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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0396300 | AES68802.1 | 66.234 | 77 | 7 | 2 | 1 | 76 | 1 | 59 | 1.58e-22 | 92.8 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0396300 | G7IVW8 | 66.234 | 77 | 7 | 2 | 1 | 76 | 1 | 59 | 7.55e-23 | 92.8 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0396290 | Msa0396300 | 0.812407 | 4.306048e-51 | -8.615850e-47 |
| Msa0396300 | Msa0545700 | 0.801803 | 7.578054e-49 | -8.615850e-47 |
| Msa0396300 | Msa0888130 | 0.802952 | 4.393696e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0396300 | MtrunA17_Chr3g0082821 | 66.234 | 77 | 7 | 2 | 1 | 76 | 1 | 59 | 1.45e-26 | 92.8 |
| Msa0396300 | MtrunA17_Chr3g0082851 | 48.571 | 70 | 19 | 1 | 6 | 75 | 5 | 57 | 6.84e-15 | 63.2 |
| Msa0396300 | MtrunA17_Chr3g0082801 | 44.048 | 84 | 32 | 3 | 1 | 84 | 4 | 72 | 1.30e-14 | 62.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 30 sgRNAs with CRISPR-Local
Find 88 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTCCTAGATTCTCTTATAT+TGG | 0.294468 | 3_2:-14177753 | Msa0396300:five_prime_UTR |
| GTTTGTGATTATCTTGTCTA+TGG | 0.303837 | 3_2:-14177678 | Msa0396300:CDS |
| AAGAGTATTACTTACTTGTT+TGG | 0.330352 | 3_2:+14177606 | None:intergenic |
| GGAGGAGACGGACGAGGAGG+AGG | 0.354746 | 3_2:+14177058 | None:intergenic |
| ATGTTGCTGCCATGTCTGTT+TGG | 0.385555 | 3_2:-14177148 | Msa0396300:CDS |
| TGTTGCTGCCATGTCTGTTT+GGG | 0.386196 | 3_2:-14177147 | Msa0396300:CDS |
| TACTTACTTGTTTGGTGATG+TGG | 0.391826 | 3_2:+14177614 | None:intergenic |
| CTGCCAATATAAGAGAATCT+AGG | 0.418315 | 3_2:+14177750 | None:intergenic |
| GGAGACGGACGAGGAGGAGG+AGG | 0.438833 | 3_2:+14177061 | None:intergenic |
| CTAGATTCTCTTATATTGGC+AGG | 0.452349 | 3_2:-14177749 | Msa0396300:five_prime_UTR |
| ATACATGGCTTATTTGAAGA+AGG | 0.465173 | 3_2:-14177723 | Msa0396300:exon |
| TAATCACAAACAGCAAAGTC+AGG | 0.475555 | 3_2:+14177690 | None:intergenic |
| GGAGGAGGAGGAGACGGACG+AGG | 0.509180 | 3_2:+14177052 | None:intergenic |
| CATCATCAACAATATAAAGT+AGG | 0.517741 | 3_2:+14177107 | None:intergenic |
| CATCATGGATGAGGAGGAGG+AGG | 0.524144 | 3_2:+14177040 | None:intergenic |
| GATTATCTTGTCTATGGAAG+TGG | 0.531846 | 3_2:-14177672 | Msa0396300:CDS |
| TATATTGGCAGGAAGATACA+TGG | 0.532698 | 3_2:-14177738 | Msa0396300:exon |
| GGAGGAGGAGACGGACGAGG+AGG | 0.539009 | 3_2:+14177055 | None:intergenic |
| CTGTTTGGGAATCTCAAAGA+TGG | 0.540756 | 3_2:-14177133 | Msa0396300:CDS |
| CAGCATCATGGATGAGGAGG+AGG | 0.541887 | 3_2:+14177037 | None:intergenic |
| ATTCATCAGCATCATGGATG+AGG | 0.558987 | 3_2:+14177031 | None:intergenic |
| TTGAGATTCCCAAACAGACA+TGG | 0.595595 | 3_2:+14177139 | None:intergenic |
| GAGGAGGAGGAGAGTAGTGG+TGG | 0.603187 | 3_2:+14177074 | None:intergenic |
| TGGAAGTGGCAACAACAGCA+AGG | 0.605264 | 3_2:-14177658 | Msa0396300:CDS |
| CATCAGCATCATGGATGAGG+AGG | 0.611713 | 3_2:+14177034 | None:intergenic |
| GGAGAGTAGTGGTGGCCGTG+TGG | 0.650454 | 3_2:+14177082 | None:intergenic |
| AAACAGACATGGCAGCAACA+TGG | 0.653127 | 3_2:+14177150 | None:intergenic |
| GGAAGTGGCAACAACAGCAA+GGG | 0.660195 | 3_2:-14177657 | Msa0396300:CDS |
| ATTGTTGATGATGTTCCACA+CGG | 0.674884 | 3_2:-14177097 | Msa0396300:CDS |
| CAACAGCAAGGGTACCACTG+TGG | 0.705611 | 3_2:-14177646 | Msa0396300:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AACTATACATAAATTTCAAA+TGG | + | chr3_2:14177632-14177651 | None:intergenic | 15.0% |
| !! | AACTATACATAAATTTCAAA+TGG | + | chr3_2:14177632-14177651 | None:intergenic | 15.0% |
| !!! | TTATACACATCTTTTGAAAA+AGG | - | chr3_2:14177364-14177383 | Msa0396300:intron | 20.0% |
| !!! | TATACACATCTTTTGAAAAA+GGG | - | chr3_2:14177365-14177384 | Msa0396300:intron | 20.0% |
| !! | CAAAAATGTAAAATTTCAAC+AGG | + | chr3_2:14177432-14177451 | None:intergenic | 20.0% |
| !!! | TTATACACATCTTTTGAAAA+AGG | - | chr3_2:14177364-14177383 | Msa0396300:intron | 20.0% |
| !!! | TATACACATCTTTTGAAAAA+GGG | - | chr3_2:14177365-14177384 | Msa0396300:intron | 20.0% |
| !! | CAAAAATGTAAAATTTCAAC+AGG | + | chr3_2:14177432-14177451 | None:intergenic | 20.0% |
| !!! | AAGAGTATTACTTACTTGTT+TGG | + | chr3_2:14177215-14177234 | None:intergenic | 25.0% |
| !! | CAAGTAAGTAATACTCTTTT+TGG | - | chr3_2:14177217-14177236 | Msa0396300:intron | 25.0% |
| ! | TAACCTGACTAAAACAATTA+TGG | + | chr3_2:14177325-14177344 | None:intergenic | 25.0% |
| !!! | TCATTTTTCTACATATGTCT+AGG | - | chr3_2:14177463-14177482 | Msa0396300:intron | 25.0% |
| !!! | GTTATTCAAGTTTTGATTTG+TGG | - | chr3_2:14177563-14177582 | Msa0396300:intron | 25.0% |
| ! | CATCATCAACAATATAAAGT+AGG | + | chr3_2:14177714-14177733 | None:intergenic | 25.0% |
| !!! | AAGAGTATTACTTACTTGTT+TGG | + | chr3_2:14177215-14177234 | None:intergenic | 25.0% |
| !! | CAAGTAAGTAATACTCTTTT+TGG | - | chr3_2:14177217-14177236 | Msa0396300:intron | 25.0% |
| ! | TAACCTGACTAAAACAATTA+TGG | + | chr3_2:14177325-14177344 | None:intergenic | 25.0% |
| !!! | TCATTTTTCTACATATGTCT+AGG | - | chr3_2:14177463-14177482 | Msa0396300:intron | 25.0% |
| !!! | GTTATTCAAGTTTTGATTTG+TGG | - | chr3_2:14177563-14177582 | Msa0396300:intron | 25.0% |
| ! | CATCATCAACAATATAAAGT+AGG | + | chr3_2:14177714-14177733 | None:intergenic | 25.0% |
| TGTCCTAGATTCTCTTATAT+TGG | - | chr3_2:14177065-14177084 | Msa0396300:CDS | 30.0% | |
| ATACATGGCTTATTTGAAGA+AGG | - | chr3_2:14177095-14177114 | Msa0396300:CDS | 30.0% | |
| GTTTGTGATTATCTTGTCTA+TGG | - | chr3_2:14177140-14177159 | Msa0396300:CDS | 30.0% | |
| !! | TTTTTGGTCTAATAACTCTC+AGG | - | chr3_2:14177233-14177252 | Msa0396300:intron | 30.0% |
| !!! | GATCCATAATTGTTTTAGTC+AGG | - | chr3_2:14177319-14177338 | Msa0396300:intron | 30.0% |
| TGTCCTAGATTCTCTTATAT+TGG | - | chr3_2:14177065-14177084 | Msa0396300:CDS | 30.0% | |
| ATACATGGCTTATTTGAAGA+AGG | - | chr3_2:14177095-14177114 | Msa0396300:CDS | 30.0% | |
| GTTTGTGATTATCTTGTCTA+TGG | - | chr3_2:14177140-14177159 | Msa0396300:CDS | 30.0% | |
| !! | TTTTTGGTCTAATAACTCTC+AGG | - | chr3_2:14177233-14177252 | Msa0396300:intron | 30.0% |
| !!! | GATCCATAATTGTTTTAGTC+AGG | - | chr3_2:14177319-14177338 | Msa0396300:intron | 30.0% |
| CTGCCAATATAAGAGAATCT+AGG | + | chr3_2:14177071-14177090 | None:intergenic | 35.0% | |
| CTAGATTCTCTTATATTGGC+AGG | - | chr3_2:14177069-14177088 | Msa0396300:CDS | 35.0% | |
| TATATTGGCAGGAAGATACA+TGG | - | chr3_2:14177080-14177099 | Msa0396300:CDS | 35.0% | |
| TAATCACAAACAGCAAAGTC+AGG | + | chr3_2:14177131-14177150 | None:intergenic | 35.0% | |
| GATTATCTTGTCTATGGAAG+TGG | - | chr3_2:14177146-14177165 | Msa0396300:CDS | 35.0% | |
| !! | TACTTACTTGTTTGGTGATG+TGG | + | chr3_2:14177207-14177226 | None:intergenic | 35.0% |
| TAATAACTCTCAGGTTCTTG+AGG | - | chr3_2:14177242-14177261 | Msa0396300:intron | 35.0% | |
| AATAACTCTCAGGTTCTTGA+GGG | - | chr3_2:14177243-14177262 | Msa0396300:intron | 35.0% | |
| !! | ATTGTTGATGATGTTCCACA+CGG | - | chr3_2:14177721-14177740 | Msa0396300:CDS | 35.0% |
| CTGCCAATATAAGAGAATCT+AGG | + | chr3_2:14177071-14177090 | None:intergenic | 35.0% | |
| CTAGATTCTCTTATATTGGC+AGG | - | chr3_2:14177069-14177088 | Msa0396300:CDS | 35.0% | |
| TATATTGGCAGGAAGATACA+TGG | - | chr3_2:14177080-14177099 | Msa0396300:CDS | 35.0% | |
| TAATCACAAACAGCAAAGTC+AGG | + | chr3_2:14177131-14177150 | None:intergenic | 35.0% | |
| GATTATCTTGTCTATGGAAG+TGG | - | chr3_2:14177146-14177165 | Msa0396300:CDS | 35.0% | |
| !! | TACTTACTTGTTTGGTGATG+TGG | + | chr3_2:14177207-14177226 | None:intergenic | 35.0% |
| TAATAACTCTCAGGTTCTTG+AGG | - | chr3_2:14177242-14177261 | Msa0396300:intron | 35.0% | |
| AATAACTCTCAGGTTCTTGA+GGG | - | chr3_2:14177243-14177262 | Msa0396300:intron | 35.0% | |
| !! | ATTGTTGATGATGTTCCACA+CGG | - | chr3_2:14177721-14177740 | Msa0396300:CDS | 35.0% |
| GACAAAGCTAGCAAGAATCA+AGG | - | chr3_2:14177541-14177560 | Msa0396300:intron | 40.0% | |
| TTGAGATTCCCAAACAGACA+TGG | + | chr3_2:14177682-14177701 | None:intergenic | 40.0% | |
| CTGTTTGGGAATCTCAAAGA+TGG | - | chr3_2:14177685-14177704 | Msa0396300:CDS | 40.0% | |
| GACAAAGCTAGCAAGAATCA+AGG | - | chr3_2:14177541-14177560 | Msa0396300:intron | 40.0% | |
| TTGAGATTCCCAAACAGACA+TGG | + | chr3_2:14177682-14177701 | None:intergenic | 40.0% | |
| CTGTTTGGGAATCTCAAAGA+TGG | - | chr3_2:14177685-14177704 | Msa0396300:CDS | 40.0% | |
| ! | TGTGGCTCAATTTTCCACAG+TGG | + | chr3_2:14177189-14177208 | None:intergenic | 45.0% |
| AAACAGACATGGCAGCAACA+TGG | + | chr3_2:14177671-14177690 | None:intergenic | 45.0% | |
| ATGTTGCTGCCATGTCTGTT+TGG | - | chr3_2:14177670-14177689 | Msa0396300:CDS | 45.0% | |
| TGTTGCTGCCATGTCTGTTT+GGG | - | chr3_2:14177671-14177690 | Msa0396300:CDS | 45.0% | |
| ! | TGTGGCTCAATTTTCCACAG+TGG | + | chr3_2:14177189-14177208 | None:intergenic | 45.0% |
| AAACAGACATGGCAGCAACA+TGG | + | chr3_2:14177671-14177690 | None:intergenic | 45.0% | |
| ATGTTGCTGCCATGTCTGTT+TGG | - | chr3_2:14177670-14177689 | Msa0396300:CDS | 45.0% | |
| TGTTGCTGCCATGTCTGTTT+GGG | - | chr3_2:14177671-14177690 | Msa0396300:CDS | 45.0% | |
| !! | ATTAATTTCAAATAATTAAT+CGG | + | chr3_2:14177511-14177530 | None:intergenic | 5.0% |
| !! | ATTAATTTCAAATAATTAAT+CGG | + | chr3_2:14177511-14177530 | None:intergenic | 5.0% |
| TGGAAGTGGCAACAACAGCA+AGG | - | chr3_2:14177160-14177179 | Msa0396300:CDS | 50.0% | |
| GGAAGTGGCAACAACAGCAA+GGG | - | chr3_2:14177161-14177180 | Msa0396300:CDS | 50.0% | |
| ACTCTCAGGTTCTTGAGGGA+AGG | - | chr3_2:14177247-14177266 | Msa0396300:intron | 50.0% | |
| TGGAAGTGGCAACAACAGCA+AGG | - | chr3_2:14177160-14177179 | Msa0396300:CDS | 50.0% | |
| GGAAGTGGCAACAACAGCAA+GGG | - | chr3_2:14177161-14177180 | Msa0396300:CDS | 50.0% | |
| ACTCTCAGGTTCTTGAGGGA+AGG | - | chr3_2:14177247-14177266 | Msa0396300:intron | 50.0% | |
| !! | CAACAGCAAGGGTACCACTG+TGG | - | chr3_2:14177172-14177191 | Msa0396300:intron | 55.0% |
| !! | CAACAGCAAGGGTACCACTG+TGG | - | chr3_2:14177172-14177191 | Msa0396300:intron | 55.0% |
| GAGGAGGAGGAGAGTAGTGG+TGG | + | chr3_2:14177747-14177766 | None:intergenic | 60.0% | |
| GAGGAGGAGGAGGAGAGTAG+TGG | + | chr3_2:14177750-14177769 | None:intergenic | 60.0% | |
| GGATGAGGAGGAGGAGGAGA+CGG | + | chr3_2:14177775-14177794 | None:intergenic | 60.0% | |
| GAGGAGGAGGAGAGTAGTGG+TGG | + | chr3_2:14177747-14177766 | None:intergenic | 60.0% | |
| GAGGAGGAGGAGGAGAGTAG+TGG | + | chr3_2:14177750-14177769 | None:intergenic | 60.0% | |
| GGATGAGGAGGAGGAGGAGA+CGG | + | chr3_2:14177775-14177794 | None:intergenic | 60.0% | |
| GGAGAGTAGTGGTGGCCGTG+TGG | + | chr3_2:14177739-14177758 | None:intergenic | 65.0% | |
| GGAGAGTAGTGGTGGCCGTG+TGG | + | chr3_2:14177739-14177758 | None:intergenic | 65.0% | |
| GGAGACGGACGAGGAGGAGG+AGG | + | chr3_2:14177760-14177779 | None:intergenic | 70.0% | |
| GGAGGAGACGGACGAGGAGG+AGG | + | chr3_2:14177763-14177782 | None:intergenic | 70.0% | |
| GGAGGAGGAGACGGACGAGG+AGG | + | chr3_2:14177766-14177785 | None:intergenic | 70.0% | |
| GGAGGAGGAGGAGACGGACG+AGG | + | chr3_2:14177769-14177788 | None:intergenic | 70.0% | |
| GGAGACGGACGAGGAGGAGG+AGG | + | chr3_2:14177760-14177779 | None:intergenic | 70.0% | |
| GGAGGAGACGGACGAGGAGG+AGG | + | chr3_2:14177763-14177782 | None:intergenic | 70.0% | |
| GGAGGAGGAGACGGACGAGG+AGG | + | chr3_2:14177766-14177785 | None:intergenic | 70.0% | |
| GGAGGAGGAGGAGACGGACG+AGG | + | chr3_2:14177769-14177788 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 14177042 | 14177798 | 14177042 | ID=Msa0396300;Name=Msa0396300 |
| chr3_2 | mRNA | 14177042 | 14177798 | 14177042 | ID=Msa0396300-mRNA-1;Parent=Msa0396300;Name=Msa0396300-mRNA-1;_AED=0.54;_eAED=0.70;_QI=57|0|0.5|1|1|1|2|0|89 |
| chr3_2 | exon | 14177042 | 14177190 | 14177042 | ID=Msa0396300-mRNA-1:exon:3282;Parent=Msa0396300-mRNA-1 |
| chr3_2 | exon | 14177621 | 14177798 | 14177621 | ID=Msa0396300-mRNA-1:exon:3281;Parent=Msa0396300-mRNA-1 |
| chr3_2 | five_prime_UTR | 14177742 | 14177798 | 14177742 | ID=Msa0396300-mRNA-1:five_prime_utr;Parent=Msa0396300-mRNA-1 |
| chr3_2 | CDS | 14177621 | 14177741 | 14177621 | ID=Msa0396300-mRNA-1:cds;Parent=Msa0396300-mRNA-1 |
| chr3_2 | CDS | 14177042 | 14177190 | 14177042 | ID=Msa0396300-mRNA-1:cds;Parent=Msa0396300-mRNA-1 |
| Gene Sequence |
| Protein sequence |
