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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0643980 | XP_024636636.1 | 100.000 | 55 | 0 | 0 | 1 | 55 | 1 | 55 | 3.47e-32 | 115 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0643980 | sp|P0DO45|ATP6B_ARATH | 81.818 | 55 | 10 | 0 | 1 | 55 | 1 | 55 | 7.07e-29 | 99.4 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0643980 | G7JTP1 | 100.000 | 55 | 0 | 0 | 1 | 55 | 1 | 55 | 1.66e-32 | 115 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0602920 | Msa0643980 | 0.934967 | 1.775051e-96 | -8.615850e-47 |
| Msa0643980 | Msa0685460 | 0.800484 | 1.410183e-48 | -8.615850e-47 |
| Msa0643980 | Msa0792420 | 0.828414 | 9.110243e-55 | -8.615850e-47 |
| Msa0643980 | Msa1295150 | 0.801114 | 1.048885e-48 | -8.615850e-47 |
| Msa0643980 | Msa1321790 | 0.823493 | 1.344390e-53 | -8.615850e-47 |
| Msa0643980 | Msa1338190 | 0.811983 | 5.327755e-51 | -8.615850e-47 |
| Msa0643980 | Msa1362210 | 0.823515 | 1.328977e-53 | -8.615850e-47 |
| Msa0140850 | Msa0643980 | 0.849462 | 3.184250e-60 | -8.615850e-47 |
| Msa0142330 | Msa0643980 | 0.800102 | 1.687358e-48 | -8.615850e-47 |
| Msa0146340 | Msa0643980 | 0.804355 | 2.248255e-49 | -8.615850e-47 |
| Msa0427150 | Msa0643980 | 0.811228 | 7.777367e-51 | -8.615850e-47 |
| Msa0547940 | Msa0643980 | 0.931975 | 1.700789e-94 | -8.615850e-47 |
| Msa0573350 | Msa0643980 | 0.809977 | 1.449141e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0643980 | MtrunA17_Chr4g0030851 | 100.000 | 55 | 0 | 0 | 1 | 55 | 1 | 55 | 3.19e-36 | 115 |
| Msa0643980 | MtrunA17_Chr2g0327811 | 89.091 | 55 | 6 | 0 | 1 | 55 | 1 | 55 | 7.42e-32 | 103 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0643980 | AT3G46430.1 | 81.818 | 55 | 10 | 0 | 1 | 55 | 1 | 55 | 7.19e-30 | 99.4 |
| Msa0643980 | AT5G59613.1 | 81.818 | 55 | 10 | 0 | 1 | 55 | 1 | 55 | 7.19e-30 | 99.4 |
| Msa0643980 | AT5G59613.2 | 81.818 | 55 | 10 | 0 | 1 | 55 | 1 | 55 | 7.19e-30 | 99.4 |
Find 16 sgRNAs with CRISPR-Local
Find 26 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATTCTCTCTTGAAGAAAAC+TGG | 0.292105 | 4_3:-47482068 | None:intergenic |
| TTTGTGATGCTGAACGAATT+TGG | 0.293620 | 4_3:-47482290 | None:intergenic |
| GGTAAGACCAAGAGAGAATT+TGG | 0.344448 | 4_3:-47482144 | None:intergenic |
| AAATTCTCTCTTGGTCTTAC+CGG | 0.355061 | 4_3:+47482146 | Msa0643980:CDS |
| CTTGTCACCAAATTCTCTCT+TGG | 0.398915 | 4_3:+47482137 | Msa0643980:CDS |
| CTCGTTGGATTCGCCGTCAC+CGG | 0.441426 | 4_3:+47482110 | Msa0643980:CDS |
| AGAGAGAATGGAAACGTACT+TGG | 0.486234 | 4_3:+47482081 | Msa0643980:CDS |
| CTCTTGAAGAAAACTGGCCA+TGG | 0.493329 | 4_3:-47482062 | None:intergenic |
| TCTTCGTCACACCAAAGTTA+CGG | 0.513023 | 4_3:-47481960 | None:intergenic |
| AATTCGTTCAGCATCACAAA+AGG | 0.536789 | 4_3:+47482293 | Msa0643980:CDS |
| ACGGCGAATCCAACGAGGAA+TGG | 0.540309 | 4_3:-47482104 | None:intergenic |
| GAATTTGGTGACAAGAGCTC+CGG | 0.557010 | 4_3:-47482129 | None:intergenic |
| CGTACTTGGCCATTCCTCGT+TGG | 0.562709 | 4_3:+47482095 | Msa0643980:CDS |
| AAATGAGACAGTTCGATCCA+TGG | 0.569004 | 4_3:+47482045 | Msa0643980:exon |
| GGTGACAAGAGCTCCGGTGA+CGG | 0.581739 | 4_3:-47482123 | None:intergenic |
| CGGTGACGGCGAATCCAACG+AGG | 0.732353 | 4_3:-47482109 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TCCTTTTTTATTGTAGAATT+AGG | + | chr4_3:47482194-47482213 | Msa0643980:intron | 20.0% |
| !!! | CCTTTTTTATTGTAGAATTA+GGG | + | chr4_3:47482195-47482214 | Msa0643980:intron | 20.0% |
| !! | TACGGTTTTTGTTACAAAAA+TGG | - | chr4_3:47481945-47481964 | None:intergenic | 25.0% |
| ! | AGAGAAATAGAATGAATTAC+CGG | - | chr4_3:47482168-47482187 | None:intergenic | 25.0% |
| ! | CCCTAATTCTACAATAAAAA+AGG | - | chr4_3:47482198-47482217 | None:intergenic | 25.0% |
| CAAAAATGGTAGAGTTTAGA+TGG | - | chr4_3:47481931-47481950 | None:intergenic | 30.0% | |
| TGTAACAAAAACCGTAACTT+TGG | + | chr4_3:47481949-47481968 | Msa0643980:five_prime_UTR | 30.0% | |
| CTGCAACAAAAACAAAATGA+AGG | - | chr4_3:47482252-47482271 | None:intergenic | 30.0% | |
| !!! | TCATTTTGTTTTTGTTGCAG+AGG | + | chr4_3:47482252-47482271 | Msa0643980:intron | 30.0% |
| CATTCTCTCTTGAAGAAAAC+TGG | - | chr4_3:47482071-47482090 | None:intergenic | 35.0% | |
| ! | CAGTTTTCTTCAAGAGAGAA+TGG | + | chr4_3:47482069-47482088 | Msa0643980:CDS | 35.0% |
| !! | AAATTCTCTCTTGGTCTTAC+CGG | + | chr4_3:47482146-47482165 | Msa0643980:CDS | 35.0% |
| TTTGTGATGCTGAACGAATT+TGG | - | chr4_3:47482293-47482312 | None:intergenic | 35.0% | |
| AATTCGTTCAGCATCACAAA+AGG | + | chr4_3:47482293-47482312 | Msa0643980:CDS | 35.0% | |
| TCTTCGTCACACCAAAGTTA+CGG | - | chr4_3:47481963-47481982 | None:intergenic | 40.0% | |
| AAATGAGACAGTTCGATCCA+TGG | + | chr4_3:47482045-47482064 | Msa0643980:exon | 40.0% | |
| AGAGAGAATGGAAACGTACT+TGG | + | chr4_3:47482081-47482100 | Msa0643980:CDS | 40.0% | |
| CTTGTCACCAAATTCTCTCT+TGG | + | chr4_3:47482137-47482156 | Msa0643980:CDS | 40.0% | |
| GGTAAGACCAAGAGAGAATT+TGG | - | chr4_3:47482147-47482166 | None:intergenic | 40.0% | |
| CTCTTGAAGAAAACTGGCCA+TGG | - | chr4_3:47482065-47482084 | None:intergenic | 45.0% | |
| ! | GAATTTGGTGACAAGAGCTC+CGG | - | chr4_3:47482132-47482151 | None:intergenic | 45.0% |
| CGTACTTGGCCATTCCTCGT+TGG | + | chr4_3:47482095-47482114 | Msa0643980:CDS | 55.0% | |
| ACGGCGAATCCAACGAGGAA+TGG | - | chr4_3:47482107-47482126 | None:intergenic | 55.0% | |
| CTCGTTGGATTCGCCGTCAC+CGG | + | chr4_3:47482110-47482129 | Msa0643980:CDS | 60.0% | |
| GGTGACAAGAGCTCCGGTGA+CGG | - | chr4_3:47482126-47482145 | None:intergenic | 60.0% | |
| ! | CGGTGACGGCGAATCCAACG+AGG | - | chr4_3:47482112-47482131 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 47481916 | 47482318 | 47481916 | ID=Msa0643980;Name=Msa0643980 |
| chr4_3 | mRNA | 47481916 | 47482318 | 47481916 | ID=Msa0643980-mRNA-1;Parent=Msa0643980;Name=Msa0643980-mRNA-1;_AED=0.28;_eAED=0.28;_QI=131|1|0.5|1|1|1|2|0|55 |
| chr4_3 | exon | 47481916 | 47482167 | 47481916 | ID=Msa0643980-mRNA-1:exon:11233;Parent=Msa0643980-mRNA-1 |
| chr4_3 | exon | 47482272 | 47482318 | 47482272 | ID=Msa0643980-mRNA-1:exon:11234;Parent=Msa0643980-mRNA-1 |
| chr4_3 | five_prime_UTR | 47481916 | 47482046 | 47481916 | ID=Msa0643980-mRNA-1:five_prime_utr;Parent=Msa0643980-mRNA-1 |
| chr4_3 | CDS | 47482047 | 47482167 | 47482047 | ID=Msa0643980-mRNA-1:cds;Parent=Msa0643980-mRNA-1 |
| chr4_3 | CDS | 47482272 | 47482318 | 47482272 | ID=Msa0643980-mRNA-1:cds;Parent=Msa0643980-mRNA-1 |
| Gene Sequence |
| Protein sequence |
