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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1405410 | XP_003590803.1 | 90.052 | 191 | 15 | 2 | 1 | 187 | 1 | 191 | 1.42e-120 | 348 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1405410 | sp|Q9SR34|TA1_ARATH | 83.871 | 31 | 5 | 0 | 18 | 48 | 33 | 63 | 1.70e-12 | 65.9 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1405410 | G7I4R8 | 90.052 | 191 | 15 | 2 | 1 | 187 | 1 | 191 | 6.80e-121 | 348 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1405410 | TF | C2H2 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1405410 | MtrunA17_Chr1g0187231 | 90.052 | 191 | 15 | 2 | 1 | 187 | 1 | 191 | 1.31e-124 | 348 |
| Msa1405410 | MtrunA17_Chr1g0168181 | 40.838 | 191 | 71 | 10 | 1 | 183 | 5 | 161 | 7.74e-24 | 92.4 |
| Msa1405410 | MtrunA17_Chr7g0239441 | 65.455 | 55 | 16 | 1 | 12 | 63 | 31 | 85 | 2.65e-17 | 74.7 |
| Msa1405410 | MtrunA17_Chr4g0032111 | 49.367 | 79 | 24 | 2 | 11 | 73 | 10 | 88 | 3.16e-16 | 72.8 |
| Msa1405410 | MtrunA17_Chr1g0184331 | 69.767 | 43 | 13 | 0 | 14 | 56 | 34 | 76 | 4.90e-15 | 68.6 |
| Msa1405410 | MtrunA17_Chr4g0009461 | 69.444 | 36 | 11 | 0 | 18 | 53 | 59 | 94 | 2.08e-12 | 64.3 |
| Msa1405410 | MtrunA17_Chr5g0400571 | 57.143 | 49 | 20 | 1 | 18 | 65 | 80 | 128 | 1.23e-11 | 61.6 |
| Msa1405410 | MtrunA17_Chr3g0112181 | 67.568 | 37 | 12 | 0 | 18 | 54 | 55 | 91 | 7.55e-11 | 59.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1405410 | AT5G43540.1 | 68.293 | 41 | 13 | 0 | 20 | 60 | 35 | 75 | 7.62e-15 | 68.6 |
| Msa1405410 | AT3G09290.1 | 83.871 | 31 | 5 | 0 | 18 | 48 | 33 | 63 | 1.73e-13 | 65.9 |
| Msa1405410 | AT3G53820.1 | 83.871 | 31 | 5 | 0 | 18 | 48 | 19 | 49 | 1.42e-12 | 62.4 |
| Msa1405410 | AT3G23140.1 | 55.102 | 49 | 21 | 1 | 1 | 48 | 1 | 49 | 7.31e-12 | 61.2 |
| Msa1405410 | AT5G06070.1 | 55.357 | 56 | 24 | 1 | 4 | 58 | 38 | 93 | 2.89e-11 | 60.5 |
| Msa1405410 | AT3G23130.1 | 68.571 | 35 | 11 | 0 | 18 | 52 | 45 | 79 | 4.67e-11 | 59.7 |
| Msa1405410 | AT2G37740.1 | 33.654 | 104 | 51 | 2 | 7 | 110 | 26 | 111 | 8.13e-11 | 60.1 |
Find 37 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAATTTCCAACATGGTAATT+TGG | 0.204844 | tig0023138:+18937 | None:intergenic |
| AATTCTTCTTCATCACAAAT+TGG | 0.256233 | tig0023138:-19099 | Msa1405410:CDS |
| TCAGAACAAAATTCCTTTGT+TGG | 0.304478 | tig0023138:-19030 | Msa1405410:CDS |
| ATTTGTGATGAAGAAGAATT+TGG | 0.304515 | tig0023138:+19102 | None:intergenic |
| GGAGGAAAATGAAGTGGATT+TGG | 0.333970 | tig0023138:-18755 | Msa1405410:CDS |
| TTCACAAATGCACAAGCTTT+AGG | 0.350501 | tig0023138:-19174 | Msa1405410:CDS |
| ATGGCAATGATCAAGGAAAA+AGG | 0.379483 | tig0023138:-19230 | Msa1405410:CDS |
| CCTGACTTGAGTCTTCAAAT+AGG | 0.388896 | tig0023138:-18835 | Msa1405410:CDS |
| GTTGGATATTCATATGATCT+TGG | 0.400343 | tig0023138:+18964 | None:intergenic |
| CTACACCAATGATGAAACTA+TGG | 0.411572 | tig0023138:-19067 | Msa1405410:CDS |
| CCTTAGCTCTATCTTTCCTA+TGG | 0.421858 | tig0023138:+19136 | None:intergenic |
| CTCTTGGTTCAAATGCCAAT+TGG | 0.423506 | tig0023138:+18867 | None:intergenic |
| TCATTTCCTCTACTAACTCT+TGG | 0.428045 | tig0023138:+18781 | None:intergenic |
| AAAGACCATAGTTTCATCAT+TGG | 0.428141 | tig0023138:+19062 | None:intergenic |
| GAATAACCATGCATATTTGA+AGG | 0.444582 | tig0023138:+18997 | None:intergenic |
| AGTCAGGATGTTGAAGCTCT+TGG | 0.457420 | tig0023138:+18851 | None:intergenic |
| ATGAATTATTCAAGTGAAGA+AGG | 0.471381 | tig0023138:-19258 | Msa1405410:CDS |
| AACCATGCATATTTGAAGGT+TGG | 0.490265 | tig0023138:+19001 | None:intergenic |
| ACATGGTAATTTGGTGCTGT+TGG | 0.496509 | tig0023138:+18946 | None:intergenic |
| AGTTAGTAGAGGAAATGATC+AGG | 0.498410 | tig0023138:-18776 | Msa1405410:CDS |
| GATATCAAGGACCATCCAAT+TGG | 0.511436 | tig0023138:-18882 | Msa1405410:CDS |
| TCAAGTGAAGAAGGTGATGA+TGG | 0.515818 | tig0023138:-19249 | Msa1405410:CDS |
| CCTATTTGAAGACTCAAGTC+AGG | 0.518186 | tig0023138:+18835 | None:intergenic |
| GGTGATGATGGCAATGATCA+AGG | 0.525173 | tig0023138:-19237 | Msa1405410:CDS |
| TATCAACCTTCAAATGTGCA+TGG | 0.548381 | tig0023138:-18916 | Msa1405410:CDS |
| GTGGATTTGGAGCTAAGACT+TGG | 0.559049 | tig0023138:-18742 | Msa1405410:CDS |
| TGATCAGGAGGAAAATGAAG+TGG | 0.559611 | tig0023138:-18761 | Msa1405410:CDS |
| TGGTTCAAATGCCAATTGGA+TGG | 0.560601 | tig0023138:+18871 | None:intergenic |
| TACCAACCTTCAAATATGCA+TGG | 0.566990 | tig0023138:-19003 | Msa1405410:CDS |
| TAGTAGAGGAAATGATCAGG+AGG | 0.576204 | tig0023138:-18773 | Msa1405410:CDS |
| ACAGCACCAAATTACCATGT+TGG | 0.599662 | tig0023138:-18943 | Msa1405410:CDS |
| AGGTTGGTAATTTCCAACAA+AGG | 0.601009 | tig0023138:+19017 | None:intergenic |
| GTGGTCACATGAATATCCAT+AGG | 0.605103 | tig0023138:-19152 | Msa1405410:CDS |
| AAGGTTGATAATTTCCAACA+TGG | 0.615290 | tig0023138:+18929 | None:intergenic |
| CCATAGGAAAGATAGAGCTA+AGG | 0.615552 | tig0023138:-19136 | Msa1405410:CDS |
| ACAAATGCACAAGCTTTAGG+TGG | 0.646984 | tig0023138:-19171 | Msa1405410:CDS |
| CATCATCCAAGAGTTAGTAG+AGG | 0.687241 | tig0023138:-18787 | Msa1405410:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ATGAATTATTCAAGTGAAGA+AGG | - | tig0023138:18717-18736 | Msa1405410:CDS | 25.0% |
| ! | ATTTGTGATGAAGAAGAATT+TGG | + | tig0023138:18876-18895 | None:intergenic | 25.0% |
| ! | AATTCTTCTTCATCACAAAT+TGG | - | tig0023138:18876-18895 | Msa1405410:CDS | 25.0% |
| ! | TAATTTCCAACATGGTAATT+TGG | + | tig0023138:19041-19060 | None:intergenic | 25.0% |
| AAAGACCATAGTTTCATCAT+TGG | + | tig0023138:18916-18935 | None:intergenic | 30.0% | |
| !!! | GAATTTTGTTCTGAAGCAAA+AGG | + | tig0023138:18939-18958 | None:intergenic | 30.0% |
| TCAGAACAAAATTCCTTTGT+TGG | - | tig0023138:18945-18964 | Msa1405410:CDS | 30.0% | |
| GAATAACCATGCATATTTGA+AGG | + | tig0023138:18981-19000 | None:intergenic | 30.0% | |
| GTTGGATATTCATATGATCT+TGG | + | tig0023138:19014-19033 | None:intergenic | 30.0% | |
| !! | AAGGTTGATAATTTCCAACA+TGG | + | tig0023138:19049-19068 | None:intergenic | 30.0% |
| ! | AATGTGCATGGTTTTTCTTA+TGG | - | tig0023138:19071-19090 | Msa1405410:CDS | 30.0% |
| ! | GGTTTTTCTTATGGATATCA+AGG | - | tig0023138:19080-19099 | Msa1405410:CDS | 30.0% |
| ATGGCAATGATCAAGGAAAA+AGG | - | tig0023138:18745-18764 | Msa1405410:CDS | 35.0% | |
| ! | GAATGCACATTTTGCAAAAG+AGG | - | tig0023138:18777-18796 | Msa1405410:CDS | 35.0% |
| TTCACAAATGCACAAGCTTT+AGG | - | tig0023138:18801-18820 | Msa1405410:CDS | 35.0% | |
| CTACACCAATGATGAAACTA+TGG | - | tig0023138:18908-18927 | Msa1405410:CDS | 35.0% | |
| !! | AGGTTGGTAATTTCCAACAA+AGG | + | tig0023138:18961-18980 | None:intergenic | 35.0% |
| TACCAACCTTCAAATATGCA+TGG | - | tig0023138:18972-18991 | Msa1405410:CDS | 35.0% | |
| AACCATGCATATTTGAAGGT+TGG | + | tig0023138:18977-18996 | None:intergenic | 35.0% | |
| TATCAACCTTCAAATGTGCA+TGG | - | tig0023138:19059-19078 | Msa1405410:CDS | 35.0% | |
| GAAAAACCATGCACATTTGA+AGG | + | tig0023138:19068-19087 | None:intergenic | 35.0% | |
| TCATTTCCTCTACTAACTCT+TGG | + | tig0023138:19197-19216 | None:intergenic | 35.0% | |
| AGTTAGTAGAGGAAATGATC+AGG | - | tig0023138:19199-19218 | Msa1405410:CDS | 35.0% | |
| TCAAGTGAAGAAGGTGATGA+TGG | - | tig0023138:18726-18745 | Msa1405410:CDS | 40.0% | |
| !! | ACAAATGCACAAGCTTTAGG+TGG | - | tig0023138:18804-18823 | Msa1405410:CDS | 40.0% |
| GTGGTCACATGAATATCCAT+AGG | - | tig0023138:18823-18842 | Msa1405410:CDS | 40.0% | |
| !! | CCTTAGCTCTATCTTTCCTA+TGG | + | tig0023138:18842-18861 | None:intergenic | 40.0% |
| CCATAGGAAAGATAGAGCTA+AGG | - | tig0023138:18839-18858 | Msa1405410:CDS | 40.0% | |
| !! | ACATGGTAATTTGGTGCTGT+TGG | + | tig0023138:19032-19051 | None:intergenic | 40.0% |
| ACAGCACCAAATTACCATGT+TGG | - | tig0023138:19032-19051 | Msa1405410:CDS | 40.0% | |
| GATATCAAGGACCATCCAAT+TGG | - | tig0023138:19093-19112 | Msa1405410:CDS | 40.0% | |
| TGGTTCAAATGCCAATTGGA+TGG | + | tig0023138:19107-19126 | None:intergenic | 40.0% | |
| CTCTTGGTTCAAATGCCAAT+TGG | + | tig0023138:19111-19130 | None:intergenic | 40.0% | |
| CCTATTTGAAGACTCAAGTC+AGG | + | tig0023138:19143-19162 | None:intergenic | 40.0% | |
| ! | CCTGACTTGAGTCTTCAAAT+AGG | - | tig0023138:19140-19159 | Msa1405410:CDS | 40.0% |
| CATCATCCAAGAGTTAGTAG+AGG | - | tig0023138:19188-19207 | Msa1405410:CDS | 40.0% | |
| TAGTAGAGGAAATGATCAGG+AGG | - | tig0023138:19202-19221 | Msa1405410:CDS | 40.0% | |
| TGATCAGGAGGAAAATGAAG+TGG | - | tig0023138:19214-19233 | Msa1405410:CDS | 40.0% | |
| ! | GGAGGAAAATGAAGTGGATT+TGG | - | tig0023138:19220-19239 | Msa1405410:CDS | 40.0% |
| !! | GGTGATGATGGCAATGATCA+AGG | - | tig0023138:18738-18757 | Msa1405410:CDS | 45.0% |
| AGTCAGGATGTTGAAGCTCT+TGG | + | tig0023138:19127-19146 | None:intergenic | 45.0% | |
| ! | GTGGATTTGGAGCTAAGACT+TGG | - | tig0023138:19233-19252 | Msa1405410:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0023138 | gene | 18717 | 19280 | 18717 | ID=Msa1405410;Name=Msa1405410 |
| tig0023138 | mRNA | 18717 | 19280 | 18717 | ID=Msa1405410-mRNA-1;Parent=Msa1405410;Name=Msa1405410-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|187 |
| tig0023138 | exon | 18717 | 19280 | 18717 | ID=Msa1405410-mRNA-1:exon:24127;Parent=Msa1405410-mRNA-1 |
| tig0023138 | CDS | 18717 | 19280 | 18717 | ID=Msa1405410-mRNA-1:cds;Parent=Msa1405410-mRNA-1 |
| Gene Sequence |
| Protein sequence |
