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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0445840 | XP_004513385.1 | 52.261 | 199 | 29 | 4 | 2 | 134 | 86 | 284 | 5.09e-50 | 177 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0445840 | sp|G7J1L1|TF80_MEDTR | 51.020 | 196 | 33 | 4 | 2 | 134 | 86 | 281 | 1.54e-49 | 168 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0445840 | A0A1S2Z1N2 | 52.261 | 199 | 29 | 4 | 2 | 134 | 86 | 284 | 2.43e-50 | 177 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0445840 | TF | GRAS |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0445840 | MtrunA17_Chr3g0085361 | 50.000 | 194 | 34 | 4 | 4 | 134 | 3 | 196 | 1.09e-50 | 166 |
| Msa0445840 | MtrunA17_Chr3g0085681 | 51.020 | 196 | 33 | 4 | 2 | 134 | 86 | 281 | 1.13e-50 | 168 |
| Msa0445840 | MtrunA17_Chr5g0396491 | 39.716 | 141 | 53 | 2 | 2 | 110 | 117 | 257 | 2.69e-22 | 92.4 |
| Msa0445840 | MtrunA17_Chr4g0038851 | 34.752 | 141 | 60 | 2 | 2 | 110 | 109 | 249 | 6.62e-19 | 82.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0445840 | AT1G50420.1 | 33.083 | 133 | 57 | 2 | 10 | 110 | 128 | 260 | 2.09e-13 | 67.4 |
Find 17 sgRNAs with CRISPR-Local
Find 110 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGAACATCATTACTTGAT+AGG | 0.314405 | 3_3:-20651149 | Msa0445840:CDS |
| CCTCCCCATCTGAAAATTAC+AGG | 0.336102 | 3_3:-20651651 | Msa0445840:CDS |
| AAACTCGAGAGCATGCTTCT+TGG | 0.351649 | 3_3:-20651181 | Msa0445840:CDS |
| TCATGAAAATACAGAGGAAT+TGG | 0.354254 | 3_3:-20651625 | Msa0445840:CDS |
| GCTAGGCTTGCTGTCTTGAC+AGG | 0.478537 | 3_3:+20651516 | None:intergenic |
| GCAGGAGATGTCGATCCAAT+AGG | 0.490916 | 3_3:-20651573 | Msa0445840:CDS |
| AAGAACATCATTACTTGATA+GGG | 0.495791 | 3_3:-20651148 | Msa0445840:CDS |
| AGAGGTGATAATGCCGAGTC+GGG | 0.496507 | 3_3:+20651402 | None:intergenic |
| TGAATCCATGGAATTTGAAA+AGG | 0.497985 | 3_3:-20651756 | Msa0445840:intron |
| TCTGCAGATTGATATATGCT+AGG | 0.567456 | 3_3:+20651499 | None:intergenic |
| GAGAGGTGATAATGCCGAGT+CGG | 0.568658 | 3_3:+20651401 | None:intergenic |
| TCTGCAGAGAGCGGTTCACA+CGG | 0.586171 | 3_3:-20651484 | Msa0445840:CDS |
| ATATATCTTGAGTCCCGACT+CGG | 0.590456 | 3_3:-20651415 | Msa0445840:CDS |
| TACTGTTACGAGAACATCAG+TGG | 0.610239 | 3_3:-20651208 | Msa0445840:CDS |
| CTGCAGAGAGCGGTTCACAC+GGG | 0.650911 | 3_3:-20651483 | Msa0445840:intron |
| ATATATCAATCTGCAGAGAG+CGG | 0.680973 | 3_3:-20651493 | Msa0445840:CDS |
| AGGCATTCATGAAAATACAG+AGG | 0.704902 | 3_3:-20651631 | Msa0445840:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TCTAAATGGATGTAATTTAA+CGG | - | chr3_3:20651725-20651744 | Msa0445840:intron | 20.0% |
| !! | TCTAAATGGATGTAATTTAA+CGG | - | chr3_3:20651725-20651744 | Msa0445840:intron | 20.0% |
| !!! | CAATTTTTTGATTTGTTACC+AGG | + | chr3_3:20651234-20651253 | None:intergenic | 25.0% |
| ! | TCAAAAAATTGTTGAATCCA+TGG | - | chr3_3:20651243-20651262 | Msa0445840:intron | 25.0% |
| ! | AAACTACAACCAAAACTTTA+AGG | - | chr3_3:20651681-20651700 | Msa0445840:intron | 25.0% |
| ! | AACTACAACCAAAACTTTAA+GGG | - | chr3_3:20651682-20651701 | Msa0445840:intron | 25.0% |
| ! | AAAGAACATCATTACTTGAT+AGG | - | chr3_3:20651862-20651881 | Msa0445840:CDS | 25.0% |
| ! | AAGAACATCATTACTTGATA+GGG | - | chr3_3:20651863-20651882 | Msa0445840:CDS | 25.0% |
| !!! | CAATTTTTTGATTTGTTACC+AGG | + | chr3_3:20651234-20651253 | None:intergenic | 25.0% |
| ! | TCAAAAAATTGTTGAATCCA+TGG | - | chr3_3:20651243-20651262 | Msa0445840:intron | 25.0% |
| ! | AAACTACAACCAAAACTTTA+AGG | - | chr3_3:20651681-20651700 | Msa0445840:intron | 25.0% |
| ! | AACTACAACCAAAACTTTAA+GGG | - | chr3_3:20651682-20651701 | Msa0445840:intron | 25.0% |
| ! | AAAGAACATCATTACTTGAT+AGG | - | chr3_3:20651862-20651881 | Msa0445840:CDS | 25.0% |
| ! | AAGAACATCATTACTTGATA+GGG | - | chr3_3:20651863-20651882 | Msa0445840:CDS | 25.0% |
| !! | AACAATGTTTTCGAGGAATT+GGG | + | chr3_3:20651145-20651164 | None:intergenic | 30.0% |
| AGGTATGAAAACCTCAAAAA+TGG | + | chr3_3:20651214-20651233 | None:intergenic | 30.0% | |
| !!! | ATTTTTGAGGTTTTCATACC+TGG | - | chr3_3:20651213-20651232 | Msa0445840:CDS | 30.0% |
| TGAATCCATGGAATTTGAAA+AGG | - | chr3_3:20651255-20651274 | Msa0445840:intron | 30.0% | |
| ! | AATGCCTGTAATTTTCAGAT+GGG | + | chr3_3:20651367-20651386 | None:intergenic | 30.0% |
| TCATGAAAATACAGAGGAAT+TGG | - | chr3_3:20651386-20651405 | Msa0445840:intron | 30.0% | |
| ! | TTTCATTTTACAACTGAAGC+AGG | - | chr3_3:20651420-20651439 | Msa0445840:CDS | 30.0% |
| ! | TTTAGGTGTTTTACCTAAGA+TGG | - | chr3_3:20651635-20651654 | Msa0445840:CDS | 30.0% |
| ! | TTAGGTGTTTTACCTAAGAT+GGG | - | chr3_3:20651636-20651655 | Msa0445840:CDS | 30.0% |
| TTAAGAAAGATTCCCATCTT+AGG | + | chr3_3:20651651-20651670 | None:intergenic | 30.0% | |
| GAACAGGAATCAAATCTAAA+TGG | - | chr3_3:20651711-20651730 | Msa0445840:intron | 30.0% | |
| !! | AACAATGTTTTCGAGGAATT+GGG | + | chr3_3:20651145-20651164 | None:intergenic | 30.0% |
| AGGTATGAAAACCTCAAAAA+TGG | + | chr3_3:20651214-20651233 | None:intergenic | 30.0% | |
| !!! | ATTTTTGAGGTTTTCATACC+TGG | - | chr3_3:20651213-20651232 | Msa0445840:CDS | 30.0% |
| TGAATCCATGGAATTTGAAA+AGG | - | chr3_3:20651255-20651274 | Msa0445840:intron | 30.0% | |
| ! | AATGCCTGTAATTTTCAGAT+GGG | + | chr3_3:20651367-20651386 | None:intergenic | 30.0% |
| TCATGAAAATACAGAGGAAT+TGG | - | chr3_3:20651386-20651405 | Msa0445840:intron | 30.0% | |
| ! | TTTCATTTTACAACTGAAGC+AGG | - | chr3_3:20651420-20651439 | Msa0445840:CDS | 30.0% |
| ! | TTTAGGTGTTTTACCTAAGA+TGG | - | chr3_3:20651635-20651654 | Msa0445840:CDS | 30.0% |
| ! | TTAGGTGTTTTACCTAAGAT+GGG | - | chr3_3:20651636-20651655 | Msa0445840:CDS | 30.0% |
| TTAAGAAAGATTCCCATCTT+AGG | + | chr3_3:20651651-20651670 | None:intergenic | 30.0% | |
| GAACAGGAATCAAATCTAAA+TGG | - | chr3_3:20651711-20651730 | Msa0445840:intron | 30.0% | |
| !! | CAACAATGTTTTCGAGGAAT+TGG | + | chr3_3:20651146-20651165 | None:intergenic | 35.0% |
| ! | TGAAGACAACAATGTTTTCG+AGG | + | chr3_3:20651152-20651171 | None:intergenic | 35.0% |
| ATCCATGGAATTTGAAAAGG+TGG | - | chr3_3:20651258-20651277 | Msa0445840:intron | 35.0% | |
| ! | AACCACCTTTTCAAATTCCA+TGG | + | chr3_3:20651263-20651282 | None:intergenic | 35.0% |
| CTAAGATTTCTCCATTAAGC+TGG | + | chr3_3:20651313-20651332 | None:intergenic | 35.0% | |
| AACCTTAAAAAACGTCAGAG+CGG | - | chr3_3:20651336-20651355 | Msa0445840:intron | 35.0% | |
| ! | ATGCCTGTAATTTTCAGATG+GGG | + | chr3_3:20651366-20651385 | None:intergenic | 35.0% |
| ! | GAATGCCTGTAATTTTCAGA+TGG | + | chr3_3:20651368-20651387 | None:intergenic | 35.0% |
| AGGCATTCATGAAAATACAG+AGG | - | chr3_3:20651380-20651399 | Msa0445840:intron | 35.0% | |
| TCTGCAGATTGATATATGCT+AGG | + | chr3_3:20651515-20651534 | None:intergenic | 35.0% | |
| ATATATCAATCTGCAGAGAG+CGG | - | chr3_3:20651518-20651537 | Msa0445840:CDS | 35.0% | |
| ! | GCATTATCACCTCTCTTTTT+AGG | - | chr3_3:20651618-20651637 | Msa0445840:CDS | 35.0% |
| GGTAAAACACCTAAAAAGAG+AGG | + | chr3_3:20651630-20651649 | None:intergenic | 35.0% | |
| ! | TCAGCAATCCCTTAAAGTTT+TGG | + | chr3_3:20651693-20651712 | None:intergenic | 35.0% |
| !!! | CAGTTCTTTTTTTGACTGCT+TGG | - | chr3_3:20651776-20651795 | Msa0445840:CDS | 35.0% |
| !! | CAACAATGTTTTCGAGGAAT+TGG | + | chr3_3:20651146-20651165 | None:intergenic | 35.0% |
| ! | TGAAGACAACAATGTTTTCG+AGG | + | chr3_3:20651152-20651171 | None:intergenic | 35.0% |
| ATCCATGGAATTTGAAAAGG+TGG | - | chr3_3:20651258-20651277 | Msa0445840:intron | 35.0% | |
| ! | AACCACCTTTTCAAATTCCA+TGG | + | chr3_3:20651263-20651282 | None:intergenic | 35.0% |
| CTAAGATTTCTCCATTAAGC+TGG | + | chr3_3:20651313-20651332 | None:intergenic | 35.0% | |
| AACCTTAAAAAACGTCAGAG+CGG | - | chr3_3:20651336-20651355 | Msa0445840:intron | 35.0% | |
| ! | ATGCCTGTAATTTTCAGATG+GGG | + | chr3_3:20651366-20651385 | None:intergenic | 35.0% |
| ! | GAATGCCTGTAATTTTCAGA+TGG | + | chr3_3:20651368-20651387 | None:intergenic | 35.0% |
| AGGCATTCATGAAAATACAG+AGG | - | chr3_3:20651380-20651399 | Msa0445840:intron | 35.0% | |
| TCTGCAGATTGATATATGCT+AGG | + | chr3_3:20651515-20651534 | None:intergenic | 35.0% | |
| ATATATCAATCTGCAGAGAG+CGG | - | chr3_3:20651518-20651537 | Msa0445840:CDS | 35.0% | |
| ! | GCATTATCACCTCTCTTTTT+AGG | - | chr3_3:20651618-20651637 | Msa0445840:CDS | 35.0% |
| GGTAAAACACCTAAAAAGAG+AGG | + | chr3_3:20651630-20651649 | None:intergenic | 35.0% | |
| ! | TCAGCAATCCCTTAAAGTTT+TGG | + | chr3_3:20651693-20651712 | None:intergenic | 35.0% |
| !!! | CAGTTCTTTTTTTGACTGCT+TGG | - | chr3_3:20651776-20651795 | Msa0445840:CDS | 35.0% |
| !! | CTGAACTGTGTCCATTTTTG+AGG | - | chr3_3:20651200-20651219 | Msa0445840:CDS | 40.0% |
| ATTTCTCCATTAAGCTGGCT+CGG | + | chr3_3:20651308-20651327 | None:intergenic | 40.0% | |
| ! | CTGTAATTTTCAGATGGGGA+GGG | + | chr3_3:20651362-20651381 | None:intergenic | 40.0% |
| !! | TCTTCGAGTTTTCTGCCTAT+TGG | + | chr3_3:20651456-20651475 | None:intergenic | 40.0% |
| ATATATCTTGAGTCCCGACT+CGG | - | chr3_3:20651596-20651615 | Msa0445840:CDS | 40.0% | |
| ! | ACTTTAAGGGATTGCTGAAC+AGG | - | chr3_3:20651695-20651714 | Msa0445840:intron | 40.0% |
| TACTGTTACGAGAACATCAG+TGG | - | chr3_3:20651803-20651822 | Msa0445840:CDS | 40.0% | |
| !! | CTGAACTGTGTCCATTTTTG+AGG | - | chr3_3:20651200-20651219 | Msa0445840:CDS | 40.0% |
| ATTTCTCCATTAAGCTGGCT+CGG | + | chr3_3:20651308-20651327 | None:intergenic | 40.0% | |
| ! | CTGTAATTTTCAGATGGGGA+GGG | + | chr3_3:20651362-20651381 | None:intergenic | 40.0% |
| !! | TCTTCGAGTTTTCTGCCTAT+TGG | + | chr3_3:20651456-20651475 | None:intergenic | 40.0% |
| ATATATCTTGAGTCCCGACT+CGG | - | chr3_3:20651596-20651615 | Msa0445840:CDS | 40.0% | |
| ! | ACTTTAAGGGATTGCTGAAC+AGG | - | chr3_3:20651695-20651714 | Msa0445840:intron | 40.0% |
| TACTGTTACGAGAACATCAG+TGG | - | chr3_3:20651803-20651822 | Msa0445840:CDS | 40.0% | |
| !! | ATTAAGCTGGCTCGGAACAA+TGG | + | chr3_3:20651300-20651319 | None:intergenic | 45.0% |
| ATTGTTCCGAGCCAGCTTAA+TGG | - | chr3_3:20651299-20651318 | Msa0445840:intron | 45.0% | |
| ! | CCTGTAATTTTCAGATGGGG+AGG | + | chr3_3:20651363-20651382 | None:intergenic | 45.0% |
| CCTCCCCATCTGAAAATTAC+AGG | - | chr3_3:20651360-20651379 | Msa0445840:intron | 45.0% | |
| ! | AAACTCGAGAGCATGCTTCT+TGG | - | chr3_3:20651830-20651849 | Msa0445840:CDS | 45.0% |
| !! | ATTAAGCTGGCTCGGAACAA+TGG | + | chr3_3:20651300-20651319 | None:intergenic | 45.0% |
| ATTGTTCCGAGCCAGCTTAA+TGG | - | chr3_3:20651299-20651318 | Msa0445840:intron | 45.0% | |
| ! | CCTGTAATTTTCAGATGGGG+AGG | + | chr3_3:20651363-20651382 | None:intergenic | 45.0% |
| CCTCCCCATCTGAAAATTAC+AGG | - | chr3_3:20651360-20651379 | Msa0445840:intron | 45.0% | |
| ! | AAACTCGAGAGCATGCTTCT+TGG | - | chr3_3:20651830-20651849 | Msa0445840:CDS | 45.0% |
| !!! | GGCCGCTCTGACGTTTTTTA+AGG | + | chr3_3:20651341-20651360 | None:intergenic | 50.0% |
| GCAGGAGATGTCGATCCAAT+AGG | - | chr3_3:20651438-20651457 | Msa0445840:CDS | 50.0% | |
| !! | TCACACGGGTTAGAGGACTT+TGG | - | chr3_3:20651542-20651561 | Msa0445840:CDS | 50.0% |
| GTTAGAGGACTTTGGCAGAG+TGG | - | chr3_3:20651550-20651569 | Msa0445840:CDS | 50.0% | |
| ! | AGAGGTGATAATGCCGAGTC+GGG | + | chr3_3:20651612-20651631 | None:intergenic | 50.0% |
| ! | GAGAGGTGATAATGCCGAGT+CGG | + | chr3_3:20651613-20651632 | None:intergenic | 50.0% |
| !!! | GGCCGCTCTGACGTTTTTTA+AGG | + | chr3_3:20651341-20651360 | None:intergenic | 50.0% |
| GCAGGAGATGTCGATCCAAT+AGG | - | chr3_3:20651438-20651457 | Msa0445840:CDS | 50.0% | |
| !! | TCACACGGGTTAGAGGACTT+TGG | - | chr3_3:20651542-20651561 | Msa0445840:CDS | 50.0% |
| GTTAGAGGACTTTGGCAGAG+TGG | - | chr3_3:20651550-20651569 | Msa0445840:CDS | 50.0% | |
| ! | AGAGGTGATAATGCCGAGTC+GGG | + | chr3_3:20651612-20651631 | None:intergenic | 50.0% |
| ! | GAGAGGTGATAATGCCGAGT+CGG | + | chr3_3:20651613-20651632 | None:intergenic | 50.0% |
| !! | GCTAGGCTTGCTGTCTTGAC+AGG | + | chr3_3:20651498-20651517 | None:intergenic | 55.0% |
| TCTGCAGAGAGCGGTTCACA+CGG | - | chr3_3:20651527-20651546 | Msa0445840:CDS | 55.0% | |
| !! | GCTAGGCTTGCTGTCTTGAC+AGG | + | chr3_3:20651498-20651517 | None:intergenic | 55.0% |
| TCTGCAGAGAGCGGTTCACA+CGG | - | chr3_3:20651527-20651546 | Msa0445840:CDS | 55.0% | |
| CTGCAGAGAGCGGTTCACAC+GGG | - | chr3_3:20651528-20651547 | Msa0445840:CDS | 60.0% | |
| !! | GAGCGGTTCACACGGGTTAG+AGG | - | chr3_3:20651535-20651554 | Msa0445840:CDS | 60.0% |
| CTGCAGAGAGCGGTTCACAC+GGG | - | chr3_3:20651528-20651547 | Msa0445840:CDS | 60.0% | |
| !! | GAGCGGTTCACACGGGTTAG+AGG | - | chr3_3:20651535-20651554 | Msa0445840:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 20651142 | 20651891 | 20651142 | ID=Msa0445840;Name=Msa0445840 |
| chr3_3 | mRNA | 20651142 | 20651891 | 20651142 | ID=Msa0445840-mRNA-1;Parent=Msa0445840;Name=Msa0445840-mRNA-1;_AED=0.28;_eAED=0.43;_QI=0|0|0|1|0|0|4|0|172 |
| chr3_3 | exon | 20651757 | 20651891 | 20651757 | ID=Msa0445840-mRNA-1:exon:4371;Parent=Msa0445840-mRNA-1 |
| chr3_3 | exon | 20651484 | 20651679 | 20651484 | ID=Msa0445840-mRNA-1:exon:4370;Parent=Msa0445840-mRNA-1 |
| chr3_3 | exon | 20651394 | 20651465 | 20651394 | ID=Msa0445840-mRNA-1:exon:4369;Parent=Msa0445840-mRNA-1 |
| chr3_3 | exon | 20651142 | 20651254 | 20651142 | ID=Msa0445840-mRNA-1:exon:4368;Parent=Msa0445840-mRNA-1 |
| chr3_3 | CDS | 20651757 | 20651891 | 20651757 | ID=Msa0445840-mRNA-1:cds;Parent=Msa0445840-mRNA-1 |
| chr3_3 | CDS | 20651484 | 20651679 | 20651484 | ID=Msa0445840-mRNA-1:cds;Parent=Msa0445840-mRNA-1 |
| chr3_3 | CDS | 20651394 | 20651465 | 20651394 | ID=Msa0445840-mRNA-1:cds;Parent=Msa0445840-mRNA-1 |
| chr3_3 | CDS | 20651142 | 20651254 | 20651142 | ID=Msa0445840-mRNA-1:cds;Parent=Msa0445840-mRNA-1 |
| Gene Sequence |
| Protein sequence |
