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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0301200 | XP_003593591.1 | 87.582 | 153 | 18 | 1 | 1 | 152 | 1 | 153 | 1.71e-89 | 268 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0301200 | sp|F4JIJ7|BH162_ARATH | 42.236 | 161 | 82 | 4 | 3 | 152 | 7 | 167 | 1.49e-35 | 125 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0301200 | G7IPU7 | 87.582 | 153 | 18 | 1 | 1 | 152 | 1 | 153 | 8.18e-90 | 268 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0301200 | TF | bHLH |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0078430 | Msa0301200 | 0.825917 | 3.608767e-54 | -8.615850e-47 |
| Msa0191040 | Msa0301200 | 0.882568 | 9.338069e-71 | -8.615850e-47 |
| Msa0206800 | Msa0301200 | 0.812834 | 3.472484e-51 | -8.615850e-47 |
| Msa0220300 | Msa0301200 | 0.800827 | 1.200796e-48 | -8.615850e-47 |
| Msa0233340 | Msa0301200 | 0.882194 | 1.277734e-70 | -8.615850e-47 |
| Msa0234110 | Msa0301200 | 0.953861 | 1.075759e-111 | -8.615850e-47 |
| Msa0236110 | Msa0301200 | 0.803259 | 3.797041e-49 | -8.615850e-47 |
| Msa0251240 | Msa0301200 | 0.807777 | 4.281596e-50 | -8.615850e-47 |
| Msa0288190 | Msa0301200 | 0.813269 | 2.788591e-51 | -8.615850e-47 |
| Msa0288200 | Msa0301200 | 0.813949 | 1.975123e-51 | -8.615850e-47 |
| Msa0301200 | Msa0311690 | 0.882194 | 1.277593e-70 | -8.615850e-47 |
| Msa0301200 | Msa0312840 | 0.882371 | 1.101508e-70 | -8.615850e-47 |
| Msa0301200 | Msa0314630 | 0.801392 | 9.201593e-49 | -8.615850e-47 |
| Msa0301200 | Msa0326540 | 0.806910 | 6.539883e-50 | -8.615850e-47 |
| Msa0301200 | Msa0531430 | 0.816455 | 5.482326e-52 | -8.615850e-47 |
| Msa0301200 | Msa0534570 | 0.830533 | 2.784021e-55 | -8.615850e-47 |
| Msa0301200 | Msa0534590 | 0.824313 | 8.636466e-54 | -8.615850e-47 |
| Msa0301200 | Msa0590800 | 0.835993 | 1.214114e-56 | -8.615850e-47 |
| Msa0301200 | Msa0631120 | 0.830617 | 2.654584e-55 | -8.615850e-47 |
| Msa0301200 | Msa0666030 | 0.805899 | 1.068390e-49 | -8.615850e-47 |
| Msa0301200 | Msa0669340 | 0.815225 | 1.030871e-51 | -8.615850e-47 |
| Msa0301200 | Msa0717260 | 0.801816 | 7.531962e-49 | -8.615850e-47 |
| Msa0301200 | Msa0810020 | 0.810196 | 1.300216e-50 | -8.615850e-47 |
| Msa0301200 | Msa0837980 | 0.802480 | 5.498593e-49 | -8.615850e-47 |
| Msa0301200 | Msa0853320 | 0.807887 | 4.057936e-50 | -8.615850e-47 |
| Msa0301200 | Msa0885060 | 0.800919 | 1.149512e-48 | -8.615850e-47 |
| Msa0301200 | Msa1217940 | 0.801656 | 8.124996e-49 | -8.615850e-47 |
| Msa0301200 | Msa1390850 | 0.868487 | 6.296473e-66 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0301200 | MtrunA17_Chr2g0282341 | 88.596 | 114 | 13 | 0 | 40 | 153 | 3 | 116 | 1.90e-70 | 209 |
| Msa0301200 | MtrunA17_Chr2g0324511 | 41.250 | 160 | 89 | 2 | 6 | 160 | 12 | 171 | 3.36e-36 | 123 |
| Msa0301200 | MtrunA17_Chr4g0040201 | 44.375 | 160 | 73 | 6 | 3 | 152 | 7 | 160 | 1.46e-32 | 115 |
| Msa0301200 | MtrunA17_Chr2g0324521 | 40.179 | 112 | 67 | 0 | 41 | 152 | 5 | 116 | 2.24e-26 | 97.1 |
| Msa0301200 | MtrunA17_Chr2g0324571 | 36.842 | 114 | 70 | 1 | 41 | 152 | 5 | 118 | 2.34e-24 | 91.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0301200 | AT4G20970.1 | 42.236 | 161 | 82 | 4 | 3 | 152 | 7 | 167 | 1.51e-36 | 125 |
Find 35 sgRNAs with CRISPR-Local
Find 84 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACATGATCCGTTCATATTAA+AGG | 0.193611 | 2_3:-56997115 | None:intergenic |
| ATTAACTTGTGTCTTAATTA+AGG | 0.202732 | 2_3:+56997276 | Msa0301200:three_prime_UTR |
| TTAGAGGTTGTTCTAATAAC+TGG | 0.223327 | 2_3:+56996945 | Msa0301200:CDS |
| TTCCTTAACTTGTGTTCTTA+AGG | 0.299376 | 2_3:-56997147 | None:intergenic |
| AAAATTAAGATACAACAAAT+TGG | 0.306857 | 2_3:+56996915 | Msa0301200:CDS |
| TTTCTATTCATATTCACATT+TGG | 0.306963 | 2_3:-56996867 | None:intergenic |
| ACAAATTGGTTTAGTCTTAG+AGG | 0.319445 | 2_3:+56996929 | Msa0301200:CDS |
| TCTGCCTCATCAAACTTCTA+AGG | 0.344529 | 2_3:+56996520 | Msa0301200:CDS |
| CTGTCAACTCTTGATGAACT+AGG | 0.359161 | 2_3:-56996434 | None:intergenic |
| TATTGTCAATGCAAGTTATA+AGG | 0.360092 | 2_3:+56997028 | Msa0301200:CDS |
| TTGAGTATCTCCTGTTATTG+AGG | 0.401617 | 2_3:+56996388 | Msa0301200:five_prime_UTR |
| TGCCTTAAGAACACAAGTTA+AGG | 0.402786 | 2_3:+56997145 | Msa0301200:three_prime_UTR |
| ACTGTTCCAACCTCAATAAC+AGG | 0.406192 | 2_3:-56996398 | None:intergenic |
| GGTTGTTCTAATAACTGGAT+TGG | 0.435753 | 2_3:+56996950 | Msa0301200:CDS |
| GTATCTCCTGTTATTGAGGT+TGG | 0.448324 | 2_3:+56996392 | Msa0301200:five_prime_UTR |
| CTTCGTGTTCTTCATGAAGA+AGG | 0.454763 | 2_3:+56996999 | Msa0301200:CDS |
| TTTCCATTCAATACACTGCC+AGG | 0.478671 | 2_3:+56997067 | Msa0301200:CDS |
| TTAATTTCCTTTAATATGAA+CGG | 0.510962 | 2_3:+56997108 | Msa0301200:exon |
| GAAAAGAAGAACTTTCTACT+AGG | 0.532951 | 2_3:+56996834 | Msa0301200:CDS |
| TGTCAACTCTTGATGAACTA+GGG | 0.540967 | 2_3:-56996433 | None:intergenic |
| GATCAACTTGGAGAAAATGA+AGG | 0.550998 | 2_3:+56996812 | Msa0301200:CDS |
| CTAGTTCATCAAGAGTTGAC+AGG | 0.559038 | 2_3:+56996435 | Msa0301200:CDS |
| TTACCTGGCAGTGTATTGAA+TGG | 0.573100 | 2_3:-56997070 | None:intergenic |
| ACTTTCTACTAGGAATTCAA+AGG | 0.595040 | 2_3:+56996844 | Msa0301200:CDS |
| AAAGAAATTACAGATCAACT+TGG | 0.602314 | 2_3:+56996800 | Msa0301200:CDS |
| TATTGAGGTTGGAACAGTGA+TGG | 0.604127 | 2_3:+56996403 | Msa0301200:exon |
| GTAACAATTTATGATTTACC+TGG | 0.615065 | 2_3:-56997085 | None:intergenic |
| GAGACCTTAGAAGTTTGATG+AGG | 0.624740 | 2_3:-56996524 | None:intergenic |
| ATGAATAGAAACAAGAACAT+GGG | 0.625623 | 2_3:+56996879 | Msa0301200:CDS |
| TATGAATAGAAACAAGAACA+TGG | 0.630359 | 2_3:+56996878 | Msa0301200:CDS |
| TCTGATGCAGGCGATTTCAG+CGG | 0.655278 | 2_3:+56996746 | Msa0301200:intron |
| GCAGAAATGAGTTGAGCTTG+TGG | 0.677546 | 2_3:-56996502 | None:intergenic |
| CTTCTTCATGAAGAACACGA+AGG | 0.679799 | 2_3:-56996998 | None:intergenic |
| GAAATGAGTTGAGCTTGTGG+CGG | 0.691957 | 2_3:-56996499 | None:intergenic |
| TTCAGCGGCAGATCAGCTCG+AGG | 0.698732 | 2_3:+56996761 | Msa0301200:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTGTTGTATCTTAATTTT+TGG | - | chr2_3:56996915-56996934 | None:intergenic | 15.0% |
| !! | AAAATTAAGATACAACAAAT+TGG | + | chr2_3:56996915-56996934 | Msa0301200:CDS | 15.0% |
| !! | TTAATTTCCTTTAATATGAA+CGG | + | chr2_3:56997108-56997127 | Msa0301200:exon | 15.0% |
| !!! | ATTTGTTGTATCTTAATTTT+TGG | - | chr2_3:56996915-56996934 | None:intergenic | 15.0% |
| !! | AAAATTAAGATACAACAAAT+TGG | + | chr2_3:56996915-56996934 | Msa0301200:CDS | 15.0% |
| !! | TTAATTTCCTTTAATATGAA+CGG | + | chr2_3:56997108-56997127 | Msa0301200:exon | 15.0% |
| !! | GAAAAAAATAGAATTAGTGA+CGG | + | chr2_3:56996608-56996627 | Msa0301200:intron | 20.0% |
| !! | ATGTTAGTATTGTTAGTATT+TGG | + | chr2_3:56996707-56996726 | Msa0301200:intron | 20.0% |
| !!! | TAATTTAATTTATCTGATGC+AGG | + | chr2_3:56996734-56996753 | Msa0301200:intron | 20.0% |
| !! | TTTCTATTCATATTCACATT+TGG | - | chr2_3:56996870-56996889 | None:intergenic | 20.0% |
| !!! | ATTAACTTGTGTCTTAATTA+AGG | + | chr2_3:56997276-56997295 | Msa0301200:three_prime_UTR | 20.0% |
| !! | GAAAAAAATAGAATTAGTGA+CGG | + | chr2_3:56996608-56996627 | Msa0301200:intron | 20.0% |
| !! | ATGTTAGTATTGTTAGTATT+TGG | + | chr2_3:56996707-56996726 | Msa0301200:intron | 20.0% |
| !!! | TAATTTAATTTATCTGATGC+AGG | + | chr2_3:56996734-56996753 | Msa0301200:intron | 20.0% |
| !! | TTTCTATTCATATTCACATT+TGG | - | chr2_3:56996870-56996889 | None:intergenic | 20.0% |
| !!! | ATTAACTTGTGTCTTAATTA+AGG | + | chr2_3:56997276-56997295 | Msa0301200:three_prime_UTR | 20.0% |
| !! | ATTTCTTCTTTTGCTTTCAA+TGG | - | chr2_3:56996465-56996484 | None:intergenic | 25.0% |
| ! | AAAGAAATTACAGATCAACT+TGG | + | chr2_3:56996800-56996819 | Msa0301200:CDS | 25.0% |
| ! | TATGAATAGAAACAAGAACA+TGG | + | chr2_3:56996878-56996897 | Msa0301200:CDS | 25.0% |
| ! | ATGAATAGAAACAAGAACAT+GGG | + | chr2_3:56996879-56996898 | Msa0301200:CDS | 25.0% |
| ! | TATTGTCAATGCAAGTTATA+AGG | + | chr2_3:56997028-56997047 | Msa0301200:CDS | 25.0% |
| ! | GTAACAATTTATGATTTACC+TGG | - | chr2_3:56997088-56997107 | None:intergenic | 25.0% |
| !! | ATTTCTTCTTTTGCTTTCAA+TGG | - | chr2_3:56996465-56996484 | None:intergenic | 25.0% |
| ! | AAAGAAATTACAGATCAACT+TGG | + | chr2_3:56996800-56996819 | Msa0301200:CDS | 25.0% |
| ! | TATGAATAGAAACAAGAACA+TGG | + | chr2_3:56996878-56996897 | Msa0301200:CDS | 25.0% |
| ! | ATGAATAGAAACAAGAACAT+GGG | + | chr2_3:56996879-56996898 | Msa0301200:CDS | 25.0% |
| ! | TATTGTCAATGCAAGTTATA+AGG | + | chr2_3:56997028-56997047 | Msa0301200:CDS | 25.0% |
| ! | GTAACAATTTATGATTTACC+TGG | - | chr2_3:56997088-56997107 | None:intergenic | 25.0% |
| !!! | GTCACTATGTTTTAAAACGA+CGG | + | chr2_3:56996684-56996703 | Msa0301200:intron | 30.0% |
| GAAAAGAAGAACTTTCTACT+AGG | + | chr2_3:56996834-56996853 | Msa0301200:CDS | 30.0% | |
| ACTTTCTACTAGGAATTCAA+AGG | + | chr2_3:56996844-56996863 | Msa0301200:CDS | 30.0% | |
| !! | ACAAATTGGTTTAGTCTTAG+AGG | + | chr2_3:56996929-56996948 | Msa0301200:CDS | 30.0% |
| TTAGAGGTTGTTCTAATAAC+TGG | + | chr2_3:56996945-56996964 | Msa0301200:CDS | 30.0% | |
| ACATGATCCGTTCATATTAA+AGG | - | chr2_3:56997118-56997137 | None:intergenic | 30.0% | |
| !! | TTCCTTAACTTGTGTTCTTA+AGG | - | chr2_3:56997150-56997169 | None:intergenic | 30.0% |
| !!! | GTCACTATGTTTTAAAACGA+CGG | + | chr2_3:56996684-56996703 | Msa0301200:intron | 30.0% |
| GAAAAGAAGAACTTTCTACT+AGG | + | chr2_3:56996834-56996853 | Msa0301200:CDS | 30.0% | |
| ACTTTCTACTAGGAATTCAA+AGG | + | chr2_3:56996844-56996863 | Msa0301200:CDS | 30.0% | |
| !! | ACAAATTGGTTTAGTCTTAG+AGG | + | chr2_3:56996929-56996948 | Msa0301200:CDS | 30.0% |
| TTAGAGGTTGTTCTAATAAC+TGG | + | chr2_3:56996945-56996964 | Msa0301200:CDS | 30.0% | |
| ACATGATCCGTTCATATTAA+AGG | - | chr2_3:56997118-56997137 | None:intergenic | 30.0% | |
| !! | TTCCTTAACTTGTGTTCTTA+AGG | - | chr2_3:56997150-56997169 | None:intergenic | 30.0% |
| TTGAGTATCTCCTGTTATTG+AGG | + | chr2_3:56996388-56996407 | Msa0301200:five_prime_UTR | 35.0% | |
| TGTCAACTCTTGATGAACTA+GGG | - | chr2_3:56996436-56996455 | None:intergenic | 35.0% | |
| CTAAGAGAAGAAGAGAGTAA+AGG | - | chr2_3:56996559-56996578 | None:intergenic | 35.0% | |
| GATCAACTTGGAGAAAATGA+AGG | + | chr2_3:56996812-56996831 | Msa0301200:CDS | 35.0% | |
| GGTTGTTCTAATAACTGGAT+TGG | + | chr2_3:56996950-56996969 | Msa0301200:CDS | 35.0% | |
| TGCCTTAAGAACACAAGTTA+AGG | + | chr2_3:56997145-56997164 | Msa0301200:three_prime_UTR | 35.0% | |
| TTGAGTATCTCCTGTTATTG+AGG | + | chr2_3:56996388-56996407 | Msa0301200:five_prime_UTR | 35.0% | |
| TGTCAACTCTTGATGAACTA+GGG | - | chr2_3:56996436-56996455 | None:intergenic | 35.0% | |
| CTAAGAGAAGAAGAGAGTAA+AGG | - | chr2_3:56996559-56996578 | None:intergenic | 35.0% | |
| GATCAACTTGGAGAAAATGA+AGG | + | chr2_3:56996812-56996831 | Msa0301200:CDS | 35.0% | |
| GGTTGTTCTAATAACTGGAT+TGG | + | chr2_3:56996950-56996969 | Msa0301200:CDS | 35.0% | |
| TGCCTTAAGAACACAAGTTA+AGG | + | chr2_3:56997145-56997164 | Msa0301200:three_prime_UTR | 35.0% | |
| GTATCTCCTGTTATTGAGGT+TGG | + | chr2_3:56996392-56996411 | Msa0301200:five_prime_UTR | 40.0% | |
| ACTGTTCCAACCTCAATAAC+AGG | - | chr2_3:56996401-56996420 | None:intergenic | 40.0% | |
| TATTGAGGTTGGAACAGTGA+TGG | + | chr2_3:56996403-56996422 | Msa0301200:exon | 40.0% | |
| CTGTCAACTCTTGATGAACT+AGG | - | chr2_3:56996437-56996456 | None:intergenic | 40.0% | |
| CTAGTTCATCAAGAGTTGAC+AGG | + | chr2_3:56996435-56996454 | Msa0301200:CDS | 40.0% | |
| TCTGCCTCATCAAACTTCTA+AGG | + | chr2_3:56996520-56996539 | Msa0301200:CDS | 40.0% | |
| GAGACCTTAGAAGTTTGATG+AGG | - | chr2_3:56996527-56996546 | None:intergenic | 40.0% | |
| CTTCTTCATGAAGAACACGA+AGG | - | chr2_3:56997001-56997020 | None:intergenic | 40.0% | |
| CTTCGTGTTCTTCATGAAGA+AGG | + | chr2_3:56996999-56997018 | Msa0301200:CDS | 40.0% | |
| TTTCCATTCAATACACTGCC+AGG | + | chr2_3:56997067-56997086 | Msa0301200:CDS | 40.0% | |
| TTACCTGGCAGTGTATTGAA+TGG | - | chr2_3:56997073-56997092 | None:intergenic | 40.0% | |
| GTATCTCCTGTTATTGAGGT+TGG | + | chr2_3:56996392-56996411 | Msa0301200:five_prime_UTR | 40.0% | |
| ACTGTTCCAACCTCAATAAC+AGG | - | chr2_3:56996401-56996420 | None:intergenic | 40.0% | |
| TATTGAGGTTGGAACAGTGA+TGG | + | chr2_3:56996403-56996422 | Msa0301200:exon | 40.0% | |
| CTGTCAACTCTTGATGAACT+AGG | - | chr2_3:56996437-56996456 | None:intergenic | 40.0% | |
| CTAGTTCATCAAGAGTTGAC+AGG | + | chr2_3:56996435-56996454 | Msa0301200:CDS | 40.0% | |
| TCTGCCTCATCAAACTTCTA+AGG | + | chr2_3:56996520-56996539 | Msa0301200:CDS | 40.0% | |
| GAGACCTTAGAAGTTTGATG+AGG | - | chr2_3:56996527-56996546 | None:intergenic | 40.0% | |
| CTTCTTCATGAAGAACACGA+AGG | - | chr2_3:56997001-56997020 | None:intergenic | 40.0% | |
| CTTCGTGTTCTTCATGAAGA+AGG | + | chr2_3:56996999-56997018 | Msa0301200:CDS | 40.0% | |
| TTTCCATTCAATACACTGCC+AGG | + | chr2_3:56997067-56997086 | Msa0301200:CDS | 40.0% | |
| TTACCTGGCAGTGTATTGAA+TGG | - | chr2_3:56997073-56997092 | None:intergenic | 40.0% | |
| ! | GAAATGAGTTGAGCTTGTGG+CGG | - | chr2_3:56996502-56996521 | None:intergenic | 45.0% |
| ! | GCAGAAATGAGTTGAGCTTG+TGG | - | chr2_3:56996505-56996524 | None:intergenic | 45.0% |
| ! | GAAATGAGTTGAGCTTGTGG+CGG | - | chr2_3:56996502-56996521 | None:intergenic | 45.0% |
| ! | GCAGAAATGAGTTGAGCTTG+TGG | - | chr2_3:56996505-56996524 | None:intergenic | 45.0% |
| TCTGATGCAGGCGATTTCAG+CGG | + | chr2_3:56996746-56996765 | Msa0301200:intron | 50.0% | |
| TCTGATGCAGGCGATTTCAG+CGG | + | chr2_3:56996746-56996765 | Msa0301200:intron | 50.0% | |
| TTCAGCGGCAGATCAGCTCG+AGG | + | chr2_3:56996761-56996780 | Msa0301200:CDS | 60.0% | |
| TTCAGCGGCAGATCAGCTCG+AGG | + | chr2_3:56996761-56996780 | Msa0301200:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 56996364 | 56997311 | 56996364 | ID=Msa0301200;Name=Msa0301200 |
| chr2_3 | mRNA | 56996364 | 56997311 | 56996364 | ID=Msa0301200-mRNA-1;Parent=Msa0301200;Name=Msa0301200-mRNA-1;_AED=0.01;_eAED=0.01;_QI=58|1|1|1|1|1|2|190|161 |
| chr2_3 | exon | 56996364 | 56996541 | 56996364 | ID=Msa0301200-mRNA-1:exon:18371;Parent=Msa0301200-mRNA-1 |
| chr2_3 | exon | 56996756 | 56997311 | 56996756 | ID=Msa0301200-mRNA-1:exon:18372;Parent=Msa0301200-mRNA-1 |
| chr2_3 | five_prime_UTR | 56996364 | 56996421 | 56996364 | ID=Msa0301200-mRNA-1:five_prime_utr;Parent=Msa0301200-mRNA-1 |
| chr2_3 | CDS | 56996422 | 56996541 | 56996422 | ID=Msa0301200-mRNA-1:cds;Parent=Msa0301200-mRNA-1 |
| chr2_3 | CDS | 56996756 | 56997121 | 56996756 | ID=Msa0301200-mRNA-1:cds;Parent=Msa0301200-mRNA-1 |
| chr2_3 | three_prime_UTR | 56997122 | 56997311 | 56997122 | ID=Msa0301200-mRNA-1:three_prime_utr;Parent=Msa0301200-mRNA-1 |
| Gene Sequence |
| Protein sequence |
