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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1144310 | ABN08857.1 | 98.630 | 146 | 2 | 0 | 1 | 146 | 1 | 146 | 6.83e-99 | 290 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1144310 | A2Q5F7 | 98.630 | 146 | 2 | 0 | 1 | 146 | 1 | 146 | 3.26e-99 | 290 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0791240 | Msa1144310 | 0.846676 | 1.869982e-59 | -8.615850e-47 |
| Msa0239840 | Msa1144310 | 0.931021 | 6.983059e-94 | -8.615850e-47 |
| Msa0239870 | Msa1144310 | 0.918777 | 1.024862e-86 | -8.615850e-47 |
| Msa0317540 | Msa1144310 | 0.929623 | 5.327383e-93 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1144310 | MtrunA17_Chr2g0290931 | 98.630 | 146 | 2 | 0 | 1 | 146 | 1 | 146 | 6.28e-103 | 290 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 24 sgRNAs with CRISPR-Local
Find 26 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGAGCTTGAAGCAGAAGATT+TGG | 0.301631 | 7_4:-20262918 | Msa1144310:CDS |
| GAGAAAGGTTGTTTAGCATT+TGG | 0.326273 | 7_4:-20263160 | Msa1144310:CDS |
| GCCATTTGAGGTTAATAGAT+TGG | 0.344754 | 7_4:-20262939 | Msa1144310:CDS |
| CCAAGACAACACTTGTTTCA+AGG | 0.366636 | 7_4:-20263041 | Msa1144310:CDS |
| AAATCCTCCATTGATCCCTT+TGG | 0.386929 | 7_4:+20262968 | None:intergenic |
| TTCTGGTATTGATTTCTTTG+AGG | 0.395501 | 7_4:-20263014 | Msa1144310:CDS |
| ACTTGTTTCAAGGTTTCTTC+TGG | 0.404656 | 7_4:-20263031 | Msa1144310:CDS |
| TCCAATCTATTAACCTCAAA+TGG | 0.414962 | 7_4:+20262938 | None:intergenic |
| CCTTGAAACAAGTGTTGTCT+TGG | 0.422034 | 7_4:+20263041 | None:intergenic |
| TTGGAGTGTTTGATTTCCCT+TGG | 0.432978 | 7_4:-20263141 | Msa1144310:CDS |
| ATGATGTTGAAGCAAAGATT+TGG | 0.461294 | 7_4:-20263267 | Msa1144310:CDS |
| AGGGATCAATGGAGGATTTG+TGG | 0.464367 | 7_4:-20262964 | Msa1144310:CDS |
| GGATTTGTGGCTGCCATTTG+AGG | 0.474098 | 7_4:-20262951 | Msa1144310:CDS |
| GATTTCCCTTGGTTGAAAGA+TGG | 0.486271 | 7_4:-20263130 | Msa1144310:CDS |
| TGAGGCTCCAAAGGGATCAA+TGG | 0.510645 | 7_4:-20262975 | Msa1144310:CDS |
| AAGAATGAAGTGGAAGAGAA+AGG | 0.519180 | 7_4:-20263175 | Msa1144310:CDS |
| TAGATTGTGTGAGGCTCCAA+AGG | 0.564320 | 7_4:-20262984 | Msa1144310:CDS |
| AGATTGTGTGAGGCTCCAAA+GGG | 0.596314 | 7_4:-20262983 | Msa1144310:CDS |
| CACCAAGGAAAAGAATGAAG+TGG | 0.603149 | 7_4:-20263185 | Msa1144310:CDS |
| TGACACCATCTTTCAACCAA+GGG | 0.626669 | 7_4:+20263125 | None:intergenic |
| ATGACACCATCTTTCAACCA+AGG | 0.654692 | 7_4:+20263124 | None:intergenic |
| GGCTCCAAAGGGATCAATGG+AGG | 0.655913 | 7_4:-20262972 | Msa1144310:CDS |
| GGAAAATGATAGATTGTGTG+AGG | 0.713281 | 7_4:-20262993 | Msa1144310:CDS |
| ATGTGGCACAAGTTTCACCA+AGG | 0.735233 | 7_4:-20263200 | Msa1144310:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATGATGTTGAAGCAAAGATT+TGG | - | chr7_4:20262923-20262942 | Msa1144310:CDS | 30.0% | |
| GCTAAAAAAAGAGATGTATG+TGG | - | chr7_4:20262973-20262992 | Msa1144310:CDS | 30.0% | |
| !! | TTCTGGTATTGATTTCTTTG+AGG | - | chr7_4:20263176-20263195 | Msa1144310:CDS | 30.0% |
| TCCAATCTATTAACCTCAAA+TGG | + | chr7_4:20263255-20263274 | None:intergenic | 30.0% | |
| ! | TTCCACTTCATTCTTTTCCT+TGG | + | chr7_4:20263010-20263029 | None:intergenic | 35.0% |
| AAGAATGAAGTGGAAGAGAA+AGG | - | chr7_4:20263015-20263034 | Msa1144310:CDS | 35.0% | |
| GAGAAAGGTTGTTTAGCATT+TGG | - | chr7_4:20263030-20263049 | Msa1144310:CDS | 35.0% | |
| ACTTGTTTCAAGGTTTCTTC+TGG | - | chr7_4:20263159-20263178 | Msa1144310:CDS | 35.0% | |
| GGAAAATGATAGATTGTGTG+AGG | - | chr7_4:20263197-20263216 | Msa1144310:CDS | 35.0% | |
| ! | GCCATTTGAGGTTAATAGAT+TGG | - | chr7_4:20263251-20263270 | Msa1144310:CDS | 35.0% |
| CACCAAGGAAAAGAATGAAG+TGG | - | chr7_4:20263005-20263024 | Msa1144310:CDS | 40.0% | |
| ! | TTGGAGTGTTTGATTTCCCT+TGG | - | chr7_4:20263049-20263068 | Msa1144310:CDS | 40.0% |
| GATTTCCCTTGGTTGAAAGA+TGG | - | chr7_4:20263060-20263079 | Msa1144310:CDS | 40.0% | |
| TGACACCATCTTTCAACCAA+GGG | + | chr7_4:20263068-20263087 | None:intergenic | 40.0% | |
| ATGACACCATCTTTCAACCA+AGG | + | chr7_4:20263069-20263088 | None:intergenic | 40.0% | |
| ! | CCTTGAAACAAGTGTTGTCT+TGG | + | chr7_4:20263152-20263171 | None:intergenic | 40.0% |
| CCAAGACAACACTTGTTTCA+AGG | - | chr7_4:20263149-20263168 | Msa1144310:CDS | 40.0% | |
| AAATCCTCCATTGATCCCTT+TGG | + | chr7_4:20263225-20263244 | None:intergenic | 40.0% | |
| ATGTGGCACAAGTTTCACCA+AGG | - | chr7_4:20262990-20263009 | Msa1144310:CDS | 45.0% | |
| TAGATTGTGTGAGGCTCCAA+AGG | - | chr7_4:20263206-20263225 | Msa1144310:CDS | 45.0% | |
| AGATTGTGTGAGGCTCCAAA+GGG | - | chr7_4:20263207-20263226 | Msa1144310:CDS | 45.0% | |
| AGGGATCAATGGAGGATTTG+TGG | - | chr7_4:20263226-20263245 | Msa1144310:CDS | 45.0% | |
| GGAGCTTGAAGCAGAAGATT+TGG | - | chr7_4:20263272-20263291 | Msa1144310:CDS | 45.0% | |
| TGAGGCTCCAAAGGGATCAA+TGG | - | chr7_4:20263215-20263234 | Msa1144310:CDS | 50.0% | |
| ! | GGATTTGTGGCTGCCATTTG+AGG | - | chr7_4:20263239-20263258 | Msa1144310:CDS | 50.0% |
| GGCTCCAAAGGGATCAATGG+AGG | - | chr7_4:20263218-20263237 | Msa1144310:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 20262886 | 20263326 | 20262886 | ID=Msa1144310;Name=Msa1144310 |
| chr7_4 | mRNA | 20262886 | 20263326 | 20262886 | ID=Msa1144310-mRNA-1;Parent=Msa1144310;Name=Msa1144310-mRNA-1;_AED=0.17;_eAED=0.17;_QI=0|-1|0|1|-1|1|1|0|146 |
| chr7_4 | exon | 20262886 | 20263326 | 20262886 | ID=Msa1144310-mRNA-1:exon:4843;Parent=Msa1144310-mRNA-1 |
| chr7_4 | CDS | 20262886 | 20263326 | 20262886 | ID=Msa1144310-mRNA-1:cds;Parent=Msa1144310-mRNA-1 |
| Gene Sequence |
| Protein sequence |
