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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1263840 | XP_039689784.1 | 92.086 | 139 | 6 | 2 | 1 | 138 | 1 | 135 | 2.90e-75 | 230 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1263840 | G7JJ62 | 92.086 | 139 | 6 | 2 | 1 | 138 | 1 | 135 | 1.39e-75 | 230 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0132550 | Msa1263840 | 0.821947 | 3.079646e-53 | -8.615850e-47 |
| Msa0200460 | Msa1263840 | 0.804434 | 2.164709e-49 | -8.615850e-47 |
| Msa1263840 | Msa1263880 | 0.920499 | 1.184559e-87 | -8.615850e-47 |
| Msa1263840 | Msa1367250 | 0.896931 | 2.296446e-76 | -8.615850e-47 |
| Msa1263840 | Msa1430360 | 0.831573 | 1.545820e-55 | -8.615850e-47 |
| Msa1223290 | Msa1263840 | 0.958780 | 1.008060e-116 | -8.615850e-47 |
| Msa0887620 | Msa1263840 | 0.822920 | 1.829656e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1263840 | MtrunA17_Chr4g0074761 | 92.086 | 139 | 6 | 2 | 1 | 138 | 1 | 135 | 2.67e-79 | 230 |
| Msa1263840 | MtrunA17_Chr4g0074741 | 68.310 | 142 | 35 | 5 | 1 | 138 | 1 | 136 | 1.15e-56 | 173 |
| Msa1263840 | MtrunA17_Chr2g0288321 | 48.951 | 143 | 50 | 6 | 1 | 138 | 1 | 125 | 1.06e-30 | 107 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 29 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGCTTTGCCTTCCTTGATTC+AGG | 0.178873 | 8_2:-67196601 | None:intergenic |
| GATGATTATTTGTAATTTCA+TGG | 0.249624 | 8_2:-67196888 | None:intergenic |
| GAGCGAACTCGCTGAATTAT+TGG | 0.258439 | 8_2:+67196750 | Msa1263840:CDS |
| AAGTTAATTAACATTCATTC+AGG | 0.322588 | 8_2:-67196937 | None:intergenic |
| CAGAAGGAGATTGATGTATT+AGG | 0.330408 | 8_2:+67196673 | Msa1263840:CDS |
| CTGCAGAAGAAGTTCTGTTT+AGG | 0.332908 | 8_2:+67196848 | Msa1263840:CDS |
| GCAGCAGATGAAGAAGAAAA+AGG | 0.371748 | 8_2:+67196816 | Msa1263840:CDS |
| AGCGAACTCGCTGAATTATT+GGG | 0.393306 | 8_2:+67196751 | Msa1263840:CDS |
| TGGAGTGGGTCGGAGAGGAC+TGG | 0.403882 | 8_2:+67196560 | Msa1263840:CDS |
| ACCTTGCTTGATGATGGATA+TGG | 0.406319 | 8_2:-67196622 | None:intergenic |
| TCAAACACCTTGCTTGATGA+TGG | 0.416575 | 8_2:-67196628 | None:intergenic |
| TTCTTCTTCATCTGCTGCTG+TGG | 0.454237 | 8_2:-67196811 | None:intergenic |
| GGAGTGGGTCGGAGAGGACT+GGG | 0.460819 | 8_2:+67196561 | Msa1263840:CDS |
| GAGAGGACTGGGAATCTTTG+AGG | 0.465583 | 8_2:+67196572 | Msa1263840:CDS |
| TTGCAAACCATCATCTTCAA+TGG | 0.494191 | 8_2:+67196540 | Msa1263840:CDS |
| ACCCACTCCATTGAAGATGA+TGG | 0.494750 | 8_2:-67196547 | None:intergenic |
| AAATTACAAATAATCATCAC+TGG | 0.529214 | 8_2:+67196893 | Msa1263840:CDS |
| AACCATCATCTTCAATGGAG+TGG | 0.534475 | 8_2:+67196545 | Msa1263840:CDS |
| TGAGGTCTAAACCTGAATCA+AGG | 0.541762 | 8_2:+67196590 | Msa1263840:CDS |
| TCAGGAATAGTCTCTAGCAC+TGG | 0.560488 | 8_2:-67196919 | None:intergenic |
| ACCATCATCTTCAATGGAGT+GGG | 0.563387 | 8_2:+67196546 | Msa1263840:CDS |
| GAGCTTCTTGTGACGCAAGT+GGG | 0.570204 | 8_2:+67196704 | Msa1263840:CDS |
| AGAGCTTCTTGTGACGCAAG+TGG | 0.586202 | 8_2:+67196703 | Msa1263840:CDS |
| TTCTTGTGACGCAAGTGGGA+AGG | 0.592803 | 8_2:+67196708 | Msa1263840:CDS |
| GTCTAAACCTGAATCAAGGA+AGG | 0.611894 | 8_2:+67196594 | Msa1263840:CDS |
| GCCATATCCATCATCAAGCA+AGG | 0.615763 | 8_2:+67196621 | Msa1263840:CDS |
| TAGTCTTGATCATCATCAGA+AGG | 0.617267 | 8_2:+67196657 | Msa1263840:CDS |
| TTCAATGGAGTGGGTCGGAG+AGG | 0.622877 | 8_2:+67196555 | Msa1263840:CDS |
| TCATCTTCAATGGAGTGGGT+CGG | 0.639140 | 8_2:+67196550 | Msa1263840:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTGTAATTTCATGGTTTT+TGG | - | chr8_2:67196884-67196903 | None:intergenic | 20.0% |
| !! | GATGATTATTTGTAATTTCA+TGG | - | chr8_2:67196891-67196910 | None:intergenic | 20.0% |
| !! | AAATTACAAATAATCATCAC+TGG | + | chr8_2:67196893-67196912 | Msa1263840:CDS | 20.0% |
| TTGCAAACCATCATCTTCAA+TGG | + | chr8_2:67196540-67196559 | Msa1263840:CDS | 35.0% | |
| ! | TAGTCTTGATCATCATCAGA+AGG | + | chr8_2:67196657-67196676 | Msa1263840:CDS | 35.0% |
| CAGAAGGAGATTGATGTATT+AGG | + | chr8_2:67196673-67196692 | Msa1263840:CDS | 35.0% | |
| AACCATCATCTTCAATGGAG+TGG | + | chr8_2:67196545-67196564 | Msa1263840:CDS | 40.0% | |
| ACCATCATCTTCAATGGAGT+GGG | + | chr8_2:67196546-67196565 | Msa1263840:CDS | 40.0% | |
| TGAGGTCTAAACCTGAATCA+AGG | + | chr8_2:67196590-67196609 | Msa1263840:CDS | 40.0% | |
| GTCTAAACCTGAATCAAGGA+AGG | + | chr8_2:67196594-67196613 | Msa1263840:CDS | 40.0% | |
| !! | ACCTTGCTTGATGATGGATA+TGG | - | chr8_2:67196625-67196644 | None:intergenic | 40.0% |
| TCAAACACCTTGCTTGATGA+TGG | - | chr8_2:67196631-67196650 | None:intergenic | 40.0% | |
| AGCGAACTCGCTGAATTATT+GGG | + | chr8_2:67196751-67196770 | Msa1263840:CDS | 40.0% | |
| GCAGCAGATGAAGAAGAAAA+AGG | + | chr8_2:67196816-67196835 | Msa1263840:CDS | 40.0% | |
| CTGCAGAAGAAGTTCTGTTT+AGG | + | chr8_2:67196848-67196867 | Msa1263840:CDS | 40.0% | |
| ACCCACTCCATTGAAGATGA+TGG | - | chr8_2:67196550-67196569 | None:intergenic | 45.0% | |
| TCATCTTCAATGGAGTGGGT+CGG | + | chr8_2:67196550-67196569 | Msa1263840:CDS | 45.0% | |
| GCCATATCCATCATCAAGCA+AGG | + | chr8_2:67196621-67196640 | Msa1263840:CDS | 45.0% | |
| GAGCGAACTCGCTGAATTAT+TGG | + | chr8_2:67196750-67196769 | Msa1263840:CDS | 45.0% | |
| TTCTTCTTCATCTGCTGCTG+TGG | - | chr8_2:67196814-67196833 | None:intergenic | 45.0% | |
| TCAGGAATAGTCTCTAGCAC+TGG | - | chr8_2:67196922-67196941 | None:intergenic | 45.0% | |
| GAGAGGACTGGGAATCTTTG+AGG | + | chr8_2:67196572-67196591 | Msa1263840:CDS | 50.0% | |
| GGCTTTGCCTTCCTTGATTC+AGG | - | chr8_2:67196604-67196623 | None:intergenic | 50.0% | |
| AGAGCTTCTTGTGACGCAAG+TGG | + | chr8_2:67196703-67196722 | Msa1263840:CDS | 50.0% | |
| GAGCTTCTTGTGACGCAAGT+GGG | + | chr8_2:67196704-67196723 | Msa1263840:CDS | 50.0% | |
| TTCTTGTGACGCAAGTGGGA+AGG | + | chr8_2:67196708-67196727 | Msa1263840:CDS | 50.0% | |
| TTCAATGGAGTGGGTCGGAG+AGG | + | chr8_2:67196555-67196574 | Msa1263840:CDS | 55.0% | |
| TGGAGTGGGTCGGAGAGGAC+TGG | + | chr8_2:67196560-67196579 | Msa1263840:CDS | 65.0% | |
| GGAGTGGGTCGGAGAGGACT+GGG | + | chr8_2:67196561-67196580 | Msa1263840:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 67196529 | 67196945 | 67196529 | ID=Msa1263840;Name=Msa1263840 |
| chr8_2 | mRNA | 67196529 | 67196945 | 67196529 | ID=Msa1263840-mRNA-1;Parent=Msa1263840;Name=Msa1263840-mRNA-1;_AED=0.26;_eAED=0.26;_QI=0|-1|0|1|-1|1|1|0|138 |
| chr8_2 | exon | 67196529 | 67196945 | 67196529 | ID=Msa1263840-mRNA-1:exon:22063;Parent=Msa1263840-mRNA-1 |
| chr8_2 | CDS | 67196529 | 67196945 | 67196529 | ID=Msa1263840-mRNA-1:cds;Parent=Msa1263840-mRNA-1 |
| Gene Sequence |
| Protein sequence |
