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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0346890 | XP_003598034.1 | 95.333 | 150 | 7 | 0 | 1 | 150 | 1 | 150 | 4.87e-86 | 258 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0346890 | sp|P56331|IF1A_ONOVI | 80.795 | 151 | 22 | 3 | 1 | 150 | 1 | 145 | 4.84e-78 | 231 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0346890 | G7IYF3 | 95.333 | 150 | 7 | 0 | 1 | 150 | 1 | 150 | 2.33e-86 | 258 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0015090 | Msa0346890 | 0.804279 | 2.331393e-49 | -8.615850e-47 |
| Msa0037880 | Msa0346890 | 0.801434 | 9.020361e-49 | -8.615850e-47 |
| Msa0043980 | Msa0346890 | 0.806880 | 6.635549e-50 | -8.615850e-47 |
| Msa0049750 | Msa0346890 | 0.807426 | 5.083148e-50 | -8.615850e-47 |
| Msa0051210 | Msa0346890 | 0.803388 | 3.570451e-49 | -8.615850e-47 |
| Msa0051450 | Msa0346890 | 0.801145 | 1.033759e-48 | -8.615850e-47 |
| Msa0101830 | Msa0346890 | 0.801250 | 9.836974e-49 | -8.615850e-47 |
| Msa0104800 | Msa0346890 | 0.806685 | 7.294239e-50 | -8.615850e-47 |
| Msa0153830 | Msa0346890 | 0.813791 | 2.139897e-51 | -8.615850e-47 |
| Msa0196670 | Msa0346890 | 0.800916 | 1.151216e-48 | -8.615850e-47 |
| Msa0206010 | Msa0346890 | 0.813884 | 2.041928e-51 | -8.615850e-47 |
| Msa0319170 | Msa0346890 | 0.809766 | 1.608392e-50 | -8.615850e-47 |
| Msa0326110 | Msa0346890 | 0.810920 | 9.068105e-51 | -8.615850e-47 |
| Msa0346890 | Msa0376910 | 0.839225 | 1.799661e-57 | -8.615850e-47 |
| Msa0346890 | Msa0392280 | 0.945778 | 1.611241e-104 | -8.615850e-47 |
| Msa0346890 | Msa0412840 | 0.803532 | 3.333466e-49 | -8.615850e-47 |
| Msa0346890 | Msa0438040 | 0.800283 | 1.550144e-48 | -8.615850e-47 |
| Msa0346890 | Msa0471900 | 0.834044 | 3.762800e-56 | -8.615850e-47 |
| Msa0346890 | Msa0487710 | 0.953038 | 6.593731e-111 | -8.615850e-47 |
| Msa0346890 | Msa0731180 | 0.807235 | 5.580738e-50 | -8.615850e-47 |
| Msa0346890 | Msa0771580 | 0.803958 | 2.718917e-49 | -8.615850e-47 |
| Msa0346890 | Msa0820850 | 0.813581 | 2.380386e-51 | -8.615850e-47 |
| Msa0346890 | Msa0861130 | 0.817476 | 3.233741e-52 | -8.615850e-47 |
| Msa0346890 | Msa0872440 | 0.815189 | 1.050208e-51 | -8.615850e-47 |
| Msa0346890 | Msa0905730 | 0.806822 | 6.824982e-50 | -8.615850e-47 |
| Msa0346890 | Msa0915610 | 0.808358 | 3.220621e-50 | -8.615850e-47 |
| Msa0346890 | Msa0960390 | 0.800914 | 1.152730e-48 | -8.615850e-47 |
| Msa0346890 | Msa1008400 | 0.814063 | 1.863916e-51 | -8.615850e-47 |
| Msa0346890 | Msa1013070 | 0.810889 | 9.207245e-51 | -8.615850e-47 |
| Msa0346890 | Msa1094280 | 0.811454 | 6.946490e-51 | -8.615850e-47 |
| Msa0346890 | Msa1098900 | 0.800476 | 1.415890e-48 | -8.615850e-47 |
| Msa0346890 | Msa1150900 | 0.817282 | 3.575869e-52 | -8.615850e-47 |
| Msa0346890 | Msa1270660 | 0.821577 | 3.750366e-53 | -8.615850e-47 |
| Msa0346890 | Msa1270730 | 0.832236 | 1.060771e-55 | -8.615850e-47 |
| Msa0346890 | Msa1323290 | 0.800032 | 1.742819e-48 | -8.615850e-47 |
| Msa0346890 | Msa1335230 | 0.835866 | 1.307175e-56 | -8.615850e-47 |
| Msa0346890 | Msa1377080 | 0.805742 | 1.152625e-49 | -8.615850e-47 |
| Msa0346890 | Msa1397120 | 0.829311 | 5.524943e-55 | -8.615850e-47 |
| Msa0346890 | Msa1403890 | 0.839096 | 1.943212e-57 | -8.615850e-47 |
| Msa0346890 | Msa1407600 | 0.803671 | 3.118541e-49 | -8.615850e-47 |
| Msa0346890 | Msa1423820 | 0.823921 | 1.067726e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0346890 | MtrunA17_Chr3g0077491 | 95.333 | 150 | 7 | 0 | 1 | 150 | 1 | 150 | 4.48e-90 | 258 |
| Msa0346890 | MtrunA17_Chr8g0347791 | 84.000 | 150 | 20 | 1 | 1 | 150 | 1 | 146 | 1.39e-74 | 219 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0346890 | AT2G04520.1 | 82.000 | 150 | 22 | 2 | 1 | 150 | 1 | 145 | 3.70e-77 | 226 |
| Msa0346890 | AT5G35680.1 | 80.000 | 150 | 25 | 2 | 1 | 150 | 1 | 145 | 2.86e-71 | 211 |
| Msa0346890 | AT5G35680.2 | 80.000 | 150 | 25 | 2 | 1 | 150 | 1 | 145 | 2.86e-71 | 211 |
| Msa0346890 | AT5G35680.3 | 86.179 | 123 | 13 | 1 | 1 | 123 | 1 | 119 | 1.65e-69 | 207 |
Find 35 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTTGGATTACGTGATTATC+AGG | 0.304283 | 3_1:-7760826 | Msa0346890:CDS |
| ACGAGCTTCCGGAATCTATT+AGG | 0.305997 | 3_1:-7760740 | Msa0346890:CDS |
| AACGGAGATATCATTCTTGT+TGG | 0.394753 | 3_1:-7760843 | Msa0346890:CDS |
| GAAGGCTTATGACGAGCTTC+CGG | 0.397993 | 3_1:-7760751 | Msa0346890:CDS |
| TTGAGGATGAGGATATTGAT+AGG | 0.400368 | 3_1:-7760647 | Msa0346890:CDS |
| GTAAGATGCATAAGAAGGTT+TGG | 0.408295 | 3_1:-7760872 | Msa0346890:CDS |
| AGGCTTAATGAAGGGATTGC+TGG | 0.437830 | 3_1:-7760720 | Msa0346890:CDS |
| GCGTCCGTTTCCGAGCATAT+TGG | 0.444772 | 3_1:+7760956 | None:intergenic |
| TCATTAAGCCTAATAGATTC+CGG | 0.444954 | 3_1:+7760732 | None:intergenic |
| TTCAACAATCTCGCCTCATC+CGG | 0.480596 | 3_1:+7760771 | None:intergenic |
| ATGCCGAAGAACAAGGGAAA+AGG | 0.492369 | 3_1:-7761071 | Msa0346890:CDS |
| GCTCGGAAACGGACGCTTGG+AGG | 0.497540 | 3_1:-7760949 | Msa0346890:CDS |
| TGAAGGGATTGCTGGTGGGA+TGG | 0.507121 | 3_1:-7760712 | Msa0346890:CDS |
| ACGTGATTATCAGGATGATA+AGG | 0.510200 | 3_1:-7760817 | Msa0346890:CDS |
| TATGCTCGGAAACGGACGCT+TGG | 0.513890 | 3_1:-7760952 | Msa0346890:CDS |
| GGATGAGGCGAGATTGTTGA+AGG | 0.519335 | 3_1:-7760769 | Msa0346890:CDS |
| GAATCTATTAGGCTTAATGA+AGG | 0.530788 | 3_1:-7760729 | Msa0346890:CDS |
| ATCAACCATGCCGAAGAACA+AGG | 0.554015 | 3_1:-7761078 | None:intergenic |
| ATTGAAATATATGCCGGATG+AGG | 0.555641 | 3_1:-7760784 | Msa0346890:CDS |
| GTAACCAATATGCTCGGAAA+CGG | 0.559215 | 3_1:-7760960 | Msa0346890:CDS |
| CCGCGGTAAGATGCATAAGA+AGG | 0.576217 | 3_1:-7760877 | Msa0346890:CDS |
| AAGAAGGTTTGGATTGCTAA+CGG | 0.592201 | 3_1:-7760861 | Msa0346890:CDS |
| CCGAAGAACAAGGGAAAAGG+AGG | 0.596700 | 3_1:-7761068 | Msa0346890:CDS |
| CTTAATGAAGGGATTGCTGG+TGG | 0.602290 | 3_1:-7760717 | Msa0346890:CDS |
| AATCTATTAGGCTTAATGAA+GGG | 0.608999 | 3_1:-7760728 | Msa0346890:CDS |
| ATGGATGATCATGATGATGA+TGG | 0.612732 | 3_1:-7760693 | Msa0346890:CDS |
| TGTCATATTGAAATATATGC+CGG | 0.619355 | 3_1:-7760790 | Msa0346890:CDS |
| TCAACCATGCCGAAGAACAA+GGG | 0.623500 | 3_1:-7761077 | None:intergenic |
| GGAGGAAAGAATCGAAAGCG+AGG | 0.627611 | 3_1:-7761050 | Msa0346890:CDS |
| CCTTCTTATGCATCTTACCG+CGG | 0.648150 | 3_1:+7760877 | None:intergenic |
| GAACTCATCTTCAAAGAAGA+CGG | 0.648957 | 3_1:-7760999 | Msa0346890:CDS |
| GCACAGGTAACCAATATGCT+CGG | 0.649194 | 3_1:-7760966 | Msa0346890:CDS |
| TTAATGAAGGGATTGCTGGT+GGG | 0.657015 | 3_1:-7760716 | Msa0346890:CDS |
| AGACGGTCAAGAATACGCAC+AGG | 0.669279 | 3_1:-7760982 | Msa0346890:CDS |
| AAACGTCTCTGTCATATCCG+CGG | 0.693679 | 3_1:-7760894 | Msa0346890:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAATGATTATGTTCATTTTG+AGG | - | chr3_1:7761048-7761067 | Msa0346890:CDS | 20.0% |
| ! | TGTCATATTGAAATATATGC+CGG | - | chr3_1:7760922-7760941 | Msa0346890:CDS | 25.0% |
| ! | AATCTATTAGGCTTAATGAA+GGG | - | chr3_1:7760984-7761003 | Msa0346890:CDS | 25.0% |
| TCATTAAGCCTAATAGATTC+CGG | + | chr3_1:7760983-7761002 | None:intergenic | 30.0% | |
| GAATCTATTAGGCTTAATGA+AGG | - | chr3_1:7760983-7761002 | Msa0346890:CDS | 30.0% | |
| !! | TTATGTTCATTTTGAGGATG+AGG | - | chr3_1:7761054-7761073 | Msa0346890:CDS | 30.0% |
| GAACTCATCTTCAAAGAAGA+CGG | - | chr3_1:7760713-7760732 | Msa0346890:CDS | 35.0% | |
| GTAAGATGCATAAGAAGGTT+TGG | - | chr3_1:7760840-7760859 | Msa0346890:CDS | 35.0% | |
| AAGAAGGTTTGGATTGCTAA+CGG | - | chr3_1:7760851-7760870 | Msa0346890:CDS | 35.0% | |
| AACGGAGATATCATTCTTGT+TGG | - | chr3_1:7760869-7760888 | Msa0346890:CDS | 35.0% | |
| TGTTGGATTACGTGATTATC+AGG | - | chr3_1:7760886-7760905 | Msa0346890:CDS | 35.0% | |
| ACGTGATTATCAGGATGATA+AGG | - | chr3_1:7760895-7760914 | Msa0346890:CDS | 35.0% | |
| ATTGAAATATATGCCGGATG+AGG | - | chr3_1:7760928-7760947 | Msa0346890:CDS | 35.0% | |
| ! | ATGGATGATCATGATGATGA+TGG | - | chr3_1:7761019-7761038 | Msa0346890:CDS | 35.0% |
| TTGAGGATGAGGATATTGAT+AGG | - | chr3_1:7761065-7761084 | Msa0346890:CDS | 35.0% | |
| GTAACCAATATGCTCGGAAA+CGG | - | chr3_1:7760752-7760771 | Msa0346890:CDS | 40.0% | |
| TTAATGAAGGGATTGCTGGT+GGG | - | chr3_1:7760996-7761015 | Msa0346890:CDS | 40.0% | |
| ATGCCGAAGAACAAGGGAAA+AGG | - | chr3_1:7760641-7760660 | Msa0346890:CDS | 45.0% | |
| ! | CCTCCTTTTCCCTTGTTCTT+CGG | + | chr3_1:7760647-7760666 | None:intergenic | 45.0% |
| GCACAGGTAACCAATATGCT+CGG | - | chr3_1:7760746-7760765 | Msa0346890:CDS | 45.0% | |
| AAACGTCTCTGTCATATCCG+CGG | - | chr3_1:7760818-7760837 | Msa0346890:CDS | 45.0% | |
| CCTTCTTATGCATCTTACCG+CGG | + | chr3_1:7760838-7760857 | None:intergenic | 45.0% | |
| TTCAACAATCTCGCCTCATC+CGG | + | chr3_1:7760944-7760963 | None:intergenic | 45.0% | |
| ACGAGCTTCCGGAATCTATT+AGG | - | chr3_1:7760972-7760991 | Msa0346890:CDS | 45.0% | |
| AGGCTTAATGAAGGGATTGC+TGG | - | chr3_1:7760992-7761011 | Msa0346890:CDS | 45.0% | |
| CTTAATGAAGGGATTGCTGG+TGG | - | chr3_1:7760995-7761014 | Msa0346890:CDS | 45.0% | |
| CCGAAGAACAAGGGAAAAGG+AGG | - | chr3_1:7760644-7760663 | Msa0346890:CDS | 50.0% | |
| GGAGGAAAGAATCGAAAGCG+AGG | - | chr3_1:7760662-7760681 | Msa0346890:CDS | 50.0% | |
| AGACGGTCAAGAATACGCAC+AGG | - | chr3_1:7760730-7760749 | Msa0346890:CDS | 50.0% | |
| CCGCGGTAAGATGCATAAGA+AGG | - | chr3_1:7760835-7760854 | Msa0346890:CDS | 50.0% | |
| GGATGAGGCGAGATTGTTGA+AGG | - | chr3_1:7760943-7760962 | Msa0346890:CDS | 50.0% | |
| GAAGGCTTATGACGAGCTTC+CGG | - | chr3_1:7760961-7760980 | Msa0346890:CDS | 50.0% | |
| GCGTCCGTTTCCGAGCATAT+TGG | + | chr3_1:7760759-7760778 | None:intergenic | 55.0% | |
| TATGCTCGGAAACGGACGCT+TGG | - | chr3_1:7760760-7760779 | Msa0346890:CDS | 55.0% | |
| TGAAGGGATTGCTGGTGGGA+TGG | - | chr3_1:7761000-7761019 | Msa0346890:CDS | 55.0% | |
| GCTCGGAAACGGACGCTTGG+AGG | - | chr3_1:7760763-7760782 | Msa0346890:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 7760641 | 7761093 | 7760641 | ID=Msa0346890;Name=Msa0346890 |
| chr3_1 | mRNA | 7760641 | 7761093 | 7760641 | ID=Msa0346890-mRNA-1;Parent=Msa0346890;Name=Msa0346890-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|150 |
| chr3_1 | exon | 7760641 | 7761093 | 7760641 | ID=Msa0346890-mRNA-1:exon:2163;Parent=Msa0346890-mRNA-1 |
| chr3_1 | CDS | 7760641 | 7761093 | 7760641 | ID=Msa0346890-mRNA-1:cds;Parent=Msa0346890-mRNA-1 |
| Gene Sequence |
| Protein sequence |
