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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1305080 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1305080 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1305080 | 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 |
|---|---|---|---|---|
| Msa1086290 | Msa1305080 | 0.810717 | 1.003010e-50 | -8.615850e-47 |
| Msa1086370 | Msa1305080 | 0.801428 | 9.046002e-49 | -8.615850e-47 |
| Msa1086870 | Msa1305080 | 0.807174 | 5.748919e-50 | -8.615850e-47 |
| Msa0268180 | Msa1305080 | 0.808119 | 3.622717e-50 | -8.615850e-47 |
| Msa0582530 | Msa1305080 | 0.823066 | 1.691771e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1305080 | MtrunA17_Chr4g0015681 | 96.667 | 60 | 2 | 0 | 1 | 60 | 1 | 60 | 7.64e-35 | 113 |
| Msa1305080 | MtrunA17_CPg0492901 | 96.667 | 60 | 2 | 0 | 1 | 60 | 1 | 60 | 7.64e-35 | 113 |
| Msa1305080 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1305080 | ATCG00070.1 | 76.667 | 60 | 14 | 0 | 1 | 60 | 1 | 60 | 3.76e-26 | 92.0 |
| Msa1305080 | ATCG00080.1 | 97.222 | 36 | 1 | 0 | 62 | 97 | 1 | 36 | 2.92e-19 | 73.9 |
Find 6 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TATGCTTAATATCTTTAGCT+TGG | 0.440922 | 8_3:+68392257 | None:intergenic |
| ACTGGCATAAAATCTACAAT+TGG | 0.453871 | 8_3:-68392360 | None:intergenic |
| AATGATCCAGGACGTAATCC+TGG | 0.474800 | 8_3:+68392902 | Msa1305080:CDS |
| GGATTCCTATCTAATGATCC+AGG | 0.536202 | 8_3:+68392890 | Msa1305080:CDS |
| TCACGTCCAGGATTACGTCC+TGG | 0.548081 | 8_3:-68392908 | None:intergenic |
| TACGTCCTGGATCATTAGAT+AGG | 0.581605 | 8_3:-68392895 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTCCAAATATTAAAATTTT+TGG | + | chr8_3:68392544-68392563 | Msa1305080:intron | 10.0% |
| !!! | TATCCAAAAATTTTAATATT+TGG | - | chr8_3:68392550-68392569 | None:intergenic | 10.0% |
| !! | ATTTCAAAAAAAAAAAACTT+AGG | - | chr8_3:68392699-68392718 | None:intergenic | 10.0% |
| !!! | CGATAAATTCTTAATTTTTT+CGG | - | chr8_3:68392468-68392487 | None:intergenic | 15.0% |
| !!! | AATTTTAATATTTGGAATCA+AGG | - | chr8_3:68392542-68392561 | None:intergenic | 15.0% |
| !!! | CGTTTTTTTTTTAATTATCT+TGG | + | chr8_3:68392794-68392813 | Msa1305080:intron | 15.0% |
| !! | GAAAAAACTACTTGAATAAA+GGG | - | chr8_3:68392304-68392323 | None:intergenic | 20.0% |
| !! | AGAAAAAACTACTTGAATAA+AGG | - | chr8_3:68392305-68392324 | None:intergenic | 20.0% |
| !!! | TTATTCAAGTAGTTTTTTCT+TGG | + | chr8_3:68392305-68392324 | Msa1305080:CDS | 20.0% |
| !! | TGAAAATTCTATTATTCGAT+TGG | + | chr8_3:68392588-68392607 | Msa1305080:intron | 20.0% |
| !! | TCTTATAAACTTAGTATCAA+AGG | + | chr8_3:68392728-68392747 | Msa1305080:intron | 20.0% |
| !!! | TTTTTCTCTTAGCTTTTGTT+TGG | + | chr8_3:68392397-68392416 | Msa1305080:CDS | 25.0% |
| !!! | TTTGTTTCTCTTTTCATCTT+CGG | + | chr8_3:68392869-68392888 | Msa1305080:CDS | 25.0% |
| ! | AATTGGATTCAAAAAAGCGT+AGG | - | chr8_3:68392346-68392365 | None:intergenic | 30.0% |
| ACTGGCATAAAATCTACAAT+TGG | - | chr8_3:68392363-68392382 | None:intergenic | 30.0% | |
| !! | AAAAAGAGTAAGGGTATTAC+TGG | - | chr8_3:68392381-68392400 | None:intergenic | 30.0% |
| GCTAAGAGAAAAAAGAGTAA+GGG | - | chr8_3:68392390-68392409 | None:intergenic | 30.0% | |
| AGCTAAGAGAAAAAAGAGTA+AGG | - | chr8_3:68392391-68392410 | None:intergenic | 30.0% | |
| !! | AATCAAGATCTAGGTATTGG+TGG | - | chr8_3:68392620-68392639 | None:intergenic | 35.0% |
| CACAATCAAGATCTAGGTAT+TGG | - | chr8_3:68392623-68392642 | None:intergenic | 35.0% | |
| CAATACCTAGATCTTGATTG+TGG | + | chr8_3:68392621-68392640 | Msa1305080:intron | 35.0% | |
| CATATCCACAATCAAGATCT+AGG | - | chr8_3:68392629-68392648 | None:intergenic | 35.0% | |
| GAGAATCTATTCTCTTTCTC+TGG | + | chr8_3:68392771-68392790 | Msa1305080:intron | 35.0% | |
| ! | TTCAAAAAAGCGTAGGCTTC+AGG | - | chr8_3:68392339-68392358 | None:intergenic | 40.0% |
| GGATTCCTATCTAATGATCC+AGG | + | chr8_3:68392890-68392909 | Msa1305080:CDS | 40.0% | |
| TACGTCCTGGATCATTAGAT+AGG | - | chr8_3:68392898-68392917 | None:intergenic | 40.0% | |
| !! | CAAGATCTAGGTATTGGTGG+TGG | - | chr8_3:68392617-68392636 | None:intergenic | 45.0% |
| AATGATCCAGGACGTAATCC+TGG | + | chr8_3:68392902-68392921 | Msa1305080:CDS | 45.0% | |
| TCACGTCCAGGATTACGTCC+TGG | - | chr8_3:68392911-68392930 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 68392258 | 68392937 | 68392258 | ID=Msa1305080;Name=Msa1305080 |
| chr8_3 | mRNA | 68392258 | 68392937 | 68392258 | ID=Msa1305080-mRNA-1;Parent=Msa1305080;Name=Msa1305080-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0|0|0|1|0|0|2|0|97 |
| chr8_3 | exon | 68392258 | 68392432 | 68392258 | ID=Msa1305080-mRNA-1:exon:21197;Parent=Msa1305080-mRNA-1 |
| chr8_3 | exon | 68392819 | 68392937 | 68392819 | ID=Msa1305080-mRNA-1:exon:21198;Parent=Msa1305080-mRNA-1 |
| chr8_3 | CDS | 68392258 | 68392432 | 68392258 | ID=Msa1305080-mRNA-1:cds;Parent=Msa1305080-mRNA-1 |
| chr8_3 | CDS | 68392819 | 68392937 | 68392819 | ID=Msa1305080-mRNA-1:cds;Parent=Msa1305080-mRNA-1 |
| Gene Sequence |
| Protein sequence |
