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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0487370 | AES68846.1 | 60.563 | 71 | 6 | 2 | 1 | 69 | 1 | 51 | 1.52e-13 | 71.6 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0487370 | G7IYS7 | 60.563 | 71 | 6 | 2 | 1 | 69 | 1 | 51 | 7.24e-14 | 71.6 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0232910 | Msa0487370 | 0.800140 | 1.657275e-48 | -8.615850e-47 |
| Msa0487360 | Msa0487370 | 0.935508 | 7.592601e-97 | -8.615850e-47 |
| Msa0487370 | Msa1026500 | 0.804496 | 2.100778e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0487370 | MtrunA17_Chr3g0083271 | 60.563 | 71 | 6 | 2 | 1 | 69 | 1 | 51 | 1.40e-17 | 71.6 |
| Msa0487370 | MtrunA17_Chr3g0082461 | 47.788 | 113 | 15 | 5 | 1 | 111 | 1 | 71 | 4.48e-11 | 55.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 39 sgRNAs with CRISPR-Local
Find 57 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGTAAGGTGTTATCTTCTTT+TGG | 0.201728 | 3_4:+6231431 | None:intergenic |
| GGTAAGGTGTTATCTTCTTT+TGG | 0.201728 | 3_4:+6231503 | None:intergenic |
| AAATGAGTGTTATCTTCTTT+TGG | 0.250224 | 3_4:+6231359 | None:intergenic |
| GGGTGTTGAGGAGGCTTTCT+TGG | 0.292723 | 3_4:+6231455 | None:intergenic |
| GGGTGATGAGGAGGCTTTCT+TGG | 0.325110 | 3_4:+6231383 | None:intergenic |
| ATTCTCATCCCTCAAGGCTT+TGG | 0.330550 | 3_4:-6231698 | Msa0487370:CDS |
| GTTGGCAGGGTAAGTTGGTT+TGG | 0.333736 | 3_4:+6231409 | None:intergenic |
| TTTGGGTTGGGTTGGTTGGT+AGG | 0.340770 | 3_4:+6231548 | None:intergenic |
| ACGGTGGTTTGTGTTTATTA+TGG | 0.357596 | 3_4:+6231660 | None:intergenic |
| TTGGCAGGGTAAGTTGGTTT+GGG | 0.367053 | 3_4:+6231410 | None:intergenic |
| GCTGGCAGGGTAAGTTGGTT+TGG | 0.375568 | 3_4:+6231481 | None:intergenic |
| GGTTGGTTGGTAGGATGTAT+AGG | 0.386912 | 3_4:+6231557 | None:intergenic |
| CCACCATCTACTCAAGGATT+TGG | 0.393716 | 3_4:-6231587 | Msa0487370:CDS |
| TGAGTAGATGGTGGATGTTT+AGG | 0.399624 | 3_4:+6231596 | None:intergenic |
| AGGGTAAGTTGGTTTGGGTA+AGG | 0.401305 | 3_4:+6231415 | None:intergenic |
| AGGGTAAGTTGGTTTGGGTA+AGG | 0.401305 | 3_4:+6231487 | None:intergenic |
| CTGGCAGGGTAAGTTGGTTT+GGG | 0.411964 | 3_4:+6231482 | None:intergenic |
| GGCTTTCTTGGAATGCTGGC+AGG | 0.413646 | 3_4:+6231467 | None:intergenic |
| GGCTTTCTTGGAATGTTGGC+AGG | 0.415195 | 3_4:+6231395 | None:intergenic |
| TCACCAAATCCTTGAGTAGA+TGG | 0.432255 | 3_4:+6231584 | None:intergenic |
| AGGAGGCTTTCTTGGAATGC+TGG | 0.435548 | 3_4:+6231463 | None:intergenic |
| GGTTTGTGTTTATTATGGTT+TGG | 0.471548 | 3_4:+6231665 | None:intergenic |
| GTTGAGCACCAAAGCCTTGA+GGG | 0.482178 | 3_4:+6231690 | None:intergenic |
| TCTCTTATTCTCATCCCTCA+AGG | 0.490859 | 3_4:-6231704 | Msa0487370:CDS |
| GGAATGCTGGCAGGGTAAGT+TGG | 0.491701 | 3_4:+6231476 | None:intergenic |
| AGGAGGCTTTCTTGGAATGT+TGG | 0.492598 | 3_4:+6231391 | None:intergenic |
| GGAATGTTGGCAGGGTAAGT+TGG | 0.494184 | 3_4:+6231404 | None:intergenic |
| TTGTGTTTATTATGGTTTGG+AGG | 0.506608 | 3_4:+6231668 | None:intergenic |
| GCTTTCTTGGAATGCTGGCA+GGG | 0.564002 | 3_4:+6231468 | None:intergenic |
| CACAAACCACCGTCTACTCA+AGG | 0.569030 | 3_4:-6231650 | Msa0487370:CDS |
| GGATGAGAATAAGAGAAGCA+AGG | 0.575636 | 3_4:+6231711 | None:intergenic |
| GAAGCAAATCCTTGAGTAGA+CGG | 0.588915 | 3_4:+6231641 | None:intergenic |
| AAACATCCACCATCTACTCA+AGG | 0.614124 | 3_4:-6231593 | Msa0487370:CDS |
| CCAAATCCTTGAGTAGATGG+TGG | 0.614476 | 3_4:+6231587 | None:intergenic |
| GGTTGAGCACCAAAGCCTTG+AGG | 0.627683 | 3_4:+6231689 | None:intergenic |
| GCTTTCTTGGAATGTTGGCA+GGG | 0.628633 | 3_4:+6231396 | None:intergenic |
| GAAAGACACAAGCAAGTACG+AGG | 0.644201 | 3_4:+6231733 | None:intergenic |
| GGATGTTTAGGATGATCATG+AGG | 0.681938 | 3_4:+6231608 | None:intergenic |
| GCAAATCCTTGAGTAGACGG+TGG | 0.700559 | 3_4:+6231644 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATGAGTGTTATCTTCTTT+TGG | + | chr3_4:6231745-6231764 | None:intergenic | 25.0% |
| ! | TTGTGTTTATTATGGTTTGG+AGG | + | chr3_4:6231436-6231455 | None:intergenic | 30.0% |
| GGTTTGTGTTTATTATGGTT+TGG | + | chr3_4:6231439-6231458 | None:intergenic | 30.0% | |
| ! | ACGGTGGTTTGTGTTTATTA+TGG | + | chr3_4:6231444-6231463 | None:intergenic | 35.0% |
| !! | AGGTGTTATCTTCTTTTGGA+GGG | + | chr3_4:6231597-6231616 | None:intergenic | 35.0% |
| !! | AAGGTGTTATCTTCTTTTGG+AGG | + | chr3_4:6231598-6231617 | None:intergenic | 35.0% |
| !! | GGTAAGGTGTTATCTTCTTT+TGG | + | chr3_4:6231601-6231620 | None:intergenic | 35.0% |
| !! | AGGTGTTATCTTCTTTTGGA+GGG | + | chr3_4:6231597-6231616 | None:intergenic | 35.0% |
| !! | AAGGTGTTATCTTCTTTTGG+AGG | + | chr3_4:6231598-6231617 | None:intergenic | 35.0% |
| !! | GGTAAGGTGTTATCTTCTTT+TGG | + | chr3_4:6231601-6231620 | None:intergenic | 35.0% |
| ! | GAGTGTTATCTTCTTTTGGA+GGG | + | chr3_4:6231741-6231760 | None:intergenic | 35.0% |
| ! | TGAGTGTTATCTTCTTTTGG+AGG | + | chr3_4:6231742-6231761 | None:intergenic | 35.0% |
| GGATGAGAATAAGAGAAGCA+AGG | + | chr3_4:6231393-6231412 | None:intergenic | 40.0% | |
| TCTCTTATTCTCATCCCTCA+AGG | - | chr3_4:6231397-6231416 | Msa0487370:CDS | 40.0% | |
| GAAGCAAATCCTTGAGTAGA+CGG | + | chr3_4:6231463-6231482 | None:intergenic | 40.0% | |
| ! | GGATGTTTAGGATGATCATG+AGG | + | chr3_4:6231496-6231515 | None:intergenic | 40.0% |
| !! | TGAGTAGATGGTGGATGTTT+AGG | + | chr3_4:6231508-6231527 | None:intergenic | 40.0% |
| AAACATCCACCATCTACTCA+AGG | - | chr3_4:6231508-6231527 | Msa0487370:CDS | 40.0% | |
| TCACCAAATCCTTGAGTAGA+TGG | + | chr3_4:6231520-6231539 | None:intergenic | 40.0% | |
| !!! | GGATCATGCTTTTTTGGGTT+GGG | + | chr3_4:6231568-6231587 | None:intergenic | 40.0% |
| !!! | AGGATCATGCTTTTTTGGGT+TGG | + | chr3_4:6231569-6231588 | None:intergenic | 40.0% |
| !!! | GGTGAGGATCATGCTTTTTT+GGG | + | chr3_4:6231573-6231592 | None:intergenic | 40.0% |
| !!! | TGGTGAGGATCATGCTTTTT+TGG | + | chr3_4:6231574-6231593 | None:intergenic | 40.0% |
| !! | TGTTATCTTCTTTTGGAGGG+TGG | + | chr3_4:6231594-6231613 | None:intergenic | 40.0% |
| GAAAGACACAAGCAAGTACG+AGG | + | chr3_4:6231371-6231390 | None:intergenic | 45.0% | |
| ATTCTCATCCCTCAAGGCTT+TGG | - | chr3_4:6231403-6231422 | Msa0487370:CDS | 45.0% | |
| CCAAATCCTTGAGTAGATGG+TGG | + | chr3_4:6231517-6231536 | None:intergenic | 45.0% | |
| CCACCATCTACTCAAGGATT+TGG | - | chr3_4:6231514-6231533 | Msa0487370:CDS | 45.0% | |
| !! | GGTTGGTTGGTAGGATGTAT+AGG | + | chr3_4:6231547-6231566 | None:intergenic | 45.0% |
| !!! | CTTTTTTGGGTTGGGTTGGT+TGG | + | chr3_4:6231560-6231579 | None:intergenic | 45.0% |
| !!! | CATGCTTTTTTGGGTTGGGT+TGG | + | chr3_4:6231564-6231583 | None:intergenic | 45.0% |
| !! | AGGGTAAGTTGGTTTGGGTA+AGG | + | chr3_4:6231617-6231636 | None:intergenic | 45.0% |
| !!! | TCTTCTTTTGGAGGGTGTTG+AGG | + | chr3_4:6231661-6231680 | None:intergenic | 45.0% |
| !! | AGGGTAAGTTGGTTTGGGTA+AGG | + | chr3_4:6231617-6231636 | None:intergenic | 45.0% |
| !! | TTGGCAGGGTAAGTTGGTTT+GGG | + | chr3_4:6231694-6231713 | None:intergenic | 45.0% |
| GCTTTCTTGGAATGTTGGCA+GGG | + | chr3_4:6231708-6231727 | None:intergenic | 45.0% | |
| AGGAGGCTTTCTTGGAATGT+TGG | + | chr3_4:6231713-6231732 | None:intergenic | 45.0% | |
| !! | TCTTCTTTTGGAGGGTGATG+AGG | + | chr3_4:6231733-6231752 | None:intergenic | 45.0% |
| GTTGAGCACCAAAGCCTTGA+GGG | + | chr3_4:6231414-6231433 | None:intergenic | 50.0% | |
| CACAAACCACCGTCTACTCA+AGG | - | chr3_4:6231451-6231470 | Msa0487370:CDS | 50.0% | |
| GCAAATCCTTGAGTAGACGG+TGG | + | chr3_4:6231460-6231479 | None:intergenic | 50.0% | |
| !! | TTTGGGTTGGGTTGGTTGGT+AGG | + | chr3_4:6231556-6231575 | None:intergenic | 50.0% |
| !! | TCTTCTTTTGGAGGGTGGTG+AGG | + | chr3_4:6231589-6231608 | None:intergenic | 50.0% |
| !! | CTGGCAGGGTAAGTTGGTTT+GGG | + | chr3_4:6231622-6231641 | None:intergenic | 50.0% |
| GCTTTCTTGGAATGCTGGCA+GGG | + | chr3_4:6231636-6231655 | None:intergenic | 50.0% | |
| AGGAGGCTTTCTTGGAATGC+TGG | + | chr3_4:6231641-6231660 | None:intergenic | 50.0% | |
| !!! | TCTTTTGGAGGGTGTTGAGG+AGG | + | chr3_4:6231658-6231677 | None:intergenic | 50.0% |
| !! | GTTGGCAGGGTAAGTTGGTT+TGG | + | chr3_4:6231695-6231714 | None:intergenic | 50.0% |
| GGAATGTTGGCAGGGTAAGT+TGG | + | chr3_4:6231700-6231719 | None:intergenic | 50.0% | |
| GGCTTTCTTGGAATGTTGGC+AGG | + | chr3_4:6231709-6231728 | None:intergenic | 50.0% | |
| !! | TCTTTTGGAGGGTGATGAGG+AGG | + | chr3_4:6231730-6231749 | None:intergenic | 50.0% |
| GGTTGAGCACCAAAGCCTTG+AGG | + | chr3_4:6231415-6231434 | None:intergenic | 55.0% | |
| !! | GCTGGCAGGGTAAGTTGGTT+TGG | + | chr3_4:6231623-6231642 | None:intergenic | 55.0% |
| GGAATGCTGGCAGGGTAAGT+TGG | + | chr3_4:6231628-6231647 | None:intergenic | 55.0% | |
| GGCTTTCTTGGAATGCTGGC+AGG | + | chr3_4:6231637-6231656 | None:intergenic | 55.0% | |
| !! | GGGTGTTGAGGAGGCTTTCT+TGG | + | chr3_4:6231649-6231668 | None:intergenic | 55.0% |
| GGGTGATGAGGAGGCTTTCT+TGG | + | chr3_4:6231721-6231740 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 6231355 | 6231768 | 6231355 | ID=Msa0487370;Name=Msa0487370 |
| chr3_4 | mRNA | 6231355 | 6231768 | 6231355 | ID=Msa0487370-mRNA-1;Parent=Msa0487370;Name=Msa0487370-mRNA-1;_AED=0.00;_eAED=0.08;_QI=0|-1|0|1|-1|1|1|0|137 |
| chr3_4 | exon | 6231355 | 6231768 | 6231355 | ID=Msa0487370-mRNA-1:exon:2158;Parent=Msa0487370-mRNA-1 |
| chr3_4 | CDS | 6231355 | 6231768 | 6231355 | ID=Msa0487370-mRNA-1:cds;Parent=Msa0487370-mRNA-1 |
| Gene Sequence |
| Protein sequence |
