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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0132040 | KEH16426.1 | 96.629 | 89 | 3 | 0 | 1 | 89 | 1 | 89 | 1.25e-56 | 179 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0132040 | A0A072TFW8 | 96.629 | 89 | 3 | 0 | 1 | 89 | 1 | 89 | 5.96e-57 | 179 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0080890 | Msa0132040 | 0.939836 | 6.491850e-100 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0132040 | MtrunA17_Chr1g0193291 | 96.629 | 89 | 3 | 0 | 1 | 89 | 1 | 89 | 1.15e-60 | 179 |
| Msa0132040 | MtrunA17_Chr1g0193231 | 85.714 | 91 | 11 | 2 | 1 | 89 | 1 | 91 | 1.75e-44 | 138 |
| Msa0132040 | MtrunA17_Chr1g0193301 | 78.261 | 92 | 17 | 2 | 1 | 89 | 1 | 92 | 8.20e-44 | 137 |
| Msa0132040 | MtrunA17_Chr1g0193261 | 84.615 | 91 | 12 | 2 | 1 | 89 | 1 | 91 | 1.44e-42 | 134 |
| Msa0132040 | MtrunA17_Chr7g0271321 | 62.069 | 87 | 27 | 3 | 1 | 86 | 1 | 82 | 3.52e-30 | 102 |
| Msa0132040 | MtrunA17_Chr1g0193271 | 51.724 | 87 | 36 | 4 | 1 | 87 | 1 | 81 | 1.11e-20 | 78.2 |
| Msa0132040 | MtrunA17_Chr1g0193251 | 50.000 | 86 | 36 | 4 | 2 | 87 | 3 | 81 | 3.45e-15 | 64.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 17 sgRNAs with CRISPR-Local
Find 13 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGATGAAGATAGAGGTAGTT+GGG | 0.344602 | 1_3:+63004547 | Msa0132040:CDS |
| TTTCTGAATCTGAAATTCAT+TGG | 0.368562 | 1_3:+63004633 | Msa0132040:CDS |
| AGTCTTCTAAATCATCATTC+AGG | 0.386784 | 1_3:+63004429 | Msa0132040:CDS |
| GTAGCTCTCATGTCAATAAC+AGG | 0.406659 | 1_3:-63004581 | None:intergenic |
| TTGTTCCTATCCTACTGCTC+AGG | 0.487990 | 1_3:-63004665 | None:intergenic |
| CTACCTCTATCTTCATCACT+TGG | 0.508941 | 1_3:-63004542 | None:intergenic |
| AGTAACAAGCAAAGAGGTGG+AGG | 0.512782 | 1_3:+63004479 | Msa0132040:CDS |
| GTGATGAAGATAGAGGTAGT+TGG | 0.534465 | 1_3:+63004546 | Msa0132040:CDS |
| GGAGGAGAGTATTATGATCA+TGG | 0.541749 | 1_3:+63004497 | Msa0132040:CDS |
| GCAAGCTCAACCTGAGCAGT+AGG | 0.571489 | 1_3:+63004655 | Msa0132040:CDS |
| TGGCCAAGTGATGAAGATAG+AGG | 0.579214 | 1_3:+63004539 | Msa0132040:CDS |
| AGCAGTAACAAGCAAAGAGG+TGG | 0.595597 | 1_3:+63004476 | Msa0132040:CDS |
| GATGAAGATAGAGGTAGTTG+GGG | 0.608901 | 1_3:+63004548 | Msa0132040:CDS |
| TTTCTCTCTTGTAAAATGGG+AGG | 0.608993 | 1_3:+63004392 | None:intergenic |
| AAATGGGAGGAAACAATCAA+AGG | 0.621803 | 1_3:+63004405 | None:intergenic |
| TCTAGCAGTAACAAGCAAAG+AGG | 0.646145 | 1_3:+63004473 | Msa0132040:CDS |
| GTGCTTATGCTAACAAAGTG+TGG | 0.723534 | 1_3:+63004519 | Msa0132040:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTCTGAATCTGAAATTCAT+TGG | + | chr1_3:63004633-63004652 | Msa0132040:CDS | 25.0% |
| AGTCTTCTAAATCATCATTC+AGG | + | chr1_3:63004429-63004448 | Msa0132040:CDS | 30.0% | |
| TGATGAAGATAGAGGTAGTT+GGG | + | chr1_3:63004547-63004566 | Msa0132040:CDS | 35.0% | |
| TCTAGCAGTAACAAGCAAAG+AGG | + | chr1_3:63004473-63004492 | Msa0132040:CDS | 40.0% | |
| !! | GGAGGAGAGTATTATGATCA+TGG | + | chr1_3:63004497-63004516 | Msa0132040:CDS | 40.0% |
| GTGCTTATGCTAACAAAGTG+TGG | + | chr1_3:63004519-63004538 | Msa0132040:CDS | 40.0% | |
| CTACCTCTATCTTCATCACT+TGG | - | chr1_3:63004545-63004564 | None:intergenic | 40.0% | |
| GTGATGAAGATAGAGGTAGT+TGG | + | chr1_3:63004546-63004565 | Msa0132040:CDS | 40.0% | |
| GATGAAGATAGAGGTAGTTG+GGG | + | chr1_3:63004548-63004567 | Msa0132040:CDS | 40.0% | |
| GTAGCTCTCATGTCAATAAC+AGG | - | chr1_3:63004584-63004603 | None:intergenic | 40.0% | |
| AGCAGTAACAAGCAAAGAGG+TGG | + | chr1_3:63004476-63004495 | Msa0132040:CDS | 45.0% | |
| AGTAACAAGCAAAGAGGTGG+AGG | + | chr1_3:63004479-63004498 | Msa0132040:CDS | 45.0% | |
| TGGCCAAGTGATGAAGATAG+AGG | + | chr1_3:63004539-63004558 | Msa0132040:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 63004407 | 63004676 | 63004407 | ID=Msa0132040;Name=Msa0132040 |
| chr1_3 | mRNA | 63004407 | 63004676 | 63004407 | ID=Msa0132040-mRNA-1;Parent=Msa0132040;Name=Msa0132040-mRNA-1;_AED=0.34;_eAED=0.34;_QI=0|-1|0|1|-1|1|1|0|89 |
| chr1_3 | exon | 63004407 | 63004676 | 63004407 | ID=Msa0132040-mRNA-1:exon:21111;Parent=Msa0132040-mRNA-1 |
| chr1_3 | CDS | 63004407 | 63004676 | 63004407 | ID=Msa0132040-mRNA-1:cds;Parent=Msa0132040-mRNA-1 |
| Gene Sequence |
| Protein sequence |
