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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1143960 | XP_039686443.1 | 95.506 | 89 | 4 | 0 | 7 | 95 | 1 | 89 | 1.99e-52 | 178 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1143960 | A0A072VK17 | 71.910 | 89 | 23 | 1 | 7 | 95 | 1 | 87 | 1.03e-34 | 124 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1143960 | TF | FAR1 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1143960 | MtrunA17_Chr3g0082121 | 64.045 | 89 | 32 | 0 | 6 | 94 | 7 | 95 | 2.56e-32 | 117 |
| Msa1143960 | MtrunA17_Chr5g0401121 | 60.000 | 90 | 32 | 1 | 5 | 94 | 23 | 108 | 7.63e-29 | 101 |
| Msa1143960 | MtrunA17_Chr6g0458391 | 55.000 | 60 | 27 | 0 | 35 | 94 | 218 | 277 | 7.80e-18 | 76.6 |
| Msa1143960 | MtrunA17_Chr6g0458391 | 49.091 | 55 | 28 | 0 | 40 | 94 | 89 | 143 | 1.33e-12 | 62.0 |
| Msa1143960 | MtrunA17_Chr1g0203721 | 47.917 | 48 | 25 | 0 | 47 | 94 | 68 | 115 | 5.66e-12 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1143960 | AT2G43280.1 | 50.909 | 55 | 27 | 0 | 40 | 94 | 20 | 74 | 2.65e-11 | 57.4 |
Find 15 sgRNAs with CRISPR-Local
Find 24 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGACAATTCTGTTGATAAAT+TGG | 0.199895 | 7_4:-19853353 | Msa1143960:CDS |
| CATGAATCCGTCGTCTATTT+TGG | 0.206115 | 7_4:-19853377 | Msa1143960:CDS |
| TTTGGTATTCGTCGAGAATA+TGG | 0.265133 | 7_4:-19853196 | Msa1143960:CDS |
| AATGAGTATAGTAAAAGAAT+TGG | 0.336174 | 7_4:-19853220 | Msa1143960:CDS |
| TATAGTAAAAGAATTGGATT+TGG | 0.393932 | 7_4:-19853214 | Msa1143960:CDS |
| TGCCGACATCAAACCTCGCT+TGG | 0.474766 | 7_4:-19853284 | Msa1143960:CDS |
| TTGGTATTCGTCGAGAATAT+GGG | 0.496079 | 7_4:-19853195 | Msa1143960:CDS |
| CAATATTCTTGAACAAAATG+AGG | 0.537039 | 7_4:-19853326 | Msa1143960:CDS |
| AGATTCACATGCTACAAAGA+AGG | 0.592653 | 7_4:-19853136 | Msa1143960:CDS |
| CTTGAACAAAATGAGGAACA+TGG | 0.594103 | 7_4:-19853319 | Msa1143960:CDS |
| GGATATGATATTTGAATCCG+AGG | 0.604669 | 7_4:-19853263 | Msa1143960:CDS |
| TCAAATATCATATCCAAGCG+AGG | 0.630717 | 7_4:+19853271 | None:intergenic |
| ATCCAAGCGAGGTTTGATGT+CGG | 0.664750 | 7_4:+19853282 | None:intergenic |
| AAATTCATAAGCATCTACCT+CGG | 0.685544 | 7_4:+19853246 | None:intergenic |
| TTGTCTACCAAAATAGACGA+CGG | 0.691097 | 7_4:+19853370 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAGTAGTAAAAAAAAAAAAA+AGG | + | chr7_4:19853159-19853178 | None:intergenic | 10.0% |
| !!! | TTTTTATTTGTTTGTTTTAA+AGG | - | chr7_4:19853237-19853256 | Msa1143960:CDS | 10.0% |
| !!! | TTTTATTTGTTTGTTTTAAA+GGG | - | chr7_4:19853238-19853257 | Msa1143960:CDS | 10.0% |
| !! | AATGAGTATAGTAAAAGAAT+TGG | - | chr7_4:19853491-19853510 | Msa1143960:intron | 20.0% |
| !! | TATAGTAAAAGAATTGGATT+TGG | - | chr7_4:19853497-19853516 | Msa1143960:intron | 20.0% |
| ! | AACTTAACGAGAAACAAAAA+AGG | + | chr7_4:19853194-19853213 | None:intergenic | 25.0% |
| !!! | TTGTTTCTCGTTAAGTTTTT+TGG | - | chr7_4:19853197-19853216 | Msa1143960:CDS | 25.0% |
| !!! | GTTTTTTGGTTTTTGTTTAC+AGG | - | chr7_4:19853211-19853230 | Msa1143960:CDS | 25.0% |
| !! | AGACAATTCTGTTGATAAAT+TGG | - | chr7_4:19853358-19853377 | Msa1143960:CDS | 25.0% |
| ! | CAATATTCTTGAACAAAATG+AGG | - | chr7_4:19853385-19853404 | Msa1143960:intron | 25.0% |
| AAATTCATAAGCATCTACCT+CGG | + | chr7_4:19853468-19853487 | None:intergenic | 30.0% | |
| GGGAATAAAAGCAAAAAAGA+CGG | - | chr7_4:19853536-19853555 | Msa1143960:intron | 30.0% | |
| GGAATAAAAGCAAAAAAGAC+GGG | - | chr7_4:19853537-19853556 | Msa1143960:intron | 30.0% | |
| GAATAAAAGCAAAAAAGACG+GGG | - | chr7_4:19853538-19853557 | Msa1143960:intron | 30.0% | |
| TTGTCTACCAAAATAGACGA+CGG | + | chr7_4:19853344-19853363 | None:intergenic | 35.0% | |
| CTTGAACAAAATGAGGAACA+TGG | - | chr7_4:19853392-19853411 | Msa1143960:intron | 35.0% | |
| TCAAATATCATATCCAAGCG+AGG | + | chr7_4:19853443-19853462 | None:intergenic | 35.0% | |
| GGATATGATATTTGAATCCG+AGG | - | chr7_4:19853448-19853467 | Msa1143960:intron | 35.0% | |
| TTTGGTATTCGTCGAGAATA+TGG | - | chr7_4:19853515-19853534 | Msa1143960:intron | 35.0% | |
| TTGGTATTCGTCGAGAATAT+GGG | - | chr7_4:19853516-19853535 | Msa1143960:intron | 35.0% | |
| AGATTCACATGCTACAAAGA+AGG | - | chr7_4:19853575-19853594 | Msa1143960:intron | 35.0% | |
| ! | CATGAATCCGTCGTCTATTT+TGG | - | chr7_4:19853334-19853353 | Msa1143960:CDS | 40.0% |
| ATCCAAGCGAGGTTTGATGT+CGG | + | chr7_4:19853432-19853451 | None:intergenic | 45.0% | |
| TGCCGACATCAAACCTCGCT+TGG | - | chr7_4:19853427-19853446 | Msa1143960:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 19853129 | 19853604 | 19853129 | ID=Msa1143960;Name=Msa1143960 |
| chr7_4 | mRNA | 19853129 | 19853604 | 19853129 | ID=Msa1143960-mRNA-1;Parent=Msa1143960;Name=Msa1143960-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0|0|0|0.33|1|1|3|0|95 |
| chr7_4 | exon | 19853599 | 19853604 | 19853599 | ID=Msa1143960-mRNA-1:exon:4623;Parent=Msa1143960-mRNA-1 |
| chr7_4 | exon | 19853515 | 19853521 | 19853515 | ID=Msa1143960-mRNA-1:exon:4622;Parent=Msa1143960-mRNA-1 |
| chr7_4 | exon | 19853129 | 19853403 | 19853129 | ID=Msa1143960-mRNA-1:exon:4621;Parent=Msa1143960-mRNA-1 |
| chr7_4 | CDS | 19853599 | 19853604 | 19853599 | ID=Msa1143960-mRNA-1:cds;Parent=Msa1143960-mRNA-1 |
| chr7_4 | CDS | 19853515 | 19853521 | 19853515 | ID=Msa1143960-mRNA-1:cds;Parent=Msa1143960-mRNA-1 |
| chr7_4 | CDS | 19853129 | 19853403 | 19853129 | ID=Msa1143960-mRNA-1:cds;Parent=Msa1143960-mRNA-1 |
| Gene Sequence |
| Protein sequence |
