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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0528980 | XP_003590803.1 | 90.052 | 191 | 15 | 2 | 1 | 187 | 1 | 191 | 2.57e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0528980 | sp|Q9SR34|TA1_ARATH | 83.871 | 31 | 5 | 0 | 18 | 48 | 33 | 63 | 1.77e-12 | 65.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0528980 | G7I4R8 | 90.052 | 191 | 15 | 2 | 1 | 187 | 1 | 191 | 1.23e-120 | 348 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0528980 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0528980 | MtrunA17_Chr1g0187231 | 90.052 | 191 | 15 | 2 | 1 | 187 | 1 | 191 | 2.37e-124 | 348 |
| Msa0528980 | MtrunA17_Chr1g0168181 | 41.146 | 192 | 69 | 11 | 1 | 183 | 5 | 161 | 5.32e-24 | 92.8 |
| Msa0528980 | MtrunA17_Chr7g0239441 | 75.610 | 41 | 10 | 0 | 12 | 52 | 31 | 71 | 7.62e-17 | 73.6 |
| Msa0528980 | MtrunA17_Chr4g0032111 | 58.730 | 63 | 19 | 2 | 11 | 69 | 10 | 69 | 2.54e-16 | 72.8 |
| Msa0528980 | MtrunA17_Chr1g0184331 | 69.767 | 43 | 13 | 0 | 14 | 56 | 34 | 76 | 5.00e-15 | 68.6 |
| Msa0528980 | MtrunA17_Chr4g0009461 | 69.444 | 36 | 11 | 0 | 18 | 53 | 59 | 94 | 2.39e-12 | 63.9 |
| Msa0528980 | MtrunA17_Chr5g0400571 | 52.727 | 55 | 25 | 1 | 12 | 65 | 74 | 128 | 9.18e-12 | 62.0 |
| Msa0528980 | MtrunA17_Chr3g0112181 | 67.568 | 37 | 12 | 0 | 18 | 54 | 55 | 91 | 7.78e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0528980 | AT5G43540.1 | 68.293 | 41 | 13 | 0 | 20 | 60 | 35 | 75 | 8.56e-15 | 68.2 |
| Msa0528980 | AT3G09290.1 | 83.871 | 31 | 5 | 0 | 18 | 48 | 33 | 63 | 1.80e-13 | 65.5 |
| Msa0528980 | AT3G53820.1 | 83.871 | 31 | 5 | 0 | 18 | 48 | 19 | 49 | 1.30e-12 | 62.8 |
| Msa0528980 | AT3G23140.1 | 55.102 | 49 | 21 | 1 | 1 | 48 | 1 | 49 | 8.36e-12 | 61.2 |
| Msa0528980 | AT5G06070.1 | 55.357 | 56 | 24 | 1 | 4 | 58 | 38 | 93 | 2.81e-11 | 60.5 |
| Msa0528980 | AT3G23130.1 | 68.571 | 35 | 11 | 0 | 18 | 52 | 45 | 79 | 5.02e-11 | 59.7 |
| Msa0528980 | AT2G37740.1 | 33.654 | 104 | 51 | 2 | 7 | 110 | 26 | 111 | 7.45e-11 | 60.1 |
Find 40 sgRNAs with CRISPR-Local
Find 45 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCATCATTGGTGTAGAATT+TGG | 0.181529 | 4_1:+1985718 | None:intergenic |
| TAATTTCCAACATGGTAATT+TGG | 0.204844 | 4_1:+1985581 | None:intergenic |
| AATTCTTCTTCATCACAAAT+TGG | 0.251144 | 4_1:-1985743 | Msa0528980:CDS |
| TCAGAACAAAATTCCTTTGT+TGG | 0.304478 | 4_1:-1985674 | Msa0528980:CDS |
| ATTTGTGATGAAGAAGAATT+TGG | 0.304515 | 4_1:+1985746 | None:intergenic |
| GGAGGAAAATGAAGTGGATT+TGG | 0.333970 | 4_1:-1985399 | Msa0528980:CDS |
| TTCACAAATGCACAAGCTTT+AGG | 0.350501 | 4_1:-1985818 | Msa0528980:CDS |
| TCATTTCCTCTCCTAACTCT+TGG | 0.379355 | 4_1:+1985425 | None:intergenic |
| ATGGCAATGATCAAGGAAAA+AGG | 0.379483 | 4_1:-1985874 | Msa0528980:CDS |
| CCTGACTTGAGTCTTCAAAT+AGG | 0.388896 | 4_1:-1985479 | Msa0528980:CDS |
| GTTGGATATTCATATGATCT+TGG | 0.400343 | 4_1:+1985608 | None:intergenic |
| CCTTAGCTCTATCTTTCCTA+TGG | 0.421858 | 4_1:+1985780 | None:intergenic |
| CTCTTGGTTCAAATGCCAAT+TGG | 0.423506 | 4_1:+1985511 | None:intergenic |
| ATACACATCATCCAAGAGTT+AGG | 0.432854 | 4_1:-1985436 | Msa0528980:CDS |
| AGTTAGGAGAGGAAATGATC+AGG | 0.437027 | 4_1:-1985420 | Msa0528980:CDS |
| GAATAACCATGCATATTTGA+AGG | 0.444582 | 4_1:+1985641 | None:intergenic |
| AGTCAGGATGTTGAAGCTCT+TGG | 0.457420 | 4_1:+1985495 | None:intergenic |
| ATGAATTATTCAAGTGAAGA+AGG | 0.471381 | 4_1:-1985902 | Msa0528980:CDS |
| AACCATGCATATTTGAAGGT+TGG | 0.490265 | 4_1:+1985645 | None:intergenic |
| ACATGGTAATTTGGTGCTGT+TGG | 0.496509 | 4_1:+1985590 | None:intergenic |
| AAAGACCATAGCTTCATCAT+TGG | 0.510291 | 4_1:+1985706 | None:intergenic |
| GATATCAAGGACCATCCAAT+TGG | 0.511436 | 4_1:-1985526 | Msa0528980:CDS |
| TCAAGTGAAGAAGGTGATGA+TGG | 0.515818 | 4_1:-1985893 | Msa0528980:CDS |
| CCTATTTGAAGACTCAAGTC+AGG | 0.518186 | 4_1:+1985479 | None:intergenic |
| GGTGATGATGGCAATGATCA+AGG | 0.525173 | 4_1:-1985881 | Msa0528980:CDS |
| CTACACCAATGATGAAGCTA+TGG | 0.526389 | 4_1:-1985711 | Msa0528980:CDS |
| TATCAACCTTCAAATGTGGA+TGG | 0.533961 | 4_1:-1985560 | Msa0528980:CDS |
| TAGGAGAGGAAATGATCAGG+AGG | 0.549853 | 4_1:-1985417 | Msa0528980:CDS |
| GTGGATTTGGAGCTAAGACT+TGG | 0.559049 | 4_1:-1985386 | Msa0528980:CDS |
| TGATCAGGAGGAAAATGAAG+TGG | 0.559611 | 4_1:-1985405 | Msa0528980:CDS |
| TGGTTCAAATGCCAATTGGA+TGG | 0.560601 | 4_1:+1985515 | None:intergenic |
| TACCAACCTTCAAATATGCA+TGG | 0.566990 | 4_1:-1985647 | Msa0528980:CDS |
| AAATTATCAACCTTCAAATG+TGG | 0.579755 | 4_1:-1985564 | Msa0528980:CDS |
| ACAGCACCAAATTACCATGT+TGG | 0.599662 | 4_1:-1985587 | Msa0528980:CDS |
| AGGTTGGTAATTTCCAACAA+AGG | 0.601009 | 4_1:+1985661 | None:intergenic |
| GTGGTCACATGAATATCCAT+AGG | 0.605103 | 4_1:-1985796 | Msa0528980:CDS |
| AAGGTTGATAATTTCCAACA+TGG | 0.615290 | 4_1:+1985573 | None:intergenic |
| CCATAGGAAAGATAGAGCTA+AGG | 0.615552 | 4_1:-1985780 | Msa0528980:CDS |
| ACAAATGCACAAGCTTTAGG+TGG | 0.646984 | 4_1:-1985815 | Msa0528980:CDS |
| CATCATCCAAGAGTTAGGAG+AGG | 0.700340 | 4_1:-1985431 | Msa0528980:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ATGAATTATTCAAGTGAAGA+AGG | - | chr4_1:1985361-1985380 | Msa0528980:CDS | 25.0% |
| ! | ATTTGTGATGAAGAAGAATT+TGG | + | chr4_1:1985520-1985539 | None:intergenic | 25.0% |
| ! | AATTCTTCTTCATCACAAAT+TGG | - | chr4_1:1985520-1985539 | Msa0528980:CDS | 25.0% |
| ! | TAATTTCCAACATGGTAATT+TGG | + | chr4_1:1985685-1985704 | None:intergenic | 25.0% |
| ! | AAATTATCAACCTTCAAATG+TGG | - | chr4_1:1985699-1985718 | Msa0528980:CDS | 25.0% |
| TTCATCATTGGTGTAGAATT+TGG | + | chr4_1:1985548-1985567 | None:intergenic | 30.0% | |
| !!! | GAATTTTGTTCTGAAGCAAA+AGG | + | chr4_1:1985583-1985602 | None:intergenic | 30.0% |
| TCAGAACAAAATTCCTTTGT+TGG | - | chr4_1:1985589-1985608 | Msa0528980:CDS | 30.0% | |
| GAATAACCATGCATATTTGA+AGG | + | chr4_1:1985625-1985644 | None:intergenic | 30.0% | |
| GTTGGATATTCATATGATCT+TGG | + | chr4_1:1985658-1985677 | None:intergenic | 30.0% | |
| !! | AAGGTTGATAATTTCCAACA+TGG | + | chr4_1:1985693-1985712 | None:intergenic | 30.0% |
| ! | AATGTGGATGGTTTTTCTTA+TGG | - | chr4_1:1985715-1985734 | Msa0528980:CDS | 30.0% |
| ! | GGTTTTTCTTATGGATATCA+AGG | - | chr4_1:1985724-1985743 | Msa0528980:CDS | 30.0% |
| ATGGCAATGATCAAGGAAAA+AGG | - | chr4_1:1985389-1985408 | Msa0528980:CDS | 35.0% | |
| ! | GAATGCACATTTTGCAAAAG+AGG | - | chr4_1:1985421-1985440 | Msa0528980:CDS | 35.0% |
| TTCACAAATGCACAAGCTTT+AGG | - | chr4_1:1985445-1985464 | Msa0528980:CDS | 35.0% | |
| AAAGACCATAGCTTCATCAT+TGG | + | chr4_1:1985560-1985579 | None:intergenic | 35.0% | |
| !! | AGGTTGGTAATTTCCAACAA+AGG | + | chr4_1:1985605-1985624 | None:intergenic | 35.0% |
| TACCAACCTTCAAATATGCA+TGG | - | chr4_1:1985616-1985635 | Msa0528980:CDS | 35.0% | |
| AACCATGCATATTTGAAGGT+TGG | + | chr4_1:1985621-1985640 | None:intergenic | 35.0% | |
| TATCAACCTTCAAATGTGGA+TGG | - | chr4_1:1985703-1985722 | Msa0528980:CDS | 35.0% | |
| GAAAAACCATCCACATTTGA+AGG | + | chr4_1:1985712-1985731 | None:intergenic | 35.0% | |
| ATACACATCATCCAAGAGTT+AGG | - | chr4_1:1985827-1985846 | Msa0528980:CDS | 35.0% | |
| TCAAGTGAAGAAGGTGATGA+TGG | - | chr4_1:1985370-1985389 | Msa0528980:CDS | 40.0% | |
| !! | ACAAATGCACAAGCTTTAGG+TGG | - | chr4_1:1985448-1985467 | Msa0528980:CDS | 40.0% |
| GTGGTCACATGAATATCCAT+AGG | - | chr4_1:1985467-1985486 | Msa0528980:CDS | 40.0% | |
| !! | CCTTAGCTCTATCTTTCCTA+TGG | + | chr4_1:1985486-1985505 | None:intergenic | 40.0% |
| CCATAGGAAAGATAGAGCTA+AGG | - | chr4_1:1985483-1985502 | Msa0528980:CDS | 40.0% | |
| CTACACCAATGATGAAGCTA+TGG | - | chr4_1:1985552-1985571 | Msa0528980:CDS | 40.0% | |
| !! | ACATGGTAATTTGGTGCTGT+TGG | + | chr4_1:1985676-1985695 | None:intergenic | 40.0% |
| ACAGCACCAAATTACCATGT+TGG | - | chr4_1:1985676-1985695 | Msa0528980:CDS | 40.0% | |
| GATATCAAGGACCATCCAAT+TGG | - | chr4_1:1985737-1985756 | Msa0528980:CDS | 40.0% | |
| TGGTTCAAATGCCAATTGGA+TGG | + | chr4_1:1985751-1985770 | None:intergenic | 40.0% | |
| CTCTTGGTTCAAATGCCAAT+TGG | + | chr4_1:1985755-1985774 | None:intergenic | 40.0% | |
| CCTATTTGAAGACTCAAGTC+AGG | + | chr4_1:1985787-1985806 | None:intergenic | 40.0% | |
| ! | CCTGACTTGAGTCTTCAAAT+AGG | - | chr4_1:1985784-1985803 | Msa0528980:CDS | 40.0% |
| TCATTTCCTCTCCTAACTCT+TGG | + | chr4_1:1985841-1985860 | None:intergenic | 40.0% | |
| AGTTAGGAGAGGAAATGATC+AGG | - | chr4_1:1985843-1985862 | Msa0528980:CDS | 40.0% | |
| TGATCAGGAGGAAAATGAAG+TGG | - | chr4_1:1985858-1985877 | Msa0528980:CDS | 40.0% | |
| ! | GGAGGAAAATGAAGTGGATT+TGG | - | chr4_1:1985864-1985883 | Msa0528980:CDS | 40.0% |
| !! | GGTGATGATGGCAATGATCA+AGG | - | chr4_1:1985382-1985401 | Msa0528980:CDS | 45.0% |
| AGTCAGGATGTTGAAGCTCT+TGG | + | chr4_1:1985771-1985790 | None:intergenic | 45.0% | |
| CATCATCCAAGAGTTAGGAG+AGG | - | chr4_1:1985832-1985851 | Msa0528980:CDS | 45.0% | |
| TAGGAGAGGAAATGATCAGG+AGG | - | chr4_1:1985846-1985865 | Msa0528980:CDS | 45.0% | |
| ! | GTGGATTTGGAGCTAAGACT+TGG | - | chr4_1:1985877-1985896 | Msa0528980:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 1985361 | 1985924 | 1985361 | ID=Msa0528980;Name=Msa0528980 |
| chr4_1 | mRNA | 1985361 | 1985924 | 1985361 | ID=Msa0528980-mRNA-1;Parent=Msa0528980;Name=Msa0528980-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|187 |
| chr4_1 | exon | 1985361 | 1985924 | 1985361 | ID=Msa0528980-mRNA-1:exon:605;Parent=Msa0528980-mRNA-1 |
| chr4_1 | CDS | 1985361 | 1985924 | 1985361 | ID=Msa0528980-mRNA-1:cds;Parent=Msa0528980-mRNA-1 |
| Gene Sequence |
| Protein sequence |
