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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1163380 | KEH23820.1 | 80.851 | 47 | 8 | 1 | 22 | 67 | 10 | 56 | 3.08e-19 | 84.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1163380 | sp|Q8W3L9|EIL2_ORYSJ | 68.293 | 41 | 13 | 0 | 27 | 67 | 148 | 188 | 6.40e-13 | 65.1 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1163380 | A0A072UDC0 | 80.851 | 47 | 8 | 1 | 22 | 67 | 10 | 56 | 1.47e-19 | 84.7 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1163380 | TF | EIL |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1163380 | MtrunA17_Chr7g0260281 | 80.851 | 47 | 8 | 1 | 22 | 67 | 10 | 56 | 8.93e-23 | 84.3 |
| Msa1163380 | MtrunA17_Chr2g0329151 | 72.727 | 33 | 9 | 0 | 35 | 67 | 106 | 138 | 1.83e-12 | 60.5 |
| Msa1163380 | MtrunA17_Chr3g0118361 | 75.758 | 33 | 8 | 0 | 35 | 67 | 118 | 150 | 2.02e-12 | 60.5 |
| Msa1163380 | MtrunA17_Chr5g0440591 | 75.758 | 33 | 8 | 0 | 35 | 67 | 115 | 147 | 2.41e-12 | 60.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1163380 | AT3G20770.1 | 78.788 | 33 | 7 | 0 | 35 | 67 | 115 | 147 | 6.52e-13 | 62.4 |
| Msa1163380 | AT2G27050.1 | 75.758 | 33 | 8 | 0 | 35 | 67 | 116 | 148 | 6.20e-12 | 59.7 |
| Msa1163380 | AT1G73730.2 | 69.697 | 33 | 10 | 0 | 35 | 67 | 94 | 126 | 9.98e-12 | 58.9 |
| Msa1163380 | AT1G73730.1 | 69.697 | 33 | 10 | 0 | 35 | 67 | 106 | 138 | 3.39e-11 | 57.4 |
Find 13 sgRNAs with CRISPR-Local
Find 17 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGGCAATGAAGAAAGAAATT+TGG | 0.267238 | 7_4:+54604723 | None:intergenic |
| TATGGAATTATACCTGAAAA+TGG | 0.304581 | 7_4:+54604908 | Msa1163380:CDS |
| GAATATAAACGGTGGTATCA+TGG | 0.436629 | 7_4:+54604748 | Msa1163380:CDS |
| CTGAAAATCTTCACTGTTGG+TGG | 0.437559 | 7_4:+54604951 | Msa1163380:CDS |
| CATTCTGATGAATTTGTGTA+TGG | 0.448222 | 7_4:+54604890 | Msa1163380:CDS |
| GAAATTTGGAGGAATATAAA+CGG | 0.490162 | 7_4:+54604737 | Msa1163380:CDS |
| ATTGTAGAACAAGCACAAGT+TGG | 0.508697 | 7_4:+54604859 | Msa1163380:intron |
| ATGATCATGTTGTATCAGAA+AGG | 0.538951 | 7_4:+54604999 | Msa1163380:CDS |
| CAATGAAGAAAGAAATTTGG+AGG | 0.552046 | 7_4:+54604726 | None:intergenic |
| CATCTGAAAATCTTCACTGT+TGG | 0.553597 | 7_4:+54604948 | Msa1163380:CDS |
| AACAAGCACAAGTTGGAAGA+TGG | 0.555633 | 7_4:+54604866 | Msa1163380:CDS |
| AAATCTTCACTGTTGGTGGA+AGG | 0.565627 | 7_4:+54604955 | Msa1163380:CDS |
| ATTTGGAGGAATATAAACGG+TGG | 0.680669 | 7_4:+54604740 | Msa1163380:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAATTGAACAAGATAAAAA+AGG | + | chr7_4:54604809-54604828 | Msa1163380:intron | 15.0% |
| ! | GAAATTTGGAGGAATATAAA+CGG | + | chr7_4:54604737-54604756 | Msa1163380:CDS | 25.0% |
| ! | GGAATTGAAAAATCATAGTA+AGG | + | chr7_4:54604769-54604788 | Msa1163380:CDS | 25.0% |
| !! | TTATCTTGTTCAATTTTTGC+TGG | - | chr7_4:54604806-54604825 | None:intergenic | 25.0% |
| ! | TATGGAATTATACCTGAAAA+TGG | + | chr7_4:54604908-54604927 | Msa1163380:CDS | 25.0% |
| CATTCTGATGAATTTGTGTA+TGG | + | chr7_4:54604890-54604909 | Msa1163380:CDS | 30.0% | |
| !!! | CTTATTGGTTTTCCATTTTC+AGG | - | chr7_4:54604923-54604942 | None:intergenic | 30.0% |
| ! | TTTTCAGATGCAACACTTAT+TGG | - | chr7_4:54604938-54604957 | None:intergenic | 30.0% |
| ATGATCATGTTGTATCAGAA+AGG | + | chr7_4:54604999-54605018 | Msa1163380:CDS | 30.0% | |
| ATTTGGAGGAATATAAACGG+TGG | + | chr7_4:54604740-54604759 | Msa1163380:CDS | 35.0% | |
| GAATATAAACGGTGGTATCA+TGG | + | chr7_4:54604748-54604767 | Msa1163380:CDS | 35.0% | |
| ATTGTAGAACAAGCACAAGT+TGG | + | chr7_4:54604859-54604878 | Msa1163380:intron | 35.0% | |
| CATCTGAAAATCTTCACTGT+TGG | + | chr7_4:54604948-54604967 | Msa1163380:CDS | 35.0% | |
| ! | AACAAGCACAAGTTGGAAGA+TGG | + | chr7_4:54604866-54604885 | Msa1163380:CDS | 40.0% |
| CTGAAAATCTTCACTGTTGG+TGG | + | chr7_4:54604951-54604970 | Msa1163380:CDS | 40.0% | |
| ! | AAATCTTCACTGTTGGTGGA+AGG | + | chr7_4:54604955-54604974 | Msa1163380:CDS | 40.0% |
| ! | GTTGGTGGAAGGAAAAAGTG+AGG | + | chr7_4:54604966-54604985 | Msa1163380:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 54604728 | 54605033 | 54604728 | ID=Msa1163380;Name=Msa1163380 |
| chr7_4 | mRNA | 54604728 | 54605033 | 54604728 | ID=Msa1163380-mRNA-1;Parent=Msa1163380;Name=Msa1163380-mRNA-1;_AED=0.27;_eAED=0.41;_QI=0|0|0|0.5|1|1|2|0|77 |
| chr7_4 | exon | 54604728 | 54604793 | 54604728 | ID=Msa1163380-mRNA-1:exon:15899;Parent=Msa1163380-mRNA-1 |
| chr7_4 | exon | 54604866 | 54605033 | 54604866 | ID=Msa1163380-mRNA-1:exon:15900;Parent=Msa1163380-mRNA-1 |
| chr7_4 | CDS | 54604728 | 54604793 | 54604728 | ID=Msa1163380-mRNA-1:cds;Parent=Msa1163380-mRNA-1 |
| chr7_4 | CDS | 54604866 | 54605033 | 54604866 | ID=Msa1163380-mRNA-1:cds;Parent=Msa1163380-mRNA-1 |
| Gene Sequence |
| Protein sequence |
