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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0491050 | AES69063.1 | 66.667 | 120 | 13 | 1 | 1 | 93 | 1 | 120 | 8.45e-45 | 151 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0491050 | sp|G7J1L1|TF80_MEDTR | 42.069 | 145 | 29 | 2 | 1 | 93 | 125 | 266 | 6.74e-25 | 99.8 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0491050 | G7IZ35 | 66.667 | 120 | 13 | 1 | 1 | 93 | 1 | 120 | 4.03e-45 | 151 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0491050 | TF | GRAS |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0349090 | Msa0491050 | 0.972016 | 4.394482e-134 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0491050 | MtrunA17_Chr3g0085361 | 42.069 | 145 | 29 | 2 | 1 | 93 | 40 | 181 | 1.09e-26 | 100 |
| Msa0491050 | MtrunA17_Chr3g0085681 | 42.069 | 145 | 29 | 2 | 1 | 93 | 125 | 266 | 4.96e-26 | 99.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAAGATTTATACACTGGTC+TGG | 0.460897 | 3_4:-13116727 | None:intergenic |
| GCTGGGAGAATCTCACCAAC+AGG | 0.486357 | 3_4:+13117008 | Msa0491050:CDS |
| GCCGCTGATGATGAAACAGC+TGG | 0.487530 | 3_4:+13116990 | Msa0491050:CDS |
| CTCTGCAGATTGATAAATGC+CGG | 0.527470 | 3_4:-13117032 | None:intergenic |
| TTTGTAGAAGATTTATACAC+TGG | 0.531590 | 3_4:-13116732 | None:intergenic |
| TGAATCAATGGAATGTGAAA+AGG | 0.560459 | 3_4:+13116672 | None:intergenic |
| CCCAGCTGTTTCATCATCAG+CGG | 0.566236 | 3_4:-13116991 | None:intergenic |
| GAGAATCTCACCAACAGGAC+CGG | 0.575709 | 3_4:+13117013 | Msa0491050:CDS |
| GTCAGAGGGATTTCGAAAAG+TGG | 0.585911 | 3_4:+13117069 | Msa0491050:CDS |
| TTGATAAATGCCGGTCCTGT+TGG | 0.590041 | 3_4:-13117023 | None:intergenic |
| AACAGTACACATAAGTCAGA+GGG | 0.595966 | 3_4:+13117055 | Msa0491050:CDS |
| GAACAGTACACATAAGTCAG+AGG | 0.608684 | 3_4:+13117054 | Msa0491050:CDS |
| ACAAACTTCAAAGAAAAGTG+AGG | 0.613226 | 3_4:+13116750 | Msa0491050:CDS |
| CAAACTTCAAAGAAAAGTGA+GGG | 0.617757 | 3_4:+13116751 | Msa0491050:CDS |
| CCGCTGATGATGAAACAGCT+GGG | 0.622590 | 3_4:+13116991 | Msa0491050:CDS |
| ATCAATGGAATGTGAAAAGG+TGG | 0.652781 | 3_4:+13116675 | None:intergenic |
| CTGTTTCATCATCAGCGGCG+AGG | 0.673898 | 3_4:-13116986 | None:intergenic |
| ACTTCAAAGAAAAGTGAGGG+AGG | 0.680351 | 3_4:+13116754 | Msa0491050:CDS |
| ACTGGTCTGGTTCAGAACAA+CGG | 0.690931 | 3_4:-13116714 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTCTTGTAATTTTCAGATA+GGG | - | chr3_4:13116784-13116803 | None:intergenic | 20.0% |
| !!! | AATTCTTGTAATTTTCAGAT+AGG | - | chr3_4:13116785-13116804 | None:intergenic | 20.0% |
| ! | TTTGTAGAAGATTTATACAC+TGG | - | chr3_4:13116735-13116754 | None:intergenic | 25.0% |
| ! | TCATGAAAAGAAAGATGTAT+TGG | + | chr3_4:13116804-13116823 | Msa0491050:intron | 25.0% |
| ! | AACTTTGGATTAATCTGTAA+AGG | - | chr3_4:13116877-13116896 | None:intergenic | 25.0% |
| !!! | ATTTTTGAGTTTGCTAACTT+TGG | - | chr3_4:13116892-13116911 | None:intergenic | 25.0% |
| ACAAACTTCAAAGAAAAGTG+AGG | + | chr3_4:13116750-13116769 | Msa0491050:CDS | 30.0% | |
| CAAACTTCAAAGAAAAGTGA+GGG | + | chr3_4:13116751-13116770 | Msa0491050:CDS | 30.0% | |
| TTGTCAAACGAAAACTCATT+TGG | - | chr3_4:13116831-13116850 | None:intergenic | 30.0% | |
| ! | AATGAGTTTTCGTTTGACAA+CGG | + | chr3_4:13116831-13116850 | Msa0491050:intron | 30.0% |
| AGAAGATTTATACACTGGTC+TGG | - | chr3_4:13116730-13116749 | None:intergenic | 35.0% | |
| ! | CTTGTAATTTTCAGATAGGG+TGG | - | chr3_4:13116781-13116800 | None:intergenic | 35.0% |
| AACAGTACACATAAGTCAGA+GGG | + | chr3_4:13117055-13117074 | Msa0491050:CDS | 35.0% | |
| ACTTCAAAGAAAAGTGAGGG+AGG | + | chr3_4:13116754-13116773 | Msa0491050:CDS | 40.0% | |
| AAAGGAAAATGCAAGTTCCC+TGG | - | chr3_4:13116859-13116878 | None:intergenic | 40.0% | |
| CTCTGCAGATTGATAAATGC+CGG | - | chr3_4:13117035-13117054 | None:intergenic | 40.0% | |
| GAACAGTACACATAAGTCAG+AGG | + | chr3_4:13117054-13117073 | Msa0491050:CDS | 40.0% | |
| ! | ACTGGTCTGGTTCAGAACAA+CGG | - | chr3_4:13116717-13116736 | None:intergenic | 45.0% |
| TTTCGTTTGACAACGGAACC+AGG | + | chr3_4:13116838-13116857 | Msa0491050:intron | 45.0% | |
| TTCGTTTGACAACGGAACCA+GGG | + | chr3_4:13116839-13116858 | Msa0491050:intron | 45.0% | |
| TTGATAAATGCCGGTCCTGT+TGG | - | chr3_4:13117026-13117045 | None:intergenic | 45.0% | |
| GTCAGAGGGATTTCGAAAAG+TGG | + | chr3_4:13117069-13117088 | Msa0491050:CDS | 45.0% | |
| ! | CCCAGCTGTTTCATCATCAG+CGG | - | chr3_4:13116994-13117013 | None:intergenic | 50.0% |
| ! | CCGCTGATGATGAAACAGCT+GGG | + | chr3_4:13116991-13117010 | Msa0491050:CDS | 50.0% |
| GAGAATCTCACCAACAGGAC+CGG | + | chr3_4:13117013-13117032 | Msa0491050:CDS | 50.0% | |
| CTGTTTCATCATCAGCGGCG+AGG | - | chr3_4:13116989-13117008 | None:intergenic | 55.0% | |
| ! | GCCGCTGATGATGAAACAGC+TGG | + | chr3_4:13116990-13117009 | Msa0491050:CDS | 55.0% |
| GCTGGGAGAATCTCACCAAC+AGG | + | chr3_4:13117008-13117027 | Msa0491050:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 13116679 | 13117142 | 13116679 | ID=Msa0491050;Name=Msa0491050 |
| chr3_4 | mRNA | 13116679 | 13117142 | 13116679 | ID=Msa0491050-mRNA-1;Parent=Msa0491050;Name=Msa0491050-mRNA-1;_AED=0.34;_eAED=0.34;_QI=0|0|0|1|0|0.5|2|0|102 |
| chr3_4 | exon | 13116679 | 13116819 | 13116679 | ID=Msa0491050-mRNA-1:exon:4006;Parent=Msa0491050-mRNA-1 |
| chr3_4 | exon | 13116975 | 13117142 | 13116975 | ID=Msa0491050-mRNA-1:exon:4007;Parent=Msa0491050-mRNA-1 |
| chr3_4 | CDS | 13116679 | 13116819 | 13116679 | ID=Msa0491050-mRNA-1:cds;Parent=Msa0491050-mRNA-1 |
| chr3_4 | CDS | 13116975 | 13117142 | 13116975 | ID=Msa0491050-mRNA-1:cds;Parent=Msa0491050-mRNA-1 |
| Gene Sequence |
| Protein sequence |
