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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1352590 | XP_003626248.1 | 99.206 | 126 | 1 | 0 | 1 | 126 | 1 | 126 | 1.06e-88 | 263 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1352590 | sp|Q8L9P8|RLF33_ARATH | 59.483 | 116 | 38 | 1 | 11 | 126 | 9 | 115 | 9.08e-43 | 139 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1352590 | A2Q327 | 99.206 | 126 | 1 | 0 | 1 | 126 | 1 | 126 | 5.07e-89 | 263 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1352590 | Msa1373070 | 0.992829 | 1.061299e-195 | -8.615850e-47 |
| Msa1352590 | Msa1442940 | 0.809912 | 1.496299e-50 | -8.615850e-47 |
| Msa0644830 | Msa1352590 | 0.823012 | 1.741285e-53 | -8.615850e-47 |
| Msa0649460 | Msa1352590 | 0.809949 | 1.469183e-50 | -8.615850e-47 |
| Msa0756170 | Msa1352590 | 0.804780 | 1.832513e-49 | -8.615850e-47 |
| Msa0206440 | Msa1352590 | 0.825878 | 3.686823e-54 | -8.615850e-47 |
| Msa0467570 | Msa1352590 | 0.825132 | 5.537705e-54 | -8.615850e-47 |
| Msa0249360 | Msa1352590 | 0.805765 | 1.139932e-49 | -8.615850e-47 |
| Msa0287850 | Msa1352590 | 0.819123 | 1.369793e-52 | -8.615850e-47 |
| Msa0514460 | Msa1352590 | 0.812822 | 3.493916e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1352590 | MtrunA17_Chr7g0272541 | 99.206 | 126 | 1 | 0 | 1 | 126 | 1 | 126 | 9.77e-93 | 263 |
| Msa1352590 | MtrunA17_Chr4g0067331 | 57.025 | 121 | 45 | 2 | 9 | 126 | 9 | 125 | 1.07e-41 | 134 |
| Msa1352590 | MtrunA17_Chr7g0269131 | 53.390 | 118 | 49 | 2 | 10 | 127 | 6 | 117 | 6.46e-37 | 122 |
| Msa1352590 | MtrunA17_Chr3g0121871 | 42.735 | 117 | 55 | 5 | 10 | 125 | 21 | 126 | 5.77e-21 | 81.6 |
| Msa1352590 | MtrunA17_Chr4g0047131 | 56.250 | 64 | 26 | 1 | 64 | 125 | 44 | 107 | 1.29e-19 | 77.8 |
| Msa1352590 | MtrunA17_Chr6g0476591 | 48.485 | 66 | 29 | 1 | 60 | 125 | 41 | 101 | 1.17e-15 | 67.4 |
| Msa1352590 | MtrunA17_Chr8g0378021 | 39.080 | 87 | 46 | 3 | 44 | 126 | 33 | 116 | 8.33e-11 | 55.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1352590 | AT4G15800.1 | 59.483 | 116 | 38 | 1 | 11 | 126 | 9 | 115 | 9.23e-44 | 139 |
| Msa1352590 | AT1G02900.1 | 58.333 | 120 | 43 | 3 | 9 | 127 | 7 | 120 | 3.42e-42 | 135 |
| Msa1352590 | AT3G16570.3 | 65.556 | 90 | 17 | 2 | 51 | 126 | 47 | 136 | 2.23e-33 | 114 |
| Msa1352590 | AT3G16570.2 | 65.556 | 90 | 17 | 2 | 51 | 126 | 47 | 136 | 2.23e-33 | 114 |
| Msa1352590 | AT3G16570.1 | 65.556 | 90 | 17 | 2 | 51 | 126 | 47 | 136 | 2.23e-33 | 114 |
| Msa1352590 | AT3G05490.1 | 81.034 | 58 | 11 | 0 | 69 | 126 | 61 | 118 | 3.04e-30 | 105 |
| Msa1352590 | AT2G33775.1 | 57.971 | 69 | 28 | 1 | 58 | 125 | 37 | 105 | 4.16e-23 | 87.0 |
| Msa1352590 | AT1G28270.1 | 55.072 | 69 | 30 | 1 | 58 | 125 | 37 | 105 | 1.16e-19 | 78.2 |
| Msa1352590 | AT4G13950.1 | 57.812 | 64 | 25 | 2 | 63 | 125 | 42 | 104 | 3.85e-18 | 74.3 |
| Msa1352590 | AT3G23805.1 | 60.714 | 56 | 20 | 2 | 71 | 125 | 55 | 109 | 1.57e-15 | 67.8 |
| Msa1352590 | AT5G67070.1 | 52.632 | 76 | 25 | 5 | 62 | 126 | 53 | 128 | 3.14e-12 | 59.7 |
Find 32 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCATCATCGTTGTCATCAAA+AGG | 0.415483 | tig0012622:-2280 | Msa1352590:intergenic |
| GCACTGCATCCACGGCTGTA+AGG | 0.445471 | tig0012622:-2572 | Msa1352590:intergenic |
| AGTTTGATAATGAAATCAAC+AGG | 0.461525 | tig0012622:+2435 | Msa1352590:CDS |
| CGCACCATAGCTGATGTACT+TGG | 0.465658 | tig0012622:-2474 | Msa1352590:intergenic |
| CACTGCATCCACGGCTGTAA+GGG | 0.481328 | tig0012622:-2571 | Msa1352590:intergenic |
| CAATTGCAGACCCGGTGCTC+AGG | 0.488139 | tig0012622:+2544 | Msa1352590:CDS |
| CCTCCAGCTGCATCTACTGT+TGG | 0.503199 | tig0012622:-2311 | Msa1352590:intergenic |
| GCAGCTGGAGGATTCGAACT+TGG | 0.512453 | tig0012622:+2323 | Msa1352590:CDS |
| GAAGCACCACGGCGAGAACA+AGG | 0.526826 | tig0012622:-2515 | Msa1352590:intergenic |
| GTAAGGGTTAGCCTGAGCAC+CGG | 0.526971 | tig0012622:-2555 | Msa1352590:intergenic |
| ATCAGCGATGGAACCTTCGC+AGG | 0.533132 | tig0012622:-2381 | Msa1352590:intergenic |
| TCTCCAACAGTAGATGCAGC+TGG | 0.538924 | tig0012622:+2308 | Msa1352590:CDS |
| TCTTACTACAATTGCAGACC+CGG | 0.540294 | tig0012622:+2536 | Msa1352590:CDS |
| AGGATTCGAACTTGGAGGAA+TGG | 0.547500 | tig0012622:+2331 | Msa1352590:CDS |
| GCTGGAGGATTCGAACTTGG+AGG | 0.550332 | tig0012622:+2326 | Msa1352590:CDS |
| TCGAACTTGGAGGAATGGAA+TGG | 0.552877 | tig0012622:+2336 | Msa1352590:CDS |
| CATCATCGTTGTCATCAAAA+GGG | 0.554937 | tig0012622:-2279 | Msa1352590:intergenic |
| TCAGCTATGGTGCGCTTCAG+AGG | 0.563424 | tig0012622:+2483 | Msa1352590:CDS |
| GCAGTGCTATTACGAGGTGC+AGG | 0.566649 | tig0012622:+2588 | Msa1352590:CDS |
| TCGTAATAGCACTGCATCCA+CGG | 0.577260 | tig0012622:-2580 | Msa1352590:intergenic |
| TAAGGGTTAGCCTGAGCACC+GGG | 0.580885 | tig0012622:-2554 | Msa1352590:intergenic |
| TTGTAACATGCAATCAGCGA+TGG | 0.586357 | tig0012622:-2393 | Msa1352590:intergenic |
| CAGGCTAACCCTTACAGCCG+TGG | 0.595858 | tig0012622:+2563 | Msa1352590:CDS |
| ACGACCAAGTACATCAGCTA+TGG | 0.604031 | tig0012622:+2470 | Msa1352590:CDS |
| AGCGATGGAACCTTCGCAGG+TGG | 0.625016 | tig0012622:-2378 | Msa1352590:intergenic |
| AAGCACCACGGCGAGAACAA+GGG | 0.626487 | tig0012622:-2514 | Msa1352590:intergenic |
| ACTGTCCCTTGTTCTCGCCG+TGG | 0.647098 | tig0012622:+2509 | Msa1352590:CDS |
| CCAACAGTAGATGCAGCTGG+AGG | 0.701563 | tig0012622:+2311 | Msa1352590:CDS |
| GCTGATTGCATGTTACAACA+AGG | 0.712911 | tig0012622:+2398 | Msa1352590:CDS |
| GTGGATGCAGTGCTATTACG+AGG | 0.733772 | tig0012622:+2582 | Msa1352590:CDS |
| AAAGGGTGACACAAATCACG+AGG | 0.746825 | tig0012622:-2262 | Msa1352580:intergenic |
| AATTGTAGTAAGAAGCACCA+CGG | 0.751980 | tig0012622:-2526 | Msa1352580:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AGTTTGATAATGAAATCAAC+AGG | + | tig0012622:2435-2454 | Msa1352590:CDS | 25.0% |
| CATCATCGTTGTCATCAAAA+GGG | - | tig0012622:2282-2301 | Msa1433150:intergenic | 35.0% | |
| TCATCATCGTTGTCATCAAA+AGG | - | tig0012622:2283-2302 | Msa1433150:intergenic | 35.0% | |
| !! | AATTGTAGTAAGAAGCACCA+CGG | - | tig0012622:2529-2548 | Msa1352590:intergenic | 35.0% |
| TTGTAACATGCAATCAGCGA+TGG | - | tig0012622:2396-2415 | Msa1352590:intergenic | 40.0% | |
| GCTGATTGCATGTTACAACA+AGG | + | tig0012622:2398-2417 | Msa1352590:CDS | 40.0% | |
| TCTTACTACAATTGCAGACC+CGG | + | tig0012622:2536-2555 | Msa1352590:CDS | 40.0% | |
| AAAGGGTGACACAAATCACG+AGG | - | tig0012622:2265-2284 | Msa1433150:intergenic | 45.0% | |
| AGGATTCGAACTTGGAGGAA+TGG | + | tig0012622:2331-2350 | Msa1352590:CDS | 45.0% | |
| TCGAACTTGGAGGAATGGAA+TGG | + | tig0012622:2336-2355 | Msa1352590:CDS | 45.0% | |
| ACGACCAAGTACATCAGCTA+TGG | + | tig0012622:2470-2489 | Msa1352590:CDS | 45.0% | |
| TCGTAATAGCACTGCATCCA+CGG | - | tig0012622:2583-2602 | Msa1352590:intergenic | 45.0% | |
| TCTCCAACAGTAGATGCAGC+TGG | + | tig0012622:2308-2327 | Msa1352590:CDS | 50.0% | |
| ACAAAAACAGCCACCTGCGA+AGG | + | tig0012622:2368-2387 | Msa1352590:CDS | 50.0% | |
| CGCACCATAGCTGATGTACT+TGG | - | tig0012622:2477-2496 | Msa1352590:intergenic | 50.0% | |
| ! | GTGGATGCAGTGCTATTACG+AGG | + | tig0012622:2582-2601 | Msa1352590:CDS | 50.0% |
| CCTCCAGCTGCATCTACTGT+TGG | - | tig0012622:2314-2333 | Msa1352590:intergenic | 55.0% | |
| CCAACAGTAGATGCAGCTGG+AGG | + | tig0012622:2311-2330 | Msa1352590:CDS | 55.0% | |
| GCAGCTGGAGGATTCGAACT+TGG | + | tig0012622:2323-2342 | Msa1352590:CDS | 55.0% | |
| GCTGGAGGATTCGAACTTGG+AGG | + | tig0012622:2326-2345 | Msa1352590:CDS | 55.0% | |
| ATCAGCGATGGAACCTTCGC+AGG | - | tig0012622:2384-2403 | Msa1352590:intergenic | 55.0% | |
| TCAGCTATGGTGCGCTTCAG+AGG | + | tig0012622:2483-2502 | Msa1352590:CDS | 55.0% | |
| AAGCACCACGGCGAGAACAA+GGG | - | tig0012622:2517-2536 | Msa1352590:intergenic | 55.0% | |
| !! | TAAGGGTTAGCCTGAGCACC+GGG | - | tig0012622:2557-2576 | Msa1352590:intergenic | 55.0% |
| !! | GTAAGGGTTAGCCTGAGCAC+CGG | - | tig0012622:2558-2577 | Msa1352590:intergenic | 55.0% |
| CACTGCATCCACGGCTGTAA+GGG | - | tig0012622:2574-2593 | Msa1352590:intergenic | 55.0% | |
| ! | GCAGTGCTATTACGAGGTGC+AGG | + | tig0012622:2588-2607 | Msa1352590:CDS | 55.0% |
| AGCGATGGAACCTTCGCAGG+TGG | - | tig0012622:2381-2400 | Msa1352590:intergenic | 60.0% | |
| ACTGTCCCTTGTTCTCGCCG+TGG | + | tig0012622:2509-2528 | Msa1352590:CDS | 60.0% | |
| ! | GAAGCACCACGGCGAGAACA+AGG | - | tig0012622:2518-2537 | Msa1352590:intergenic | 60.0% |
| CAATTGCAGACCCGGTGCTC+AGG | + | tig0012622:2544-2563 | Msa1352590:CDS | 60.0% | |
| CAGGCTAACCCTTACAGCCG+TGG | + | tig0012622:2563-2582 | Msa1352590:CDS | 60.0% | |
| GCACTGCATCCACGGCTGTA+AGG | - | tig0012622:2575-2594 | Msa1352590:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0012622 | gene | 2233 | 2616 | 2233 | ID=Msa1352590;Name=Msa1352590 |
| tig0012622 | mRNA | 2233 | 2616 | 2233 | ID=Msa1352590-mRNA-1;Parent=Msa1352590;Name=Msa1352590-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|127 |
| tig0012622 | exon | 2233 | 2616 | 2233 | ID=Msa1352590-mRNA-1:exon:8253;Parent=Msa1352590-mRNA-1 |
| tig0012622 | CDS | 2233 | 2616 | 2233 | ID=Msa1352590-mRNA-1:cds;Parent=Msa1352590-mRNA-1 |
| Gene Sequence |
| Protein sequence |
