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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1097700 | KAG6676317.1 | 76.271 | 59 | 14 | 0 | 13 | 71 | 20 | 78 | 8.72e-13 | 68.6 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1097700 | A0A151TCR6 | 75.000 | 52 | 11 | 1 | 15 | 66 | 1 | 50 | 7.47e-18 | 80.1 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1009980 | Msa1097700 | 0.851873 | 6.681380e-61 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1097700 | MtrunA17_Chr7g0220791 | 92.000 | 50 | 4 | 0 | 19 | 68 | 1 | 50 | 8.65e-17 | 67.0 |
| Msa1097700 | MtrunA17_Chr7g0220801 | 92.000 | 50 | 4 | 0 | 19 | 68 | 1 | 50 | 8.65e-17 | 67.0 |
| Msa1097700 | MtrunA17_Chr7g0220831 | 88.000 | 50 | 6 | 0 | 19 | 68 | 1 | 50 | 4.24e-16 | 65.1 |
| Msa1097700 | MtrunA17_Chr4g0020171 | 88.000 | 50 | 6 | 0 | 19 | 68 | 1 | 50 | 4.24e-16 | 65.1 |
| Msa1097700 | MtrunA17_Chr8g0368651 | 74.468 | 47 | 11 | 1 | 19 | 65 | 1 | 46 | 4.38e-12 | 55.1 |
| Msa1097700 | MtrunA17_Chr4g0021531 | 70.968 | 31 | 9 | 0 | 35 | 65 | 19 | 49 | 1.76e-11 | 53.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 12 sgRNAs with CRISPR-Local
Find 19 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAAAGGAATTGAGATTGAAT+TGG | 0.298644 | 7_3:+23187160 | None:intergenic |
| CGTTCTCTTTCAATTGCGTT+TGG | 0.322667 | 7_3:-23187475 | Msa1097700:CDS |
| TCAATTGCGTTTGGAACAAT+TGG | 0.361216 | 7_3:-23187466 | Msa1097700:intron |
| AAAGGAATTGAGATTGAATT+GGG | 0.372029 | 7_3:+23187161 | None:intergenic |
| GAGAGGAGCTTCGTACAAAA+AGG | 0.388362 | 7_3:+23187260 | None:intergenic |
| AAGGTGTGTGAATGAACTAA+TGG | 0.520867 | 7_3:-23187325 | Msa1097700:CDS |
| ATTGAAGACGTTCGACCTAA+CGG | 0.537316 | 7_3:-23187228 | Msa1097700:CDS |
| AATGAACTAATGGAGTCAAA+AGG | 0.584923 | 7_3:-23187315 | Msa1097700:CDS |
| ATAAAGTTAAAATTAATCAA+AGG | 0.606260 | 7_3:+23187143 | None:intergenic |
| GAACTAATGGAGTCAAAAGG+TGG | 0.643029 | 7_3:-23187312 | Msa1097700:CDS |
| GAAGACGTTCGACCTAACGG+TGG | 0.747756 | 7_3:-23187225 | Msa1097700:CDS |
| TCTTCAATGATGTAACCGAG+AGG | 0.771142 | 7_3:+23187243 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CATATTTCTGGATTATTTTT+TGG | + | chr7_3:23187227-23187246 | None:intergenic | 20.0% |
| !! | AAAATGTCAATCACAAATAT+AGG | + | chr7_3:23187269-23187288 | None:intergenic | 20.0% |
| !!! | GACATTTTGCTTTATTCTTT+TGG | - | chr7_3:23187281-23187300 | Msa1097700:CDS | 25.0% |
| ! | AAAGGAATTGAGATTGAATT+GGG | + | chr7_3:23187475-23187494 | None:intergenic | 25.0% |
| AATGAACTAATGGAGTCAAA+AGG | - | chr7_3:23187318-23187337 | Msa1097700:CDS | 30.0% | |
| CAAAGGAATTGAGATTGAAT+TGG | + | chr7_3:23187476-23187495 | None:intergenic | 30.0% | |
| ! | TCAATTGCGTTTGGAACAAT+TGG | - | chr7_3:23187167-23187186 | Msa1097700:CDS | 35.0% |
| TTGCAACGAAGTCATATTTC+TGG | + | chr7_3:23187239-23187258 | None:intergenic | 35.0% | |
| !! | GCTTTATTCTTTTGGCAGAA+AGG | - | chr7_3:23187289-23187308 | Msa1097700:CDS | 35.0% |
| AAGGTGTGTGAATGAACTAA+TGG | - | chr7_3:23187308-23187327 | Msa1097700:CDS | 35.0% | |
| ! | AATTTTTCTACTCCACCGTT+AGG | + | chr7_3:23187423-23187442 | None:intergenic | 35.0% |
| CGTTCTCTTTCAATTGCGTT+TGG | - | chr7_3:23187158-23187177 | Msa1097700:CDS | 40.0% | |
| GAACTAATGGAGTCAAAAGG+TGG | - | chr7_3:23187321-23187340 | Msa1097700:CDS | 40.0% | |
| ! | TTTTTGTACGAAGCTCCTCT+CGG | - | chr7_3:23187375-23187394 | Msa1097700:intron | 40.0% |
| TCTTCAATGATGTAACCGAG+AGG | + | chr7_3:23187393-23187412 | None:intergenic | 40.0% | |
| ATTGAAGACGTTCGACCTAA+CGG | - | chr7_3:23187405-23187424 | Msa1097700:intron | 40.0% | |
| AGGAGCTTCGTACAAAAAGG+AGG | + | chr7_3:23187373-23187392 | None:intergenic | 45.0% | |
| GAGAGGAGCTTCGTACAAAA+AGG | + | chr7_3:23187376-23187395 | None:intergenic | 45.0% | |
| GAAGACGTTCGACCTAACGG+TGG | - | chr7_3:23187408-23187427 | Msa1097700:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 23187155 | 23187500 | 23187155 | ID=Msa1097700;Name=Msa1097700 |
| chr7_3 | mRNA | 23187155 | 23187500 | 23187155 | ID=Msa1097700-mRNA-1;Parent=Msa1097700;Name=Msa1097700-mRNA-1;_AED=0.59;_eAED=0.59;_QI=0|0|0|0.5|0|0.5|2|0|75 |
| chr7_3 | exon | 23187467 | 23187500 | 23187467 | ID=Msa1097700-mRNA-1:exon:5144;Parent=Msa1097700-mRNA-1 |
| chr7_3 | exon | 23187155 | 23187348 | 23187155 | ID=Msa1097700-mRNA-1:exon:5143;Parent=Msa1097700-mRNA-1 |
| chr7_3 | CDS | 23187467 | 23187500 | 23187467 | ID=Msa1097700-mRNA-1:cds;Parent=Msa1097700-mRNA-1 |
| chr7_3 | CDS | 23187155 | 23187348 | 23187155 | ID=Msa1097700-mRNA-1:cds;Parent=Msa1097700-mRNA-1 |
| Gene Sequence |
| Protein sequence |
