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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0095300 | RDY14692.1 | 90.722 | 97 | 9 | 0 | 1 | 97 | 4 | 100 | 7.75e-56 | 178 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0095300 | sp|Q49L15|PSBK_EUCGG | 91.667 | 60 | 5 | 0 | 1 | 60 | 1 | 60 | 1.80e-32 | 110 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0095300 | A0A371II05 | 90.722 | 97 | 9 | 0 | 1 | 97 | 4 | 100 | 3.70e-56 | 178 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0095180 | Msa0095300 | 0.842881 | 1.971985e-58 | -8.615850e-47 |
| Msa0095300 | Msa0268180 | 0.821346 | 4.240292e-53 | -8.615850e-47 |
| Msa0095300 | Msa0268420 | 0.805468 | 1.315942e-49 | -8.615850e-47 |
| Msa0095300 | Msa0268730 | 0.820408 | 6.968510e-53 | -8.615850e-47 |
| Msa0095300 | Msa0268930 | 0.820806 | 5.647010e-53 | -8.615850e-47 |
| Msa0095300 | Msa0269060 | 0.812028 | 5.209754e-51 | -8.615850e-47 |
| Msa0095300 | Msa0582530 | 0.836138 | 1.115411e-56 | -8.615850e-47 |
| Msa0095300 | Msa0582710 | 0.805803 | 1.119287e-49 | -8.615850e-47 |
| Msa0095300 | Msa0582740 | 0.815911 | 7.251912e-52 | -8.615850e-47 |
| Msa0095300 | Msa0582830 | 0.801203 | 1.006021e-48 | -8.615850e-47 |
| Msa0095300 | Msa0582900 | 0.817848 | 2.665434e-52 | -8.615850e-47 |
| Msa0095300 | Msa1086060 | 0.828840 | 7.188447e-55 | -8.615850e-47 |
| Msa0095300 | Msa1086870 | 0.815589 | 8.554758e-52 | -8.615850e-47 |
| Msa0095300 | Msa1354890 | 0.843339 | 1.489260e-58 | -8.615850e-47 |
| Msa0095300 | Msa1355060 | 0.805581 | 1.246101e-49 | -8.615850e-47 |
| Msa0095300 | Msa1394240 | 0.813376 | 2.640974e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0095300 | MtrunA17_Chr4g0015681 | 96.667 | 60 | 2 | 0 | 1 | 60 | 1 | 60 | 7.64e-35 | 113 |
| Msa0095300 | MtrunA17_CPg0492901 | 96.667 | 60 | 2 | 0 | 1 | 60 | 1 | 60 | 7.64e-35 | 113 |
| Msa0095300 | MtrunA17_Chr4g0016771 | 96.667 | 60 | 2 | 0 | 1 | 60 | 1 | 60 | 7.64e-35 | 113 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0095300 | ATCG00070.1 | 76.667 | 60 | 14 | 0 | 1 | 60 | 1 | 60 | 3.76e-26 | 92.0 |
| Msa0095300 | ATCG00080.1 | 97.222 | 36 | 1 | 0 | 62 | 97 | 1 | 36 | 2.92e-19 | 73.9 |
Find 6 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TATGCTTAATATCTTTAGCT+TGG | 0.440922 | 1_2:+79099906 | None:intergenic |
| ACTGGCATAAAATCTACAAT+TGG | 0.453871 | 1_2:-79100009 | None:intergenic |
| AATGATCCAGGACGTAATCC+TGG | 0.474800 | 1_2:+79100555 | Msa0095300:CDS |
| GGATTCCTATCTAATGATCC+AGG | 0.536202 | 1_2:+79100543 | Msa0095300:CDS |
| TCACGTCCAGGATTACGTCC+TGG | 0.548081 | 1_2:-79100561 | None:intergenic |
| TACGTCCTGGATCATTAGAT+AGG | 0.581605 | 1_2:-79100548 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTCCAAATATTAAAATTTT+TGG | + | chr1_2:79100195-79100214 | Msa0095300:intron | 10.0% |
| !!! | TATCCAAAAATTTTAATATT+TGG | - | chr1_2:79100201-79100220 | None:intergenic | 10.0% |
| !! | ATTTCAAAAAAAAAAAACTT+AGG | - | chr1_2:79100352-79100371 | None:intergenic | 10.0% |
| !!! | AATTTTAATATTTGGAATCA+AGG | - | chr1_2:79100193-79100212 | None:intergenic | 15.0% |
| !!! | CGTTTTTTTTTTAATTATCT+TGG | + | chr1_2:79100447-79100466 | Msa0095300:intron | 15.0% |
| !! | GAAAAAACTACTTGAATAAA+GGG | - | chr1_2:79099953-79099972 | None:intergenic | 20.0% |
| !! | AGAAAAAACTACTTGAATAA+AGG | - | chr1_2:79099954-79099973 | None:intergenic | 20.0% |
| !!! | TTATTCAAGTAGTTTTTTCT+TGG | + | chr1_2:79099954-79099973 | Msa0095300:CDS | 20.0% |
| !! | TGAAAATTCTATTATTCGAT+TGG | + | chr1_2:79100239-79100258 | Msa0095300:intron | 20.0% |
| !!! | TGTGGATATGAAAAAAATTT+TGG | + | chr1_2:79100290-79100309 | Msa0095300:intron | 20.0% |
| !! | TCTTATAAACTTAGTATCAA+AGG | + | chr1_2:79100381-79100400 | Msa0095300:intron | 20.0% |
| !!! | TTTTTCTCTTAGCTTTTGTT+TGG | + | chr1_2:79100046-79100065 | Msa0095300:CDS | 25.0% |
| !!! | TTTGTTTCTCTTTTCATCTT+CGG | + | chr1_2:79100522-79100541 | Msa0095300:CDS | 25.0% |
| ! | AATTGGATTCAAAAAAGCGT+AGG | - | chr1_2:79099995-79100014 | None:intergenic | 30.0% |
| ACTGGCATAAAATCTACAAT+TGG | - | chr1_2:79100012-79100031 | None:intergenic | 30.0% | |
| !! | AAAAAGAGTAAGGGTATTAC+TGG | - | chr1_2:79100030-79100049 | None:intergenic | 30.0% |
| GCTAAGAGAAAAAAGAGTAA+GGG | - | chr1_2:79100039-79100058 | None:intergenic | 30.0% | |
| AGCTAAGAGAAAAAAGAGTA+AGG | - | chr1_2:79100040-79100059 | None:intergenic | 30.0% | |
| !! | AATCAAGATCTAGGTATTGG+TGG | - | chr1_2:79100271-79100290 | None:intergenic | 35.0% |
| CACAATCAAGATCTAGGTAT+TGG | - | chr1_2:79100274-79100293 | None:intergenic | 35.0% | |
| CAATACCTAGATCTTGATTG+TGG | + | chr1_2:79100272-79100291 | Msa0095300:intron | 35.0% | |
| CATATCCACAATCAAGATCT+AGG | - | chr1_2:79100280-79100299 | None:intergenic | 35.0% | |
| GAGAATCTATTCTCTTTCTC+TGG | + | chr1_2:79100424-79100443 | Msa0095300:intron | 35.0% | |
| ! | TTCAAAAAAGCGTAGGCTTC+AGG | - | chr1_2:79099988-79100007 | None:intergenic | 40.0% |
| GGATTCCTATCTAATGATCC+AGG | + | chr1_2:79100543-79100562 | Msa0095300:CDS | 40.0% | |
| TACGTCCTGGATCATTAGAT+AGG | - | chr1_2:79100551-79100570 | None:intergenic | 40.0% | |
| !! | CAAGATCTAGGTATTGGTGG+TGG | - | chr1_2:79100268-79100287 | None:intergenic | 45.0% |
| AATGATCCAGGACGTAATCC+TGG | + | chr1_2:79100555-79100574 | Msa0095300:CDS | 45.0% | |
| !!! | AATAAATTCTTAATTTTTTT+CGG | - | chr1_2:79100117-79100136 | None:intergenic | 5.0% |
| TCACGTCCAGGATTACGTCC+TGG | - | chr1_2:79100564-79100583 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 79099907 | 79100590 | 79099907 | ID=Msa0095300;Name=Msa0095300 |
| chr1_2 | mRNA | 79099907 | 79100590 | 79099907 | ID=Msa0095300-mRNA-1;Parent=Msa0095300;Name=Msa0095300-mRNA-1;_AED=0.30;_eAED=0.30;_QI=0|0|0|1|0|0|2|0|97 |
| chr1_2 | exon | 79099907 | 79100081 | 79099907 | ID=Msa0095300-mRNA-1:exon:28103;Parent=Msa0095300-mRNA-1 |
| chr1_2 | exon | 79100472 | 79100590 | 79100472 | ID=Msa0095300-mRNA-1:exon:28104;Parent=Msa0095300-mRNA-1 |
| chr1_2 | CDS | 79099907 | 79100081 | 79099907 | ID=Msa0095300-mRNA-1:cds;Parent=Msa0095300-mRNA-1 |
| chr1_2 | CDS | 79100472 | 79100590 | 79100472 | ID=Msa0095300-mRNA-1:cds;Parent=Msa0095300-mRNA-1 |
| Gene Sequence |
| Protein sequence |
