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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0851170 | KEH24808.1 | 94.382 | 89 | 5 | 0 | 23 | 111 | 287 | 375 | 1.38e-46 | 171 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0851170 | A0A072U6P8 | 94.382 | 89 | 5 | 0 | 23 | 111 | 287 | 375 | 6.61e-47 | 171 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0851170 | Msa1359030 | 0.889671 | 1.966540e-73 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0851170 | MtrunA17_Chr6g0450151 | 94.382 | 89 | 5 | 0 | 23 | 111 | 329 | 417 | 1.54e-50 | 171 |
| Msa0851170 | MtrunA17_Chr6g0450071 | 86.517 | 89 | 12 | 0 | 23 | 111 | 269 | 357 | 2.23e-46 | 158 |
| 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 46 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCATCAAAATTATCCTTAAA+AGG | 0.203644 | 5_4:+41266894 | None:intergenic |
| TTCTGTTGGCGAATTTGTTT+GGG | 0.261695 | 5_4:-41267064 | Msa0851170:CDS |
| TTTCTGTTGGCGAATTTGTT+TGG | 0.262300 | 5_4:-41267065 | Msa0851170:CDS |
| ATGCTCTCTGTGCCACTATC+TGG | 0.338217 | 5_4:+41266693 | None:intergenic |
| AGTCGTTCGTTTGTTGTTGC+GGG | 0.355271 | 5_4:-41266783 | Msa0851170:CDS |
| AAATGAGGTTGGAAGGGTTC+TGG | 0.372760 | 5_4:-41266817 | Msa0851170:CDS |
| AACAGCATAGGTAAAAGCTT+TGG | 0.424351 | 5_4:+41266851 | None:intergenic |
| TTCGGCGGTTACACTTGAAC+CGG | 0.441099 | 5_4:-41266670 | Msa0851170:CDS |
| AAGAGTCATCCGTGGTGGCC+AGG | 0.469996 | 5_4:-41267033 | Msa0851170:intron |
| TAGTGGCACAGAGAGCATTT+CGG | 0.477803 | 5_4:-41266688 | Msa0851170:CDS |
| CAAGAAGCTGTAAATGAGGT+TGG | 0.503519 | 5_4:-41266828 | Msa0851170:CDS |
| GAGTCGTTCGTTTGTTGTTG+CGG | 0.521739 | 5_4:-41266784 | Msa0851170:CDS |
| GTCTGAATTCGCTCCAATGT+TGG | 0.525621 | 5_4:-41266751 | Msa0851170:CDS |
| AAGCTGTAAATGAGGTTGGA+AGG | 0.558828 | 5_4:-41266824 | Msa0851170:CDS |
| CCGGCTGAGTTACTTTCTCA+AGG | 0.559387 | 5_4:-41266651 | Msa0851170:CDS |
| CCTTGAGAAAGTAACTCAGC+CGG | 0.559575 | 5_4:+41266651 | None:intergenic |
| TTGACGATTTGATCGATGAA+AGG | 0.570904 | 5_4:-41267095 | None:intergenic |
| GTCGTTCGTTTGTTGTTGCG+GGG | 0.581074 | 5_4:-41266782 | Msa0851170:CDS |
| AGCTGTAAATGAGGTTGGAA+GGG | 0.590294 | 5_4:-41266823 | Msa0851170:CDS |
| GAAAGGTGTGACATTTCTGT+TGG | 0.595681 | 5_4:-41267078 | Msa0851170:CDS |
| TACAGCTTCTTGAACAGCAT+AGG | 0.602664 | 5_4:+41266839 | None:intergenic |
| TCGTTCGTTTGTTGTTGCGG+GGG | 0.630767 | 5_4:-41266781 | Msa0851170:CDS |
| TAAACCCAACCTGGCCACCA+CGG | 0.639794 | 5_4:+41267024 | None:intergenic |
| TGTTCAAGAAGCTGTAAATG+AGG | 0.656142 | 5_4:-41266832 | Msa0851170:CDS |
| TCTGTTGGCGAATTTGTTTG+GGG | 0.678938 | 5_4:-41267063 | Msa0851170:CDS |
| TTTGATGATATGGTGAGACG+AGG | 0.681159 | 5_4:-41266879 | Msa0851170:CDS |
| TGGCACAGAGAGCATTTCGG+CGG | 0.682197 | 5_4:-41266685 | Msa0851170:CDS |
| AGATTAAGAGTCATCCGTGG+TGG | 0.700219 | 5_4:-41267038 | Msa0851170:CDS |
| GAAAGATTAAGAGTCATCCG+TGG | 0.746341 | 5_4:-41267041 | Msa0851170:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TCATCAAAATTATCCTTAAA+AGG | + | chr5_4:41266803-41266822 | None:intergenic | 20.0% |
| !!! | TAAGGATAATTTTGATGATA+TGG | - | chr5_4:41266805-41266824 | Msa0851170:CDS | 20.0% |
| TTAAAAGGCTTCAATTGTGA+CGG | + | chr5_4:41266788-41266807 | None:intergenic | 30.0% | |
| AAAAATTCAGGAATCAAGGA+AGG | - | chr5_4:41266968-41266987 | Msa0851170:intron | 30.0% | |
| ! | TTTCTGTTGGCGAATTTGTT+TGG | - | chr5_4:41266629-41266648 | Msa0851170:CDS | 35.0% |
| ! | TTCTGTTGGCGAATTTGTTT+GGG | - | chr5_4:41266630-41266649 | Msa0851170:CDS | 35.0% |
| CTGAAACAAGAATAGACTCT+TGG | - | chr5_4:41266727-41266746 | Msa0851170:CDS | 35.0% | |
| ACTTTGATGGAACATTTGCT+TGG | - | chr5_4:41266756-41266775 | Msa0851170:CDS | 35.0% | |
| TAAAAGGCTTCAATTGTGAC+GGG | + | chr5_4:41266787-41266806 | None:intergenic | 35.0% | |
| ! | GTCACAATTGAAGCCTTTTA+AGG | - | chr5_4:41266787-41266806 | Msa0851170:CDS | 35.0% |
| AACAGCATAGGTAAAAGCTT+TGG | + | chr5_4:41266846-41266865 | None:intergenic | 35.0% | |
| TGTTCAAGAAGCTGTAAATG+AGG | - | chr5_4:41266862-41266881 | Msa0851170:CDS | 35.0% | |
| ! | GAAAGGTGTGACATTTCTGT+TGG | - | chr5_4:41266616-41266635 | Msa0851170:CDS | 40.0% |
| ! | TCTGTTGGCGAATTTGTTTG+GGG | - | chr5_4:41266631-41266650 | Msa0851170:CDS | 40.0% |
| GAAAGATTAAGAGTCATCCG+TGG | - | chr5_4:41266653-41266672 | Msa0851170:CDS | 40.0% | |
| ! | CTCTTGGTAGCTTACTTTGA+TGG | - | chr5_4:41266743-41266762 | Msa0851170:CDS | 40.0% |
| ! | TTTGATGATATGGTGAGACG+AGG | - | chr5_4:41266815-41266834 | Msa0851170:CDS | 40.0% |
| TACAGCTTCTTGAACAGCAT+AGG | + | chr5_4:41266858-41266877 | None:intergenic | 40.0% | |
| CAAGAAGCTGTAAATGAGGT+TGG | - | chr5_4:41266866-41266885 | Msa0851170:CDS | 40.0% | |
| AAGCTGTAAATGAGGTTGGA+AGG | - | chr5_4:41266870-41266889 | Msa0851170:CDS | 40.0% | |
| AGCTGTAAATGAGGTTGGAA+GGG | - | chr5_4:41266871-41266890 | Msa0851170:CDS | 40.0% | |
| ! | CCTGAATTTTTCGCCAACAT+TGG | + | chr5_4:41266959-41266978 | None:intergenic | 40.0% |
| CCAATGTTGGCGAAAAATTC+AGG | - | chr5_4:41266956-41266975 | Msa0851170:intron | 40.0% | |
| GGCGAAAAATTCAGGAATCA+AGG | - | chr5_4:41266964-41266983 | Msa0851170:intron | 40.0% | |
| AGATTAAGAGTCATCCGTGG+TGG | - | chr5_4:41266656-41266675 | Msa0851170:CDS | 45.0% | |
| TTATGATCCGTCTGATGCGT+CGG | - | chr5_4:41266690-41266709 | Msa0851170:CDS | 45.0% | |
| AAATGAGGTTGGAAGGGTTC+TGG | - | chr5_4:41266877-41266896 | Msa0851170:CDS | 45.0% | |
| !! | GAGTCGTTCGTTTGTTGTTG+CGG | - | chr5_4:41266910-41266929 | Msa0851170:intron | 45.0% |
| !! | AGTCGTTCGTTTGTTGTTGC+GGG | - | chr5_4:41266911-41266930 | Msa0851170:intron | 45.0% |
| GTCTGAATTCGCTCCAATGT+TGG | - | chr5_4:41266943-41266962 | Msa0851170:intron | 45.0% | |
| !! | GGTGTTTTTGTGCCAGATAG+TGG | - | chr5_4:41266989-41267008 | Msa0851170:intron | 45.0% |
| !! | TAGTGGCACAGAGAGCATTT+CGG | - | chr5_4:41267006-41267025 | Msa0851170:intron | 45.0% |
| CCTTGAGAAAGTAACTCAGC+CGG | + | chr5_4:41267046-41267065 | None:intergenic | 45.0% | |
| GACGGATCATAAACCCAACC+TGG | + | chr5_4:41266682-41266701 | None:intergenic | 50.0% | |
| ! | AAGGCTTCAATTGTGACGGG+TGG | + | chr5_4:41266784-41266803 | None:intergenic | 50.0% |
| !! | GTCGTTCGTTTGTTGTTGCG+GGG | - | chr5_4:41266912-41266931 | Msa0851170:intron | 50.0% |
| !! | TCGTTCGTTTGTTGTTGCGG+GGG | - | chr5_4:41266913-41266932 | Msa0851170:intron | 50.0% |
| ! | ATGCTCTCTGTGCCACTATC+TGG | + | chr5_4:41267004-41267023 | None:intergenic | 50.0% |
| TTCGGCGGTTACACTTGAAC+CGG | - | chr5_4:41267024-41267043 | Msa0851170:intron | 50.0% | |
| ! | CCGGCTGAGTTACTTTCTCA+AGG | - | chr5_4:41267043-41267062 | Msa0851170:CDS | 50.0% |
| TAAACCCAACCTGGCCACCA+CGG | + | chr5_4:41266673-41266692 | None:intergenic | 55.0% | |
| GCAAGTTCCGACGCATCAGA+CGG | + | chr5_4:41266700-41266719 | None:intergenic | 55.0% | |
| !! | TGGCACAGAGAGCATTTCGG+CGG | - | chr5_4:41267009-41267028 | Msa0851170:intron | 55.0% |
| AAGAGTCATCCGTGGTGGCC+AGG | - | chr5_4:41266661-41266680 | Msa0851170:CDS | 60.0% | |
| TCATCCGTGGTGGCCAGGTT+GGG | - | chr5_4:41266666-41266685 | Msa0851170:CDS | 60.0% | |
| GTCATCCGTGGTGGCCAGGT+TGG | - | chr5_4:41266665-41266684 | Msa0851170:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_4 | gene | 41266614 | 41267102 | 41266614 | ID=Msa0851170;Name=Msa0851170 |
| chr5_4 | mRNA | 41266614 | 41267102 | 41266614 | ID=Msa0851170-mRNA-1;Parent=Msa0851170;Name=Msa0851170-mRNA-1;_AED=0.42;_eAED=0.42;_QI=0|0|0|1|1|1|2|0|123 |
| chr5_4 | exon | 41267034 | 41267102 | 41267034 | ID=Msa0851170-mRNA-1:exon:13024;Parent=Msa0851170-mRNA-1 |
| chr5_4 | exon | 41266614 | 41266916 | 41266614 | ID=Msa0851170-mRNA-1:exon:13023;Parent=Msa0851170-mRNA-1 |
| chr5_4 | CDS | 41267034 | 41267102 | 41267034 | ID=Msa0851170-mRNA-1:cds;Parent=Msa0851170-mRNA-1 |
| chr5_4 | CDS | 41266614 | 41266916 | 41266614 | ID=Msa0851170-mRNA-1:cds;Parent=Msa0851170-mRNA-1 |
| Gene Sequence |
| Protein sequence |
