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 |
|---|
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0042260 | Msa0057610 | 0.810276 | 1.249109e-50 | -8.615850e-47 |
| Msa0042260 | Msa0165440 | 0.816579 | 5.142541e-52 | -8.615850e-47 |
| Msa0042260 | Msa0171850 | 0.820381 | 7.069118e-53 | -8.615850e-47 |
| Msa0042260 | Msa0474700 | 0.808585 | 2.881267e-50 | -8.615850e-47 |
| Msa0042260 | Msa0744100 | 0.808462 | 3.060145e-50 | -8.615850e-47 |
| Msa0042260 | Msa0825270 | 0.815348 | 9.682737e-52 | -8.615850e-47 |
| Msa0042260 | Msa0963020 | 0.807319 | 5.358216e-50 | -8.615850e-47 |
| Msa0042260 | Msa0981430 | 0.807909 | 4.013937e-50 | -8.615850e-47 |
| Msa0042260 | Msa1093330 | 0.802232 | 6.184601e-49 | -8.615850e-47 |
| Msa0042260 | Msa1145240 | 0.806702 | 7.236719e-50 | -8.615850e-47 |
| Msa0042260 | Msa1223330 | 0.813032 | 3.143047e-51 | -8.615850e-47 |
| Msa0042260 | Msa1380970 | 0.807779 | 4.277505e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0042260 | MtrunA17_Chr1g0181911 | 88.618 | 246 | 22 | 3 | 34 | 278 | 1 | 241 | 1.33e-120 | 344 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0042260 | AT2G37300.3 | 66.667 | 48 | 16 | 0 | 44 | 91 | 35 | 82 | 3.20e-14 | 70.1 |
| Msa0042260 | AT2G37300.6 | 66.667 | 48 | 16 | 0 | 44 | 91 | 35 | 82 | 3.20e-14 | 70.1 |
| Msa0042260 | AT2G37300.5 | 66.667 | 48 | 16 | 0 | 44 | 91 | 35 | 82 | 3.20e-14 | 70.1 |
| Msa0042260 | AT2G37300.4 | 66.667 | 48 | 16 | 0 | 44 | 91 | 13 | 60 | 3.57e-14 | 69.3 |
| Msa0042260 | AT2G37300.1 | 66.667 | 48 | 16 | 0 | 44 | 91 | 13 | 60 | 3.57e-14 | 69.3 |
| Msa0042260 | AT2G37300.2 | 66.667 | 48 | 16 | 0 | 44 | 91 | 92 | 139 | 1.32e-13 | 69.3 |
Find 48 sgRNAs with CRISPR-Local
Find 72 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTTGCTTCTGAATAATATT+TGG | 0.158875 | 1_1:+73010836 | None:intergenic |
| GACAGTAATGAGTGCATATT+TGG | 0.183388 | 1_1:-73010268 | Msa0042260:three_prime_UTR |
| ATTTAGCCTTAGTCCATATT+TGG | 0.185131 | 1_1:+73010162 | None:intergenic |
| TTCAAAGTTCCTTAGGAATA+AGG | 0.235437 | 1_1:-73010331 | Msa0042260:CDS |
| ATTTACGGTCGGTCCAAATA+TGG | 0.256611 | 1_1:-73010175 | Msa0042260:three_prime_UTR |
| CTAACATCTTCAAACTCTTT+TGG | 0.261115 | 1_1:-73011572 | Msa0042260:five_prime_UTR |
| TAAGGAACAAGCAGAATTAA+TGG | 0.292596 | 1_1:-73011234 | Msa0042260:CDS |
| AGATTCCTTTGATAATTCTT+TGG | 0.310548 | 1_1:-73010474 | Msa0042260:CDS |
| AGCAGAATTAATGGCCAAAA+AGG | 0.312211 | 1_1:-73011225 | Msa0042260:intron |
| CAGCAATAACCTTGAGTAAT+GGG | 0.327225 | 1_1:-73010065 | Msa0042260:three_prime_UTR |
| ATCCTCCAAATCAAAACAAT+TGG | 0.343305 | 1_1:-73010931 | Msa0042260:CDS |
| CCTGCAATTGTGGTCCTGTT+TGG | 0.399833 | 1_1:+73011455 | None:intergenic |
| TCCTCCAAATCAAAACAATT+GGG | 0.405024 | 1_1:-73010930 | Msa0042260:CDS |
| AACACTGTGGCATGCTTAAG+AGG | 0.406697 | 1_1:-73011293 | Msa0042260:CDS |
| GAAAAGCTTCAAAGTTCCTT+AGG | 0.408448 | 1_1:-73010338 | Msa0042260:CDS |
| CCAAACAGGACCACAATTGC+AGG | 0.410112 | 1_1:-73011455 | Msa0042260:intron |
| TGATTCTCAAATACAAAAGA+TGG | 0.412354 | 1_1:-73011541 | Msa0042260:exon |
| ACAAAATAATTGAACCTCAT+AGG | 0.433436 | 1_1:+73009943 | None:intergenic |
| TGAAGCTCTAGATGCATTGA+GGG | 0.457114 | 1_1:-73010369 | Msa0042260:CDS |
| TTAACGCTTCTTCTCCTATG+AGG | 0.468827 | 1_1:-73009957 | Msa0042260:three_prime_UTR |
| ACAGGCTTCAAAAGTAGCTA+AGG | 0.474167 | 1_1:-73011252 | Msa0042260:CDS |
| AAATTCTCAAACTCAGAGCT+TGG | 0.475080 | 1_1:+73010699 | None:intergenic |
| CATAACTACTAACACCAAAC+AGG | 0.475456 | 1_1:-73011469 | Msa0042260:CDS |
| ATTTGAAGAATGATGAAAGC+AGG | 0.488578 | 1_1:-73010680 | Msa0042260:intron |
| GAGGTTACTAGCAGAGAGAC+AGG | 0.488693 | 1_1:-73011270 | Msa0042260:CDS |
| TCGGAGTGAGAAGTTACATT+AGG | 0.490921 | 1_1:+73010291 | None:intergenic |
| GGTAAAGTTCTTGTGAATTG+TGG | 0.495003 | 1_1:-73010028 | Msa0042260:three_prime_UTR |
| CAGAATTGTGAAAATTCTTG+TGG | 0.501754 | 1_1:-73010891 | Msa0042260:CDS |
| AATCGTTCGCCTTATTCCTA+AGG | 0.511083 | 1_1:+73010322 | None:intergenic |
| ACAGCAATAACCTTGAGTAA+TGG | 0.513860 | 1_1:-73010066 | Msa0042260:three_prime_UTR |
| TTCAGCATGTAGATAGAGAT+AGG | 0.521405 | 1_1:-73010094 | Msa0042260:three_prime_UTR |
| TTGAAGCTCTAGATGCATTG+AGG | 0.524675 | 1_1:-73010370 | Msa0042260:CDS |
| TCTACCAATCCCATTACTCA+AGG | 0.530854 | 1_1:+73010056 | None:intergenic |
| TAATGGGATTGGTAGAAGAA+TGG | 0.537470 | 1_1:-73010049 | Msa0042260:three_prime_UTR |
| GTCGGTCCAAATATGGACTA+AGG | 0.537825 | 1_1:-73010168 | Msa0042260:three_prime_UTR |
| ATATGCACTCATTACTGTCT+CGG | 0.540267 | 1_1:+73010272 | None:intergenic |
| GAGAGAGATACCTGCAATTG+TGG | 0.544410 | 1_1:+73011445 | None:intergenic |
| AGAATTGTGAAAATTCTTGT+GGG | 0.556054 | 1_1:-73010890 | Msa0042260:CDS |
| GATTCTCAAATACAAAAGAT+GGG | 0.557676 | 1_1:-73011540 | Msa0042260:exon |
| GCTGTCACATTCACAGTCAC+AGG | 0.564805 | 1_1:+73010443 | None:intergenic |
| AGATGCATTGAGGGTTGCCA+AGG | 0.577687 | 1_1:-73010360 | Msa0042260:CDS |
| ATAACCTTGAGTAATGGGAT+TGG | 0.584601 | 1_1:-73010060 | Msa0042260:three_prime_UTR |
| CCTCCAAATCAAAACAATTG+GGG | 0.608612 | 1_1:-73010929 | Msa0042260:CDS |
| TAATGCCAAAGAATTATCAA+AGG | 0.628211 | 1_1:+73010469 | None:intergenic |
| ATAAGGCGAACGATTCGCGT+TGG | 0.628535 | 1_1:-73010314 | Msa0042260:CDS |
| CTGTGGCATGCTTAAGAGGG+AGG | 0.636800 | 1_1:-73011289 | Msa0042260:CDS |
| ACACTGTGGCATGCTTAAGA+GGG | 0.644498 | 1_1:-73011292 | Msa0042260:CDS |
| AGGTTTGAATTTGAACACTG+TGG | 0.756754 | 1_1:-73011306 | Msa0042260:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAAAAATATTATTACCTTTT+TGG | + | chr1_1:73010377-73010396 | None:intergenic | 10.0% |
| !!! | ATGTTAGTATTTTTGAAAAA+GGG | + | chr1_1:73010000-73010019 | None:intergenic | 15.0% |
| !!! | GATGTTAGTATTTTTGAAAA+AGG | + | chr1_1:73010001-73010020 | None:intergenic | 20.0% |
| !!! | AAAGTTATTTTTTTGACAGT+TGG | - | chr1_1:73010534-73010553 | Msa0042260:intron | 20.0% |
| !!! | AGAGAAAGCTTAAATTTTTA+AGG | - | chr1_1:73010608-73010627 | Msa0042260:intron | 20.0% |
| !! | ATTTGCTTCTGAATAATATT+TGG | + | chr1_1:73010752-73010771 | None:intergenic | 20.0% |
| !!! | TGTTGTTAATTTTGGAATTT+TGG | - | chr1_1:73011019-73011038 | Msa0042260:CDS | 20.0% |
| !!! | ACATGATTTTGCTTAATTTA+CGG | - | chr1_1:73011395-73011414 | Msa0042260:intron | 20.0% |
| ! | TGATTCTCAAATACAAAAGA+TGG | - | chr1_1:73010044-73010063 | Msa0042260:three_prime_UTR | 25.0% |
| ! | GATTCTCAAATACAAAAGAT+GGG | - | chr1_1:73010045-73010064 | Msa0042260:three_prime_UTR | 25.0% |
| ! | GAATGACATTGTTGAATTAT+TGG | - | chr1_1:73010226-73010245 | Msa0042260:three_prime_UTR | 25.0% |
| !!! | TGGTTTTAGTAGCAAAAAAA+TGG | - | chr1_1:73010246-73010265 | Msa0042260:three_prime_UTR | 25.0% |
| ! | AAAAAAATGGAAGTAGATGA+AGG | - | chr1_1:73010259-73010278 | Msa0042260:three_prime_UTR | 25.0% |
| ! | AGAATTGTGAAAATTCTTGT+GGG | - | chr1_1:73010695-73010714 | Msa0042260:CDS | 25.0% |
| !! | TTTGAGCATGTTGTTAATTT+TGG | - | chr1_1:73011011-73011030 | Msa0042260:CDS | 25.0% |
| !! | AGATTCCTTTGATAATTCTT+TGG | - | chr1_1:73011111-73011130 | Msa0042260:intron | 25.0% |
| ! | TAATGCCAAAGAATTATCAA+AGG | + | chr1_1:73011119-73011138 | None:intergenic | 25.0% |
| ! | ACAAAATAATTGAACCTCAT+AGG | + | chr1_1:73011645-73011664 | None:intergenic | 25.0% |
| ! | CTAACATCTTCAAACTCTTT+TGG | - | chr1_1:73010013-73010032 | Msa0042260:three_prime_UTR | 30.0% |
| TAAGGAACAAGCAGAATTAA+TGG | - | chr1_1:73010351-73010370 | Msa0042260:CDS | 30.0% | |
| CATTGTTACTATCAGCTAAA+AGG | + | chr1_1:73010401-73010420 | None:intergenic | 30.0% | |
| ATCCTCCAAATCAAAACAAT+TGG | - | chr1_1:73010654-73010673 | Msa0042260:intron | 30.0% | |
| TCCTCCAAATCAAAACAATT+GGG | - | chr1_1:73010655-73010674 | Msa0042260:intron | 30.0% | |
| CAGAATTGTGAAAATTCTTG+TGG | - | chr1_1:73010694-73010713 | Msa0042260:CDS | 30.0% | |
| !!! | GAAACATTTTGATTTGGTAC+TGG | + | chr1_1:73010787-73010806 | None:intergenic | 30.0% |
| !!! | GTCTCTGAAACATTTTGATT+TGG | + | chr1_1:73010793-73010812 | None:intergenic | 30.0% |
| ! | AGAATCACAATCTTTTGTTG+TGG | + | chr1_1:73010833-73010852 | None:intergenic | 30.0% |
| ATTTGAAGAATGATGAAAGC+AGG | - | chr1_1:73010905-73010924 | Msa0042260:CDS | 30.0% | |
| !!! | ATTTTGGTGTCATGTTTTTC+AGG | - | chr1_1:73011035-73011054 | Msa0042260:CDS | 30.0% |
| TTCAAAGTTCCTTAGGAATA+AGG | - | chr1_1:73011254-73011273 | Msa0042260:CDS | 30.0% | |
| !!! | TGCACTGTAATTTTTTACAC+TGG | + | chr1_1:73011373-73011392 | None:intergenic | 30.0% |
| ! | GATTTTGCTTAATTTACGGT+CGG | - | chr1_1:73011399-73011418 | Msa0042260:intron | 30.0% |
| !! | ATTTAGCCTTAGTCCATATT+TGG | + | chr1_1:73011426-73011445 | None:intergenic | 30.0% |
| CATAACTACTAACACCAAAC+AGG | - | chr1_1:73010116-73010135 | Msa0042260:three_prime_UTR | 35.0% | |
| AGGTTTGAATTTGAACACTG+TGG | - | chr1_1:73010279-73010298 | Msa0042260:three_prime_UTR | 35.0% | |
| AGCAGAATTAATGGCCAAAA+AGG | - | chr1_1:73010360-73010379 | Msa0042260:CDS | 35.0% | |
| ! | TTTTTGACAGTTGGTTGAGT+TGG | - | chr1_1:73010543-73010562 | Msa0042260:intron | 35.0% |
| !! | GTTGGTTGAGTTGGAAAAAT+TGG | - | chr1_1:73010552-73010571 | Msa0042260:intron | 35.0% |
| CCTCCAAATCAAAACAATTG+GGG | - | chr1_1:73010656-73010675 | Msa0042260:intron | 35.0% | |
| !!! | ATGCCCCAATTGTTTTGATT+TGG | + | chr1_1:73010662-73010681 | None:intergenic | 35.0% |
| AAATTCTCAAACTCAGAGCT+TGG | + | chr1_1:73010889-73010908 | None:intergenic | 35.0% | |
| GAAAAGCTTCAAAGTTCCTT+AGG | - | chr1_1:73011247-73011266 | Msa0042260:CDS | 35.0% | |
| ATATGCACTCATTACTGTCT+CGG | + | chr1_1:73011316-73011335 | None:intergenic | 35.0% | |
| GACAGTAATGAGTGCATATT+TGG | - | chr1_1:73011317-73011336 | Msa0042260:CDS | 35.0% | |
| TTCAGCATGTAGATAGAGAT+AGG | - | chr1_1:73011491-73011510 | Msa0042260:CDS | 35.0% | |
| ACAGCAATAACCTTGAGTAA+TGG | - | chr1_1:73011519-73011538 | Msa0042260:CDS | 35.0% | |
| CAGCAATAACCTTGAGTAAT+GGG | - | chr1_1:73011520-73011539 | Msa0042260:CDS | 35.0% | |
| ! | ATAACCTTGAGTAATGGGAT+TGG | - | chr1_1:73011525-73011544 | Msa0042260:CDS | 35.0% |
| ! | TAATGGGATTGGTAGAAGAA+TGG | - | chr1_1:73011536-73011555 | Msa0042260:exon | 35.0% |
| GGTAAAGTTCTTGTGAATTG+TGG | - | chr1_1:73011557-73011576 | Msa0042260:five_prime_UTR | 35.0% | |
| ! | TCAACATCACATGTTTTCTG+TGG | + | chr1_1:73011594-73011613 | None:intergenic | 35.0% |
| ACAGGCTTCAAAAGTAGCTA+AGG | - | chr1_1:73010333-73010352 | Msa0042260:CDS | 40.0% | |
| !!! | CCCCAATTGTTTTGATTTGG+AGG | + | chr1_1:73010659-73010678 | None:intergenic | 40.0% |
| !! | TTGAAGCTCTAGATGCATTG+AGG | - | chr1_1:73011215-73011234 | Msa0042260:intron | 40.0% |
| !! | TGAAGCTCTAGATGCATTGA+GGG | - | chr1_1:73011216-73011235 | Msa0042260:intron | 40.0% |
| !!! | GGAACTTTGAAGCTTTTCCT+TGG | + | chr1_1:73011245-73011264 | None:intergenic | 40.0% |
| ! | AATCGTTCGCCTTATTCCTA+AGG | + | chr1_1:73011266-73011285 | None:intergenic | 40.0% |
| TCGGAGTGAGAAGTTACATT+AGG | + | chr1_1:73011297-73011316 | None:intergenic | 40.0% | |
| ATTTACGGTCGGTCCAAATA+TGG | - | chr1_1:73011410-73011429 | Msa0042260:intron | 40.0% | |
| TCTACCAATCCCATTACTCA+AGG | + | chr1_1:73011532-73011551 | None:intergenic | 40.0% | |
| TTAACGCTTCTTCTCCTATG+AGG | - | chr1_1:73011628-73011647 | Msa0042260:five_prime_UTR | 40.0% | |
| GAGAGAGATACCTGCAATTG+TGG | + | chr1_1:73010143-73010162 | None:intergenic | 45.0% | |
| AACACTGTGGCATGCTTAAG+AGG | - | chr1_1:73010292-73010311 | Msa0042260:exon | 45.0% | |
| ACACTGTGGCATGCTTAAGA+GGG | - | chr1_1:73010293-73010312 | Msa0042260:exon | 45.0% | |
| ! | GTCGGTCCAAATATGGACTA+AGG | - | chr1_1:73011417-73011436 | Msa0042260:intron | 45.0% |
| CCTGCAATTGTGGTCCTGTT+TGG | + | chr1_1:73010133-73010152 | None:intergenic | 50.0% | |
| CCAAACAGGACCACAATTGC+AGG | - | chr1_1:73010130-73010149 | Msa0042260:three_prime_UTR | 50.0% | |
| GAGGTTACTAGCAGAGAGAC+AGG | - | chr1_1:73010315-73010334 | Msa0042260:CDS | 50.0% | |
| GCTGTCACATTCACAGTCAC+AGG | + | chr1_1:73011145-73011164 | None:intergenic | 50.0% | |
| AGATGCATTGAGGGTTGCCA+AGG | - | chr1_1:73011225-73011244 | Msa0042260:intron | 50.0% | |
| ATAAGGCGAACGATTCGCGT+TGG | - | chr1_1:73011271-73011290 | Msa0042260:CDS | 50.0% | |
| CTGTGGCATGCTTAAGAGGG+AGG | - | chr1_1:73010296-73010315 | Msa0042260:exon | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 73009928 | 73011679 | 73009928 | ID=Msa0042260;Name=Msa0042260 |
| chr1_1 | mRNA | 73009928 | 73011679 | 73009928 | ID=Msa0042260-mRNA-1;Parent=Msa0042260;Name=Msa0042260-mRNA-1;_AED=0.02;_eAED=0.02;_QI=135|1|1|1|1|1|4|376|278 |
| chr1_1 | exon | 73009928 | 73010550 | 73009928 | ID=Msa0042260-mRNA-1:exon:24371;Parent=Msa0042260-mRNA-1 |
| chr1_1 | exon | 73010681 | 73011054 | 73010681 | ID=Msa0042260-mRNA-1:exon:24370;Parent=Msa0042260-mRNA-1 |
| chr1_1 | exon | 73011226 | 73011352 | 73011226 | ID=Msa0042260-mRNA-1:exon:24369;Parent=Msa0042260-mRNA-1 |
| chr1_1 | exon | 73011456 | 73011679 | 73011456 | ID=Msa0042260-mRNA-1:exon:24368;Parent=Msa0042260-mRNA-1 |
| chr1_1 | five_prime_UTR | 73011545 | 73011679 | 73011545 | ID=Msa0042260-mRNA-1:five_prime_utr;Parent=Msa0042260-mRNA-1 |
| chr1_1 | CDS | 73011456 | 73011544 | 73011456 | ID=Msa0042260-mRNA-1:cds;Parent=Msa0042260-mRNA-1 |
| chr1_1 | CDS | 73011226 | 73011352 | 73011226 | ID=Msa0042260-mRNA-1:cds;Parent=Msa0042260-mRNA-1 |
| chr1_1 | CDS | 73010681 | 73011054 | 73010681 | ID=Msa0042260-mRNA-1:cds;Parent=Msa0042260-mRNA-1 |
| chr1_1 | CDS | 73010304 | 73010550 | 73010304 | ID=Msa0042260-mRNA-1:cds;Parent=Msa0042260-mRNA-1 |
| chr1_1 | three_prime_UTR | 73009928 | 73010303 | 73009928 | ID=Msa0042260-mRNA-1:three_prime_utr;Parent=Msa0042260-mRNA-1 |
| Gene Sequence |
| Protein sequence |
