | 114 | 6 | 5 | 350 | 193 | 539 | 1.01e-141 | 441 |
| Msa1277930 | AT4G28080.1 | 52.339 | 342 | 147 | 5 | 20 | 350 | 233 | 569 | 2.02e-100 | 325 |
| Msa1277930 | AT1G15290.1 | 49.691 | 324 | 138 | 9 | 2 | 310 | 178 | 491 | 5.61e-79 | 264 |
| Msa1277930 | AT1G15290.2 | 45.879 | 364 | 171 | 10 | 2 | 350 | 178 | 530 | 5.90e-79 | 263 |
Find 384 sgRNAs with CRISPR-Local
Find 770 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGATAAGAAACCATCTT+TGG | 0.349490 | 8_3:+13834448 | Msa1277930:three_prime_UTR |
| AAAATCTGATATTGTCAGCT+TGG | 0.473732 | 8_3:+13836484 | Msa1277930:three_prime_UTR |
| AAAATGGCTTCATCAATAGC+CGG | 0.607159 | 8_3:+13835547 | Msa1277930:three_prime_UTR |
| AAAATTGGTTGTTCCGGATC+AGG | 0.380417 | 8_3:-13841001 | None:intergenic |
| AAACAACTTTGCAAATTCTG+CGG | 0.596589 | 8_3:+13838510 | Msa1277930:three_prime_UTR |
| AAAGAAAACTTATTGGCCCA+AGG | 0.601243 | 8_3:-13833172 | None:intergenic |
| AAATGAAGGTTGAGGGTCTT+GGG | 0.405637 | 8_3:+13834486 | Msa1277930:three_prime_UTR |
| AAATGAGATTTCTGTTGGTC+AGG | 0.404167 | 8_3:+13841561 | Msa1277930:three_prime_UTR |
| AAATGTGGAGGAGATATTGG+AGG | 0.556462 | 8_3:+13830865 | Msa1277930:CDS |
| AACAACTTTGCAAATTCTGC+GGG | 0.495768 | 8_3:+13838511 | Msa1277930:three_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GTCCAAAAAATCACATTTAG+AGG | - | chr8_3:13831173-13831192 | None:intergenic | 30.0% | |
| ATAAGCATGTTTGGCAAAAA+TGG | - | chr8_3:13832151-13832170 | None:intergenic | 30.0% | |
| TTCAAACATTAAAGCAACAC+AGG | - | chr8_3:13832426-13832445 | None:intergenic | 30.0% | |
| AGAAGCAGAAAACATGTTAA+TGG | + | chr8_3:13832911-13832930 | Msa1277930:intron | 30.0% | |
| AGAGTATGATTTGATTCCTT+GGG | + | chr8_3:13833156-13833175 | Msa1277930:CDS | 30.0% | |
| GTTGTTTACGTAAGATATTG+TGG | + | chr8_3:13833654-13833673 | Msa1277930:CDS | 30.0% | |
| GTATAATGCAGATAACAGAA+GGG | - | chr8_3:13833809-13833828 | None:intergenic | 30.0% | |
| TGTATAATGCAGATAACAGA+AGG | - | chr8_3:13833810-13833829 | None:intergenic | 30.0% | |
| TATCCAGATCCAATGATAAT+AGG | + | chr8_3:13834170-13834189 | Msa1277930:intron | 30.0% | |
| ATCCAGATCCAATGATAATA+GGG | + | chr8_3:13834171-13834190 | Msa1277930:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 13830833 | 13843704 | 13830833 | ID=Msa1277930;Name=Msa1277930 |
| chr8_3 | mRNA | 13830833 | 13843704 | 13830833 | ID=Msa1277930-mRNA-1;Parent=Msa1277930;Name=Msa1277930-mRNA-1;_AED=0.03;_eAED=0.03;_QI=0|0.94|0.85|1|0.84|0.7|20|4493|354 |
| chr8_3 | exon | 13830833 | 13830910 | 13830833 | ID=Msa1277930-mRNA-1:exon:5397;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13832194 | 13832325 | 13832194 | ID=Msa1277930-mRNA-1:exon:5398;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13832802 | 13832843 | 13832802 | ID=Msa1277930-mRNA-1:exon:5399;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13833016 | 13833269 | 13833016 | ID=Msa1277930-mRNA-1:exon:5400;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13833294 | 13833537 | 13833294 | ID=Msa1277930-mRNA-1:exon:5401;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13833636 | 13833796 | 13833636 | ID=Msa1277930-mRNA-1:exon:5402;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13834221 | 13834735 | 13834221 | ID=Msa1277930-mRNA-1:exon:5403;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13834836 | 13834898 | 13834836 | ID=Msa1277930-mRNA-1:exon:5404;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13834994 | 13835095 | 13834994 | ID=Msa1277930-mRNA-1:exon:5405;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13835433 | 13835747 | 13835433 | ID=Msa1277930-mRNA-1:exon:5406;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13836428 | 13836520 | 13836428 | ID=Msa1277930-mRNA-1:exon:5407;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13836617 | 13836718 | 13836617 | ID=Msa1277930-mRNA-1:exon:5408;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13836838 | 13836942 | 13836838 | ID=Msa1277930-mRNA-1:exon:5409;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13837249 | 13837382 | 13837249 | ID=Msa1277930-mRNA-1:exon:5410;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13837702 | 13837885 | 13837702 | ID=Msa1277930-mRNA-1:exon:5411;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13838434 | 13838565 | 13838434 | ID=Msa1277930-mRNA-1:exon:5412;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13838910 | 13839022 | 13838910 | ID=Msa1277930-mRNA-1:exon:5413;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13839704 | 13839782 | 13839704 | ID=Msa1277930-mRNA-1:exon:5414;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13840851 | 13843107 | 13840851 | ID=Msa1277930-mRNA-1:exon:5415;Parent=Msa1277930-mRNA-1 |
| chr8_3 | exon | 13843252 | 13843704 | 13843252 | ID=Msa1277930-mRNA-1:exon:5416;Parent=Msa1277930-mRNA-1 |
| chr8_3 | CDS | 13830833 | 13830910 | 13830833 | ID=Msa1277930-mRNA-1:cds;Parent=Msa1277930-mRNA-1 |
| chr8_3 | CDS | 13832194 | 13832325 | 13832194 | ID=Msa1277930-mRNA-1:cds;Parent=Msa1277930-mRNA-1 |
| chr8_3 | CDS | 13832802 | 13832843 | 13832802 | ID=Msa1277930-mRNA-1:cds;Parent=Msa1277930-mRNA-1 |
| chr8_3 | CDS | 13833016 | 13833269 | 13833016 | ID=Msa1277930-mRNA-1:cds;Parent=Msa1277930-mRNA-1 |
| chr8_3 | CDS | 13833294 | 13833537 | 13833294 | ID=Msa1277930-mRNA-1:cds;Parent=Msa1277930-mRNA-1 |
| chr8_3 | CDS | 13833636 | 13833796 | 13833636 | ID=Msa1277930-mRNA-1:cds;Parent=Msa1277930-mRNA-1 |
| chr8_3 | CDS | 13834221 | 13834374 | 13834221 | ID=Msa1277930-mRNA-1:cds;Parent=Msa1277930-mRNA-1 |
| chr8_3 | three_prime_UTR | 13834375 | 13834735 | 13834375 | ID=Msa1277930-mRNA-1:three_prime_utr;Parent=Msa1277930-mRNA-1 |
| chr8_3 | three_prime_UTR | 13834836 | 13834898 | 13834836 | ID=Msa1277930-mRNA-1:three_prime_utr;Parent=Msa1277930-mRNA-1 |
| chr8_3 | three_prime_UTR | 13834994 | 13835095 | 13834994 | ID=Msa1277930-mRNA-1:three_prime_utr;Parent=Msa1277930-mRNA-1 |
| chr8_3 | three_prime_UTR | 13835433 | 13835747 | 13835433 | ID=Msa1277930-mRNA-1:three_prime_utr;Parent=Msa1277930-mRNA-1 |
| chr8_3 | three_prime_UTR | 13836428 | 13836520 | 13836428 | ID=Msa1277930-mRNA-1:three_prime_utr;Parent=Msa1277930-mRNA-1 |
| chr8_3 | three_prime_UTR | 13836617 | 13836718 | 13836617 | ID=Msa1277930-mRNA-1:three_prime_utr;Parent=Msa1277930-mRNA-1 |
| chr8_3 | three_prime_UTR | 13836838 | 13836942 | 13836838 | ID=Msa1277930-mRNA-1:three_prime_utr;Parent=Msa1277930-mRNA-1 |
| chr8_3 | three_prime_UTR | 13837249 | 13837382 | 13837249 | ID=Msa1277930-mRNA-1:three_prime_utr;Parent=Msa1277930-mRNA-1 |
| chr8_3 | three_prime_UTR | 13837702 | 13837885 | 13837702 | ID=Msa1277930-mRNA-1:three_prime_utr;Parent=Msa1277930-mRNA-1 |
| chr8_3 | three_prime_UTR | 13838434 | 13838565 | 13838434 | ID=Msa1277930-mRNA-1:three_prime_utr;Parent=Msa1277930-mRNA-1 |
| chr8_3 | three_prime_UTR | 13838910 | 13839022 | 13838910 | ID=Msa1277930-mRNA-1:three_prime_utr;Parent=Msa1277930-mRNA-1 |
| chr8_3 | three_prime_UTR | 13839704 | 13839782 | 13839704 | ID=Msa1277930-mRNA-1:three_prime_utr;Parent=Msa1277930-mRNA-1 |
| chr8_3 | three_prime_UTR | 13840851 | 13843107 | 13840851 | ID=Msa1277930-mRNA-1:three_prime_utr;Parent=Msa1277930-mRNA-1 |
| chr8_3 | three_prime_UTR | 13843252 | 13843704 | 13843252 | ID=Msa1277930-mRNA-1:three_prime_utr;Parent=Msa1277930-mRNA-1 |
| Gene Sequence |
>Msa1277930 ATGATTGTAGATGTGAAGAAAGCTTCGAAGAGAAATGTGGAGGAGATATTGGAGGAGGATCATCTCTTCTCGCTCGATGTGAAGGTTTGCAATGGGAAAGTGGTGCACGTTGAGGCTTGCAGAAAGGGGTTTTACAGTGTTGGGAAGCAGAGGATTCTGTGTCATAATCTTGTTGATTTGCTGAGACAGATTAGCAGAGCTTTTGACAATGCGTACGATGATCTCTTGAAGGCATTTTCAGAACGTAACAAGTTTGGAAATCTCCCATATGGCTTCAGATCGAACACTTGGCTTGTTCCTCCTATTGCAGCACAATCACCATCATTTTTTCCTCCTCTTCCCGTGGAGGATGAAAATTGGGGAGGAAATGGTGGTGGTCTAGGACGAGACGGAGAGTATGATTTGATTCCTTGGGCCAATAAGTTTTCTTTTATTGCATCTATGCCCTGCAAGACAGCAGAAGAAAGGCAAGGCCGTGATAGAAAAGCATTTCTTCTGCACAGCCTAGCAATTAGGGCTGTTAAACATGTTTTGGAAGATCCCAGTTTTAACTGCTCAGCAGCAGAAAATGATATTTACAGTGAGAGAGTAGGTGACTTGAGCGTTAGAGTCTTGAAAGACGGTTCTGTCGCAAGCTGTAAGATTGATTCCAAAATTGATGGAGTTGAAGCTACAGGAGTAAATCAAAAGGATCTAGTCGAACGGAATTTACTGAAAGGGATCACTGCAGATGAAAATACTGCTGCCCACGATATTACCACTTTAGGTGTTGTTTACGTAAGATATTGTGGTTATGTGGTTGTTGTGAAAGTTGAAGGTGGAGCTAATGACAATGCCAATTCTTCATTTCATCAAAATAATGAAGTGTTTGATCAGCCAGAGGGTGGTGCCAACGCACTAAATATTAACAGTTTAAGATTTCGTCTTCACAGCACATCCCTACCAGAGAACAATAAACAGATGAACGAGATACAAATGTTTGAGAGTGAAGAGCTTGGTGGTACTGATGCTTTTGTGGAAAAGCTGATTAAAAAAGCCTTGCTAAGCTTGAGGAAGAGGAACTAA |
| Protein sequence |
>Msa1277930 MIVDVKKASKRNVEEILEEDHLFSLDVKVCNGKVVHVEACRKGFYSVGKQRILCHNLVDLLRQISRAFDNAYDDLLKAFSERNKFGNLPYGFRSNTWLVPPIAAQSPSFFPPLPVEDENWGGNGGGLGRDGEYDLIPWANKFSFIASMPCKTAEERQGRDRKAFLLHSLAIRAVKHVLEDPSFNCSAAENDIYSERVGDLSVRVLKDGSVASCKIDSKIDGVEATGVNQKDLVERNLLKGITADENTAAHDITTLGVVYVRYCGYVVVVKVEGGANDNANSSFHQNNEVFDQPEGGANALNINSLRFRLHSTSLPENNKQMNEIQMFESEELGGTDAFVEKLIKKALLSLRKRN* |
