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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0239870 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0239870 | 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 |
|---|---|---|---|---|
| Msa0239840 | Msa0239870 | 0.941967 | 1.649784e-101 | -8.615850e-47 |
| Msa0239870 | Msa0317540 | 0.913620 | 4.982038e-84 | -8.615850e-47 |
| Msa0239870 | Msa0791240 | 0.808920 | 2.442874e-50 | -8.615850e-47 |
| Msa0239870 | Msa1144310 | 0.918777 | 1.024862e-86 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0239870 | 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 | 2_2:+14459890 | Msa0239870:CDS |
| GAGAAAGGTTGTTTAGCATT+TGG | 0.326273 | 2_2:+14459648 | Msa0239870:CDS |
| GCCATTTGAGGTTAATAGAT+TGG | 0.344754 | 2_2:+14459869 | Msa0239870:CDS |
| CCAAGACAACACTTGTTTCA+AGG | 0.366636 | 2_2:+14459767 | Msa0239870:CDS |
| AAATCCTCCATTGATCCCTT+TGG | 0.386929 | 2_2:-14459840 | None:intergenic |
| TTCTGGTATTGATTTCTTTG+AGG | 0.395501 | 2_2:+14459794 | Msa0239870:CDS |
| ACTTGTTTCAAGGTTTCTTC+TGG | 0.404656 | 2_2:+14459777 | Msa0239870:CDS |
| TCCAATCTATTAACCTCAAA+TGG | 0.414962 | 2_2:-14459870 | None:intergenic |
| CCTTGAAACAAGTGTTGTCT+TGG | 0.422034 | 2_2:-14459767 | None:intergenic |
| TTGGAGTGTTTGATTTCCCT+TGG | 0.432978 | 2_2:+14459667 | Msa0239870:CDS |
| ATGATGTTGAAGCAAAGATT+TGG | 0.461294 | 2_2:+14459541 | Msa0239870:CDS |
| AGGGATCAATGGAGGATTTG+TGG | 0.464367 | 2_2:+14459844 | Msa0239870:CDS |
| GGATTTGTGGCTGCCATTTG+AGG | 0.474098 | 2_2:+14459857 | Msa0239870:CDS |
| GATTTCCCTTGGTTGAAAGA+TGG | 0.486271 | 2_2:+14459678 | Msa0239870:CDS |
| TGAGGCTCCAAAGGGATCAA+TGG | 0.510645 | 2_2:+14459833 | Msa0239870:CDS |
| AAGAATGAAGTGGAAGAGAA+AGG | 0.519180 | 2_2:+14459633 | Msa0239870:CDS |
| TAGATTGTGTGAGGCTCCAA+AGG | 0.564320 | 2_2:+14459824 | Msa0239870:CDS |
| AGATTGTGTGAGGCTCCAAA+GGG | 0.596314 | 2_2:+14459825 | Msa0239870:CDS |
| CACCAAGGAAAAGAATGAAG+TGG | 0.603149 | 2_2:+14459623 | Msa0239870:CDS |
| TGACACCATCTTTCAACCAA+GGG | 0.626669 | 2_2:-14459683 | None:intergenic |
| ATGACACCATCTTTCAACCA+AGG | 0.654692 | 2_2:-14459684 | None:intergenic |
| GGCTCCAAAGGGATCAATGG+AGG | 0.655913 | 2_2:+14459836 | Msa0239870:CDS |
| GGAAAATGATAGATTGTGTG+AGG | 0.713281 | 2_2:+14459815 | Msa0239870:CDS |
| ATGTGGCACAAGTTTCACCA+AGG | 0.735233 | 2_2:+14459608 | Msa0239870:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATGATGTTGAAGCAAAGATT+TGG | + | chr2_2:14459541-14459560 | Msa0239870:CDS | 30.0% | |
| GCTAAAAAAAGAGATGTATG+TGG | + | chr2_2:14459591-14459610 | Msa0239870:CDS | 30.0% | |
| !! | TTCTGGTATTGATTTCTTTG+AGG | + | chr2_2:14459794-14459813 | Msa0239870:CDS | 30.0% |
| TCCAATCTATTAACCTCAAA+TGG | - | chr2_2:14459873-14459892 | None:intergenic | 30.0% | |
| ! | TTCCACTTCATTCTTTTCCT+TGG | - | chr2_2:14459628-14459647 | None:intergenic | 35.0% |
| AAGAATGAAGTGGAAGAGAA+AGG | + | chr2_2:14459633-14459652 | Msa0239870:CDS | 35.0% | |
| GAGAAAGGTTGTTTAGCATT+TGG | + | chr2_2:14459648-14459667 | Msa0239870:CDS | 35.0% | |
| ACTTGTTTCAAGGTTTCTTC+TGG | + | chr2_2:14459777-14459796 | Msa0239870:CDS | 35.0% | |
| GGAAAATGATAGATTGTGTG+AGG | + | chr2_2:14459815-14459834 | Msa0239870:CDS | 35.0% | |
| ! | GCCATTTGAGGTTAATAGAT+TGG | + | chr2_2:14459869-14459888 | Msa0239870:CDS | 35.0% |
| CACCAAGGAAAAGAATGAAG+TGG | + | chr2_2:14459623-14459642 | Msa0239870:CDS | 40.0% | |
| ! | TTGGAGTGTTTGATTTCCCT+TGG | + | chr2_2:14459667-14459686 | Msa0239870:CDS | 40.0% |
| GATTTCCCTTGGTTGAAAGA+TGG | + | chr2_2:14459678-14459697 | Msa0239870:CDS | 40.0% | |
| TGACACCATCTTTCAACCAA+GGG | - | chr2_2:14459686-14459705 | None:intergenic | 40.0% | |
| ATGACACCATCTTTCAACCA+AGG | - | chr2_2:14459687-14459706 | None:intergenic | 40.0% | |
| ! | CCTTGAAACAAGTGTTGTCT+TGG | - | chr2_2:14459770-14459789 | None:intergenic | 40.0% |
| CCAAGACAACACTTGTTTCA+AGG | + | chr2_2:14459767-14459786 | Msa0239870:CDS | 40.0% | |
| AAATCCTCCATTGATCCCTT+TGG | - | chr2_2:14459843-14459862 | None:intergenic | 40.0% | |
| ATGTGGCACAAGTTTCACCA+AGG | + | chr2_2:14459608-14459627 | Msa0239870:CDS | 45.0% | |
| TAGATTGTGTGAGGCTCCAA+AGG | + | chr2_2:14459824-14459843 | Msa0239870:CDS | 45.0% | |
| AGATTGTGTGAGGCTCCAAA+GGG | + | chr2_2:14459825-14459844 | Msa0239870:CDS | 45.0% | |
| AGGGATCAATGGAGGATTTG+TGG | + | chr2_2:14459844-14459863 | Msa0239870:CDS | 45.0% | |
| GGAGCTTGAAGCAGAAGATT+TGG | + | chr2_2:14459890-14459909 | Msa0239870:CDS | 45.0% | |
| TGAGGCTCCAAAGGGATCAA+TGG | + | chr2_2:14459833-14459852 | Msa0239870:CDS | 50.0% | |
| ! | GGATTTGTGGCTGCCATTTG+AGG | + | chr2_2:14459857-14459876 | Msa0239870:CDS | 50.0% |
| GGCTCCAAAGGGATCAATGG+AGG | + | chr2_2:14459836-14459855 | Msa0239870:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 14459504 | 14459944 | 14459504 | ID=Msa0239870;Name=Msa0239870 |
| chr2_2 | mRNA | 14459504 | 14459944 | 14459504 | ID=Msa0239870-mRNA-1;Parent=Msa0239870;Name=Msa0239870-mRNA-1;_AED=0.17;_eAED=0.17;_QI=0|-1|0|1|-1|1|1|0|146 |
| chr2_2 | exon | 14459504 | 14459944 | 14459504 | ID=Msa0239870-mRNA-1:exon:5999;Parent=Msa0239870-mRNA-1 |
| chr2_2 | CDS | 14459504 | 14459944 | 14459504 | ID=Msa0239870-mRNA-1:cds;Parent=Msa0239870-mRNA-1 |
| Gene Sequence |
| Protein sequence |
