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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1066610 | XP_013453691.1 | 91.837 | 98 | 7 | 1 | 7 | 103 | 87 | 184 | 3.48e-47 | 163 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1066610 | sp|Q9LSL1|BH093_ARATH | 76.923 | 52 | 10 | 1 | 54 | 103 | 155 | 206 | 3.21e-13 | 67.0 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1066610 | A0A072UDL7 | 91.837 | 98 | 7 | 1 | 7 | 103 | 87 | 184 | 1.66e-47 | 163 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1066610 | TF | bHLH |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1066610 | MtrunA17_Chr5g0411541 | 91.837 | 98 | 7 | 1 | 7 | 103 | 87 | 184 | 4.67e-51 | 163 |
| Msa1066610 | MtrunA17_Chr3g0141091 | 53.763 | 93 | 34 | 3 | 20 | 103 | 109 | 201 | 8.83e-16 | 70.9 |
| Msa1066610 | MtrunA17_Chr3g0131691 | 65.306 | 49 | 13 | 1 | 55 | 103 | 282 | 326 | 2.20e-12 | 61.6 |
| Msa1066610 | MtrunA17_Chr7g0252041 | 87.097 | 31 | 4 | 0 | 73 | 103 | 284 | 314 | 1.62e-11 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1066610 | AT5G65640.2 | 76.923 | 52 | 10 | 1 | 54 | 103 | 155 | 206 | 1.74e-14 | 67.4 |
| Msa1066610 | AT5G65640.1 | 76.923 | 52 | 10 | 1 | 54 | 103 | 155 | 206 | 3.27e-14 | 67.0 |
| Msa1066610 | AT3G26744.5 | 87.097 | 31 | 4 | 0 | 73 | 103 | 305 | 335 | 1.57e-11 | 59.3 |
| Msa1066610 | AT1G12860.3 | 87.097 | 31 | 4 | 0 | 73 | 103 | 265 | 295 | 1.68e-11 | 59.3 |
| Msa1066610 | AT3G26744.1 | 87.097 | 31 | 4 | 0 | 73 | 103 | 305 | 335 | 1.99e-11 | 59.3 |
| Msa1066610 | AT3G26744.4 | 87.097 | 31 | 4 | 0 | 73 | 103 | 305 | 335 | 1.99e-11 | 59.3 |
| Msa1066610 | AT3G26744.2 | 87.097 | 31 | 4 | 0 | 73 | 103 | 305 | 335 | 1.99e-11 | 59.3 |
| Msa1066610 | AT3G26744.6 | 87.097 | 31 | 4 | 0 | 73 | 103 | 305 | 335 | 2.06e-11 | 59.3 |
| Msa1066610 | AT1G12860.1 | 87.097 | 31 | 4 | 0 | 73 | 103 | 265 | 295 | 2.26e-11 | 58.9 |
| Msa1066610 | AT5G10570.1 | 80.952 | 42 | 8 | 0 | 62 | 103 | 138 | 179 | 2.40e-11 | 58.9 |
| Msa1066610 | AT1G12860.2 | 87.097 | 31 | 4 | 0 | 73 | 103 | 265 | 295 | 2.67e-11 | 58.9 |
Find 25 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGGCCGTCCTTCAACCCTTT+TGG | 0.271608 | 7_2:+60625662 | None:intergenic |
| AGTATAGAGTTTGGATTTGT+TGG | 0.301074 | 7_2:-60625795 | Msa1066610:CDS |
| AGTGACACCTTGCTGATCTT+AGG | 0.318974 | 7_2:+60625564 | None:intergenic |
| TGGAAGTGAGAACAAGAGTT+TGG | 0.348911 | 7_2:-60625775 | Msa1066610:CDS |
| CTTTCTTGCTGTGGTAAAAC+TGG | 0.352353 | 7_2:+60625816 | None:intergenic |
| CAGCAAGAAAGTATAGAGTT+TGG | 0.356994 | 7_2:-60625804 | Msa1066610:CDS |
| ACGGCCTTCAAAGAATCTTA+TGG | 0.423564 | 7_2:-60625646 | Msa1066610:CDS |
| GAAGAAAGCGTTTGAATGAC+AGG | 0.430541 | 7_2:-60625611 | Msa1066610:CDS |
| TCAGCCATAAGATTCTTTGA+AGG | 0.463412 | 7_2:+60625642 | None:intergenic |
| GTGACACCTTGCTGATCTTA+GGG | 0.466467 | 7_2:+60625565 | None:intergenic |
| AAAATGGAACTTTCTCAACT+TGG | 0.469304 | 7_2:-60626086 | Msa1066610:intron |
| AGTTTGGAACAAAGTAAAAT+CGG | 0.479256 | 7_2:-60625759 | Msa1066610:CDS |
| ATGACAGGCTTTCCATGCTT+AGG | 0.479470 | 7_2:-60625596 | Msa1066610:CDS |
| GCCAAATCCAAAAGGGTTGA+AGG | 0.489270 | 7_2:-60625669 | Msa1066610:CDS |
| CACAAACCCATGTTAAAGAC+TGG | 0.505791 | 7_2:+60625705 | None:intergenic |
| CAAAGAATCTTATGGCTGAA+AGG | 0.515993 | 7_2:-60625638 | Msa1066610:CDS |
| GAGACTCCAGTCTTTAACAT+GGG | 0.538936 | 7_2:-60625711 | Msa1066610:CDS |
| AACTCTATACTTTCTTGCTG+TGG | 0.547442 | 7_2:+60625807 | None:intergenic |
| TTGATGATTCTCAGTTCCTG+AGG | 0.556181 | 7_2:-60625853 | Msa1066610:intron |
| GGTGCTGAATCATCAACCTC+AGG | 0.571254 | 7_2:+60625837 | None:intergenic |
| TAAAATCGGCTGCAAAGTTG+AGG | 0.590576 | 7_2:-60625745 | Msa1066610:CDS |
| TGAGACTCCAGTCTTTAACA+TGG | 0.608396 | 7_2:-60625712 | Msa1066610:CDS |
| AATCCAAAAGGGTTGAAGGA+CGG | 0.613450 | 7_2:-60625665 | Msa1066610:CDS |
| AGGGACAATTGACCTAAGCA+TGG | 0.627542 | 7_2:+60625584 | None:intergenic |
| AATTGTCCCTAAGATCAGCA+AGG | 0.709185 | 7_2:-60625571 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TATTAACTCATTCAAACCAT+TGG | + | chr7_2:60625637-60625656 | None:intergenic | 25.0% |
| !! | ATTTTCATCAAATGAGTCAA+AGG | + | chr7_2:60625676-60625695 | None:intergenic | 25.0% |
| !! | AGTTTGGAACAAAGTAAAAT+CGG | - | chr7_2:60625896-60625915 | Msa1066610:intron | 25.0% |
| ! | TGGATAAACATGTCTTTTCT+TGG | + | chr7_2:60625617-60625636 | None:intergenic | 30.0% |
| GAAAAGACATGTTTATCCAA+TGG | - | chr7_2:60625618-60625637 | Msa1066610:CDS | 30.0% | |
| AATGAGTTAATACTCCCTAA+TGG | - | chr7_2:60625645-60625664 | Msa1066610:CDS | 30.0% | |
| TTGAGAATGAAGCAAATGAA+GGG | + | chr7_2:60625722-60625741 | None:intergenic | 30.0% | |
| CATTCAAATCTATGGTCTAA+TGG | + | chr7_2:60625747-60625766 | None:intergenic | 30.0% | |
| CATAAGGACATTCAAATCTA+TGG | + | chr7_2:60625755-60625774 | None:intergenic | 30.0% | |
| CATAGATTTGAATGTCCTTA+TGG | - | chr7_2:60625753-60625772 | Msa1066610:CDS | 30.0% | |
| ACTGAGAATCATCAAGATAA+GGG | + | chr7_2:60625797-60625816 | None:intergenic | 30.0% | |
| AACTGAGAATCATCAAGATA+AGG | + | chr7_2:60625798-60625817 | None:intergenic | 30.0% | |
| AGTATAGAGTTTGGATTTGT+TGG | - | chr7_2:60625860-60625879 | Msa1066610:intron | 30.0% | |
| AGAAAAAAGCCAAATCCAAA+AGG | - | chr7_2:60625978-60625997 | Msa1066610:intron | 30.0% | |
| GAAAAAAGCCAAATCCAAAA+GGG | - | chr7_2:60625979-60625998 | Msa1066610:intron | 30.0% | |
| !! | TTCTCAACTTGGTTTTCTTG+AGG | - | chr7_2:60625580-60625599 | Msa1066610:CDS | 35.0% |
| AGTTAATACTCCCTAATGGT+TGG | - | chr7_2:60625649-60625668 | Msa1066610:CDS | 35.0% | |
| GTTGAGAATGAAGCAAATGA+AGG | + | chr7_2:60625723-60625742 | None:intergenic | 35.0% | |
| AACTCTATACTTTCTTGCTG+TGG | + | chr7_2:60625851-60625870 | None:intergenic | 35.0% | |
| ! | CAGCAAGAAAGTATAGAGTT+TGG | - | chr7_2:60625851-60625870 | Msa1066610:intron | 35.0% |
| TCAGCCATAAGATTCTTTGA+AGG | + | chr7_2:60626016-60626035 | None:intergenic | 35.0% | |
| CAAAGAATCTTATGGCTGAA+AGG | - | chr7_2:60626017-60626036 | Msa1066610:intron | 35.0% | |
| AGTCAAAGGTCCAACCATTA+GGG | + | chr7_2:60625662-60625681 | None:intergenic | 40.0% | |
| GCAAATGAAGGGCTTAAAGA+TGG | + | chr7_2:60625711-60625730 | None:intergenic | 40.0% | |
| GATGATGCATCAGTTCCATA+AGG | + | chr7_2:60625771-60625790 | None:intergenic | 40.0% | |
| ! | TTGATGATTCTCAGTTCCTG+AGG | - | chr7_2:60625802-60625821 | Msa1066610:CDS | 40.0% |
| ! | CTTTCTTGCTGTGGTAAAAC+TGG | + | chr7_2:60625842-60625861 | None:intergenic | 40.0% |
| TGGAAGTGAGAACAAGAGTT+TGG | - | chr7_2:60625880-60625899 | Msa1066610:intron | 40.0% | |
| TAAAATCGGCTGCAAAGTTG+AGG | - | chr7_2:60625910-60625929 | Msa1066610:intron | 40.0% | |
| TGAGACTCCAGTCTTTAACA+TGG | - | chr7_2:60625943-60625962 | Msa1066610:intron | 40.0% | |
| GAGACTCCAGTCTTTAACAT+GGG | - | chr7_2:60625944-60625963 | Msa1066610:intron | 40.0% | |
| CACAAACCCATGTTAAAGAC+TGG | + | chr7_2:60625953-60625972 | None:intergenic | 40.0% | |
| ! | TCCTTCAACCCTTTTGGATT+TGG | + | chr7_2:60625990-60626009 | None:intergenic | 40.0% |
| AATCCAAAAGGGTTGAAGGA+CGG | - | chr7_2:60625990-60626009 | Msa1066610:intron | 40.0% | |
| ACGGCCTTCAAAGAATCTTA+TGG | - | chr7_2:60626009-60626028 | Msa1066610:intron | 40.0% | |
| !! | GAAGAAAGCGTTTGAATGAC+AGG | - | chr7_2:60626044-60626063 | Msa1066610:intron | 40.0% |
| GAGTCAAAGGTCCAACCATT+AGG | + | chr7_2:60625663-60625682 | None:intergenic | 45.0% | |
| GCCAAATCCAAAAGGGTTGA+AGG | - | chr7_2:60625986-60626005 | Msa1066610:intron | 45.0% | |
| ATGACAGGCTTTCCATGCTT+AGG | - | chr7_2:60626059-60626078 | Msa1066610:intron | 45.0% | |
| AGGGACAATTGACCTAAGCA+TGG | + | chr7_2:60626074-60626093 | None:intergenic | 45.0% | |
| ! | GGTGCTGAATCATCAACCTC+AGG | + | chr7_2:60625821-60625840 | None:intergenic | 50.0% |
| ! | AGGCCGTCCTTCAACCCTTT+TGG | + | chr7_2:60625996-60626015 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 60625572 | 60626105 | 60625572 | ID=Msa1066610;Name=Msa1066610 |
| chr7_2 | mRNA | 60625572 | 60626105 | 60625572 | ID=Msa1066610-mRNA-1;Parent=Msa1066610;Name=Msa1066610-mRNA-1;_AED=0.22;_eAED=0.22;_QI=0|0|0|1|0|0|2|0|103 |
| chr7_2 | exon | 60626087 | 60626105 | 60626087 | ID=Msa1066610-mRNA-1:exon:12011;Parent=Msa1066610-mRNA-1 |
| chr7_2 | exon | 60625572 | 60625861 | 60625572 | ID=Msa1066610-mRNA-1:exon:12010;Parent=Msa1066610-mRNA-1 |
| chr7_2 | CDS | 60626087 | 60626105 | 60626087 | ID=Msa1066610-mRNA-1:cds;Parent=Msa1066610-mRNA-1 |
| chr7_2 | CDS | 60625572 | 60625861 | 60625572 | ID=Msa1066610-mRNA-1:cds;Parent=Msa1066610-mRNA-1 |
| Gene Sequence |
| Protein sequence |
