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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102400 | KEH22347.1 | 84.932 | 146 | 14 | 1 | 15 | 160 | 9 | 146 | 8.29e-79 | 242 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102400 | sp|O81304|PAP11_ARATH | 64.925 | 134 | 39 | 1 | 27 | 160 | 30 | 155 | 6.31e-53 | 170 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102400 | A0A072TY66 | 84.932 | 146 | 14 | 1 | 15 | 160 | 9 | 146 | 3.96e-79 | 242 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1102400 | Msa1147190 | 0.803560 | 3.288284e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102400 | MtrunA17_Chr7g0231891 | 82.979 | 94 | 8 | 1 | 67 | 160 | 1 | 86 | 3.40e-48 | 152 |
| Msa1102400 | MtrunA17_Chr7g0231901 | 90.000 | 40 | 4 | 0 | 15 | 54 | 9 | 48 | 6.27e-18 | 72.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102400 | AT4G00030.1 | 64.925 | 134 | 39 | 1 | 27 | 160 | 30 | 155 | 6.41e-54 | 170 |
Find 44 sgRNAs with CRISPR-Local
Find 58 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTAGCTTGGTGGGGTTGTTT+TGG | 0.185547 | 7_3:+35250145 | None:intergenic |
| AAGGGAAGTGGTGGCGGTGG+TGG | 0.215903 | 7_3:+35250269 | None:intergenic |
| GGAAGTGGTGGCGGTGGTGG+GGG | 0.297655 | 7_3:+35250272 | None:intergenic |
| GTTTGAGAGGTGAATGGGTT+GGG | 0.302248 | 7_3:+35250240 | None:intergenic |
| ATTGAGAAGGCTGGATTGTT+TGG | 0.319900 | 7_3:-35250000 | Msa1102400:CDS |
| GGGAAGTGGTGGCGGTGGTG+GGG | 0.335104 | 7_3:+35250271 | None:intergenic |
| GGTGATTGAGTTGAGTTTCA+TGG | 0.336958 | 7_3:+35250296 | None:intergenic |
| AGGGAAGTGGTGGCGGTGGT+GGG | 0.380766 | 7_3:+35250270 | None:intergenic |
| GGGTCTTGAGGCCACGGTCT+TGG | 0.384643 | 7_3:+35250166 | None:intergenic |
| CGACAACTTGGCGGTTGCTC+TGG | 0.385702 | 7_3:-35250050 | Msa1102400:CDS |
| GAAGAAAAGGGAAGTGGTGG+CGG | 0.400247 | 7_3:+35250263 | None:intergenic |
| TGAATGGGTTGGGGAAGAAA+AGG | 0.412186 | 7_3:+35250250 | None:intergenic |
| TTGGTGGTTTGAGAGGTGAA+TGG | 0.418869 | 7_3:+35250234 | None:intergenic |
| GTCGAATATTGAAGTTGCTT+CGG | 0.436707 | 7_3:-35249857 | Msa1102400:CDS |
| TTGTTCATCATTGAGAAGGC+TGG | 0.454495 | 7_3:-35250009 | Msa1102400:CDS |
| GGATTGTTTGGAACTAAAGC+TGG | 0.458772 | 7_3:-35249988 | Msa1102400:CDS |
| GGTTTGAGAGGTGAATGGGT+TGG | 0.461814 | 7_3:+35250239 | None:intergenic |
| TGGTGGTTTGAGAGGTGAAT+GGG | 0.462983 | 7_3:+35250235 | None:intergenic |
| GAATGGGTTGGGGAAGAAAA+GGG | 0.466912 | 7_3:+35250251 | None:intergenic |
| GAAAAGGGAAGTGGTGGCGG+TGG | 0.470134 | 7_3:+35250266 | None:intergenic |
| TTTGAGAGGTGAATGGGTTG+GGG | 0.476901 | 7_3:+35250241 | None:intergenic |
| GGGGAAGAAAAGGGAAGTGG+TGG | 0.504240 | 7_3:+35250260 | None:intergenic |
| CGTTACCGTGATCGATTCAA+TGG | 0.505248 | 7_3:-35250115 | Msa1102400:CDS |
| ACGATCGACACTAGCTTGGT+GGG | 0.505817 | 7_3:+35250135 | None:intergenic |
| ATCGATTCAATGGTCAAGCT+TGG | 0.520360 | 7_3:-35250105 | Msa1102400:CDS |
| AACGATCGACACTAGCTTGG+TGG | 0.521234 | 7_3:+35250134 | None:intergenic |
| GTTGGGGAAGAAAAGGGAAG+TGG | 0.533661 | 7_3:+35250257 | None:intergenic |
| GGTAACGATCGACACTAGCT+TGG | 0.536165 | 7_3:+35250131 | None:intergenic |
| CACGGTCTTGGTCAGAGATG+AGG | 0.542439 | 7_3:+35250178 | None:intergenic |
| GTGATTCCCTATCGACAACT+TGG | 0.545287 | 7_3:-35250062 | Msa1102400:CDS |
| ATTCCCTATCGACAACTTGG+CGG | 0.548503 | 7_3:-35250059 | Msa1102400:CDS |
| CAACCGCCAAGTTGTCGATA+GGG | 0.568619 | 7_3:+35250056 | None:intergenic |
| ACGGTCTTGGTCAGAGATGA+GGG | 0.570760 | 7_3:+35250179 | None:intergenic |
| GCAACCGCCAAGTTGTCGAT+AGG | 0.573035 | 7_3:+35250055 | None:intergenic |
| GCAGTTGTTCATCATTGAGA+AGG | 0.573282 | 7_3:-35250013 | Msa1102400:CDS |
| TCAATGGTCAAGCTTGGCAT+CGG | 0.588669 | 7_3:-35250099 | Msa1102400:CDS |
| GGCATCGGTACAGTAACCAC+TGG | 0.604053 | 7_3:-35250084 | Msa1102400:CDS |
| CTTGGTCAGAGATGAGGGTG+AGG | 0.611807 | 7_3:+35250184 | None:intergenic |
| GTTGCTCTGGACTACTGAGA+AGG | 0.629747 | 7_3:-35250037 | Msa1102400:CDS |
| GGTCAGAGATGAGGGTGAGG+AGG | 0.635921 | 7_3:+35250187 | None:intergenic |
| CGATCGACACTAGCTTGGTG+GGG | 0.639447 | 7_3:+35250136 | None:intergenic |
| CTTGACCATTGAATCGATCA+CGG | 0.654095 | 7_3:+35250110 | None:intergenic |
| CTCATCTCTGACCAAGACCG+TGG | 0.686718 | 7_3:-35250177 | Msa1102400:CDS |
| TGTCGATAGGGAATCACCAG+TGG | 0.698896 | 7_3:+35250068 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTTTTGTTGAGAAAAAA+TGG | - | chr7_3:35250233-35250252 | Msa1102400:CDS | 15.0% |
| !! | AAAATGGTGTTTTCTTTGTT+CGG | - | chr7_3:35250249-35250268 | Msa1102400:CDS | 25.0% |
| AACAAAAAAAAACCATCAGG+AGG | + | chr7_3:35250224-35250243 | None:intergenic | 30.0% | |
| CTCAACAAAAAAAAACCATC+AGG | + | chr7_3:35250227-35250246 | None:intergenic | 30.0% | |
| ! | TAAAGCTGGAGATGTTTTAC+AGG | - | chr7_3:35250154-35250173 | Msa1102400:CDS | 35.0% |
| !! | GTTATTACTTTTCCTCCTGA+TGG | - | chr7_3:35250209-35250228 | Msa1102400:CDS | 35.0% |
| GTCGAATATTGAAGTTGCTT+CGG | - | chr7_3:35250271-35250290 | Msa1102400:CDS | 35.0% | |
| !!! | TCTTTTGTTGGTGGTTTGAG+AGG | + | chr7_3:35249904-35249923 | None:intergenic | 40.0% |
| !!! | TTTGGCGGTTAGTCTTTTGT+TGG | + | chr7_3:35249916-35249935 | None:intergenic | 40.0% |
| CTTGACCATTGAATCGATCA+CGG | + | chr7_3:35250021-35250040 | None:intergenic | 40.0% | |
| ! | ATCGATTCAATGGTCAAGCT+TGG | - | chr7_3:35250023-35250042 | Msa1102400:CDS | 40.0% |
| GCAGTTGTTCATCATTGAGA+AGG | - | chr7_3:35250115-35250134 | Msa1102400:CDS | 40.0% | |
| TTGTTCATCATTGAGAAGGC+TGG | - | chr7_3:35250119-35250138 | Msa1102400:CDS | 40.0% | |
| ATTGAGAAGGCTGGATTGTT+TGG | - | chr7_3:35250128-35250147 | Msa1102400:CDS | 40.0% | |
| ! | GGATTGTTTGGAACTAAAGC+TGG | - | chr7_3:35250140-35250159 | Msa1102400:CDS | 40.0% |
| !! | GAATGGGTTGGGGAAGAAAA+GGG | + | chr7_3:35249880-35249899 | None:intergenic | 45.0% |
| !! | TGAATGGGTTGGGGAAGAAA+AGG | + | chr7_3:35249881-35249900 | None:intergenic | 45.0% |
| !! | TTTGAGAGGTGAATGGGTTG+GGG | + | chr7_3:35249890-35249909 | None:intergenic | 45.0% |
| ! | GTTTGAGAGGTGAATGGGTT+GGG | + | chr7_3:35249891-35249910 | None:intergenic | 45.0% |
| TGGTGGTTTGAGAGGTGAAT+GGG | + | chr7_3:35249896-35249915 | None:intergenic | 45.0% | |
| ! | TTGGTGGTTTGAGAGGTGAA+TGG | + | chr7_3:35249897-35249916 | None:intergenic | 45.0% |
| !! | TAGCTTGGTGGGGTTGTTTT+GGG | + | chr7_3:35249985-35250004 | None:intergenic | 45.0% |
| ! | CGTTACCGTGATCGATTCAA+TGG | - | chr7_3:35250013-35250032 | Msa1102400:CDS | 45.0% |
| TCAATGGTCAAGCTTGGCAT+CGG | - | chr7_3:35250029-35250048 | Msa1102400:CDS | 45.0% | |
| GTGATTCCCTATCGACAACT+TGG | - | chr7_3:35250066-35250085 | Msa1102400:CDS | 45.0% | |
| ATTCCCTATCGACAACTTGG+CGG | - | chr7_3:35250069-35250088 | Msa1102400:CDS | 45.0% | |
| GAAGAAAAGGGAAGTGGTGG+CGG | + | chr7_3:35249868-35249887 | None:intergenic | 50.0% | |
| GTTGGGGAAGAAAAGGGAAG+TGG | + | chr7_3:35249874-35249893 | None:intergenic | 50.0% | |
| GGTTTGAGAGGTGAATGGGT+TGG | + | chr7_3:35249892-35249911 | None:intergenic | 50.0% | |
| !!! | GGCGGTTAGTCTTTTGTTGG+TGG | + | chr7_3:35249913-35249932 | None:intergenic | 50.0% |
| ! | GGTGAGGAGGTTCTTTTTGG+CGG | + | chr7_3:35249931-35249950 | None:intergenic | 50.0% |
| ! | GAGGGTGAGGAGGTTCTTTT+TGG | + | chr7_3:35249934-35249953 | None:intergenic | 50.0% |
| ACGGTCTTGGTCAGAGATGA+GGG | + | chr7_3:35249952-35249971 | None:intergenic | 50.0% | |
| !! | TGTTTTGGGTCTTGAGGCCA+CGG | + | chr7_3:35249971-35249990 | None:intergenic | 50.0% |
| !!! | TGGGGTTGTTTTGGGTCTTG+AGG | + | chr7_3:35249977-35249996 | None:intergenic | 50.0% |
| !! | CTAGCTTGGTGGGGTTGTTT+TGG | + | chr7_3:35249986-35250005 | None:intergenic | 50.0% |
| ! | ACGATCGACACTAGCTTGGT+GGG | + | chr7_3:35249996-35250015 | None:intergenic | 50.0% |
| ! | AACGATCGACACTAGCTTGG+TGG | + | chr7_3:35249997-35250016 | None:intergenic | 50.0% |
| GGTAACGATCGACACTAGCT+TGG | + | chr7_3:35250000-35250019 | None:intergenic | 50.0% | |
| TGTCGATAGGGAATCACCAG+TGG | + | chr7_3:35250063-35250082 | None:intergenic | 50.0% | |
| CAACCGCCAAGTTGTCGATA+GGG | + | chr7_3:35250075-35250094 | None:intergenic | 50.0% | |
| ! | GTTGCTCTGGACTACTGAGA+AGG | - | chr7_3:35250091-35250110 | Msa1102400:CDS | 50.0% |
| GGGGAAGAAAAGGGAAGTGG+TGG | + | chr7_3:35249871-35249890 | None:intergenic | 55.0% | |
| CTTGGTCAGAGATGAGGGTG+AGG | + | chr7_3:35249947-35249966 | None:intergenic | 55.0% | |
| CACGGTCTTGGTCAGAGATG+AGG | + | chr7_3:35249953-35249972 | None:intergenic | 55.0% | |
| CTCATCTCTGACCAAGACCG+TGG | - | chr7_3:35249951-35249970 | Msa1102400:CDS | 55.0% | |
| ! | CGATCGACACTAGCTTGGTG+GGG | + | chr7_3:35249995-35250014 | None:intergenic | 55.0% |
| !! | GGCATCGGTACAGTAACCAC+TGG | - | chr7_3:35250044-35250063 | Msa1102400:CDS | 55.0% |
| GCAACCGCCAAGTTGTCGAT+AGG | + | chr7_3:35250076-35250095 | None:intergenic | 55.0% | |
| !! | GAAAAGGGAAGTGGTGGCGG+TGG | + | chr7_3:35249865-35249884 | None:intergenic | 60.0% |
| GGTCAGAGATGAGGGTGAGG+AGG | + | chr7_3:35249944-35249963 | None:intergenic | 60.0% | |
| CGACAACTTGGCGGTTGCTC+TGG | - | chr7_3:35250078-35250097 | Msa1102400:CDS | 60.0% | |
| !! | AGGGAAGTGGTGGCGGTGGT+GGG | + | chr7_3:35249861-35249880 | None:intergenic | 65.0% |
| !! | AAGGGAAGTGGTGGCGGTGG+TGG | + | chr7_3:35249862-35249881 | None:intergenic | 65.0% |
| GGGTCTTGAGGCCACGGTCT+TGG | + | chr7_3:35249965-35249984 | None:intergenic | 65.0% | |
| !! | GGAAGTGGTGGCGGTGGTGG+GGG | + | chr7_3:35249859-35249878 | None:intergenic | 70.0% |
| !! | GGGAAGTGGTGGCGGTGGTG+GGG | + | chr7_3:35249860-35249879 | None:intergenic | 70.0% |
| !! | AGTGGTGGCGGTGGTGGGGG+TGG | + | chr7_3:35249856-35249875 | None:intergenic | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 35249834 | 35250316 | 35249834 | ID=Msa1102400;Name=Msa1102400 |
| chr7_3 | mRNA | 35249834 | 35250316 | 35249834 | ID=Msa1102400-mRNA-1;Parent=Msa1102400;Name=Msa1102400-mRNA-1;_AED=0.12;_eAED=0.12;_QI=0|-1|0|1|-1|1|1|0|160 |
| chr7_3 | exon | 35249834 | 35250316 | 35249834 | ID=Msa1102400-mRNA-1:exon:7433;Parent=Msa1102400-mRNA-1 |
| chr7_3 | CDS | 35249834 | 35250316 | 35249834 | ID=Msa1102400-mRNA-1:cds;Parent=Msa1102400-mRNA-1 |
| Gene Sequence |
| Protein sequence |
