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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1079060 | XP_003625595.2 | 85.870 | 92 | 8 | 3 | 1 | 90 | 1 | 89 | 2.22e-45 | 152 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1079060 | G7L1S2 | 85.870 | 92 | 8 | 3 | 1 | 90 | 1 | 89 | 1.06e-45 | 152 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1076070 | Msa1079060 | 0.800708 | 1.269766e-48 | -8.615850e-47 |
| Msa0552670 | Msa1079060 | 0.801785 | 7.644848e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1079060 | MtrunA17_Chr7g0263811 | 84.783 | 92 | 8 | 3 | 1 | 90 | 1 | 88 | 2.05e-48 | 149 |
| Msa1079060 | MtrunA17_Chr1g0181521 | 72.973 | 37 | 9 | 1 | 23 | 58 | 18 | 54 | 9.48e-13 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1079060 | AT5G03120.1 | 45.455 | 66 | 35 | 1 | 16 | 81 | 10 | 74 | 5.56e-16 | 67.4 |
| Msa1079060 | AT5G03120.2 | 40.909 | 88 | 44 | 2 | 16 | 103 | 10 | 89 | 5.77e-16 | 68.2 |
Find 32 sgRNAs with CRISPR-Local
Find 54 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAGATCATTGTGTGATTTAT+AGG | 0.229909 | 7_2:-78089167 | None:intergenic |
| GACAAACCTCTAGAGAAATA+TGG | 0.278570 | 7_2:-78089328 | None:intergenic |
| AGATCATTGTGTGATTTATA+GGG | 0.390485 | 7_2:-78089166 | None:intergenic |
| AGCATCAACACCCGTAGCTT+TGG | 0.412256 | 7_2:-78089665 | None:intergenic |
| TCATTATCATGACAGGATCT+AGG | 0.440255 | 7_2:+78089728 | Msa1079060:CDS |
| GAAACAATTGCCGATGAAGA+TGG | 0.460886 | 7_2:-78089281 | None:intergenic |
| ACAAACCTCTAGAGAAATAT+GGG | 0.461398 | 7_2:-78089327 | None:intergenic |
| AGCTGCTGCAACCAAAGCTA+CGG | 0.473975 | 7_2:+78089654 | Msa1079060:CDS |
| GGCACAAACGAGTGAGTCTC+AGG | 0.492086 | 7_2:-78089574 | None:intergenic |
| GACATGCACAAATTTCTTGA+GGG | 0.493470 | 7_2:-78089238 | None:intergenic |
| AAATTTGTGCATGTCATACA+TGG | 0.499981 | 7_2:+78089246 | Msa1079060:exon |
| GGCTTACCATGGGAATGATC+AGG | 0.506768 | 7_2:-78089601 | None:intergenic |
| ATTTATGAGATCGATTATAG+AGG | 0.512251 | 7_2:+78089550 | Msa1079060:CDS |
| GCTGCTGCAACCAAAGCTAC+GGG | 0.515875 | 7_2:+78089655 | Msa1079060:CDS |
| GATTTATAGGGTGGAAAGAA+AGG | 0.525657 | 7_2:-78089154 | None:intergenic |
| GACTAATGTATGCAAGTTCA+CGG | 0.529375 | 7_2:-78089097 | None:intergenic |
| CAACTACTCATTATCATGAC+AGG | 0.542641 | 7_2:+78089721 | Msa1079060:CDS |
| TGATGCTACCATGAAACAAA+AGG | 0.546319 | 7_2:+78089681 | Msa1079060:CDS |
| TGACATGCACAAATTTCTTG+AGG | 0.548150 | 7_2:-78089239 | None:intergenic |
| TCATTGTGTGATTTATAGGG+TGG | 0.550522 | 7_2:-78089163 | None:intergenic |
| CTCTTGTCATGAGCTGAATG+AGG | 0.554978 | 7_2:-78089622 | None:intergenic |
| CTAAGACCCTCCATCTTCAT+CGG | 0.561274 | 7_2:+78089271 | Msa1079060:CDS |
| ACTCTCCCATATTTCTCTAG+AGG | 0.566327 | 7_2:+78089322 | Msa1079060:CDS |
| GAGCTGAATGAGGCTTACCA+TGG | 0.584782 | 7_2:-78089612 | None:intergenic |
| CCTCCGCCTGATCATTCCCA+TGG | 0.599627 | 7_2:+78089595 | Msa1079060:CDS |
| ACAATTGCCGATGAAGATGG+AGG | 0.611543 | 7_2:-78089278 | None:intergenic |
| GAAACATAACTACATGGTCA+AGG | 0.612266 | 7_2:-78089072 | None:intergenic |
| CCATGGGAATGATCAGGCGG+AGG | 0.615810 | 7_2:-78089595 | None:intergenic |
| AGCTGAATGAGGCTTACCAT+GGG | 0.626115 | 7_2:-78089611 | None:intergenic |
| ACGGAAGAAACATAACTACA+TGG | 0.637545 | 7_2:-78089078 | None:intergenic |
| CAATTGCCGATGAAGATGGA+GGG | 0.648695 | 7_2:-78089277 | None:intergenic |
| TTACCATGGGAATGATCAGG+CGG | 0.687178 | 7_2:-78089598 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATATTATTAATTTGTTTCT+TGG | + | chr7_2:78089480-78089499 | Msa1079060:intron | 10.0% |
| !!! | TGTTATGTTATTTAATTTTA+GGG | + | chr7_2:78089503-78089522 | Msa1079060:intron | 10.0% |
| !! | CATATTATAAAATTTATGAG+TGG | - | chr7_2:78089386-78089405 | None:intergenic | 15.0% |
| !!! | GTGTTATGTTATTTAATTTT+AGG | + | chr7_2:78089502-78089521 | Msa1079060:intron | 15.0% |
| !!! | GTTATGTTATTTAATTTTAG+GGG | + | chr7_2:78089504-78089523 | Msa1079060:intron | 15.0% |
| !!! | TTATGTTATTTAATTTTAGG+GGG | + | chr7_2:78089505-78089524 | Msa1079060:intron | 15.0% |
| !!! | TTATTTTGTATAAAAGATCA+AGG | + | chr7_2:78089756-78089775 | Msa1079060:exon | 15.0% |
| !!! | TATTTTGTATAAAAGATCAA+GGG | + | chr7_2:78089757-78089776 | Msa1079060:exon | 15.0% |
| !! | ATTATAAAATTTATGAGTGG+TGG | - | chr7_2:78089383-78089402 | None:intergenic | 20.0% |
| ! | AAGGAAATGAAAAAAGAAGA+GGG | - | chr7_2:78089138-78089157 | None:intergenic | 25.0% |
| ! | AAAGGAAATGAAAAAAGAAG+AGG | - | chr7_2:78089139-78089158 | None:intergenic | 25.0% |
| ! | AGATCATTGTGTGATTTATA+GGG | - | chr7_2:78089169-78089188 | None:intergenic | 25.0% |
| ! | AAGATCATTGTGTGATTTAT+AGG | - | chr7_2:78089170-78089189 | None:intergenic | 25.0% |
| ! | ATTTATGAGATCGATTATAG+AGG | + | chr7_2:78089550-78089569 | Msa1079060:CDS | 25.0% |
| ! | AAAAAAGAAGAGGGGTTTTA+AGG | - | chr7_2:78089129-78089148 | None:intergenic | 30.0% |
| AGGAAATGAAAAAAGAAGAG+GGG | - | chr7_2:78089137-78089156 | None:intergenic | 30.0% | |
| AAATTTGTGCATGTCATACA+TGG | + | chr7_2:78089246-78089265 | Msa1079060:exon | 30.0% | |
| ! | ACAAACCTCTAGAGAAATAT+GGG | - | chr7_2:78089330-78089349 | None:intergenic | 30.0% |
| ! | AATTTATGAGTGGTGGAAAT+TGG | - | chr7_2:78089376-78089395 | None:intergenic | 30.0% |
| !! | AAAACTTGCCTTTTGTTTCA+TGG | - | chr7_2:78089692-78089711 | None:intergenic | 30.0% |
| ACGGAAGAAACATAACTACA+TGG | - | chr7_2:78089081-78089100 | None:intergenic | 35.0% | |
| GACTAATGTATGCAAGTTCA+CGG | - | chr7_2:78089100-78089119 | None:intergenic | 35.0% | |
| GATTTATAGGGTGGAAAGAA+AGG | - | chr7_2:78089157-78089176 | None:intergenic | 35.0% | |
| TCATTGTGTGATTTATAGGG+TGG | - | chr7_2:78089166-78089185 | None:intergenic | 35.0% | |
| GACATGCACAAATTTCTTGA+GGG | - | chr7_2:78089241-78089260 | None:intergenic | 35.0% | |
| TGACATGCACAAATTTCTTG+AGG | - | chr7_2:78089242-78089261 | None:intergenic | 35.0% | |
| ! | GACAAACCTCTAGAGAAATA+TGG | - | chr7_2:78089331-78089350 | None:intergenic | 35.0% |
| GGAAAGAGGGTTGTAAAATT+CGG | - | chr7_2:78089355-78089374 | None:intergenic | 35.0% | |
| !! | TTTAATTTTAGGGGGATCAG+AGG | + | chr7_2:78089513-78089532 | Msa1079060:intron | 35.0% |
| TGATGCTACCATGAAACAAA+AGG | + | chr7_2:78089681-78089700 | Msa1079060:CDS | 35.0% | |
| CAACTACTCATTATCATGAC+AGG | + | chr7_2:78089721-78089740 | Msa1079060:CDS | 35.0% | |
| TCATTATCATGACAGGATCT+AGG | + | chr7_2:78089728-78089747 | Msa1079060:CDS | 35.0% | |
| GAAACAATTGCCGATGAAGA+TGG | - | chr7_2:78089284-78089303 | None:intergenic | 40.0% | |
| ACTCTCCCATATTTCTCTAG+AGG | + | chr7_2:78089322-78089341 | Msa1079060:CDS | 40.0% | |
| ! | AGTGGTGGAAATTGGAAAGA+GGG | - | chr7_2:78089368-78089387 | None:intergenic | 40.0% |
| !!! | AAGAGGGGTTTTAAGGAGTG+GGG | - | chr7_2:78089122-78089141 | None:intergenic | 45.0% |
| !!! | GAAGAGGGGTTTTAAGGAGT+GGG | - | chr7_2:78089123-78089142 | None:intergenic | 45.0% |
| !!! | AGAAGAGGGGTTTTAAGGAG+TGG | - | chr7_2:78089124-78089143 | None:intergenic | 45.0% |
| CTAAGACCCTCCATCTTCAT+CGG | + | chr7_2:78089271-78089290 | Msa1079060:CDS | 45.0% | |
| CAATTGCCGATGAAGATGGA+GGG | - | chr7_2:78089280-78089299 | None:intergenic | 45.0% | |
| ACAATTGCCGATGAAGATGG+AGG | - | chr7_2:78089281-78089300 | None:intergenic | 45.0% | |
| ! | GAGTGGTGGAAATTGGAAAG+AGG | - | chr7_2:78089369-78089388 | None:intergenic | 45.0% |
| TTACCATGGGAATGATCAGG+CGG | - | chr7_2:78089601-78089620 | None:intergenic | 45.0% | |
| AGCTGAATGAGGCTTACCAT+GGG | - | chr7_2:78089614-78089633 | None:intergenic | 45.0% | |
| CTCTTGTCATGAGCTGAATG+AGG | - | chr7_2:78089625-78089644 | None:intergenic | 45.0% | |
| ! | TTTAGGGGGATCAGAGGCAT+TGG | + | chr7_2:78089519-78089538 | Msa1079060:intron | 50.0% |
| GGCTTACCATGGGAATGATC+AGG | - | chr7_2:78089604-78089623 | None:intergenic | 50.0% | |
| GAGCTGAATGAGGCTTACCA+TGG | - | chr7_2:78089615-78089634 | None:intergenic | 50.0% | |
| AGCTGCTGCAACCAAAGCTA+CGG | + | chr7_2:78089654-78089673 | Msa1079060:CDS | 50.0% | |
| AGCATCAACACCCGTAGCTT+TGG | - | chr7_2:78089668-78089687 | None:intergenic | 50.0% | |
| GGCACAAACGAGTGAGTCTC+AGG | - | chr7_2:78089577-78089596 | None:intergenic | 55.0% | |
| GCTGCTGCAACCAAAGCTAC+GGG | + | chr7_2:78089655-78089674 | Msa1079060:CDS | 55.0% | |
| CCATGGGAATGATCAGGCGG+AGG | - | chr7_2:78089598-78089617 | None:intergenic | 60.0% | |
| CCTCCGCCTGATCATTCCCA+TGG | + | chr7_2:78089595-78089614 | Msa1079060:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 78089073 | 78089803 | 78089073 | ID=Msa1079060;Name=Msa1079060 |
| chr7_2 | mRNA | 78089073 | 78089803 | 78089073 | ID=Msa1079060-mRNA-1;Parent=Msa1079060;Name=Msa1079060-mRNA-1;_AED=0.06;_eAED=0.06;_QI=183|1|1|1|1|1|2|35|110 |
| chr7_2 | exon | 78089073 | 78089343 | 78089073 | ID=Msa1079060-mRNA-1:exon:19389;Parent=Msa1079060-mRNA-1 |
| chr7_2 | exon | 78089524 | 78089803 | 78089524 | ID=Msa1079060-mRNA-1:exon:19390;Parent=Msa1079060-mRNA-1 |
| chr7_2 | five_prime_UTR | 78089073 | 78089255 | 78089073 | ID=Msa1079060-mRNA-1:five_prime_utr;Parent=Msa1079060-mRNA-1 |
| chr7_2 | CDS | 78089256 | 78089343 | 78089256 | ID=Msa1079060-mRNA-1:cds;Parent=Msa1079060-mRNA-1 |
| chr7_2 | CDS | 78089524 | 78089768 | 78089524 | ID=Msa1079060-mRNA-1:cds;Parent=Msa1079060-mRNA-1 |
| chr7_2 | three_prime_UTR | 78089769 | 78089803 | 78089769 | ID=Msa1079060-mRNA-1:three_prime_utr;Parent=Msa1079060-mRNA-1 |
| Gene Sequence |
| Protein sequence |
