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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1127930 | ABD32861.1 | 87.647 | 170 | 19 | 2 | 1 | 168 | 1 | 170 | 5.60e-86 | 259 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1127930 | Q2HUY8 | 87.647 | 170 | 19 | 2 | 1 | 168 | 1 | 170 | 2.67e-86 | 259 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0193540 | Msa1127930 | 0.820351 | 7.180822e-53 | -8.615850e-47 |
| Msa0274630 | Msa1127930 | 0.812239 | 4.685706e-51 | -8.615850e-47 |
| Msa1127930 | Msa1165850 | 0.835088 | 2.056150e-56 | -8.615850e-47 |
| Msa1127930 | Msa1340040 | -0.813619 | 2.334982e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1127930 | MtrunA17_Chr7g0271201 | 82.178 | 101 | 16 | 2 | 1 | 99 | 1 | 101 | 6.77e-36 | 121 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 30 sgRNAs with CRISPR-Local
Find 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACCGTACAAAATTTGATTT+TGG | 0.148787 | 7_3:+79638853 | Msa1127930:CDS |
| AATATGTGGGTTGCATTCTT+TGG | 0.230059 | 7_3:-79639208 | None:intergenic |
| TGAGTAAATTTAGGATCATT+AGG | 0.266602 | 7_3:-79639144 | None:intergenic |
| AACATAGAATGAGTAAATTT+AGG | 0.270517 | 7_3:-79639153 | None:intergenic |
| AACTTTACGAATTTGATTCT+TGG | 0.278934 | 7_3:-79638908 | None:intergenic |
| ACTACTGCTCGAAATGGATT+TGG | 0.361001 | 7_3:+79639057 | Msa1127930:CDS |
| CAACCCACATATTGAATCAT+TGG | 0.366896 | 7_3:+79639218 | Msa1127930:CDS |
| CACTACTAGGTGACCCATTA+GGG | 0.368316 | 7_3:-79639119 | None:intergenic |
| TCACTACTAGGTGACCCATT+AGG | 0.381962 | 7_3:-79639120 | None:intergenic |
| CACCGTCACTACCTCCTCTT+TGG | 0.383526 | 7_3:-79638786 | None:intergenic |
| TCAACCAATGATTCAATATG+TGG | 0.398275 | 7_3:-79639222 | None:intergenic |
| AATGTATTGGAAAACCCTAA+TGG | 0.409235 | 7_3:+79639105 | Msa1127930:CDS |
| AATAGTACTACTGCTCGAAA+TGG | 0.417979 | 7_3:+79639051 | Msa1127930:CDS |
| ATGTATTGGAAAACCCTAAT+GGG | 0.448914 | 7_3:+79639106 | Msa1127930:CDS |
| GAGTAAATTTAGGATCATTA+GGG | 0.451665 | 7_3:-79639143 | None:intergenic |
| GGATCATTAGGGTCACTACT+AGG | 0.487924 | 7_3:-79639132 | None:intergenic |
| TCTTTGGTAACCGTTTCGAT+TGG | 0.500194 | 7_3:-79638770 | None:intergenic |
| GGTAAGGTGGTGATTATTCA+AGG | 0.506037 | 7_3:+79639018 | Msa1127930:CDS |
| AAATGTCAGTTGCAGAGGTA+AGG | 0.537678 | 7_3:+79639002 | Msa1127930:CDS |
| TGCTGTTGTTGATGATGAAG+AGG | 0.554923 | 7_3:-79638956 | None:intergenic |
| GGTGGTGATTATTCAAGGTG+AGG | 0.564226 | 7_3:+79639023 | Msa1127930:CDS |
| GTGGTGATTATTCAAGGTGA+GGG | 0.564991 | 7_3:+79639024 | Msa1127930:CDS |
| GAAGAGATCTCCAATCGAAA+CGG | 0.567195 | 7_3:+79638760 | Msa1127930:CDS |
| AATGTAAATGTCAGTTGCAG+AGG | 0.578785 | 7_3:+79638997 | Msa1127930:CDS |
| CAACCAATGATTCAATATGT+GGG | 0.591152 | 7_3:-79639221 | None:intergenic |
| AATCGAAACGGTTACCAAAG+AGG | 0.604417 | 7_3:+79638772 | Msa1127930:CDS |
| TGTCAGTTGCAGAGGTAAGG+TGG | 0.614185 | 7_3:+79639005 | Msa1127930:CDS |
| TACCAAAGAGGAGGTAGTGA+CGG | 0.624361 | 7_3:+79638784 | Msa1127930:CDS |
| ATGACGAACAAGATGCAACT+CGG | 0.624974 | 7_3:+79638809 | Msa1127930:CDS |
| CGAAACGGTTACCAAAGAGG+AGG | 0.685843 | 7_3:+79638775 | Msa1127930:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTCCAAAATCAAATTTTGTA+CGG | - | chr7_3:79638858-79638877 | None:intergenic | 20.0% |
| !!! | CAAAATTTGATTTTGGAAAA+AGG | + | chr7_3:79638860-79638879 | Msa1127930:CDS | 20.0% |
| !! | AACATAGAATGAGTAAATTT+AGG | - | chr7_3:79639156-79639175 | None:intergenic | 20.0% |
| !!! | AACCGTACAAAATTTGATTT+TGG | + | chr7_3:79638853-79638872 | Msa1127930:CDS | 25.0% |
| ! | AACTTTACGAATTTGATTCT+TGG | - | chr7_3:79638911-79638930 | None:intergenic | 25.0% |
| ! | TTTACATTCCTAGAAAAAGA+CGG | - | chr7_3:79638985-79639004 | None:intergenic | 25.0% |
| !! | GAGTAAATTTAGGATCATTA+GGG | - | chr7_3:79639146-79639165 | None:intergenic | 25.0% |
| !! | TGAGTAAATTTAGGATCATT+AGG | - | chr7_3:79639147-79639166 | None:intergenic | 25.0% |
| ! | TTAGGGTTTTCCAATACATT+GGG | - | chr7_3:79639105-79639124 | None:intergenic | 30.0% |
| ! | ATTAGGGTTTTCCAATACAT+TGG | - | chr7_3:79639106-79639125 | None:intergenic | 30.0% |
| AATGTATTGGAAAACCCTAA+TGG | + | chr7_3:79639105-79639124 | Msa1127930:CDS | 30.0% | |
| ATGTATTGGAAAACCCTAAT+GGG | + | chr7_3:79639106-79639125 | Msa1127930:CDS | 30.0% | |
| CAACCAATGATTCAATATGT+GGG | - | chr7_3:79639224-79639243 | None:intergenic | 30.0% | |
| TCAACCAATGATTCAATATG+TGG | - | chr7_3:79639225-79639244 | None:intergenic | 30.0% | |
| AATGTAAATGTCAGTTGCAG+AGG | + | chr7_3:79638997-79639016 | Msa1127930:CDS | 35.0% | |
| AATAGTACTACTGCTCGAAA+TGG | + | chr7_3:79639051-79639070 | Msa1127930:CDS | 35.0% | |
| ! | AATATGTGGGTTGCATTCTT+TGG | - | chr7_3:79639211-79639230 | None:intergenic | 35.0% |
| CAACCCACATATTGAATCAT+TGG | + | chr7_3:79639218-79639237 | Msa1127930:CDS | 35.0% | |
| GAAGAGATCTCCAATCGAAA+CGG | + | chr7_3:79638760-79638779 | Msa1127930:CDS | 40.0% | |
| ! | TCTTTGGTAACCGTTTCGAT+TGG | - | chr7_3:79638773-79638792 | None:intergenic | 40.0% |
| AATCGAAACGGTTACCAAAG+AGG | + | chr7_3:79638772-79638791 | Msa1127930:CDS | 40.0% | |
| ATGACGAACAAGATGCAACT+CGG | + | chr7_3:79638809-79638828 | Msa1127930:CDS | 40.0% | |
| !! | TGCTGTTGTTGATGATGAAG+AGG | - | chr7_3:79638959-79638978 | None:intergenic | 40.0% |
| AAATGTCAGTTGCAGAGGTA+AGG | + | chr7_3:79639002-79639021 | Msa1127930:CDS | 40.0% | |
| GGTAAGGTGGTGATTATTCA+AGG | + | chr7_3:79639018-79639037 | Msa1127930:CDS | 40.0% | |
| GTGGTGATTATTCAAGGTGA+GGG | + | chr7_3:79639024-79639043 | Msa1127930:CDS | 40.0% | |
| ! | ACTACTGCTCGAAATGGATT+TGG | + | chr7_3:79639057-79639076 | Msa1127930:CDS | 40.0% |
| ! | TTTTTCGCGTCCCAATGTAT+TGG | + | chr7_3:79639092-79639111 | Msa1127930:CDS | 40.0% |
| TACCAAAGAGGAGGTAGTGA+CGG | + | chr7_3:79638784-79638803 | Msa1127930:CDS | 45.0% | |
| ! | CAGCAACACCGTCTTTTTCT+AGG | + | chr7_3:79638974-79638993 | Msa1127930:CDS | 45.0% |
| GGTGGTGATTATTCAAGGTG+AGG | + | chr7_3:79639023-79639042 | Msa1127930:CDS | 45.0% | |
| CACTACTAGGTGACCCATTA+GGG | - | chr7_3:79639122-79639141 | None:intergenic | 45.0% | |
| TCACTACTAGGTGACCCATT+AGG | - | chr7_3:79639123-79639142 | None:intergenic | 45.0% | |
| GGATCATTAGGGTCACTACT+AGG | - | chr7_3:79639135-79639154 | None:intergenic | 45.0% | |
| CGAAACGGTTACCAAAGAGG+AGG | + | chr7_3:79638775-79638794 | Msa1127930:CDS | 50.0% | |
| TGTCAGTTGCAGAGGTAAGG+TGG | + | chr7_3:79639005-79639024 | Msa1127930:CDS | 50.0% | |
| CACCGTCACTACCTCCTCTT+TGG | - | chr7_3:79638789-79638808 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 79638742 | 79639248 | 79638742 | ID=Msa1127930;Name=Msa1127930 |
| chr7_3 | mRNA | 79638742 | 79639248 | 79638742 | ID=Msa1127930-mRNA-1;Parent=Msa1127930;Name=Msa1127930-mRNA-1;_AED=0.07;_eAED=0.07;_QI=0|-1|0|1|-1|1|1|0|168 |
| chr7_3 | exon | 79638742 | 79639248 | 79638742 | ID=Msa1127930-mRNA-1:exon:22603;Parent=Msa1127930-mRNA-1 |
| chr7_3 | CDS | 79638742 | 79639248 | 79638742 | ID=Msa1127930-mRNA-1:cds;Parent=Msa1127930-mRNA-1 |
| Gene Sequence |
| Protein sequence |
