Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene004814.t1 | XP_003590803.1 | 84.8 | 191 | 25 | 2 | 1 | 187 | 1 | 191 | 1.60E-64 | 255.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene004814.t1 | Q9SR34 | 64.4 | 45 | 15 | 1 | 4 | 48 | 20 | 63 | 3.1e-08 | 60.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene004814.t1 | G7I4R8 | 84.8 | 191 | 25 | 2 | 1 | 187 | 1 | 191 | 1.2e-64 | 255.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene004814.t1 | TF | C2H2 |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene004814.t1 | MTR_1g075430 | 89.005 | 191 | 17 | 2 | 1 | 187 | 1 | 191 | 2.66e-123 | 346 |
| MS.gene004814.t1 | MTR_1g044225 | 40.314 | 191 | 72 | 10 | 1 | 183 | 5 | 161 | 1.32e-23 | 92.0 |
| MS.gene004814.t1 | MTR_7g063220 | 65.455 | 55 | 16 | 1 | 12 | 63 | 18 | 72 | 2.94e-17 | 74.7 |
| MS.gene004814.t1 | MTR_4g064873 | 49.367 | 79 | 24 | 2 | 11 | 73 | 10 | 88 | 5.23e-16 | 72.4 |
| MS.gene004814.t1 | MTR_1g070250 | 78.947 | 38 | 8 | 0 | 14 | 51 | 34 | 71 | 1.55e-14 | 68.9 |
| MS.gene004814.t1 | MTR_4g021270 | 69.444 | 36 | 11 | 0 | 18 | 53 | 59 | 94 | 3.95e-12 | 63.9 |
| MS.gene004814.t1 | MTR_5g014400 | 52.727 | 55 | 25 | 1 | 12 | 65 | 74 | 128 | 1.74e-11 | 61.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene004814.t1 | AT5G43540 | 68.293 | 41 | 13 | 0 | 20 | 60 | 35 | 75 | 9.09e-15 | 68.2 |
| MS.gene004814.t1 | AT3G09290 | 32.927 | 164 | 78 | 6 | 18 | 181 | 33 | 164 | 1.39e-13 | 65.9 |
| MS.gene004814.t1 | AT3G53820 | 83.871 | 31 | 5 | 0 | 18 | 48 | 19 | 49 | 1.56e-12 | 62.4 |
| MS.gene004814.t1 | AT3G23140 | 55.102 | 49 | 21 | 1 | 1 | 48 | 1 | 49 | 8.79e-12 | 61.2 |
| MS.gene004814.t1 | AT5G06070 | 41.667 | 84 | 32 | 2 | 4 | 70 | 38 | 121 | 2.64e-11 | 60.8 |
| MS.gene004814.t1 | AT2G37740 | 50.000 | 58 | 23 | 1 | 7 | 58 | 26 | 83 | 8.59e-11 | 60.1 |
Find 36 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAATTTCCATCATGGTAATT+TGG | 0.204844 | 1.4:-61742568 | None:intergenic |
| AATTCTTCTTCATCACAAAT+TGG | 0.256233 | 1.4:+61742406 | MS.gene004814:CDS |
| TCAGAACAAAATTCCTTTGT+TGG | 0.304478 | 1.4:+61742475 | MS.gene004814:CDS |
| ATTTGTGATGAAGAAGAATT+TGG | 0.304515 | 1.4:-61742403 | None:intergenic |
| GGAGGAAAATGAAGTGGATT+TGG | 0.333970 | 1.4:+61742750 | MS.gene004814:CDS |
| TTCACAAATGCACAAGCTTT+AGG | 0.350501 | 1.4:+61742331 | MS.gene004814:CDS |
| TCATTTCCTCTCCTAACTCT+TGG | 0.379355 | 1.4:-61742724 | None:intergenic |
| ATGGCAATGATCAAGGAAAA+AGG | 0.379483 | 1.4:+61742275 | MS.gene004814:CDS |
| CCTGACTTGAGTCTTCAAAT+AGG | 0.388896 | 1.4:+61742670 | MS.gene004814:CDS |
| GTTGGATATTCATATGATCT+TGG | 0.400343 | 1.4:-61742541 | None:intergenic |
| CTACACCAATGATGAAACTA+TGG | 0.411572 | 1.4:+61742438 | MS.gene004814:CDS |
| CTCTTCGTTCAAATGCCAAT+TGG | 0.419431 | 1.4:-61742638 | None:intergenic |
| CCTTAGCTCTATCTTTCCTA+TGG | 0.421858 | 1.4:-61742369 | None:intergenic |
| AAAGACCATAGTTTCATCAT+TGG | 0.428141 | 1.4:-61742443 | None:intergenic |
| ATACACATCATCCAAGAGTT+AGG | 0.432854 | 1.4:+61742713 | MS.gene004814:CDS |
| AGTTAGGAGAGGAAATGATC+AGG | 0.437027 | 1.4:+61742729 | MS.gene004814:CDS |
| AAGGTTGATAATTTCCATCA+TGG | 0.454012 | 1.4:-61742576 | None:intergenic |
| ATGAATTATTCAAGTGAAGA+AGG | 0.471381 | 1.4:+61742247 | MS.gene004814:CDS |
| AACCATGCATATTTGAAGGT+TGG | 0.483445 | 1.4:-61742504 | None:intergenic |
| TCATGGTAATTTGGTGCTGT+TGG | 0.490969 | 1.4:-61742559 | None:intergenic |
| GATATCAAGGACCATCCAAT+TGG | 0.511436 | 1.4:+61742623 | MS.gene004814:CDS |
| TCAAGTGAAGAAGGTGATGA+TGG | 0.515818 | 1.4:+61742256 | MS.gene004814:CDS |
| CCTATTTGAAGACTCAAGTC+AGG | 0.518186 | 1.4:-61742670 | None:intergenic |
| GGTGATGATGGCAATGATCA+AGG | 0.525173 | 1.4:+61742268 | MS.gene004814:CDS |
| TACCAACCTTCAAATATGCA+TGG | 0.537973 | 1.4:+61742502 | MS.gene004814:CDS |
| TATCAACCTTCAAATGTGCA+TGG | 0.548381 | 1.4:+61742589 | MS.gene004814:CDS |
| TAGGAGAGGAAATGATCAGG+AGG | 0.549853 | 1.4:+61742732 | MS.gene004814:CDS |
| GTGGATTTGGAGCTAAGACT+TGG | 0.559049 | 1.4:+61742763 | MS.gene004814:CDS |
| TGATCAGGAGGAAAATGAAG+TGG | 0.559611 | 1.4:+61742744 | MS.gene004814:CDS |
| TCGTTCAAATGCCAATTGGA+TGG | 0.566017 | 1.4:-61742634 | None:intergenic |
| ACAGCACCAAATTACCATGA+TGG | 0.583217 | 1.4:+61742562 | MS.gene004814:CDS |
| AGGTTGGTAATTTCCAACAA+AGG | 0.601009 | 1.4:-61742488 | None:intergenic |
| GTGGTCACATGAATATCCAT+AGG | 0.605103 | 1.4:+61742353 | MS.gene004814:CDS |
| CCATAGGAAAGATAGAGCTA+AGG | 0.615552 | 1.4:+61742369 | MS.gene004814:CDS |
| ACAAATGCACAAGCTTTAGG+TGG | 0.646984 | 1.4:+61742334 | MS.gene004814:CDS |
| CATCATCCAAGAGTTAGGAG+AGG | 0.700340 | 1.4:+61742718 | MS.gene004814:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AATTCTTCTTCATCACAAAT+TGG | + | chr1.4:61742406-61742425 | MS.gene004814:CDS | 25.0% |
| ! | ATGAATTATTCAAGTGAAGA+AGG | + | chr1.4:61742247-61742266 | MS.gene004814:CDS | 25.0% |
| ! | ATTTGTGATGAAGAAGAATT+TGG | - | chr1.4:61742406-61742425 | None:intergenic | 25.0% |
| ! | TAATTTCCATCATGGTAATT+TGG | - | chr1.4:61742571-61742590 | None:intergenic | 25.0% |
| AAAGACCATAGTTTCATCAT+TGG | - | chr1.4:61742446-61742465 | None:intergenic | 30.0% | |
| GAAAAACCATGCATATTTGA+AGG | - | chr1.4:61742511-61742530 | None:intergenic | 30.0% | |
| GTTGGATATTCATATGATCT+TGG | - | chr1.4:61742544-61742563 | None:intergenic | 30.0% | |
| TCAGAACAAAATTCCTTTGT+TGG | + | chr1.4:61742475-61742494 | MS.gene004814:CDS | 30.0% | |
| ! | AATGTGCATGGTTTTTCTTA+TGG | + | chr1.4:61742601-61742620 | MS.gene004814:CDS | 30.0% |
| ! | GGTTTTTCTTATGGATATCA+AGG | + | chr1.4:61742610-61742629 | MS.gene004814:CDS | 30.0% |
| !! | AAGGTTGATAATTTCCATCA+TGG | - | chr1.4:61742579-61742598 | None:intergenic | 30.0% |
| !!! | GAATTTTGTTCTGAAGCAAA+AGG | - | chr1.4:61742469-61742488 | None:intergenic | 30.0% |
| AACCATGCATATTTGAAGGT+TGG | - | chr1.4:61742507-61742526 | None:intergenic | 35.0% | |
| ATACACATCATCCAAGAGTT+AGG | + | chr1.4:61742713-61742732 | MS.gene004814:CDS | 35.0% | |
| ATGGCAATGATCAAGGAAAA+AGG | + | chr1.4:61742275-61742294 | MS.gene004814:CDS | 35.0% | |
| CTACACCAATGATGAAACTA+TGG | + | chr1.4:61742438-61742457 | MS.gene004814:CDS | 35.0% | |
| GAAAAACCATGCACATTTGA+AGG | - | chr1.4:61742598-61742617 | None:intergenic | 35.0% | |
| TACCAACCTTCAAATATGCA+TGG | + | chr1.4:61742502-61742521 | MS.gene004814:CDS | 35.0% | |
| TATCAACCTTCAAATGTGCA+TGG | + | chr1.4:61742589-61742608 | MS.gene004814:CDS | 35.0% | |
| TTCACAAATGCACAAGCTTT+AGG | + | chr1.4:61742331-61742350 | MS.gene004814:CDS | 35.0% | |
| ! | GAATGCACATTTTGCAAAAG+AGG | + | chr1.4:61742307-61742326 | MS.gene004814:CDS | 35.0% |
| !! | AGGTTGGTAATTTCCAACAA+AGG | - | chr1.4:61742491-61742510 | None:intergenic | 35.0% |
| ACAGCACCAAATTACCATGA+TGG | + | chr1.4:61742562-61742581 | MS.gene004814:CDS | 40.0% | |
| AGTTAGGAGAGGAAATGATC+AGG | + | chr1.4:61742729-61742748 | MS.gene004814:CDS | 40.0% | |
| CCATAGGAAAGATAGAGCTA+AGG | + | chr1.4:61742369-61742388 | MS.gene004814:CDS | 40.0% | |
| CCTATTTGAAGACTCAAGTC+AGG | - | chr1.4:61742673-61742692 | None:intergenic | 40.0% | |
| CTCTTCGTTCAAATGCCAAT+TGG | - | chr1.4:61742641-61742660 | None:intergenic | 40.0% | |
| GATATCAAGGACCATCCAAT+TGG | + | chr1.4:61742623-61742642 | MS.gene004814:CDS | 40.0% | |
| GTGGTCACATGAATATCCAT+AGG | + | chr1.4:61742353-61742372 | MS.gene004814:CDS | 40.0% | |
| TCAAGTGAAGAAGGTGATGA+TGG | + | chr1.4:61742256-61742275 | MS.gene004814:CDS | 40.0% | |
| TCATTTCCTCTCCTAACTCT+TGG | - | chr1.4:61742727-61742746 | None:intergenic | 40.0% | |
| TCGTTCAAATGCCAATTGGA+TGG | - | chr1.4:61742637-61742656 | None:intergenic | 40.0% | |
| TGATCAGGAGGAAAATGAAG+TGG | + | chr1.4:61742744-61742763 | MS.gene004814:CDS | 40.0% | |
| ! | CCTGACTTGAGTCTTCAAAT+AGG | + | chr1.4:61742670-61742689 | MS.gene004814:CDS | 40.0% |
| ! | GGAGGAAAATGAAGTGGATT+TGG | + | chr1.4:61742750-61742769 | MS.gene004814:CDS | 40.0% |
| !! | ACAAATGCACAAGCTTTAGG+TGG | + | chr1.4:61742334-61742353 | MS.gene004814:CDS | 40.0% |
| !! | CCTTAGCTCTATCTTTCCTA+TGG | - | chr1.4:61742372-61742391 | None:intergenic | 40.0% |
| !! | TCATGGTAATTTGGTGCTGT+TGG | - | chr1.4:61742562-61742581 | None:intergenic | 40.0% |
| CATCATCCAAGAGTTAGGAG+AGG | + | chr1.4:61742718-61742737 | MS.gene004814:CDS | 45.0% | |
| TAGGAGAGGAAATGATCAGG+AGG | + | chr1.4:61742732-61742751 | MS.gene004814:CDS | 45.0% | |
| ! | GTGGATTTGGAGCTAAGACT+TGG | + | chr1.4:61742763-61742782 | MS.gene004814:CDS | 45.0% |
| !! | GGTGATGATGGCAATGATCA+AGG | + | chr1.4:61742268-61742287 | MS.gene004814:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 61742247 | 61742810 | 61742247 | ID=MS.gene004814 |
| chr1.4 | mRNA | 61742247 | 61742810 | 61742247 | ID=MS.gene004814.t1;Parent=MS.gene004814 |
| chr1.4 | exon | 61742247 | 61742810 | 61742247 | ID=MS.gene004814.t1.exon1;Parent=MS.gene004814.t1 |
| chr1.4 | CDS | 61742247 | 61742810 | 61742247 | ID=cds.MS.gene004814.t1;Parent=MS.gene004814.t1 |
| Gene Sequence |
| Protein sequence |
