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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0344290 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0344290 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0344290 | 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 |
|---|---|---|---|---|
| Msa0095200 | Msa0344290 | 0.806955 | 6.396364e-50 | -8.615850e-47 |
| Msa0268380 | Msa0344290 | 0.828362 | 9.375428e-55 | -8.615850e-47 |
| Msa0268420 | Msa0344290 | 0.827054 | 1.933678e-54 | -8.615850e-47 |
| Msa0268540 | Msa0344290 | 0.833201 | 6.110984e-56 | -8.615850e-47 |
| Msa0268930 | Msa0344290 | 0.818722 | 1.690038e-52 | -8.615850e-47 |
| Msa0344200 | Msa0344290 | 0.809562 | 1.779884e-50 | -8.615850e-47 |
| Msa0344290 | Msa0582530 | 0.805557 | 1.260195e-49 | -8.615850e-47 |
| Msa0344290 | Msa0772210 | 0.803764 | 2.983289e-49 | -8.615850e-47 |
| Msa0344290 | Msa0924860 | 0.802860 | 4.590074e-49 | -8.615850e-47 |
| Msa0344290 | Msa0931090 | 0.823459 | 1.369268e-53 | -8.615850e-47 |
| Msa0344290 | Msa0931150 | 0.803627 | 3.184857e-49 | -8.615850e-47 |
| Msa0344290 | Msa0931200 | 0.800545 | 1.370599e-48 | -8.615850e-47 |
| Msa0344290 | Msa0983710 | 0.815500 | 8.956840e-52 | -8.615850e-47 |
| Msa0344290 | Msa1086060 | 0.804523 | 2.073437e-49 | -8.615850e-47 |
| Msa0344290 | Msa1086170 | 0.837217 | 5.922333e-57 | -8.615850e-47 |
| Msa0344290 | Msa1086290 | 0.801880 | 7.306832e-49 | -8.615850e-47 |
| Msa0344290 | Msa1086370 | 0.831771 | 1.382096e-55 | -8.615850e-47 |
| Msa0344290 | Msa1086870 | 0.814897 | 1.218845e-51 | -8.615850e-47 |
| Msa0344290 | Msa1091690 | 0.803130 | 4.037425e-49 | -8.615850e-47 |
| Msa0344290 | Msa1143140 | 0.801050 | 1.081023e-48 | -8.615850e-47 |
| Msa0344290 | Msa1143150 | 0.803836 | 2.881850e-49 | -8.615850e-47 |
| Msa0344290 | Msa1354890 | 0.814097 | 1.832183e-51 | -8.615850e-47 |
| Msa0344290 | Msa1394140 | 0.812046 | 5.161905e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0344290 | MtrunA17_Chr4g0015681 | 96.667 | 60 | 2 | 0 | 1 | 60 | 1 | 60 | 7.64e-35 | 113 |
| Msa0344290 | MtrunA17_CPg0492901 | 96.667 | 60 | 2 | 0 | 1 | 60 | 1 | 60 | 7.64e-35 | 113 |
| Msa0344290 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0344290 | ATCG00070.1 | 76.667 | 60 | 14 | 0 | 1 | 60 | 1 | 60 | 3.76e-26 | 92.0 |
| Msa0344290 | 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 | 3_1:+2748495 | None:intergenic |
| ACTGGCATAAAATCTACAAT+TGG | 0.453871 | 3_1:-2748598 | None:intergenic |
| AATGATCCAGGACGTAATCC+TGG | 0.474800 | 3_1:+2749143 | Msa0344290:CDS |
| GGATTCCTATCTAATGATCC+AGG | 0.536202 | 3_1:+2749131 | Msa0344290:CDS |
| TCACGTCCAGGATTACGTCC+TGG | 0.548081 | 3_1:-2749149 | None:intergenic |
| TACGTCCTGGATCATTAGAT+AGG | 0.581605 | 3_1:-2749136 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTCCAAATATTAAAATTTT+TGG | + | chr3_1:2748785-2748804 | Msa0344290:intron | 10.0% |
| !!! | TATCCAAAAATTTTAATATT+TGG | - | chr3_1:2748791-2748810 | None:intergenic | 10.0% |
| !! | AATTTCAAAAAAAAAAACTT+AGG | - | chr3_1:2748942-2748961 | None:intergenic | 10.0% |
| !!! | AATTTTAATATTTGGAATCA+AGG | - | chr3_1:2748783-2748802 | None:intergenic | 15.0% |
| !! | GAAAAAACTACTTGAATAAA+GGG | - | chr3_1:2748542-2748561 | None:intergenic | 20.0% |
| !! | AGAAAAAACTACTTGAATAA+AGG | - | chr3_1:2748543-2748562 | None:intergenic | 20.0% |
| !!! | TTATTCAAGTAGTTTTTTCT+TGG | + | chr3_1:2748543-2748562 | Msa0344290:CDS | 20.0% |
| !! | TGAAAATTCTATTATTCGAT+TGG | + | chr3_1:2748829-2748848 | Msa0344290:intron | 20.0% |
| !!! | TGTGGATATGAAAAAAATTT+TGG | + | chr3_1:2748880-2748899 | Msa0344290:intron | 20.0% |
| !! | TCTTATAAACTTAGTATCAA+AGG | + | chr3_1:2748970-2748989 | Msa0344290:intron | 20.0% |
| !!! | GCGTTTTTTTTTAATTATCT+TGG | + | chr3_1:2749035-2749054 | Msa0344290:intron | 20.0% |
| !!! | TTTTTCTCTTAGCTTTTGTT+TGG | + | chr3_1:2748635-2748654 | Msa0344290:CDS | 25.0% |
| !!! | TTTGTTTCTCTTTTCATCTT+CGG | + | chr3_1:2749110-2749129 | Msa0344290:CDS | 25.0% |
| ! | AATTGGATTCAAAAAAGCGT+AGG | - | chr3_1:2748584-2748603 | None:intergenic | 30.0% |
| ACTGGCATAAAATCTACAAT+TGG | - | chr3_1:2748601-2748620 | None:intergenic | 30.0% | |
| !! | AAAAAGAGTAAGGGTATTAC+TGG | - | chr3_1:2748619-2748638 | None:intergenic | 30.0% |
| GCTAAGAGAAAAAAGAGTAA+GGG | - | chr3_1:2748628-2748647 | None:intergenic | 30.0% | |
| AGCTAAGAGAAAAAAGAGTA+AGG | - | chr3_1:2748629-2748648 | None:intergenic | 30.0% | |
| !! | AATCAAGATCTAGGTATTGG+TGG | - | chr3_1:2748861-2748880 | None:intergenic | 35.0% |
| CACAATCAAGATCTAGGTAT+TGG | - | chr3_1:2748864-2748883 | None:intergenic | 35.0% | |
| CAATACCTAGATCTTGATTG+TGG | + | chr3_1:2748862-2748881 | Msa0344290:intron | 35.0% | |
| CATATCCACAATCAAGATCT+AGG | - | chr3_1:2748870-2748889 | None:intergenic | 35.0% | |
| GAGAATCTATTCTCTTTCTC+TGG | + | chr3_1:2749013-2749032 | Msa0344290:intron | 35.0% | |
| ! | TTCAAAAAAGCGTAGGCTTC+AGG | - | chr3_1:2748577-2748596 | None:intergenic | 40.0% |
| GGATTCCTATCTAATGATCC+AGG | + | chr3_1:2749131-2749150 | Msa0344290:CDS | 40.0% | |
| TACGTCCTGGATCATTAGAT+AGG | - | chr3_1:2749139-2749158 | None:intergenic | 40.0% | |
| !! | CAAGATCTAGGTATTGGTGG+TGG | - | chr3_1:2748858-2748877 | None:intergenic | 45.0% |
| AATGATCCAGGACGTAATCC+TGG | + | chr3_1:2749143-2749162 | Msa0344290:CDS | 45.0% | |
| !!! | AATAAATTCTTAATTTTTTT+CGG | - | chr3_1:2748706-2748725 | None:intergenic | 5.0% |
| TCACGTCCAGGATTACGTCC+TGG | - | chr3_1:2749152-2749171 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 2748496 | 2749178 | 2748496 | ID=Msa0344290;Name=Msa0344290 |
| chr3_1 | mRNA | 2748496 | 2749178 | 2748496 | ID=Msa0344290-mRNA-1;Parent=Msa0344290;Name=Msa0344290-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0|0|0|1|0|0|2|0|97 |
| chr3_1 | exon | 2748496 | 2748670 | 2748496 | ID=Msa0344290-mRNA-1:exon:893;Parent=Msa0344290-mRNA-1 |
| chr3_1 | exon | 2749060 | 2749178 | 2749060 | ID=Msa0344290-mRNA-1:exon:894;Parent=Msa0344290-mRNA-1 |
| chr3_1 | CDS | 2748496 | 2748670 | 2748496 | ID=Msa0344290-mRNA-1:cds;Parent=Msa0344290-mRNA-1 |
| chr3_1 | CDS | 2749060 | 2749178 | 2749060 | ID=Msa0344290-mRNA-1:cds;Parent=Msa0344290-mRNA-1 |
| Gene Sequence |
| Protein sequence |
