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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0500960 | KEH22517.1 | 67.647 | 68 | 21 | 1 | 30 | 96 | 2 | 69 | 8.03e-18 | 84.7 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0500960 | A0A072TYL2 | 67.647 | 68 | 21 | 1 | 30 | 96 | 2 | 69 | 3.84e-18 | 84.7 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0429780 | Msa0500960 | 0.839515 | 1.513416e-57 | -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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 33 sgRNAs with CRISPR-Local
Find 112 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCCATTACTATTCGAATTCA+TGG | 0.240680 | 3_4:-41628806 | Msa0500950:intron |
| TACGAGGAAGCTTGTCTTCT+AGG | 0.252682 | 3_4:+41629641 | Msa0500960:CDS |
| GATGCAAAAGATGGGTTGTT+AGG | 0.331478 | 3_4:-41629697 | None:intergenic |
| TTGATAAGAGAAGATTTATC+TGG | 0.365061 | 3_4:-41629325 | None:intergenic |
| TTATCTTCACCTTGCTTGTA+AGG | 0.366650 | 3_4:+41629751 | Msa0500960:CDS |
| TCTGATGTGTTGAAGGAGTT+AGG | 0.381460 | 3_4:-41629556 | None:intergenic |
| TTATGCTTGGAATATGTTGC+TGG | 0.386616 | 3_4:+41628865 | Msa0500960:CDS |
| AATACTGTAGAAACACTAAT+TGG | 0.391329 | 3_4:+41629484 | Msa0500960:CDS |
| TCTGGTACAATACTCTTTGT+TGG | 0.400415 | 3_4:-41629307 | None:intergenic |
| CTGGTACAATACTCTTTGTT+GGG | 0.404814 | 3_4:-41629306 | None:intergenic |
| TGAAATTTCTGATGTGTTGA+AGG | 0.418942 | 3_4:-41629563 | None:intergenic |
| TTTCTTCCAGATGCAAAAGA+TGG | 0.428739 | 3_4:-41629706 | None:intergenic |
| TCAAAAGAAATATTGAATCT+TGG | 0.470594 | 3_4:+41629589 | Msa0500960:CDS |
| GTCAAACCTCCAATAGAGAA+AGG | 0.475976 | 3_4:+41629523 | Msa0500960:CDS |
| ATTCAGCACAAATTTATGCT+TGG | 0.499290 | 3_4:+41628852 | Msa0500960:CDS |
| CGCAGTCACTGCAAGCATGT+TGG | 0.519868 | 3_4:-41629416 | None:intergenic |
| ACCATGAATTCGAATAGTAA+TGG | 0.520480 | 3_4:+41628805 | None:intergenic |
| GTCATTGAAGTAAATGAAGA+AGG | 0.521214 | 3_4:-41629451 | None:intergenic |
| TTCTTCCAGATGCAAAAGAT+GGG | 0.522138 | 3_4:-41629705 | None:intergenic |
| GTCACTGCAAGCATGTTGGC+TGG | 0.537020 | 3_4:-41629412 | None:intergenic |
| CCTCGTACAAAAGTGGTAGT+AGG | 0.537109 | 3_4:-41629625 | None:intergenic |
| CAAGCTTCCTCGTACAAAAG+TGG | 0.541451 | 3_4:-41629632 | None:intergenic |
| CAAGTGCATAATCCCCTCGC+TGG | 0.556254 | 3_4:-41629283 | None:intergenic |
| GTTAGGTTTGATTGAGAAAG+CGG | 0.567281 | 3_4:-41629680 | None:intergenic |
| CTTCGTCTTCCTTACAAGCA+AGG | 0.567375 | 3_4:-41629760 | None:intergenic |
| TTGTCGACACACTTCAACTC+CGG | 0.572715 | 3_4:-41629386 | None:intergenic |
| GCTACAAAGTCTATCGGTAC+CGG | 0.578270 | 3_4:+41629367 | Msa0500960:CDS |
| TAGTTAAGATCATCCAGCGA+GGG | 0.610628 | 3_4:+41629270 | Msa0500960:intron |
| TGGTCAGCTACAAAGTCTAT+CGG | 0.616483 | 3_4:+41629361 | Msa0500960:CDS |
| CAACATGCTTGCAGTGACTG+CGG | 0.624919 | 3_4:+41629417 | Msa0500960:CDS |
| TGTGTTGAAGGAGTTAGGAG+TGG | 0.642269 | 3_4:-41629551 | None:intergenic |
| AGTTAAGATCATCCAGCGAG+GGG | 0.687329 | 3_4:+41629271 | Msa0500960:intron |
| GTAGTTAAGATCATCCAGCG+AGG | 0.771174 | 3_4:+41629269 | Msa0500960:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATAGTGATAAGAATAAATAT+TGG | - | chr3_4:41629076-41629095 | Msa0500950:intron | 15.0% |
| !! | ATAGTGATAAGAATAAATAT+TGG | - | chr3_4:41629076-41629095 | Msa0500950:intron | 15.0% |
| !!! | ATAAATATTGGTGTTTAAGT+TGG | - | chr3_4:41629064-41629083 | Msa0500950:intron | 20.0% |
| !! | TCAAAAGAAATATTGAATCT+TGG | + | chr3_4:41629589-41629608 | Msa0500960:CDS | 20.0% |
| !!! | ATAAATATTGGTGTTTAAGT+TGG | - | chr3_4:41629064-41629083 | Msa0500950:intron | 20.0% |
| !! | TCAAAAGAAATATTGAATCT+TGG | + | chr3_4:41629589-41629608 | Msa0500960:CDS | 20.0% |
| !! | TTTATAACCAAACTAGCTTA+AGG | + | chr3_4:41628942-41628961 | Msa0500960:intron | 25.0% |
| !!! | AGTTTTGATGTCTTATTGTA+TGG | - | chr3_4:41628968-41628987 | Msa0500950:intron | 25.0% |
| ! | TTGATAAGAGAAGATTTATC+TGG | - | chr3_4:41629328-41629347 | None:intergenic | 25.0% |
| ! | TCTCTTATCAAAAACAAGAA+AGG | + | chr3_4:41629337-41629356 | Msa0500960:CDS | 25.0% |
| ! | TTATCAAAAACAAGAAAGGA+TGG | + | chr3_4:41629341-41629360 | Msa0500960:CDS | 25.0% |
| ! | AATACTGTAGAAACACTAAT+TGG | + | chr3_4:41629484-41629503 | Msa0500960:CDS | 25.0% |
| !! | TTTATAACCAAACTAGCTTA+AGG | + | chr3_4:41628942-41628961 | Msa0500960:intron | 25.0% |
| !!! | AGTTTTGATGTCTTATTGTA+TGG | - | chr3_4:41628968-41628987 | Msa0500950:intron | 25.0% |
| ! | TTGATAAGAGAAGATTTATC+TGG | - | chr3_4:41629328-41629347 | None:intergenic | 25.0% |
| ! | TCTCTTATCAAAAACAAGAA+AGG | + | chr3_4:41629337-41629356 | Msa0500960:CDS | 25.0% |
| ! | TTATCAAAAACAAGAAAGGA+TGG | + | chr3_4:41629341-41629360 | Msa0500960:CDS | 25.0% |
| ! | AATACTGTAGAAACACTAAT+TGG | + | chr3_4:41629484-41629503 | Msa0500960:CDS | 25.0% |
| ATTCAGCACAAATTTATGCT+TGG | + | chr3_4:41628852-41628871 | Msa0500960:CDS | 30.0% | |
| !!! | TTCATTTTTTGAACTGTTGC+TGG | - | chr3_4:41629186-41629205 | Msa0500950:intron | 30.0% |
| CAAGCAAGAATTAATCCAAT+GGG | - | chr3_4:41629248-41629267 | None:intergenic | 30.0% | |
| TCAAGCAAGAATTAATCCAA+TGG | - | chr3_4:41629249-41629268 | None:intergenic | 30.0% | |
| GTCATTGAAGTAAATGAAGA+AGG | - | chr3_4:41629454-41629473 | None:intergenic | 30.0% | |
| TGAAATTTCTGATGTGTTGA+AGG | - | chr3_4:41629566-41629585 | None:intergenic | 30.0% | |
| ATTCAGCACAAATTTATGCT+TGG | + | chr3_4:41628852-41628871 | Msa0500960:CDS | 30.0% | |
| !!! | TTCATTTTTTGAACTGTTGC+TGG | - | chr3_4:41629186-41629205 | Msa0500950:intron | 30.0% |
| CAAGCAAGAATTAATCCAAT+GGG | - | chr3_4:41629248-41629267 | None:intergenic | 30.0% | |
| TCAAGCAAGAATTAATCCAA+TGG | - | chr3_4:41629249-41629268 | None:intergenic | 30.0% | |
| GTCATTGAAGTAAATGAAGA+AGG | - | chr3_4:41629454-41629473 | None:intergenic | 30.0% | |
| TGAAATTTCTGATGTGTTGA+AGG | - | chr3_4:41629566-41629585 | None:intergenic | 30.0% | |
| TTATGCTTGGAATATGTTGC+TGG | + | chr3_4:41628865-41628884 | Msa0500960:CDS | 35.0% | |
| GCTGGAAAGAAAGAAAAAAC+TGG | + | chr3_4:41628883-41628902 | Msa0500960:CDS | 35.0% | |
| ! | TTTTGGGCTGTAGATAAAGA+GGG | - | chr3_4:41629010-41629029 | Msa0500950:intron | 35.0% |
| !! | TTTTTGGGCTGTAGATAAAG+AGG | - | chr3_4:41629011-41629030 | Msa0500950:intron | 35.0% |
| ! | AAATCCTGCTGCAGATTTTT+GGG | - | chr3_4:41629026-41629045 | Msa0500950:intron | 35.0% |
| ! | AAAATCCTGCTGCAGATTTT+TGG | - | chr3_4:41629027-41629046 | Msa0500950:intron | 35.0% |
| TCATTGCAATTTGCAACAGT+TGG | - | chr3_4:41629101-41629120 | Msa0500950:intron | 35.0% | |
| CTGGTACAATACTCTTTGTT+GGG | - | chr3_4:41629309-41629328 | None:intergenic | 35.0% | |
| TCTGGTACAATACTCTTTGT+TGG | - | chr3_4:41629310-41629329 | None:intergenic | 35.0% | |
| TGGAGGTTTGACAAAAATAG+TGG | - | chr3_4:41629515-41629534 | None:intergenic | 35.0% | |
| ! | GTTTTACCTTTCTCTATTGG+AGG | - | chr3_4:41629532-41629551 | None:intergenic | 35.0% |
| !! | GTGGTTTTACCTTTCTCTAT+TGG | - | chr3_4:41629535-41629554 | None:intergenic | 35.0% |
| GTTAGGTTTGATTGAGAAAG+CGG | - | chr3_4:41629683-41629702 | None:intergenic | 35.0% | |
| TTCTTCCAGATGCAAAAGAT+GGG | - | chr3_4:41629708-41629727 | None:intergenic | 35.0% | |
| TTTCTTCCAGATGCAAAAGA+TGG | - | chr3_4:41629709-41629728 | None:intergenic | 35.0% | |
| TTATGCTTGGAATATGTTGC+TGG | + | chr3_4:41628865-41628884 | Msa0500960:CDS | 35.0% | |
| GCTGGAAAGAAAGAAAAAAC+TGG | + | chr3_4:41628883-41628902 | Msa0500960:CDS | 35.0% | |
| ! | TTTTGGGCTGTAGATAAAGA+GGG | - | chr3_4:41629010-41629029 | Msa0500950:intron | 35.0% |
| !! | TTTTTGGGCTGTAGATAAAG+AGG | - | chr3_4:41629011-41629030 | Msa0500950:intron | 35.0% |
| ! | AAATCCTGCTGCAGATTTTT+GGG | - | chr3_4:41629026-41629045 | Msa0500950:intron | 35.0% |
| ! | AAAATCCTGCTGCAGATTTT+TGG | - | chr3_4:41629027-41629046 | Msa0500950:intron | 35.0% |
| TCATTGCAATTTGCAACAGT+TGG | - | chr3_4:41629101-41629120 | Msa0500950:intron | 35.0% | |
| CTGGTACAATACTCTTTGTT+GGG | - | chr3_4:41629309-41629328 | None:intergenic | 35.0% | |
| TCTGGTACAATACTCTTTGT+TGG | - | chr3_4:41629310-41629329 | None:intergenic | 35.0% | |
| TGGAGGTTTGACAAAAATAG+TGG | - | chr3_4:41629515-41629534 | None:intergenic | 35.0% | |
| ! | GTTTTACCTTTCTCTATTGG+AGG | - | chr3_4:41629532-41629551 | None:intergenic | 35.0% |
| !! | GTGGTTTTACCTTTCTCTAT+TGG | - | chr3_4:41629535-41629554 | None:intergenic | 35.0% |
| GTTAGGTTTGATTGAGAAAG+CGG | - | chr3_4:41629683-41629702 | None:intergenic | 35.0% | |
| TTCTTCCAGATGCAAAAGAT+GGG | - | chr3_4:41629708-41629727 | None:intergenic | 35.0% | |
| TTTCTTCCAGATGCAAAAGA+TGG | - | chr3_4:41629709-41629728 | None:intergenic | 35.0% | |
| ! | TGTATGGCCTTAAGCTAGTT+TGG | - | chr3_4:41628952-41628971 | Msa0500950:intron | 40.0% |
| CTAATTGATGTGCTACCCAT+TGG | + | chr3_4:41629230-41629249 | Msa0500960:intron | 40.0% | |
| TAGTTAAGATCATCCAGCGA+GGG | + | chr3_4:41629270-41629289 | Msa0500960:intron | 40.0% | |
| TGGTCAGCTACAAAGTCTAT+CGG | + | chr3_4:41629361-41629380 | Msa0500960:CDS | 40.0% | |
| GTCAAACCTCCAATAGAGAA+AGG | + | chr3_4:41629523-41629542 | Msa0500960:CDS | 40.0% | |
| TCTGATGTGTTGAAGGAGTT+AGG | - | chr3_4:41629559-41629578 | None:intergenic | 40.0% | |
| !! | GATGCAAAAGATGGGTTGTT+AGG | - | chr3_4:41629700-41629719 | None:intergenic | 40.0% |
| ! | AACAACCCATCTTTTGCATC+TGG | + | chr3_4:41629700-41629719 | Msa0500960:CDS | 40.0% |
| ! | TGTATGGCCTTAAGCTAGTT+TGG | - | chr3_4:41628952-41628971 | Msa0500950:intron | 40.0% |
| CTAATTGATGTGCTACCCAT+TGG | + | chr3_4:41629230-41629249 | Msa0500960:intron | 40.0% | |
| TAGTTAAGATCATCCAGCGA+GGG | + | chr3_4:41629270-41629289 | Msa0500960:intron | 40.0% | |
| TGGTCAGCTACAAAGTCTAT+CGG | + | chr3_4:41629361-41629380 | Msa0500960:CDS | 40.0% | |
| GTCAAACCTCCAATAGAGAA+AGG | + | chr3_4:41629523-41629542 | Msa0500960:CDS | 40.0% | |
| TCTGATGTGTTGAAGGAGTT+AGG | - | chr3_4:41629559-41629578 | None:intergenic | 40.0% | |
| !! | GATGCAAAAGATGGGTTGTT+AGG | - | chr3_4:41629700-41629719 | None:intergenic | 40.0% |
| ! | AACAACCCATCTTTTGCATC+TGG | + | chr3_4:41629700-41629719 | Msa0500960:CDS | 40.0% |
| AGGGCGTGTGGATATAACTT+TGG | - | chr3_4:41628991-41629010 | Msa0500950:intron | 45.0% | |
| ! | AATCTGCAGCAGGATTTTGC+AGG | + | chr3_4:41629029-41629048 | Msa0500960:intron | 45.0% |
| ! | CAGCAGGATTTTGCAGGAAA+AGG | + | chr3_4:41629035-41629054 | Msa0500960:intron | 45.0% |
| GTAGTTAAGATCATCCAGCG+AGG | + | chr3_4:41629269-41629288 | Msa0500960:intron | 45.0% | |
| AGTTAAGATCATCCAGCGAG+GGG | + | chr3_4:41629271-41629290 | Msa0500960:intron | 45.0% | |
| GCTACAAAGTCTATCGGTAC+CGG | + | chr3_4:41629367-41629386 | Msa0500960:CDS | 45.0% | |
| TTGTCGACACACTTCAACTC+CGG | - | chr3_4:41629389-41629408 | None:intergenic | 45.0% | |
| TGTGTTGAAGGAGTTAGGAG+TGG | - | chr3_4:41629554-41629573 | None:intergenic | 45.0% | |
| CCTCGTACAAAAGTGGTAGT+AGG | - | chr3_4:41629628-41629647 | None:intergenic | 45.0% | |
| !! | CCTACTACCACTTTTGTACG+AGG | + | chr3_4:41629625-41629644 | Msa0500960:CDS | 45.0% |
| CAAGCTTCCTCGTACAAAAG+TGG | - | chr3_4:41629635-41629654 | None:intergenic | 45.0% | |
| TACGAGGAAGCTTGTCTTCT+AGG | + | chr3_4:41629641-41629660 | Msa0500960:CDS | 45.0% | |
| AGGGCGTGTGGATATAACTT+TGG | - | chr3_4:41628991-41629010 | Msa0500950:intron | 45.0% | |
| ! | AATCTGCAGCAGGATTTTGC+AGG | + | chr3_4:41629029-41629048 | Msa0500960:intron | 45.0% |
| ! | CAGCAGGATTTTGCAGGAAA+AGG | + | chr3_4:41629035-41629054 | Msa0500960:intron | 45.0% |
| GTAGTTAAGATCATCCAGCG+AGG | + | chr3_4:41629269-41629288 | Msa0500960:intron | 45.0% | |
| AGTTAAGATCATCCAGCGAG+GGG | + | chr3_4:41629271-41629290 | Msa0500960:intron | 45.0% | |
| GCTACAAAGTCTATCGGTAC+CGG | + | chr3_4:41629367-41629386 | Msa0500960:CDS | 45.0% | |
| TTGTCGACACACTTCAACTC+CGG | - | chr3_4:41629389-41629408 | None:intergenic | 45.0% | |
| TGTGTTGAAGGAGTTAGGAG+TGG | - | chr3_4:41629554-41629573 | None:intergenic | 45.0% | |
| CCTCGTACAAAAGTGGTAGT+AGG | - | chr3_4:41629628-41629647 | None:intergenic | 45.0% | |
| !! | CCTACTACCACTTTTGTACG+AGG | + | chr3_4:41629625-41629644 | Msa0500960:CDS | 45.0% |
| CAAGCTTCCTCGTACAAAAG+TGG | - | chr3_4:41629635-41629654 | None:intergenic | 45.0% | |
| TACGAGGAAGCTTGTCTTCT+AGG | + | chr3_4:41629641-41629660 | Msa0500960:CDS | 45.0% | |
| ! | CTGTAGATAAAGAGGGCGTG+TGG | - | chr3_4:41629003-41629022 | Msa0500950:intron | 50.0% |
| ACAGCCCAAAAATCTGCAGC+AGG | + | chr3_4:41629019-41629038 | Msa0500960:intron | 50.0% | |
| CAACATGCTTGCAGTGACTG+CGG | + | chr3_4:41629417-41629436 | Msa0500960:CDS | 50.0% | |
| ! | CTGTAGATAAAGAGGGCGTG+TGG | - | chr3_4:41629003-41629022 | Msa0500950:intron | 50.0% |
| ACAGCCCAAAAATCTGCAGC+AGG | + | chr3_4:41629019-41629038 | Msa0500960:intron | 50.0% | |
| CAACATGCTTGCAGTGACTG+CGG | + | chr3_4:41629417-41629436 | Msa0500960:CDS | 50.0% | |
| CAAGTGCATAATCCCCTCGC+TGG | - | chr3_4:41629286-41629305 | None:intergenic | 55.0% | |
| GTCACTGCAAGCATGTTGGC+TGG | - | chr3_4:41629415-41629434 | None:intergenic | 55.0% | |
| CGCAGTCACTGCAAGCATGT+TGG | - | chr3_4:41629419-41629438 | None:intergenic | 55.0% | |
| CAAGTGCATAATCCCCTCGC+TGG | - | chr3_4:41629286-41629305 | None:intergenic | 55.0% | |
| GTCACTGCAAGCATGTTGGC+TGG | - | chr3_4:41629415-41629434 | None:intergenic | 55.0% | |
| CGCAGTCACTGCAAGCATGT+TGG | - | chr3_4:41629419-41629438 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 41628808 | 41629771 | 41628808 | ID=Msa0500960;Name=Msa0500960 |
| chr3_4 | mRNA | 41628808 | 41629771 | 41628808 | ID=Msa0500960-mRNA-1;Parent=Msa0500960;Name=Msa0500960-mRNA-1;_AED=0.67;_eAED=0.67;_QI=0|0|0|0.5|1|1|2|0|196 |
| chr3_4 | exon | 41628808 | 41628904 | 41628808 | ID=Msa0500960-mRNA-1:exon:8719;Parent=Msa0500960-mRNA-1 |
| chr3_4 | exon | 41629278 | 41629771 | 41629278 | ID=Msa0500960-mRNA-1:exon:8720;Parent=Msa0500960-mRNA-1 |
| chr3_4 | CDS | 41628808 | 41628904 | 41628808 | ID=Msa0500960-mRNA-1:cds;Parent=Msa0500960-mRNA-1 |
| chr3_4 | CDS | 41629278 | 41629771 | 41629278 | ID=Msa0500960-mRNA-1:cds;Parent=Msa0500960-mRNA-1 |
| Gene Sequence |
| Protein sequence |
