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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0444790 | XP_003598789.1 | 74.490 | 98 | 18 | 1 | 1 | 91 | 1 | 98 | 1.29e-41 | 142 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0444790 | sp|P16064|ICI1_PHAAN | 66.667 | 93 | 23 | 2 | 6 | 91 | 1 | 92 | 6.92e-32 | 109 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0444790 | G7IW97 | 74.490 | 98 | 18 | 1 | 1 | 91 | 1 | 98 | 6.16e-42 | 142 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0397480 | Msa0444790 | 0.922620 | 7.753664e-89 | -8.615850e-47 |
| Msa0444790 | Msa0492390 | 0.960557 | 1.081003e-118 | -8.615850e-47 |
| Msa0350440 | Msa0444790 | 0.912476 | 1.864617e-83 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0444790 | MtrunA17_Chr3g0085011 | 74.490 | 98 | 18 | 1 | 1 | 91 | 1 | 98 | 1.19e-45 | 142 |
| Msa0444790 | MtrunA17_Chr3g0084961 | 74.725 | 91 | 13 | 2 | 1 | 91 | 1 | 81 | 3.43e-40 | 127 |
| Msa0444790 | MtrunA17_Chr3g0084991 | 86.567 | 67 | 9 | 0 | 25 | 91 | 28 | 94 | 9.48e-38 | 121 |
| Msa0444790 | MtrunA17_Chr3g0084931 | 63.768 | 69 | 25 | 0 | 23 | 91 | 13 | 81 | 2.17e-22 | 82.4 |
| Msa0444790 | MtrunA17_Chr5g0442291 | 46.032 | 63 | 34 | 0 | 29 | 91 | 8 | 70 | 9.19e-13 | 57.8 |
| Msa0444790 | MtrunA17_Chr1g0184411 | 46.552 | 58 | 31 | 0 | 34 | 91 | 13 | 70 | 7.23e-11 | 53.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 32 sgRNAs with CRISPR-Local
Find 100 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATATTGTTCAAATGAGATT+TGG | 0.239176 | 3_3:-18316140 | Msa0444790:three_prime_UTR |
| TTAGAATAAACAAGGGGATT+TGG | 0.263245 | 3_3:-18316068 | Msa0444790:three_prime_UTR |
| TAGAATAAACAAGGGGATTT+GGG | 0.271314 | 3_3:-18316067 | Msa0444790:three_prime_UTR |
| TCAGACAAACTTCTTCTTGT+AGG | 0.284118 | 3_3:+18316349 | None:intergenic |
| CAACATACAATCGAACTCTT+TGG | 0.322647 | 3_3:+18316215 | None:intergenic |
| TCACTTGGCAAGGGTTCATT+TGG | 0.330216 | 3_3:+18316816 | None:intergenic |
| ATATTGTTCAAATGAGATTT+GGG | 0.371910 | 3_3:-18316139 | Msa0444790:three_prime_UTR |
| TTGATGAATCAACCAATTGT+TGG | 0.386467 | 3_3:+18316166 | None:intergenic |
| AGAAGCAGAGAGGAAAATAA+AGG | 0.396970 | 3_3:-18316305 | Msa0444790:CDS |
| GTATGTTGATGAATCTAATA+AGG | 0.406117 | 3_3:-18316200 | Msa0444790:CDS |
| AACATACAATCGAACTCTTT+GGG | 0.421595 | 3_3:+18316216 | None:intergenic |
| GTCACCAGGGCTCCAACAAT+TGG | 0.468531 | 3_3:-18316178 | Msa0444790:CDS |
| GGTTCATTTGGCTGCTCCTG+AGG | 0.488032 | 3_3:+18316828 | None:intergenic |
| AAAATAAAGGAAGAGATGCC+TGG | 0.497171 | 3_3:-18316292 | Msa0444790:CDS |
| AGAAGTTTGTCTGAGCTAGT+TGG | 0.515176 | 3_3:-18316340 | Msa0444790:CDS |
| GAAATTCGAGTGGTGCCTCC+TGG | 0.516148 | 3_3:-18316265 | Msa0444790:CDS |
| TCATTTGGCTGCTCCTGAGG+AGG | 0.525124 | 3_3:+18316831 | None:intergenic |
| ACCACTCGAATTTCAACTCC+AGG | 0.541025 | 3_3:+18316274 | None:intergenic |
| ACAAGGAACAAATCCTCCTC+AGG | 0.544834 | 3_3:-18316844 | Msa0444790:CDS |
| TCAACCAATTGTTGGAGCCC+TGG | 0.547441 | 3_3:+18316174 | None:intergenic |
| ACATTAGAACTCACTTGGCA+AGG | 0.548421 | 3_3:+18316806 | None:intergenic |
| TAGTTTGGTATTCATGGCAG+AGG | 0.551246 | 3_3:-18316877 | None:intergenic |
| ATGAATCTAATAAGGTCACC+AGG | 0.557287 | 3_3:-18316192 | Msa0444790:CDS |
| CATTAGAACTCACTTGGCAA+GGG | 0.564463 | 3_3:+18316807 | None:intergenic |
| TCAGCAGTAACAAAATAGCC+AGG | 0.584623 | 3_3:+18316247 | None:intergenic |
| TGTAATTTGAAGAATAAACA+AGG | 0.595208 | 3_3:-18316031 | Msa0444790:three_prime_UTR |
| AGATTTGGGTATAATGCTAG+AGG | 0.635650 | 3_3:-18316125 | Msa0444790:three_prime_UTR |
| GTAATTTGAAGAATAAACAA+GGG | 0.646457 | 3_3:-18316030 | Msa0444790:three_prime_UTR |
| TGAATCTAATAAGGTCACCA+GGG | 0.698547 | 3_3:-18316191 | Msa0444790:CDS |
| GCCTGGAGTTGAAATTCGAG+TGG | 0.708630 | 3_3:-18316275 | Msa0444790:CDS |
| TCACTGCAGAAGAAGCAGAG+AGG | 0.716587 | 3_3:-18316315 | Msa0444790:CDS |
| GCAGTAACAAAATAGCCAGG+AGG | 0.750368 | 3_3:+18316250 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATGATATTGAATATATATTT+TGG | - | chr3_3:18316432-18316451 | Msa0444790:intron | 10.0% |
| !!! | TTTTTAATTAGAATAAACAA+GGG | - | chr3_3:18316793-18316812 | Msa0444790:intron | 10.0% |
| !!! | ATGATATTGAATATATATTT+TGG | - | chr3_3:18316432-18316451 | Msa0444790:intron | 10.0% |
| !!! | TTTTTAATTAGAATAAACAA+GGG | - | chr3_3:18316793-18316812 | Msa0444790:intron | 10.0% |
| !! | CTAAATCTTATTGAATAATT+TGG | + | chr3_3:18316116-18316135 | None:intergenic | 15.0% |
| !! | AAAGAAATATTATGTTACTA+TGG | + | chr3_3:18316370-18316389 | None:intergenic | 15.0% |
| !!! | GTTTTTAATTAGAATAAACA+AGG | - | chr3_3:18316792-18316811 | Msa0444790:intron | 15.0% |
| !!! | TTTTAATTAGAATAAACAAG+GGG | - | chr3_3:18316794-18316813 | Msa0444790:intron | 15.0% |
| !! | CTAAATCTTATTGAATAATT+TGG | + | chr3_3:18316116-18316135 | None:intergenic | 15.0% |
| !! | AAAGAAATATTATGTTACTA+TGG | + | chr3_3:18316370-18316389 | None:intergenic | 15.0% |
| !!! | GTTTTTAATTAGAATAAACA+AGG | - | chr3_3:18316792-18316811 | Msa0444790:intron | 15.0% |
| !!! | TTTTAATTAGAATAAACAAG+GGG | - | chr3_3:18316794-18316813 | Msa0444790:intron | 15.0% |
| !! | AATATTGTTCAAATGAGATT+TGG | - | chr3_3:18316728-18316747 | Msa0444790:intron | 20.0% |
| !! | ATATTGTTCAAATGAGATTT+GGG | - | chr3_3:18316729-18316748 | Msa0444790:intron | 20.0% |
| !! | TGTAATTTGAAGAATAAACA+AGG | - | chr3_3:18316837-18316856 | Msa0444790:CDS | 20.0% |
| !! | GTAATTTGAAGAATAAACAA+GGG | - | chr3_3:18316838-18316857 | Msa0444790:CDS | 20.0% |
| !! | AATATTGTTCAAATGAGATT+TGG | - | chr3_3:18316728-18316747 | Msa0444790:intron | 20.0% |
| !! | ATATTGTTCAAATGAGATTT+GGG | - | chr3_3:18316729-18316748 | Msa0444790:intron | 20.0% |
| !! | TGTAATTTGAAGAATAAACA+AGG | - | chr3_3:18316837-18316856 | Msa0444790:CDS | 20.0% |
| !! | GTAATTTGAAGAATAAACAA+GGG | - | chr3_3:18316838-18316857 | Msa0444790:CDS | 20.0% |
| ! | TAAAAATTCACGTGAATAAG+TGG | - | chr3_3:18316196-18316215 | Msa0444790:CDS | 25.0% |
| ! | AAAAATTCACGTGAATAAGT+GGG | - | chr3_3:18316197-18316216 | Msa0444790:CDS | 25.0% |
| !!! | TCTAACTTTTATTTGACACA+CGG | - | chr3_3:18316340-18316359 | Msa0444790:CDS | 25.0% |
| !! | GTATGTTGATGAATCTAATA+AGG | - | chr3_3:18316668-18316687 | Msa0444790:intron | 25.0% |
| ! | TAAAAATTCACGTGAATAAG+TGG | - | chr3_3:18316196-18316215 | Msa0444790:CDS | 25.0% |
| ! | AAAAATTCACGTGAATAAGT+GGG | - | chr3_3:18316197-18316216 | Msa0444790:CDS | 25.0% |
| !!! | TCTAACTTTTATTTGACACA+CGG | - | chr3_3:18316340-18316359 | Msa0444790:CDS | 25.0% |
| !! | GTATGTTGATGAATCTAATA+AGG | - | chr3_3:18316668-18316687 | Msa0444790:intron | 25.0% |
| AACATACAATCGAACTCTTT+GGG | + | chr3_3:18316655-18316674 | None:intergenic | 30.0% | |
| TTGATGAATCAACCAATTGT+TGG | + | chr3_3:18316705-18316724 | None:intergenic | 30.0% | |
| TTAGAATAAACAAGGGGATT+TGG | - | chr3_3:18316800-18316819 | Msa0444790:intron | 30.0% | |
| TAGAATAAACAAGGGGATTT+GGG | - | chr3_3:18316801-18316820 | Msa0444790:intron | 30.0% | |
| AACATACAATCGAACTCTTT+GGG | + | chr3_3:18316655-18316674 | None:intergenic | 30.0% | |
| TTGATGAATCAACCAATTGT+TGG | + | chr3_3:18316705-18316724 | None:intergenic | 30.0% | |
| TTAGAATAAACAAGGGGATT+TGG | - | chr3_3:18316800-18316819 | Msa0444790:intron | 30.0% | |
| TAGAATAAACAAGGGGATTT+GGG | - | chr3_3:18316801-18316820 | Msa0444790:intron | 30.0% | |
| GAGAAACATTAGAACTCACT+TGG | + | chr3_3:18316070-18316089 | None:intergenic | 35.0% | |
| !! | CAAACACAAGACTGTCATTT+TGG | + | chr3_3:18316149-18316168 | None:intergenic | 35.0% |
| ACAACTCATTGCATGATCTA+GGG | + | chr3_3:18316238-18316257 | None:intergenic | 35.0% | |
| TACAACTCATTGCATGATCT+AGG | + | chr3_3:18316239-18316258 | None:intergenic | 35.0% | |
| GTCACTGTGTTATGATAAGT+TGG | + | chr3_3:18316394-18316413 | None:intergenic | 35.0% | |
| TCAGACAAACTTCTTCTTGT+AGG | + | chr3_3:18316522-18316541 | None:intergenic | 35.0% | |
| AGAAGCAGAGAGGAAAATAA+AGG | - | chr3_3:18316563-18316582 | Msa0444790:intron | 35.0% | |
| AAAATAAAGGAAGAGATGCC+TGG | - | chr3_3:18316576-18316595 | Msa0444790:intron | 35.0% | |
| CAACATACAATCGAACTCTT+TGG | + | chr3_3:18316656-18316675 | None:intergenic | 35.0% | |
| ATGAATCTAATAAGGTCACC+AGG | - | chr3_3:18316676-18316695 | Msa0444790:intron | 35.0% | |
| TGAATCTAATAAGGTCACCA+GGG | - | chr3_3:18316677-18316696 | Msa0444790:intron | 35.0% | |
| AGATTTGGGTATAATGCTAG+AGG | - | chr3_3:18316743-18316762 | Msa0444790:intron | 35.0% | |
| !!! | GGGTTTTGTTGTGACATTTT+CGG | - | chr3_3:18316858-18316877 | Msa0444790:CDS | 35.0% |
| !!! | GGTTTTGTTGTGACATTTTC+GGG | - | chr3_3:18316859-18316878 | Msa0444790:CDS | 35.0% |
| GAGAAACATTAGAACTCACT+TGG | + | chr3_3:18316070-18316089 | None:intergenic | 35.0% | |
| !! | CAAACACAAGACTGTCATTT+TGG | + | chr3_3:18316149-18316168 | None:intergenic | 35.0% |
| ACAACTCATTGCATGATCTA+GGG | + | chr3_3:18316238-18316257 | None:intergenic | 35.0% | |
| TACAACTCATTGCATGATCT+AGG | + | chr3_3:18316239-18316258 | None:intergenic | 35.0% | |
| GTCACTGTGTTATGATAAGT+TGG | + | chr3_3:18316394-18316413 | None:intergenic | 35.0% | |
| TCAGACAAACTTCTTCTTGT+AGG | + | chr3_3:18316522-18316541 | None:intergenic | 35.0% | |
| AGAAGCAGAGAGGAAAATAA+AGG | - | chr3_3:18316563-18316582 | Msa0444790:intron | 35.0% | |
| AAAATAAAGGAAGAGATGCC+TGG | - | chr3_3:18316576-18316595 | Msa0444790:intron | 35.0% | |
| CAACATACAATCGAACTCTT+TGG | + | chr3_3:18316656-18316675 | None:intergenic | 35.0% | |
| ATGAATCTAATAAGGTCACC+AGG | - | chr3_3:18316676-18316695 | Msa0444790:intron | 35.0% | |
| TGAATCTAATAAGGTCACCA+GGG | - | chr3_3:18316677-18316696 | Msa0444790:intron | 35.0% | |
| AGATTTGGGTATAATGCTAG+AGG | - | chr3_3:18316743-18316762 | Msa0444790:intron | 35.0% | |
| !!! | GGGTTTTGTTGTGACATTTT+CGG | - | chr3_3:18316858-18316877 | Msa0444790:CDS | 35.0% |
| !!! | GGTTTTGTTGTGACATTTTC+GGG | - | chr3_3:18316859-18316878 | Msa0444790:CDS | 35.0% |
| CATTAGAACTCACTTGGCAA+GGG | + | chr3_3:18316064-18316083 | None:intergenic | 40.0% | |
| ACATTAGAACTCACTTGGCA+AGG | + | chr3_3:18316065-18316084 | None:intergenic | 40.0% | |
| AGAAGTTTGTCTGAGCTAGT+TGG | - | chr3_3:18316528-18316547 | Msa0444790:intron | 40.0% | |
| TCAGCAGTAACAAAATAGCC+AGG | + | chr3_3:18316624-18316643 | None:intergenic | 40.0% | |
| CATTAGAACTCACTTGGCAA+GGG | + | chr3_3:18316064-18316083 | None:intergenic | 40.0% | |
| ACATTAGAACTCACTTGGCA+AGG | + | chr3_3:18316065-18316084 | None:intergenic | 40.0% | |
| AGAAGTTTGTCTGAGCTAGT+TGG | - | chr3_3:18316528-18316547 | Msa0444790:intron | 40.0% | |
| TCAGCAGTAACAAAATAGCC+AGG | + | chr3_3:18316624-18316643 | None:intergenic | 40.0% | |
| GCAGAGGAAAAACAAGGACA+AGG | - | chr3_3:18316007-18316026 | Msa0444790:three_prime_UTR | 45.0% | |
| ACAAGGAACAAATCCTCCTC+AGG | - | chr3_3:18316024-18316043 | Msa0444790:three_prime_UTR | 45.0% | |
| TCACTTGGCAAGGGTTCATT+TGG | + | chr3_3:18316055-18316074 | None:intergenic | 45.0% | |
| ACCACTCGAATTTCAACTCC+AGG | + | chr3_3:18316597-18316616 | None:intergenic | 45.0% | |
| GCAGTAACAAAATAGCCAGG+AGG | + | chr3_3:18316621-18316640 | None:intergenic | 45.0% | |
| GCAGAGGAAAAACAAGGACA+AGG | - | chr3_3:18316007-18316026 | Msa0444790:three_prime_UTR | 45.0% | |
| ACAAGGAACAAATCCTCCTC+AGG | - | chr3_3:18316024-18316043 | Msa0444790:three_prime_UTR | 45.0% | |
| TCACTTGGCAAGGGTTCATT+TGG | + | chr3_3:18316055-18316074 | None:intergenic | 45.0% | |
| ACCACTCGAATTTCAACTCC+AGG | + | chr3_3:18316597-18316616 | None:intergenic | 45.0% | |
| GCAGTAACAAAATAGCCAGG+AGG | + | chr3_3:18316621-18316640 | None:intergenic | 45.0% | |
| !! | AAAATTAAATAATTTATTTC+AGG | - | chr3_3:18316486-18316505 | Msa0444790:intron | 5.0% |
| !! | AAATTAAATAATTTATTTCA+GGG | - | chr3_3:18316487-18316506 | Msa0444790:intron | 5.0% |
| !! | AAAATTAAATAATTTATTTC+AGG | - | chr3_3:18316486-18316505 | Msa0444790:intron | 5.0% |
| !! | AAATTAAATAATTTATTTCA+GGG | - | chr3_3:18316487-18316506 | Msa0444790:intron | 5.0% |
| TCACTGCAGAAGAAGCAGAG+AGG | - | chr3_3:18316553-18316572 | Msa0444790:intron | 50.0% | |
| GCCTGGAGTTGAAATTCGAG+TGG | - | chr3_3:18316593-18316612 | Msa0444790:intron | 50.0% | |
| TCAACCAATTGTTGGAGCCC+TGG | + | chr3_3:18316697-18316716 | None:intergenic | 50.0% | |
| TCACTGCAGAAGAAGCAGAG+AGG | - | chr3_3:18316553-18316572 | Msa0444790:intron | 50.0% | |
| GCCTGGAGTTGAAATTCGAG+TGG | - | chr3_3:18316593-18316612 | Msa0444790:intron | 50.0% | |
| TCAACCAATTGTTGGAGCCC+TGG | + | chr3_3:18316697-18316716 | None:intergenic | 50.0% | |
| TCATTTGGCTGCTCCTGAGG+AGG | + | chr3_3:18316040-18316059 | None:intergenic | 55.0% | |
| GGTTCATTTGGCTGCTCCTG+AGG | + | chr3_3:18316043-18316062 | None:intergenic | 55.0% | |
| GAAATTCGAGTGGTGCCTCC+TGG | - | chr3_3:18316603-18316622 | Msa0444790:intron | 55.0% | |
| GTCACCAGGGCTCCAACAAT+TGG | - | chr3_3:18316690-18316709 | Msa0444790:intron | 55.0% | |
| TCATTTGGCTGCTCCTGAGG+AGG | + | chr3_3:18316040-18316059 | None:intergenic | 55.0% | |
| GGTTCATTTGGCTGCTCCTG+AGG | + | chr3_3:18316043-18316062 | None:intergenic | 55.0% | |
| GAAATTCGAGTGGTGCCTCC+TGG | - | chr3_3:18316603-18316622 | Msa0444790:intron | 55.0% | |
| GTCACCAGGGCTCCAACAAT+TGG | - | chr3_3:18316690-18316709 | Msa0444790:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 18316004 | 18316886 | 18316004 | ID=Msa0444790;Name=Msa0444790 |
| chr3_3 | mRNA | 18316004 | 18316886 | 18316004 | ID=Msa0444790-mRNA-1;Parent=Msa0444790;Name=Msa0444790-mRNA-1;_AED=0.02;_eAED=0.02;_QI=0|1|0.5|1|1|1|2|170|91 |
| chr3_3 | exon | 18316004 | 18316382 | 18316004 | ID=Msa0444790-mRNA-1:exon:3893;Parent=Msa0444790-mRNA-1 |
| chr3_3 | exon | 18316820 | 18316886 | 18316820 | ID=Msa0444790-mRNA-1:exon:3892;Parent=Msa0444790-mRNA-1 |
| chr3_3 | CDS | 18316820 | 18316886 | 18316820 | ID=Msa0444790-mRNA-1:cds;Parent=Msa0444790-mRNA-1 |
| chr3_3 | CDS | 18316174 | 18316382 | 18316174 | ID=Msa0444790-mRNA-1:cds;Parent=Msa0444790-mRNA-1 |
| chr3_3 | three_prime_UTR | 18316004 | 18316173 | 18316004 | ID=Msa0444790-mRNA-1:three_prime_utr;Parent=Msa0444790-mRNA-1 |
| Gene Sequence |
| Protein sequence |
