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.gene028056.t1 | XP_003612621.2 | 94.4 | 357 | 20 | 0 | 1 | 357 | 1 | 357 | 5.30E-202 | 713.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene028056.t1 | Q9ZUM9 | 44.6 | 390 | 165 | 7 | 8 | 354 | 11 | 392 | 6.6e-92 | 339.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene028056.t1 | G7K6V9 | 94.4 | 357 | 20 | 0 | 1 | 357 | 1 | 357 | 3.9e-202 | 713.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene028056.t1 | TR | SET |
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.gene028056.t1 | MTR_5g027020 | 94.398 | 357 | 20 | 0 | 1 | 357 | 1 | 357 | 0.0 | 705 |
| MS.gene028056.t1 | MTR_1g038390 | 53.247 | 77 | 31 | 2 | 220 | 291 | 4 | 80 | 1.39e-19 | 84.0 |
| MS.gene028056.t1 | MTR_3g073000 | 23.306 | 369 | 193 | 15 | 10 | 352 | 13 | 317 | 4.21e-13 | 70.1 |
| MS.gene028056.t1 | MTR_3g073000 | 23.306 | 369 | 193 | 15 | 10 | 352 | 13 | 317 | 4.68e-13 | 70.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene028056.t1 | AT2G19640 | 44.872 | 390 | 164 | 8 | 8 | 354 | 11 | 392 | 2.66e-112 | 333 |
| MS.gene028056.t1 | AT2G19640 | 48.185 | 303 | 141 | 6 | 8 | 302 | 11 | 305 | 1.87e-96 | 290 |
| MS.gene028056.t1 | AT2G17900 | 24.332 | 337 | 208 | 14 | 10 | 337 | 18 | 316 | 1.07e-13 | 72.4 |
Find 63 sgRNAs with CRISPR-Local
Find 89 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCAACCTCTCTCTTGAAAT+TGG | 0.182162 | 5.3:+16781993 | MS.gene028056:CDS |
| GTAAATTCCATAAGCCTTAA+TGG | 0.186663 | 5.3:-16782601 | None:intergenic |
| GGGATTCAGTGAGGATTATT+TGG | 0.209184 | 5.3:-16782071 | None:intergenic |
| GAAAGTAAAGTTTGAAGTTT+TGG | 0.250619 | 5.3:-16782390 | None:intergenic |
| CTGAAGCAGTTGTGACAATA+AGG | 0.255076 | 5.3:-16782141 | None:intergenic |
| CAAAGATCCATTAAGGCTTA+TGG | 0.268080 | 5.3:+16782594 | MS.gene028056:CDS |
| TGGATCTTTGAGGACCCTTT+TGG | 0.292191 | 5.3:-16782581 | None:intergenic |
| CAAACTTTACTTTCACTTCA+TGG | 0.305377 | 5.3:+16782399 | MS.gene028056:CDS |
| TAATCAAATCTGCATGCATT+AGG | 0.315519 | 5.3:-16782657 | None:intergenic |
| TGAGATCTTGTGTTGCAATA+AGG | 0.317003 | 5.3:-16782041 | None:intergenic |
| TTCATGTGGGGTGGACAAAA+AGG | 0.320238 | 5.3:-16782483 | None:intergenic |
| GAAAGTTGACCCTGCTACTT+AGG | 0.333316 | 5.3:+16783031 | MS.gene028056:CDS |
| AAACTTAGCATTATCAACTA+TGG | 0.347178 | 5.3:-16782442 | None:intergenic |
| GGTGCAAGATTGAAGCAAAT+TGG | 0.355945 | 5.3:+16782853 | MS.gene028056:CDS |
| ATAAGGCCTCTACCTTTGTT+AGG | 0.358422 | 5.3:-16782024 | None:intergenic |
| GGGTCCTCAAAGATCCATTA+AGG | 0.360632 | 5.3:+16782587 | MS.gene028056:CDS |
| ATCTAAGTTTGTTTGTGATA+AGG | 0.371788 | 5.3:+16782923 | MS.gene028056:CDS |
| GGAGAATTGTGCAGGTACTA+TGG | 0.393146 | 5.3:+16782944 | MS.gene028056:CDS |
| ACTATGGAATCATGATCATT+AGG | 0.397254 | 5.3:-16782426 | None:intergenic |
| AATCAAATCTGCATGCATTA+GGG | 0.408868 | 5.3:-16782656 | None:intergenic |
| AATGGAACCTTATACCCAAA+AGG | 0.434073 | 5.3:+16782566 | MS.gene028056:CDS |
| CCAAATAAGACCTAAGTAGC+AGG | 0.442970 | 5.3:-16783041 | None:intergenic |
| GTGAGAGGAATTGAGGGCAT+TGG | 0.448917 | 5.3:-16782238 | None:intergenic |
| TCAATTCCTCTCACTCATCT+TGG | 0.489766 | 5.3:+16782247 | MS.gene028056:CDS |
| TAGCAGAATAGAGAAGAAGA+GGG | 0.491920 | 5.3:-16782092 | None:intergenic |
| AAGATGAGTGAGAGGAATTG+AGG | 0.492387 | 5.3:-16782245 | None:intergenic |
| ATGGAACCTTATACCCAAAA+GGG | 0.493974 | 5.3:+16782567 | MS.gene028056:CDS |
| AGATGAGTGAGAGGAATTGA+GGG | 0.494037 | 5.3:-16782244 | None:intergenic |
| TGCATGCAGATTTGATTATG+TGG | 0.500019 | 5.3:+16782662 | MS.gene028056:CDS |
| TGAAGCAGTTGTGACAATAA+GGG | 0.517249 | 5.3:-16782140 | None:intergenic |
| GTAGCAGAATAGAGAAGAAG+AGG | 0.521798 | 5.3:-16782093 | None:intergenic |
| GCTCCTCTGCCTCCAAAAGA+TGG | 0.525196 | 5.3:+16782966 | MS.gene028056:CDS |
| TAAGCCTTAATGGATCTTTG+AGG | 0.528933 | 5.3:-16782591 | None:intergenic |
| CATGGAAATGTTTGTGAAGG+TGG | 0.530274 | 5.3:-16782171 | None:intergenic |
| GAAGAAGAGGGGATTCAGTG+AGG | 0.537045 | 5.3:-16782080 | None:intergenic |
| AGCAGAATAGAGAAGAAGAG+GGG | 0.546586 | 5.3:-16782091 | None:intergenic |
| AAAAGGTAGTTTGAGCAAGA+AGG | 0.551661 | 5.3:-16782195 | None:intergenic |
| AAATGTTTGTGAAGGTGGTA+AGG | 0.557933 | 5.3:-16782166 | None:intergenic |
| TTGATTGAGGATGTTGCTGT+TGG | 0.558045 | 5.3:+16782732 | MS.gene028056:CDS |
| TTTCTGATAATGGTGAAGTG+GGG | 0.567781 | 5.3:-16782299 | None:intergenic |
| ATTGAAGCAAATTGGAATGG+TGG | 0.572117 | 5.3:+16782861 | MS.gene028056:CDS |
| GCAACACAAGATCTCAAAGC+TGG | 0.580231 | 5.3:+16782048 | MS.gene028056:CDS |
| CACATACCTAACAAAGGTAG+AGG | 0.580606 | 5.3:+16782018 | MS.gene028056:CDS |
| GAGGGTGTATGAGAGAAAAG+AGG | 0.582689 | 5.3:-16782117 | None:intergenic |
| GAAGCAGTTGTGACAATAAG+GGG | 0.584478 | 5.3:-16782139 | None:intergenic |
| GTGCTCCAATTTCAAGAGAG+AGG | 0.586066 | 5.3:-16781998 | None:intergenic |
| TGTGATAAGGAGAATTGTGC+AGG | 0.587133 | 5.3:+16782936 | MS.gene028056:CDS |
| TAGTTTGAGCAAGAAGGACA+TGG | 0.592796 | 5.3:-16782189 | None:intergenic |
| TCAGTATTATGTTCATCACC+AGG | 0.593180 | 5.3:-16782696 | None:intergenic |
| AGATTTGATTATGTGGAAAG+TGG | 0.595188 | 5.3:+16782669 | MS.gene028056:CDS |
| TATGTGGAAAGTGGTGAACC+TGG | 0.596809 | 5.3:+16782678 | MS.gene028056:CDS |
| CAAATAAGACCTAAGTAGCA+GGG | 0.606280 | 5.3:-16783040 | None:intergenic |
| ACATGACCAAGATGAGTGAG+AGG | 0.606296 | 5.3:-16782253 | None:intergenic |
| AGGAATTGAGGGCATTGGAG+AGG | 0.625591 | 5.3:-16782233 | None:intergenic |
| GCTTGAACTTGAAGTTCACA+AGG | 0.648973 | 5.3:-16782324 | None:intergenic |
| CAGTTGTGACAATAAGGGGA+GGG | 0.650828 | 5.3:-16782135 | None:intergenic |
| GCAGTTGTGACAATAAGGGG+AGG | 0.655954 | 5.3:-16782136 | None:intergenic |
| AAGATTGAAGCAAATTGGAA+TGG | 0.663418 | 5.3:+16782858 | MS.gene028056:CDS |
| GGACATGGAAATGTTTGTGA+AGG | 0.669839 | 5.3:-16782174 | None:intergenic |
| TTGGAGCACATACCTAACAA+AGG | 0.675712 | 5.3:+16782012 | MS.gene028056:CDS |
| TTAGATAAGAAAATCACATG+TGG | 0.682821 | 5.3:-16782906 | None:intergenic |
| ATGCATTAGGGATACAACCA+TGG | 0.710306 | 5.3:-16782644 | None:intergenic |
| TTAATAAGGATTTCTCAACA+AGG | 0.727438 | 5.3:+16782784 | MS.gene028056:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATAATACTGATATTGTTTTT+AGG | + | chr5.3:16782709-16782728 | MS.gene028056:CDS | 15.0% |
| !!! | ATTAAACTCTTTTTGTTTAA+TGG | + | chr5.3:16782548-16782567 | MS.gene028056:CDS | 15.0% |
| !!! | AAGCTATTTTAGGATTAATA+AGG | + | chr5.3:16782770-16782789 | MS.gene028056:CDS | 20.0% |
| !!! | AGATTTGTATAAGCTATTTT+AGG | + | chr5.3:16782760-16782779 | MS.gene028056:CDS | 20.0% |
| ! | AAACTTAGCATTATCAACTA+TGG | - | chr5.3:16782445-16782464 | None:intergenic | 25.0% |
| ! | TTAATAAGGATTTCTCAACA+AGG | + | chr5.3:16782784-16782803 | MS.gene028056:CDS | 25.0% |
| ! | TTAGATAAGAAAATCACATG+TGG | - | chr5.3:16782909-16782928 | None:intergenic | 25.0% |
| !! | AACAAGGAAAAAGATTTTGA+TGG | + | chr5.3:16782800-16782819 | MS.gene028056:CDS | 25.0% |
| !! | ATCTAAGTTTGTTTGTGATA+AGG | + | chr5.3:16782923-16782942 | MS.gene028056:CDS | 25.0% |
| !! | GGTTAAAAAAAGTAGCTTTT+TGG | - | chr5.3:16782626-16782645 | None:intergenic | 25.0% |
| !! | TTAGATTTTTCACCATCTTT+TGG | - | chr5.3:16782981-16783000 | None:intergenic | 25.0% |
| !!! | AAAGCTACTTTTTTTAACCA+TGG | + | chr5.3:16782627-16782646 | MS.gene028056:CDS | 25.0% |
| !!! | GAAAGTAAAGTTTGAAGTTT+TGG | - | chr5.3:16782393-16782412 | None:intergenic | 25.0% |
| !!! | TATTGTTTTTAGGTTGATTG+AGG | + | chr5.3:16782719-16782738 | MS.gene028056:CDS | 25.0% |
| AAGATTGAAGCAAATTGGAA+TGG | + | chr5.3:16782858-16782877 | MS.gene028056:CDS | 30.0% | |
| AATCAAATCTGCATGCATTA+GGG | - | chr5.3:16782659-16782678 | None:intergenic | 30.0% | |
| ACTATGGAATCATGATCATT+AGG | - | chr5.3:16782429-16782448 | None:intergenic | 30.0% | |
| AGATTTGATTATGTGGAAAG+TGG | + | chr5.3:16782669-16782688 | MS.gene028056:CDS | 30.0% | |
| CAAACTTTACTTTCACTTCA+TGG | + | chr5.3:16782399-16782418 | MS.gene028056:CDS | 30.0% | |
| GTAAATTCCATAAGCCTTAA+TGG | - | chr5.3:16782604-16782623 | None:intergenic | 30.0% | |
| TAATCAAATCTGCATGCATT+AGG | - | chr5.3:16782660-16782679 | None:intergenic | 30.0% | |
| TTCAGCTGAAAAATTCATGT+GGG | - | chr5.3:16782499-16782518 | None:intergenic | 30.0% | |
| ! | TCACAAGGTTTTTCTGATAA+TGG | - | chr5.3:16782312-16782331 | None:intergenic | 30.0% |
| !! | AAGATTTTGATGGAGGATTA+TGG | + | chr5.3:16782810-16782829 | MS.gene028056:CDS | 30.0% |
| !! | AAGGAAAAAGATTTTGATGG+AGG | + | chr5.3:16782803-16782822 | MS.gene028056:CDS | 30.0% |
| !! | AGTAAAGTTTGAAGTTTTGG+AGG | - | chr5.3:16782390-16782409 | None:intergenic | 30.0% |
| !!! | GTAAAGTTTGAAGTTTTGGA+GGG | - | chr5.3:16782389-16782408 | None:intergenic | 30.0% |
| !!! | TAAAGTTTGAAGTTTTGGAG+GGG | - | chr5.3:16782388-16782407 | None:intergenic | 30.0% |
| !!! | TTTTCTGATAATGGTGAAGT+GGG | - | chr5.3:16782303-16782322 | None:intergenic | 30.0% |
| !!! | TTTTTCTGATAATGGTGAAG+TGG | - | chr5.3:16782304-16782323 | None:intergenic | 30.0% |
| AAAAGGTAGTTTGAGCAAGA+AGG | - | chr5.3:16782198-16782217 | None:intergenic | 35.0% | |
| AAATGTTTGTGAAGGTGGTA+AGG | - | chr5.3:16782169-16782188 | None:intergenic | 35.0% | |
| AATGGAACCTTATACCCAAA+AGG | + | chr5.3:16782566-16782585 | MS.gene028056:CDS | 35.0% | |
| ATGGAACCTTATACCCAAAA+GGG | + | chr5.3:16782567-16782586 | MS.gene028056:CDS | 35.0% | |
| ATTGAAGCAAATTGGAATGG+TGG | + | chr5.3:16782861-16782880 | MS.gene028056:CDS | 35.0% | |
| CAAAGATCCATTAAGGCTTA+TGG | + | chr5.3:16782594-16782613 | MS.gene028056:CDS | 35.0% | |
| GTTCAGCTGAAAAATTCATG+TGG | - | chr5.3:16782500-16782519 | None:intergenic | 35.0% | |
| TAGCAGAATAGAGAAGAAGA+GGG | - | chr5.3:16782095-16782114 | None:intergenic | 35.0% | |
| TCAGCTGAAAAATTCATGTG+GGG | - | chr5.3:16782498-16782517 | None:intergenic | 35.0% | |
| TCAGTATTATGTTCATCACC+AGG | - | chr5.3:16782699-16782718 | None:intergenic | 35.0% | |
| TGAAGCAGTTGTGACAATAA+GGG | - | chr5.3:16782143-16782162 | None:intergenic | 35.0% | |
| TGAGATCTTGTGTTGCAATA+AGG | - | chr5.3:16782044-16782063 | None:intergenic | 35.0% | |
| TGCATGCAGATTTGATTATG+TGG | + | chr5.3:16782662-16782681 | MS.gene028056:CDS | 35.0% | |
| TTCAACCTCTCTCTTGAAAT+TGG | + | chr5.3:16781993-16782012 | MS.gene028056:CDS | 35.0% | |
| ! | GATTTTTCACCATCTTTTGG+AGG | - | chr5.3:16782978-16782997 | None:intergenic | 35.0% |
| ! | GTTCTTGAGTGTAACTTTTG+TGG | + | chr5.3:16783002-16783021 | MS.gene028056:CDS | 35.0% |
| ! | GTTTTGCTTGTGAATGTGAT+AGG | + | chr5.3:16782832-16782851 | MS.gene028056:CDS | 35.0% |
| ! | TAAGCCTTAATGGATCTTTG+AGG | - | chr5.3:16782594-16782613 | None:intergenic | 35.0% |
| !! | TTTCTGATAATGGTGAAGTG+GGG | - | chr5.3:16782302-16782321 | None:intergenic | 35.0% |
| AAGATGAGTGAGAGGAATTG+AGG | - | chr5.3:16782248-16782267 | None:intergenic | 40.0% | |
| AGATGAGTGAGAGGAATTGA+GGG | - | chr5.3:16782247-16782266 | None:intergenic | 40.0% | |
| AGCAGAATAGAGAAGAAGAG+GGG | - | chr5.3:16782094-16782113 | None:intergenic | 40.0% | |
| ATAAGGCCTCTACCTTTGTT+AGG | - | chr5.3:16782027-16782046 | None:intergenic | 40.0% | |
| ATGCATTAGGGATACAACCA+TGG | - | chr5.3:16782647-16782666 | None:intergenic | 40.0% | |
| CACATACCTAACAAAGGTAG+AGG | + | chr5.3:16782018-16782037 | MS.gene028056:CDS | 40.0% | |
| CATGGAAATGTTTGTGAAGG+TGG | - | chr5.3:16782174-16782193 | None:intergenic | 40.0% | |
| CTGAAGCAGTTGTGACAATA+AGG | - | chr5.3:16782144-16782163 | None:intergenic | 40.0% | |
| GAAGCAGTTGTGACAATAAG+GGG | - | chr5.3:16782142-16782161 | None:intergenic | 40.0% | |
| GCTTGAACTTGAAGTTCACA+AGG | - | chr5.3:16782327-16782346 | None:intergenic | 40.0% | |
| GGACATGGAAATGTTTGTGA+AGG | - | chr5.3:16782177-16782196 | None:intergenic | 40.0% | |
| GGGATTCAGTGAGGATTATT+TGG | - | chr5.3:16782074-16782093 | None:intergenic | 40.0% | |
| GGTGCAAGATTGAAGCAAAT+TGG | + | chr5.3:16782853-16782872 | MS.gene028056:CDS | 40.0% | |
| GTAGCAGAATAGAGAAGAAG+AGG | - | chr5.3:16782096-16782115 | None:intergenic | 40.0% | |
| TAGTTTGAGCAAGAAGGACA+TGG | - | chr5.3:16782192-16782211 | None:intergenic | 40.0% | |
| TCAATTCCTCTCACTCATCT+TGG | + | chr5.3:16782247-16782266 | MS.gene028056:CDS | 40.0% | |
| TGTGATAAGGAGAATTGTGC+AGG | + | chr5.3:16782936-16782955 | MS.gene028056:CDS | 40.0% | |
| TTGATTGAGGATGTTGCTGT+TGG | + | chr5.3:16782732-16782751 | MS.gene028056:CDS | 40.0% | |
| TTGGAGCACATACCTAACAA+AGG | + | chr5.3:16782012-16782031 | MS.gene028056:CDS | 40.0% | |
| ACATGACCAAGATGAGTGAG+AGG | - | chr5.3:16782256-16782275 | None:intergenic | 45.0% | |
| CAGTTGTGACAATAAGGGGA+GGG | - | chr5.3:16782138-16782157 | None:intergenic | 45.0% | |
| GCAACACAAGATCTCAAAGC+TGG | + | chr5.3:16782048-16782067 | MS.gene028056:CDS | 45.0% | |
| GCTGAAAAATTCATGTGGGG+TGG | - | chr5.3:16782495-16782514 | None:intergenic | 45.0% | |
| GGAGAATTGTGCAGGTACTA+TGG | + | chr5.3:16782944-16782963 | MS.gene028056:CDS | 45.0% | |
| GGGTCCTCAAAGATCCATTA+AGG | + | chr5.3:16782587-16782606 | MS.gene028056:CDS | 45.0% | |
| GTGCTCCAATTTCAAGAGAG+AGG | - | chr5.3:16782001-16782020 | None:intergenic | 45.0% | |
| TATGTGGAAAGTGGTGAACC+TGG | + | chr5.3:16782678-16782697 | MS.gene028056:CDS | 45.0% | |
| TTCATGTGGGGTGGACAAAA+AGG | - | chr5.3:16782486-16782505 | None:intergenic | 45.0% | |
| ! | GAGGGTGTATGAGAGAAAAG+AGG | - | chr5.3:16782120-16782139 | None:intergenic | 45.0% |
| !! | GGATCTTTGAGGACCCTTTT+GGG | - | chr5.3:16782583-16782602 | None:intergenic | 45.0% |
| !! | TGAGGACCCTTTTGGGTATA+AGG | - | chr5.3:16782576-16782595 | None:intergenic | 45.0% |
| !! | TGGATCTTTGAGGACCCTTT+TGG | - | chr5.3:16782584-16782603 | None:intergenic | 45.0% |
| !!! | GGCATTTTTGGCTGCAGAAA+AGG | - | chr5.3:16782215-16782234 | None:intergenic | 45.0% |
| GAAGAAGAGGGGATTCAGTG+AGG | - | chr5.3:16782083-16782102 | None:intergenic | 50.0% | |
| GCAGTTGTGACAATAAGGGG+AGG | - | chr5.3:16782139-16782158 | None:intergenic | 50.0% | |
| ! | GTGAGAGGAATTGAGGGCAT+TGG | - | chr5.3:16782241-16782260 | None:intergenic | 50.0% |
| !! | AGGAATTGAGGGCATTGGAG+AGG | - | chr5.3:16782236-16782255 | None:intergenic | 50.0% |
| !! | TCACCATCTTTTGGAGGCAG+AGG | - | chr5.3:16782972-16782991 | None:intergenic | 50.0% |
| !!! | GGGCATTGGAGAGGCATTTT+TGG | - | chr5.3:16782227-16782246 | None:intergenic | 50.0% |
| GCTCCTCTGCCTCCAAAAGA+TGG | + | chr5.3:16782966-16782985 | MS.gene028056:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.3 | gene | 16781979 | 16783052 | 16781979 | ID=MS.gene028056 |
| chr5.3 | mRNA | 16781979 | 16783052 | 16781979 | ID=MS.gene028056.t1;Parent=MS.gene028056 |
| chr5.3 | exon | 16781979 | 16783052 | 16781979 | ID=MS.gene028056.t1.exon1;Parent=MS.gene028056.t1 |
| chr5.3 | CDS | 16781979 | 16783052 | 16781979 | ID=cds.MS.gene028056.t1;Parent=MS.gene028056.t1 |
| Gene Sequence |
| Protein sequence |
