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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1306230 | AES79096.1 | 77.778 | 36 | 8 | 0 | 50 | 85 | 18 | 53 | 4.29e-12 | 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 |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1306230 | G7L067 | 77.778 | 36 | 8 | 0 | 50 | 85 | 18 | 53 | 2.05e-12 | 67.0 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1306230 | TF | MADS-M-type |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1306230 | MtrunA17_Chr8g0351751 | 81.081 | 37 | 7 | 0 | 49 | 85 | 30 | 66 | 1.00e-14 | 66.6 |
| Msa1306230 | MtrunA17_Chr4g0013041 | 75.676 | 37 | 9 | 0 | 49 | 85 | 28 | 64 | 7.18e-14 | 63.9 |
| Msa1306230 | MtrunA17_Chr4g0014121 | 77.143 | 35 | 8 | 0 | 51 | 85 | 60 | 94 | 2.34e-13 | 62.4 |
| Msa1306230 | MtrunA17_Chr4g0014321 | 75.000 | 36 | 9 | 0 | 49 | 84 | 30 | 65 | 1.07e-12 | 61.2 |
| Msa1306230 | MtrunA17_Chr4g0014131 | 74.286 | 35 | 9 | 0 | 51 | 85 | 32 | 66 | 4.24e-12 | 59.3 |
| Msa1306230 | MtrunA17_Chr4g0014031 | 71.429 | 35 | 10 | 0 | 51 | 85 | 32 | 66 | 1.48e-11 | 58.2 |
| Msa1306230 | MtrunA17_Chr3g0110131 | 67.647 | 34 | 11 | 0 | 51 | 84 | 32 | 65 | 4.81e-11 | 56.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 17 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCATGTATAGTCCTGGATTT+TGG | 0.197907 | 8_4:-1034811 | None:intergenic |
| CATAGACAACAACTTTAAAT+TGG | 0.249630 | 8_4:+1034210 | Msa1306230:CDS |
| ATGAACCACAACTTGAGATT+TGG | 0.331935 | 8_4:+1034771 | Msa1306230:CDS |
| ATCCAGGACTATACATGAAT+TGG | 0.343869 | 8_4:+1034816 | Msa1306230:CDS |
| CTGCTCAGCAAGAGATTGAT+TGG | 0.349023 | 8_4:+1034242 | Msa1306230:CDS |
| ATCTCAAGTTGTGGTTCATA+AGG | 0.360688 | 8_4:-1034767 | None:intergenic |
| CAATCAATCTCTTGCTGAGC+AGG | 0.396541 | 8_4:-1034241 | None:intergenic |
| CTCCAATTCATGTATAGTCC+TGG | 0.484171 | 8_4:-1034818 | None:intergenic |
| CCAAATGGAGGCCAAAATCC+AGG | 0.504790 | 8_4:+1034800 | Msa1306230:CDS |
| TCTCAAGTTGTGGTTCATAA+GGG | 0.506587 | 8_4:-1034766 | None:intergenic |
| GAAGCTTGTGTTATAGTGTA+TGG | 0.507884 | 8_4:+1034743 | Msa1306230:CDS |
| AATGAACTAAGCCCTCTTTG+TGG | 0.520152 | 8_4:+1034716 | Msa1306230:CDS |
| GAGATTTGGCCATCACCAAA+TGG | 0.530026 | 8_4:+1034785 | Msa1306230:CDS |
| AAGCTTCAATTCCACAAAGA+GGG | 0.587328 | 8_4:-1034727 | None:intergenic |
| CAAGCTTCAATTCCACAAAG+AGG | 0.635091 | 8_4:-1034728 | None:intergenic |
| GATGGCCAAATCTCAAGTTG+TGG | 0.679823 | 8_4:-1034776 | None:intergenic |
| ATTTGGCCATCACCAAATGG+AGG | 0.680134 | 8_4:+1034788 | Msa1306230:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AGTAATGTACAAAAAAAAAA+TGG | - | chr8_4:1034390-1034409 | None:intergenic | 15.0% |
| ! | CATAGACAACAACTTTAAAT+TGG | + | chr8_4:1034210-1034229 | Msa1306230:CDS | 25.0% |
| !!! | TTTTTTGTACATTACTCGTA+TGG | + | chr8_4:1034394-1034413 | Msa1306230:intron | 25.0% |
| ! | GAAAAGCAACATAGAAAAAA+AGG | + | chr8_4:1034672-1034691 | Msa1306230:intron | 25.0% |
| ! | AAGGAAGGATATATTGAATA+AGG | + | chr8_4:1034691-1034710 | Msa1306230:intron | 25.0% |
| AGATATTTCTCAGCGAAAAA+AGG | + | chr8_4:1034324-1034343 | Msa1306230:CDS | 30.0% | |
| GAAAAAAGGTTATTCCTGTA+TGG | + | chr8_4:1034338-1034357 | Msa1306230:intron | 30.0% | |
| TGAATGATGCAGAATATGAT+AGG | + | chr8_4:1034361-1034380 | Msa1306230:intron | 30.0% | |
| GAATGATGCAGAATATGATA+GGG | + | chr8_4:1034362-1034381 | Msa1306230:intron | 30.0% | |
| ! | TTTTGTGCTATGAAGAATGA+AGG | + | chr8_4:1034498-1034517 | Msa1306230:intron | 30.0% |
| TTTGTGCTATGAAGAATGAA+GGG | + | chr8_4:1034499-1034518 | Msa1306230:intron | 30.0% | |
| AGCAACATAGAAAAAAAGGA+AGG | + | chr8_4:1034676-1034695 | Msa1306230:intron | 30.0% | |
| CTCGTATGGTTTATCTTAGA+TGG | + | chr8_4:1034408-1034427 | Msa1306230:intron | 35.0% | |
| AACACATTTACACCCAACAT+CGG | - | chr8_4:1034452-1034471 | None:intergenic | 35.0% | |
| AAGCTTCAATTCCACAAAGA+GGG | - | chr8_4:1034730-1034749 | None:intergenic | 35.0% | |
| GAAGCTTGTGTTATAGTGTA+TGG | + | chr8_4:1034743-1034762 | Msa1306230:CDS | 35.0% | |
| ! | TCTCAAGTTGTGGTTCATAA+GGG | - | chr8_4:1034769-1034788 | None:intergenic | 35.0% |
| ! | ATCTCAAGTTGTGGTTCATA+AGG | - | chr8_4:1034770-1034789 | None:intergenic | 35.0% |
| ATGAACCACAACTTGAGATT+TGG | + | chr8_4:1034771-1034790 | Msa1306230:CDS | 35.0% | |
| ! | TCATGTATAGTCCTGGATTT+TGG | - | chr8_4:1034814-1034833 | None:intergenic | 35.0% |
| ATCCAGGACTATACATGAAT+TGG | + | chr8_4:1034816-1034835 | Msa1306230:CDS | 35.0% | |
| TTCTGCATCATTCACCATAC+AGG | - | chr8_4:1034355-1034374 | None:intergenic | 40.0% | |
| ! | TCCTTTTATAGTCCCGATGT+TGG | + | chr8_4:1034436-1034455 | Msa1306230:intron | 40.0% |
| ! | CCTTTTATAGTCCCGATGTT+GGG | + | chr8_4:1034437-1034456 | Msa1306230:intron | 40.0% |
| ACACATTTACACCCAACATC+GGG | - | chr8_4:1034451-1034470 | None:intergenic | 40.0% | |
| GATGTTGGGTGTAAATGTGT+TGG | + | chr8_4:1034451-1034470 | Msa1306230:intron | 40.0% | |
| AATGAACTAAGCCCTCTTTG+TGG | + | chr8_4:1034716-1034735 | Msa1306230:CDS | 40.0% | |
| CAAGCTTCAATTCCACAAAG+AGG | - | chr8_4:1034731-1034750 | None:intergenic | 40.0% | |
| CTCCAATTCATGTATAGTCC+TGG | - | chr8_4:1034821-1034840 | None:intergenic | 40.0% | |
| CAATCAATCTCTTGCTGAGC+AGG | - | chr8_4:1034244-1034263 | None:intergenic | 45.0% | |
| CTGCTCAGCAAGAGATTGAT+TGG | + | chr8_4:1034242-1034261 | Msa1306230:CDS | 45.0% | |
| CCCAACATCGGGACTATAAA+AGG | - | chr8_4:1034440-1034459 | None:intergenic | 45.0% | |
| GTTGGGTGTAAATGTGTTGG+TGG | + | chr8_4:1034454-1034473 | Msa1306230:intron | 45.0% | |
| ! | GATGGCCAAATCTCAAGTTG+TGG | - | chr8_4:1034779-1034798 | None:intergenic | 45.0% |
| GAGATTTGGCCATCACCAAA+TGG | + | chr8_4:1034785-1034804 | Msa1306230:CDS | 45.0% | |
| ATTTGGCCATCACCAAATGG+AGG | + | chr8_4:1034788-1034807 | Msa1306230:CDS | 45.0% | |
| !! | TTTTGGCCTCCATTTGGTGA+TGG | - | chr8_4:1034797-1034816 | None:intergenic | 45.0% |
| !! | CCTGGATTTTGGCCTCCATT+TGG | - | chr8_4:1034803-1034822 | None:intergenic | 50.0% |
| CCAAATGGAGGCCAAAATCC+AGG | + | chr8_4:1034800-1034819 | Msa1306230:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_4 | gene | 1034196 | 1034844 | 1034196 | ID=Msa1306230;Name=Msa1306230 |
| chr8_4 | mRNA | 1034196 | 1034844 | 1034196 | ID=Msa1306230-mRNA-1;Parent=Msa1306230;Name=Msa1306230-mRNA-1;_AED=0.59;_eAED=0.59;_QI=0|0|0|0.5|1|1|2|0|93 |
| chr8_4 | exon | 1034196 | 1034345 | 1034196 | ID=Msa1306230-mRNA-1:exon:194;Parent=Msa1306230-mRNA-1 |
| chr8_4 | exon | 1034713 | 1034844 | 1034713 | ID=Msa1306230-mRNA-1:exon:195;Parent=Msa1306230-mRNA-1 |
| chr8_4 | CDS | 1034196 | 1034345 | 1034196 | ID=Msa1306230-mRNA-1:cds;Parent=Msa1306230-mRNA-1 |
| chr8_4 | CDS | 1034713 | 1034844 | 1034713 | ID=Msa1306230-mRNA-1:cds;Parent=Msa1306230-mRNA-1 |
| Gene Sequence |
| Protein sequence |
