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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0098790 | AES59248.1 | 70.093 | 107 | 28 | 2 | 9 | 114 | 1 | 104 | 8.21e-40 | 139 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0098790 | G7I9Y7 | 70.093 | 107 | 28 | 2 | 9 | 114 | 1 | 104 | 3.92e-40 | 139 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0098790 | TF | C2C2-GATA |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0098790 | MtrunA17_Chr1g0151471 | 70.093 | 107 | 28 | 2 | 9 | 114 | 1 | 104 | 7.55e-44 | 139 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 23 sgRNAs with CRISPR-Local
Find 35 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTCTCATTCTTGGATATTT+TGG | 0.094277 | 1_3:-4809816 | None:intergenic |
| GAATGAGAGTAAGCAATATT+TGG | 0.256438 | 1_3:+4809829 | Msa0098790:CDS |
| ATATTGCTTACTCTCATTCT+TGG | 0.259098 | 1_3:-4809825 | None:intergenic |
| TTGAGTATCAAGACCCTTAT+CGG | 0.292091 | 1_3:-4810100 | None:intergenic |
| TTGTTACGTACTCTCTTTCT+TGG | 0.325832 | 1_3:-4809684 | None:intergenic |
| ATACAAATACTACTTCTCTT+TGG | 0.332697 | 1_3:+4809880 | Msa0098790:CDS |
| GAAACTTGGGTATTCGTATT+CGG | 0.394103 | 1_3:-4809790 | None:intergenic |
| TCTTGATACTCAAAAGGAAA+AGG | 0.439670 | 1_3:+4810110 | Msa0098790:CDS |
| TTTCCTCTTCCCTTCTTCGT+CGG | 0.486411 | 1_3:-4810074 | None:intergenic |
| ACTCAAAAGGAAAAGGGAAA+TGG | 0.486925 | 1_3:+4810117 | Msa0098790:CDS |
| CAAATACTACTTCTCTTTGG+AGG | 0.495243 | 1_3:+4809883 | Msa0098790:CDS |
| TAAGGGTCTTGATACTCAAA+AGG | 0.499945 | 1_3:+4810104 | Msa0098790:CDS |
| CTTGATACTCAAAAGGAAAA+GGG | 0.500087 | 1_3:+4810111 | Msa0098790:CDS |
| TCTTTGGAGGAGTGATCCTA+CGG | 0.509509 | 1_3:+4809896 | Msa0098790:CDS |
| ATGTGGACTCCGACGAAGAA+GGG | 0.537059 | 1_3:+4810065 | Msa0098790:CDS |
| GAGTGATCCTACGGGTTCCA+AGG | 0.561497 | 1_3:+4809905 | Msa0098790:CDS |
| CTTTGGAGGAGTGATCCTAC+GGG | 0.578542 | 1_3:+4809897 | Msa0098790:CDS |
| CATGTGGACTCCGACGAAGA+AGG | 0.582374 | 1_3:+4810064 | Msa0098790:CDS |
| TGTATCGCAATCGAAACAAA+CGG | 0.590406 | 1_3:-4809862 | None:intergenic |
| ACTCCGACGAAGAAGGGAAG+AGG | 0.605566 | 1_3:+4810071 | Msa0098790:CDS |
| TGGCGAAAGCTCATCATCTG+AGG | 0.622295 | 1_3:+4810137 | Msa0098790:CDS |
| CAGTGGTTGTGTAACGCATG+TGG | 0.661654 | 1_3:+4810048 | Msa0098790:intron |
| CTAATTACCTTGGAACCCGT+AGG | 0.693638 | 1_3:-4809912 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AGTAGTTTTCATTTTCTTTT+TGG | - | chr1_3:4809769-4809788 | None:intergenic | 20.0% |
| !! | ATAGTTAACAAGAAATATGT+TGG | + | chr1_3:4810023-4810042 | Msa0098790:intron | 20.0% |
| !!! | GATATTTTGGTTTGAAACTT+GGG | - | chr1_3:4809806-4809825 | None:intergenic | 25.0% |
| ! | ATACAAATACTACTTCTCTT+TGG | + | chr1_3:4809880-4809899 | Msa0098790:CDS | 25.0% |
| !!! | CTACTATCAACTTTAACTTT+TGG | + | chr1_3:4809948-4809967 | Msa0098790:intron | 25.0% |
| !! | CTTCTTCTTCTTCTTTGTTT+TGG | - | chr1_3:4809724-4809743 | None:intergenic | 30.0% |
| !!! | GGATATTTTGGTTTGAAACT+TGG | - | chr1_3:4809807-4809826 | None:intergenic | 30.0% |
| ! | ACTCTCATTCTTGGATATTT+TGG | - | chr1_3:4809819-4809838 | None:intergenic | 30.0% |
| ATATTGCTTACTCTCATTCT+TGG | - | chr1_3:4809828-4809847 | None:intergenic | 30.0% | |
| GAATGAGAGTAAGCAATATT+TGG | + | chr1_3:4809829-4809848 | Msa0098790:CDS | 30.0% | |
| AAGAGATGAACTAATTACCT+TGG | - | chr1_3:4809925-4809944 | None:intergenic | 30.0% | |
| TCTTGATACTCAAAAGGAAA+AGG | + | chr1_3:4810110-4810129 | Msa0098790:CDS | 30.0% | |
| CTTGATACTCAAAAGGAAAA+GGG | + | chr1_3:4810111-4810130 | Msa0098790:CDS | 30.0% | |
| TTGTTACGTACTCTCTTTCT+TGG | - | chr1_3:4809687-4809706 | None:intergenic | 35.0% | |
| !!! | TTCTTTGTTTTGGCTGGAAT+TGG | - | chr1_3:4809714-4809733 | None:intergenic | 35.0% |
| !!! | TTCTTCTTCTTTGTTTTGGC+TGG | - | chr1_3:4809720-4809739 | None:intergenic | 35.0% |
| GAAACTTGGGTATTCGTATT+CGG | - | chr1_3:4809793-4809812 | None:intergenic | 35.0% | |
| TGTATCGCAATCGAAACAAA+CGG | - | chr1_3:4809865-4809884 | None:intergenic | 35.0% | |
| CAAATACTACTTCTCTTTGG+AGG | + | chr1_3:4809883-4809902 | Msa0098790:CDS | 35.0% | |
| TTGAGTATCAAGACCCTTAT+CGG | - | chr1_3:4810103-4810122 | None:intergenic | 35.0% | |
| TAAGGGTCTTGATACTCAAA+AGG | + | chr1_3:4810104-4810123 | Msa0098790:CDS | 35.0% | |
| ACTCAAAAGGAAAAGGGAAA+TGG | + | chr1_3:4810117-4810136 | Msa0098790:CDS | 35.0% | |
| CAAGAAATATGTTGGTGCAG+TGG | + | chr1_3:4810031-4810050 | Msa0098790:intron | 40.0% | |
| GAAGAGGAAAAAGCCGATAA+GGG | + | chr1_3:4810087-4810106 | Msa0098790:CDS | 40.0% | |
| ! | TCTTTGGAGGAGTGATCCTA+CGG | + | chr1_3:4809896-4809915 | Msa0098790:CDS | 45.0% |
| CTAATTACCTTGGAACCCGT+AGG | - | chr1_3:4809915-4809934 | None:intergenic | 45.0% | |
| TTTCCTCTTCCCTTCTTCGT+CGG | - | chr1_3:4810077-4810096 | None:intergenic | 45.0% | |
| GGAAGAGGAAAAAGCCGATA+AGG | + | chr1_3:4810086-4810105 | Msa0098790:CDS | 45.0% | |
| ! | CTTTGGAGGAGTGATCCTAC+GGG | + | chr1_3:4809897-4809916 | Msa0098790:CDS | 50.0% |
| CAGTGGTTGTGTAACGCATG+TGG | + | chr1_3:4810048-4810067 | Msa0098790:intron | 50.0% | |
| ATGTGGACTCCGACGAAGAA+GGG | + | chr1_3:4810065-4810084 | Msa0098790:CDS | 50.0% | |
| TGGCGAAAGCTCATCATCTG+AGG | + | chr1_3:4810137-4810156 | Msa0098790:CDS | 50.0% | |
| GAGTGATCCTACGGGTTCCA+AGG | + | chr1_3:4809905-4809924 | Msa0098790:CDS | 55.0% | |
| CATGTGGACTCCGACGAAGA+AGG | + | chr1_3:4810064-4810083 | Msa0098790:CDS | 55.0% | |
| ACTCCGACGAAGAAGGGAAG+AGG | + | chr1_3:4810071-4810090 | Msa0098790:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 4809654 | 4810176 | 4809654 | ID=Msa0098790;Name=Msa0098790 |
| chr1_3 | mRNA | 4809654 | 4810176 | 4809654 | ID=Msa0098790-mRNA-1;Parent=Msa0098790;Name=Msa0098790-mRNA-1;_AED=0.14;_eAED=0.16;_QI=0|0|0|1|1|1|2|0|132 |
| chr1_3 | exon | 4809654 | 4809926 | 4809654 | ID=Msa0098790-mRNA-1:exon:1704;Parent=Msa0098790-mRNA-1 |
| chr1_3 | exon | 4810051 | 4810176 | 4810051 | ID=Msa0098790-mRNA-1:exon:1705;Parent=Msa0098790-mRNA-1 |
| chr1_3 | CDS | 4809654 | 4809926 | 4809654 | ID=Msa0098790-mRNA-1:cds;Parent=Msa0098790-mRNA-1 |
| chr1_3 | CDS | 4810051 | 4810176 | 4810051 | ID=Msa0098790-mRNA-1:cds;Parent=Msa0098790-mRNA-1 |
| Gene Sequence |
| Protein sequence |
