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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0427220 | KEH35586.1 | 96.341 | 82 | 3 | 0 | 1 | 82 | 1 | 82 | 1.10e-46 | 163 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0427220 | sp|Q6YV23|CARA_ORYSJ | 92.857 | 42 | 3 | 0 | 41 | 82 | 69 | 110 | 2.18e-19 | 83.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0427220 | A0A072V1L4 | 96.341 | 82 | 3 | 0 | 1 | 82 | 1 | 82 | 5.24e-47 | 163 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0008340 | Msa0427220 | 0.802151 | 6.427916e-49 | -8.615850e-47 |
| Msa0032370 | Msa0427220 | 0.840207 | 9.991181e-58 | -8.615850e-47 |
| Msa0047980 | Msa0427220 | 0.803155 | 3.990009e-49 | -8.615850e-47 |
| Msa0068430 | Msa0427220 | 0.801569 | 8.463874e-49 | -8.615850e-47 |
| Msa0103180 | Msa0427220 | 0.818653 | 1.752290e-52 | -8.615850e-47 |
| Msa0225180 | Msa0427220 | 0.804449 | 2.148487e-49 | -8.615850e-47 |
| Msa0387950 | Msa0427220 | 0.811140 | 8.124793e-51 | -8.615850e-47 |
| Msa0427220 | Msa0449820 | 0.808458 | 3.067318e-50 | -8.615850e-47 |
| Msa0427220 | Msa0517840 | 0.820595 | 6.313178e-53 | -8.615850e-47 |
| Msa0427220 | Msa0560470 | 0.800939 | 1.139084e-48 | -8.615850e-47 |
| Msa0427220 | Msa0591540 | 0.809853 | 1.540550e-50 | -8.615850e-47 |
| Msa0427220 | Msa0711490 | 0.822401 | 2.415915e-53 | -8.615850e-47 |
| Msa0427220 | Msa0734960 | 0.800189 | 1.619344e-48 | -8.615850e-47 |
| Msa0427220 | Msa0882510 | 0.802804 | 4.716021e-49 | -8.615850e-47 |
| Msa0427220 | Msa0930780 | 0.803743 | 3.012830e-49 | -8.615850e-47 |
| Msa0427220 | Msa1100720 | 0.812219 | 4.733843e-51 | -8.615850e-47 |
| Msa0427220 | Msa1185540 | 0.815868 | 7.414443e-52 | -8.615850e-47 |
| Msa0427220 | Msa1299360 | 0.815320 | 9.822418e-52 | -8.615850e-47 |
| Msa0427220 | Msa1344850 | 0.803427 | 3.504776e-49 | -8.615850e-47 |
| Msa0427220 | Msa1348360 | 0.813259 | 2.802251e-51 | -8.615850e-47 |
| Msa0427220 | Msa1362510 | 0.803641 | 3.164047e-49 | -8.615850e-47 |
| Msa0427220 | Msa1404540 | 0.810106 | 1.359024e-50 | -8.615850e-47 |
| Msa0427220 | Msa1406040 | 0.804001 | 2.662979e-49 | -8.615850e-47 |
| Msa0427220 | Msa1431060 | 0.810028 | 1.412742e-50 | -8.615850e-47 |
| Msa0427220 | Msa1466460 | 0.822769 | 1.983842e-53 | -8.615850e-47 |
| Msa0241800 | Msa0427220 | 0.809061 | 2.279486e-50 | -8.615850e-47 |
| Msa0281360 | Msa0427220 | 0.819817 | 9.515313e-53 | -8.615850e-47 |
| Msa0299890 | Msa0427220 | 0.811771 | 5.925957e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0427220 | MtrunA17_Chr3g0129631 | 96.341 | 82 | 3 | 0 | 1 | 82 | 1 | 82 | 2.29e-50 | 163 |
| Msa0427220 | MtrunA17_Chr4g0057811 | 92.683 | 82 | 5 | 1 | 1 | 82 | 1 | 81 | 1.22e-46 | 153 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0427220 | AT3G27740.2 | 48.889 | 90 | 37 | 2 | 1 | 82 | 3 | 91 | 2.10e-17 | 75.1 |
| Msa0427220 | AT3G27740.1 | 48.889 | 90 | 37 | 2 | 1 | 82 | 3 | 91 | 2.30e-17 | 75.1 |
Find 24 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTTCTCTCAATGACCTCTT+TGG | 0.245128 | 3_2:+77919072 | Msa0427220:CDS |
| GCTAAATCATTTGGTGCTTC+AGG | 0.275622 | 3_2:+77919365 | Msa0427220:CDS |
| TTCTCTGTCAGATGTTCTTC+TGG | 0.292462 | 3_2:+77919135 | Msa0427220:CDS |
| AGAAGAAAGAAACATATTAA+TGG | 0.305952 | 3_2:+77919026 | Msa0427220:exon |
| TGTTAGAAGATGGTTCAATT+TGG | 0.310513 | 3_2:+77919339 | Msa0427220:CDS |
| ATTTGGAAAGCTAAATCATT+TGG | 0.341512 | 3_2:+77919356 | Msa0427220:CDS |
| GGTTGCTGCTAACACTGGTT+TGG | 0.380442 | 3_2:+77918955 | Msa0427220:five_prime_UTR |
| TGAAAACAACTTCACCAACT+TGG | 0.401704 | 3_2:-77919391 | None:intergenic |
| ATTAATGGCAACAAAAGCTT+TGG | 0.405497 | 3_2:+77919041 | Msa0427220:exon |
| TGCATGAATGTATAGGTAAT+GGG | 0.406728 | 3_2:+77919282 | Msa0427220:intron |
| CAAAGAGGTCATTGAGAGAA+AGG | 0.466089 | 3_2:-77919071 | None:intergenic |
| GCTAGACTTGTGTTAGAAGA+TGG | 0.472551 | 3_2:+77919329 | Msa0427220:CDS |
| GAAAACAACTTCACCAACTT+GGG | 0.481798 | 3_2:-77919390 | None:intergenic |
| CAATGACCTCTTTGGTTCCA+AGG | 0.486297 | 3_2:+77919080 | Msa0427220:CDS |
| AGAGGTGTGTGGCGGCGCCT+TGG | 0.508323 | 3_2:-77919097 | None:intergenic |
| TAGGTAATGGGGAAAGGCCA+TGG | 0.546071 | 3_2:+77919294 | Msa0427220:intron |
| GGTGCTTCAGGAACCCAAGT+TGG | 0.546817 | 3_2:+77919377 | Msa0427220:CDS |
| AAAGAGGTCATTGAGAGAAA+GGG | 0.551745 | 3_2:-77919070 | None:intergenic |
| AATGTATAGGTAATGGGGAA+AGG | 0.560392 | 3_2:+77919288 | Msa0427220:intron |
| ACATAGGTTGCTGCTAACAC+TGG | 0.565602 | 3_2:+77918950 | Msa0427220:five_prime_UTR |
| GCATGAATGTATAGGTAATG+GGG | 0.572178 | 3_2:+77919283 | Msa0427220:intron |
| GTCATTGAGAGAAAGGGTGA+AGG | 0.598395 | 3_2:-77919064 | None:intergenic |
| CCTAGGTGAAGAGAAAACAT+AGG | 0.629266 | 3_2:+77918934 | Msa0427220:five_prime_UTR |
| GCGGCGCCTTGGAACCAAAG+AGG | 0.643056 | 3_2:-77919086 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTTTCATAATTATTTGT+TGG | + | chr3_2:77919176-77919195 | Msa0427220:intron | 10.0% |
| !! | CATATTGAAAATAAAAACCT+AGG | + | chr3_2:77918917-77918936 | Msa0427220:five_prime_UTR | 20.0% |
| !! | AGAAGAAAGAAACATATTAA+TGG | + | chr3_2:77919026-77919045 | Msa0427220:exon | 20.0% |
| !!! | AAAAAGACAACATTTTTCAT+GGG | - | chr3_2:77919209-77919228 | None:intergenic | 20.0% |
| !!! | AAAAAAGACAACATTTTTCA+TGG | - | chr3_2:77919210-77919229 | None:intergenic | 20.0% |
| !!! | AAATGTTGTCTTTTTTGATT+AGG | + | chr3_2:77919214-77919233 | Msa0427220:intron | 20.0% |
| !!! | TTTTTTGATTAGGTGTTGTT+GGG | + | chr3_2:77919224-77919243 | Msa0427220:intron | 25.0% |
| ! | AAATGAATGCATGAATGTAT+AGG | + | chr3_2:77919275-77919294 | Msa0427220:intron | 25.0% |
| ! | ATTTGGAAAGCTAAATCATT+TGG | + | chr3_2:77919356-77919375 | Msa0427220:CDS | 25.0% |
| !!! | TTTTCAATACATCATTGACT+GGG | + | chr3_2:77919408-77919427 | Msa0427220:CDS | 25.0% |
| ATTAATGGCAACAAAAGCTT+TGG | + | chr3_2:77919041-77919060 | Msa0427220:exon | 30.0% | |
| !!! | CTTTTTTGATTAGGTGTTGT+TGG | + | chr3_2:77919223-77919242 | Msa0427220:intron | 30.0% |
| ATGCATGAATGTATAGGTAA+TGG | + | chr3_2:77919281-77919300 | Msa0427220:intron | 30.0% | |
| TGCATGAATGTATAGGTAAT+GGG | + | chr3_2:77919282-77919301 | Msa0427220:intron | 30.0% | |
| TGTTAGAAGATGGTTCAATT+TGG | + | chr3_2:77919339-77919358 | Msa0427220:CDS | 30.0% | |
| ! | GTTTTCAATACATCATTGAC+TGG | + | chr3_2:77919407-77919426 | Msa0427220:CDS | 30.0% |
| AAAGAGGTCATTGAGAGAAA+GGG | - | chr3_2:77919073-77919092 | None:intergenic | 35.0% | |
| GCATGAATGTATAGGTAATG+GGG | + | chr3_2:77919283-77919302 | Msa0427220:intron | 35.0% | |
| !! | AATGTATAGGTAATGGGGAA+AGG | + | chr3_2:77919288-77919307 | Msa0427220:intron | 35.0% |
| ! | CTAGCATCTGAATTTTTCCA+TGG | - | chr3_2:77919314-77919333 | None:intergenic | 35.0% |
| GAAAACAACTTCACCAACTT+GGG | - | chr3_2:77919393-77919412 | None:intergenic | 35.0% | |
| TGAAAACAACTTCACCAACT+TGG | - | chr3_2:77919394-77919413 | None:intergenic | 35.0% | |
| ! | CCTATGTTTTCTCTTCACCT+AGG | - | chr3_2:77918937-77918956 | None:intergenic | 40.0% |
| CCTAGGTGAAGAGAAAACAT+AGG | + | chr3_2:77918934-77918953 | Msa0427220:five_prime_UTR | 40.0% | |
| CAAAGAGGTCATTGAGAGAA+AGG | - | chr3_2:77919074-77919093 | None:intergenic | 40.0% | |
| CTTTCTCTCAATGACCTCTT+TGG | + | chr3_2:77919072-77919091 | Msa0427220:CDS | 40.0% | |
| ! | GAAGACAGAAACTTTTGCAG+AGG | - | chr3_2:77919118-77919137 | None:intergenic | 40.0% |
| TTCTCTGTCAGATGTTCTTC+TGG | + | chr3_2:77919135-77919154 | Msa0427220:CDS | 40.0% | |
| GCTAGACTTGTGTTAGAAGA+TGG | + | chr3_2:77919329-77919348 | Msa0427220:CDS | 40.0% | |
| !! | GCTAAATCATTTGGTGCTTC+AGG | + | chr3_2:77919365-77919384 | Msa0427220:CDS | 40.0% |
| ACATAGGTTGCTGCTAACAC+TGG | + | chr3_2:77918950-77918969 | Msa0427220:five_prime_UTR | 45.0% | |
| GTCATTGAGAGAAAGGGTGA+AGG | - | chr3_2:77919067-77919086 | None:intergenic | 45.0% | |
| ! | CAATGACCTCTTTGGTTCCA+AGG | + | chr3_2:77919080-77919099 | Msa0427220:CDS | 45.0% |
| !! | GAAACTTTTGCAGAGGTGTG+TGG | - | chr3_2:77919111-77919130 | None:intergenic | 45.0% |
| ! | GGTTGCTGCTAACACTGGTT+TGG | + | chr3_2:77918955-77918974 | Msa0427220:five_prime_UTR | 50.0% |
| !! | ACTTTTGCAGAGGTGTGTGG+CGG | - | chr3_2:77919108-77919127 | None:intergenic | 50.0% |
| !! | TAGGTAATGGGGAAAGGCCA+TGG | + | chr3_2:77919294-77919313 | Msa0427220:intron | 50.0% |
| GGTGCTTCAGGAACCCAAGT+TGG | + | chr3_2:77919377-77919396 | Msa0427220:CDS | 55.0% | |
| GCGGCGCCTTGGAACCAAAG+AGG | - | chr3_2:77919089-77919108 | None:intergenic | 65.0% | |
| ! | AGAGGTGTGTGGCGGCGCCT+TGG | - | chr3_2:77919100-77919119 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 77918915 | 77919433 | 77918915 | ID=Msa0427220;Name=Msa0427220 |
| chr3_2 | mRNA | 77918915 | 77919433 | 77918915 | ID=Msa0427220-mRNA-1;Parent=Msa0427220;Name=Msa0427220-mRNA-1;_AED=0.01;_eAED=0.01;_QI=130|1|0.5|1|1|1|2|0|82 |
| chr3_2 | exon | 77918915 | 77919156 | 77918915 | ID=Msa0427220-mRNA-1:exon:20370;Parent=Msa0427220-mRNA-1 |
| chr3_2 | exon | 77919297 | 77919433 | 77919297 | ID=Msa0427220-mRNA-1:exon:20371;Parent=Msa0427220-mRNA-1 |
| chr3_2 | five_prime_UTR | 77918915 | 77919044 | 77918915 | ID=Msa0427220-mRNA-1:five_prime_utr;Parent=Msa0427220-mRNA-1 |
| chr3_2 | CDS | 77919045 | 77919156 | 77919045 | ID=Msa0427220-mRNA-1:cds;Parent=Msa0427220-mRNA-1 |
| chr3_2 | CDS | 77919297 | 77919433 | 77919297 | ID=Msa0427220-mRNA-1:cds;Parent=Msa0427220-mRNA-1 |
| Gene Sequence |
| Protein sequence |
