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.gene32509.t1 | XP_024641057.1 | 77.7 | 256 | 54 | 2 | 1 | 254 | 1 | 255 | 4.30E-89 | 337.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene32509.t1 | Q8W487 | 47.7 | 197 | 90 | 4 | 63 | 253 | 60 | 249 | 1.1e-29 | 131.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene32509.t1 | A0A396I021 | 77.7 | 256 | 54 | 2 | 1 | 254 | 1 | 255 | 3.1e-89 | 337.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene32509 | MS.gene46105 | PPI |
| MS.gene32509 | MS.gene46104 | PPI |
| MS.gene000604 | MS.gene32509 | PPI |
| MS.gene32509 | MS.gene040272 | PPI |
| MS.gene32509 | MS.gene89319 | PPI |
| MS.gene32509 | MS.gene040271 | PPI |
| MS.gene055201 | MS.gene32509 | PPI |
| MS.gene32509 | MS.gene67544 | PPI |
| MS.gene32509 | MS.gene034255 | PPI |
| MS.gene32509 | MS.gene053230 | PPI |
| MS.gene32509 | MS.gene040269 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene32509.t1 | MTR_5g080880 | 78.906 | 256 | 49 | 3 | 1 | 253 | 1 | 254 | 3.02e-129 | 369 |
| MS.gene32509.t1 | MTR_5g080870 | 67.717 | 254 | 48 | 4 | 1 | 254 | 1 | 220 | 3.18e-110 | 321 |
| MS.gene32509.t1 | MTR_7g063520 | 43.612 | 227 | 119 | 6 | 32 | 253 | 31 | 253 | 2.61e-49 | 163 |
| MS.gene32509.t1 | MTR_4g006560 | 36.054 | 147 | 88 | 2 | 108 | 253 | 94 | 235 | 8.50e-21 | 88.2 |
| MS.gene32509.t1 | MTR_1g013120 | 29.046 | 241 | 154 | 8 | 21 | 253 | 1 | 232 | 1.69e-17 | 79.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene32509.t1 | AT3G55605 | 42.857 | 273 | 120 | 11 | 1 | 253 | 1 | 257 | 1.18e-49 | 164 |
| MS.gene32509.t1 | AT5G05990 | 37.970 | 266 | 138 | 7 | 5 | 253 | 3 | 258 | 5.46e-47 | 157 |
| MS.gene32509.t1 | AT2G39795 | 44.162 | 197 | 97 | 5 | 63 | 253 | 60 | 249 | 1.38e-41 | 143 |
| MS.gene32509.t1 | AT5G02050 | 40.758 | 211 | 109 | 5 | 55 | 253 | 60 | 266 | 3.86e-40 | 139 |
| MS.gene32509.t1 | AT2G39790 | 31.034 | 232 | 142 | 5 | 31 | 254 | 19 | 240 | 8.45e-24 | 96.3 |
| MS.gene32509.t1 | AT1G15870 | 29.947 | 187 | 120 | 5 | 69 | 253 | 63 | 240 | 3.78e-15 | 73.2 |
| MS.gene32509.t1 | AT1G80720 | 29.101 | 189 | 121 | 5 | 68 | 253 | 10 | 188 | 2.48e-13 | 67.0 |
| MS.gene32509.t1 | AT1G80720 | 29.101 | 189 | 121 | 5 | 68 | 253 | 62 | 240 | 2.99e-13 | 67.8 |
| MS.gene32509.t1 | AT4G31930 | 34.234 | 111 | 71 | 2 | 144 | 252 | 122 | 232 | 3.60e-11 | 61.6 |
Find 43 sgRNAs with CRISPR-Local
Find 85 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGATCAACAACTATCTTAAA+TGG | 0.169759 | 5.1:-62756262 | None:intergenic |
| TTATCAAGGTGAAGAAATTC+AGG | 0.325526 | 5.1:+62756315 | MS.gene32509:CDS |
| TAAGAAGGATGGGACCTCTT+TGG | 0.326135 | 5.1:+62756459 | MS.gene32509:CDS |
| TGCAAGAAATTTGTTGTGCT+TGG | 0.355860 | 5.1:-62756976 | None:intergenic |
| CAAGCATTCCACTTTCAGTC+AGG | 0.380172 | 5.1:+62756431 | MS.gene32509:CDS |
| CTGCGGATAACCATCTCATC+AGG | 0.394847 | 5.1:-62756502 | None:intergenic |
| CTCTTATTTCTAAGTACTTG+TGG | 0.408675 | 5.1:-62756945 | None:intergenic |
| CCAAGTCAATCACTTTCGTT+AGG | 0.411187 | 5.1:+62755772 | MS.gene32509:CDS |
| TTCAGTCAGGGTTTCTAAGA+AGG | 0.411975 | 5.1:+62756444 | MS.gene32509:CDS |
| TGCAAGAGTACATGATCAAC+TGG | 0.419125 | 5.1:+62756995 | MS.gene32509:CDS |
| CTGGAAAAGTAGAGAATACT+TGG | 0.432278 | 5.1:+62757014 | MS.gene32509:CDS |
| CACAAGTACTTAGAAATAAG+AGG | 0.434165 | 5.1:+62756946 | MS.gene32509:CDS |
| AACAACTTTGTTATTATGAC+AGG | 0.438232 | 5.1:+62756548 | MS.gene32509:CDS |
| TTAGAAACCCTGACTGAAAG+TGG | 0.461666 | 5.1:-62756439 | None:intergenic |
| GATCAACAACTATCTTAAAT+GGG | 0.468373 | 5.1:-62756261 | None:intergenic |
| TAAGCATCAAAAGGATGATA+AGG | 0.471842 | 5.1:+62756381 | MS.gene32509:CDS |
| GAGAAAAGTCTCATCGGAGT+TGG | 0.476774 | 5.1:-62755931 | None:intergenic |
| ATCGAAAATCACTTGTGCTC+AGG | 0.490320 | 5.1:+62755965 | MS.gene32509:CDS |
| AGAAAAGTCTCATCGGAGTT+GGG | 0.497268 | 5.1:-62755930 | None:intergenic |
| GTCAGGGTTTCTAAGAAGGA+TGG | 0.501378 | 5.1:+62756448 | MS.gene32509:CDS |
| TGAACCCTCGTAGCGGTTGA+CGG | 0.507166 | 5.1:-62755862 | None:intergenic |
| AGGTGAAGAAATTCAGGTTG+AGG | 0.508552 | 5.1:+62756321 | MS.gene32509:CDS |
| CAAGTCAATCACTTTCGTTA+GGG | 0.508696 | 5.1:+62755773 | MS.gene32509:CDS |
| TGAACATGATAAGCATCAAA+AGG | 0.514345 | 5.1:+62756372 | MS.gene32509:CDS |
| ATGCTTATCATGTTCATCAC+CGG | 0.515294 | 5.1:-62756365 | None:intergenic |
| GAAAGCACGGCGCGATGACC+CGG | 0.519271 | 5.1:-62755834 | None:intergenic |
| ACACTTAAAAGAACTTATCA+AGG | 0.539500 | 5.1:+62756301 | MS.gene32509:CDS |
| AAGCATTCCACTTTCAGTCA+GGG | 0.546965 | 5.1:+62756432 | MS.gene32509:CDS |
| AAGTGATTGACTTGGTGCGA+AGG | 0.575471 | 5.1:-62755764 | None:intergenic |
| TGCTGCCGTCAACCGCTACG+AGG | 0.576536 | 5.1:+62755857 | MS.gene32509:CDS |
| TCAGGGTTTCTAAGAAGGAT+GGG | 0.578315 | 5.1:+62756449 | MS.gene32509:CDS |
| TGTTGCTTACCCTGATGAGA+TGG | 0.579238 | 5.1:+62756492 | MS.gene32509:CDS |
| GTTTACAGCGCGGAACTCAT+CGG | 0.581714 | 5.1:-62755991 | None:intergenic |
| GTTGACGGCAGCAGAAAGCA+CGG | 0.587486 | 5.1:-62755847 | None:intergenic |
| GCTGCCGTCAACCGCTACGA+GGG | 0.594490 | 5.1:+62755858 | MS.gene32509:CDS |
| CCTAACGAAAGTGATTGACT+TGG | 0.601517 | 5.1:-62755772 | None:intergenic |
| TAAACGGAGAAAAGTCTCAT+CGG | 0.611707 | 5.1:-62755937 | None:intergenic |
| AACACAATTGAACTCCAAAG+AGG | 0.630953 | 5.1:-62756473 | None:intergenic |
| GATTCATATTAAACAAGCTG+CGG | 0.638671 | 5.1:-62756519 | None:intergenic |
| TCAGAAGAAAAGTGAAACGT+AGG | 0.644962 | 5.1:-62755891 | None:intergenic |
| TGCGGATAACCATCTCATCA+GGG | 0.665501 | 5.1:-62756501 | None:intergenic |
| AAAGTAGAGAATACTTGGTG+TGG | 0.686000 | 5.1:+62757019 | MS.gene32509:CDS |
| GAACAAATGAACCCTCGTAG+CGG | 0.717050 | 5.1:-62755869 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAATGTTGAAAATTTGATTT+TGG | + | chr5.1:62756206-62756225 | MS.gene32509:intron | 15.0% |
| !! | AATTGAAAGTAATACAAACA+GGG | - | chr5.1:62756844-62756863 | None:intergenic | 20.0% |
| !! | ATCATGAGTCTAATAAATTA+AGG | - | chr5.1:62756025-62756044 | None:intergenic | 20.0% |
| !! | TAATTGAAAGTAATACAAAC+AGG | - | chr5.1:62756845-62756864 | None:intergenic | 20.0% |
| !!! | AATTTGATTTTGGTTGATAT+AGG | + | chr5.1:62756216-62756235 | MS.gene32509:intron | 20.0% |
| !!! | ATTTGATTTTGGTTGATATA+GGG | + | chr5.1:62756217-62756236 | MS.gene32509:intron | 20.0% |
| !!! | TGATTTTCGATTCAATTAAA+CGG | - | chr5.1:62755956-62755975 | None:intergenic | 20.0% |
| ! | ACACTTAAAAGAACTTATCA+AGG | + | chr5.1:62756301-62756320 | MS.gene32509:CDS | 25.0% |
| ! | AGATCAACAACTATCTTAAA+TGG | - | chr5.1:62756265-62756284 | None:intergenic | 25.0% |
| ! | ATGGTATGGAAATTTGAATT+TGG | + | chr5.1:62756148-62756167 | MS.gene32509:intron | 25.0% |
| ! | GATCAACAACTATCTTAAAT+GGG | - | chr5.1:62756264-62756283 | None:intergenic | 25.0% |
| ! | TTTAATCATACCAGCTTATA+AGG | - | chr5.1:62756112-62756131 | None:intergenic | 25.0% |
| !!! | AACAACTTTGTTATTATGAC+AGG | + | chr5.1:62756548-62756567 | MS.gene32509:CDS | 25.0% |
| AAAAAAGACCCATTTCGTAA+TGG | + | chr5.1:62756129-62756148 | MS.gene32509:intron | 30.0% | |
| ATTGATCAGAAAAACTCAAC+CGG | + | chr5.1:62755815-62755834 | MS.gene32509:CDS | 30.0% | |
| ATTTCCATACCATTACGAAA+TGG | - | chr5.1:62756141-62756160 | None:intergenic | 30.0% | |
| CACAAGTACTTAGAAATAAG+AGG | + | chr5.1:62756946-62756965 | MS.gene32509:CDS | 30.0% | |
| CTAATAAATTAAGGAAGACG+AGG | - | chr5.1:62756016-62756035 | None:intergenic | 30.0% | |
| GATTCATATTAAACAAGCTG+CGG | - | chr5.1:62756522-62756541 | None:intergenic | 30.0% | |
| TAAGCATCAAAAGGATGATA+AGG | + | chr5.1:62756381-62756400 | MS.gene32509:CDS | 30.0% | |
| TGAACATGATAAGCATCAAA+AGG | + | chr5.1:62756372-62756391 | MS.gene32509:CDS | 30.0% | |
| TGAACTTATACCTTATAAGC+TGG | + | chr5.1:62756099-62756118 | MS.gene32509:intron | 30.0% | |
| TTATCAAGGTGAAGAAATTC+AGG | + | chr5.1:62756315-62756334 | MS.gene32509:CDS | 30.0% | |
| TTTCCATACCATTACGAAAT+GGG | - | chr5.1:62756140-62756159 | None:intergenic | 30.0% | |
| ! | GTGCATTCAATATTTGAAAC+CGG | + | chr5.1:62756617-62756636 | MS.gene32509:intron | 30.0% |
| ! | TGCATTCAATATTTGAAACC+GGG | + | chr5.1:62756618-62756637 | MS.gene32509:intron | 30.0% |
| !! | CTCTTATTTCTAAGTACTTG+TGG | - | chr5.1:62756948-62756967 | None:intergenic | 30.0% |
| AACACAATTGAACTCCAAAG+AGG | - | chr5.1:62756476-62756495 | None:intergenic | 35.0% | |
| ATGCTTATCATGTTCATCAC+CGG | - | chr5.1:62756368-62756387 | None:intergenic | 35.0% | |
| CAAGTCAATCACTTTCGTTA+GGG | + | chr5.1:62755773-62755792 | MS.gene32509:CDS | 35.0% | |
| CTGGAAAAGTAGAGAATACT+TGG | + | chr5.1:62757014-62757033 | MS.gene32509:CDS | 35.0% | |
| TAAACGGAGAAAAGTCTCAT+CGG | - | chr5.1:62755940-62755959 | None:intergenic | 35.0% | |
| TCAGAAGAAAAGTGAAACGT+AGG | - | chr5.1:62755894-62755913 | None:intergenic | 35.0% | |
| TCCAAATCCCTGGAAAAAAA+TGG | - | chr5.1:62756904-62756923 | None:intergenic | 35.0% | |
| TTGATCAGAAAAACTCAACC+GGG | + | chr5.1:62755816-62755835 | MS.gene32509:CDS | 35.0% | |
| ! | AAAGTAGAGAATACTTGGTG+TGG | + | chr5.1:62757019-62757038 | MS.gene32509:CDS | 35.0% |
| ! | GCATTCAATATTTGAAACCG+GGG | + | chr5.1:62756619-62756638 | MS.gene32509:intron | 35.0% |
| ! | TGAGGTTGCGATTTTTCATT+TGG | + | chr5.1:62756339-62756358 | MS.gene32509:CDS | 35.0% |
| !! | TGCAAGAAATTTGTTGTGCT+TGG | - | chr5.1:62756979-62756998 | None:intergenic | 35.0% |
| !!! | AGATTCTGCCATTTTTTTCC+AGG | + | chr5.1:62756893-62756912 | MS.gene32509:intron | 35.0% |
| !!! | ATTTTGGTTGATATAGGGTG+AGG | + | chr5.1:62756222-62756241 | MS.gene32509:intron | 35.0% |
| !!! | GATTCTGCCATTTTTTTCCA+GGG | + | chr5.1:62756894-62756913 | MS.gene32509:intron | 35.0% |
| !!! | TGCAGTTCAGATTGTTGTTT+TGG | + | chr5.1:62756802-62756821 | MS.gene32509:intron | 35.0% |
| AAGCATTCCACTTTCAGTCA+GGG | + | chr5.1:62756432-62756451 | MS.gene32509:CDS | 40.0% | |
| AGAAAAGTCTCATCGGAGTT+GGG | - | chr5.1:62755933-62755952 | None:intergenic | 40.0% | |
| AGACCCATTTCGTAATGGTA+TGG | + | chr5.1:62756134-62756153 | MS.gene32509:intron | 40.0% | |
| ATCGAAAATCACTTGTGCTC+AGG | + | chr5.1:62755965-62755984 | MS.gene32509:CDS | 40.0% | |
| CCAAGTCAATCACTTTCGTT+AGG | + | chr5.1:62755772-62755791 | MS.gene32509:CDS | 40.0% | |
| CCAATCTCAATTCCAAATCG+CGG | - | chr5.1:62756728-62756747 | None:intergenic | 40.0% | |
| CCACTATAGCTGCTATGATA+TGG | - | chr5.1:62756657-62756676 | None:intergenic | 40.0% | |
| CCATATCATAGCAGCTATAG+TGG | + | chr5.1:62756654-62756673 | MS.gene32509:intron | 40.0% | |
| CCTAACGAAAGTGATTGACT+TGG | - | chr5.1:62755775-62755794 | None:intergenic | 40.0% | |
| TTAGAAACCCTGACTGAAAG+TGG | - | chr5.1:62756442-62756461 | None:intergenic | 40.0% | |
| ! | AACTACTAGTTTCCGCGATT+TGG | + | chr5.1:62756713-62756732 | MS.gene32509:intron | 40.0% |
| ! | CGCGATTTGGAATTGAGATT+GGG | + | chr5.1:62756726-62756745 | MS.gene32509:intron | 40.0% |
| ! | GATTTGGAATTGAGATTGGG+TGG | + | chr5.1:62756729-62756748 | MS.gene32509:intron | 40.0% |
| ! | GCGATTTTTCATTTGGTTGC+CGG | + | chr5.1:62756346-62756365 | MS.gene32509:CDS | 40.0% |
| ! | GCTATAGCACTTTTGCATAG+CGG | + | chr5.1:62756680-62756699 | MS.gene32509:intron | 40.0% |
| ! | TCAGGGTTTCTAAGAAGGAT+GGG | + | chr5.1:62756449-62756468 | MS.gene32509:CDS | 40.0% |
| ! | TGCAAGAGTACATGATCAAC+TGG | + | chr5.1:62756995-62757014 | MS.gene32509:CDS | 40.0% |
| ! | TTCAGTCAGGGTTTCTAAGA+AGG | + | chr5.1:62756444-62756463 | MS.gene32509:CDS | 40.0% |
| ! | TTTTTCCAGGGATTTGGATG+AGG | + | chr5.1:62756906-62756925 | MS.gene32509:intron | 40.0% |
| !! | AGGTGAAGAAATTCAGGTTG+AGG | + | chr5.1:62756321-62756340 | MS.gene32509:CDS | 40.0% |
| !!! | GCCATTTTTTTCCAGGGATT+TGG | + | chr5.1:62756900-62756919 | MS.gene32509:intron | 40.0% |
| CAAGCATTCCACTTTCAGTC+AGG | + | chr5.1:62756431-62756450 | MS.gene32509:CDS | 45.0% | |
| GAACAAATGAACCCTCGTAG+CGG | - | chr5.1:62755872-62755891 | None:intergenic | 45.0% | |
| GAGAAAAGTCTCATCGGAGT+TGG | - | chr5.1:62755934-62755953 | None:intergenic | 45.0% | |
| TAAGAAGGATGGGACCTCTT+TGG | + | chr5.1:62756459-62756478 | MS.gene32509:CDS | 45.0% | |
| TATGGTCACTGATGTAACCC+CGG | - | chr5.1:62756639-62756658 | None:intergenic | 45.0% | |
| TCTCTACAACCAAGCAGTAC+AGG | - | chr5.1:62756764-62756783 | None:intergenic | 45.0% | |
| TGCGGATAACCATCTCATCA+GGG | - | chr5.1:62756504-62756523 | None:intergenic | 45.0% | |
| TGTTGCTAACCTGTACTGCT+TGG | + | chr5.1:62756752-62756771 | MS.gene32509:intron | 45.0% | |
| ! | CCGCGATTTGGAATTGAGAT+TGG | + | chr5.1:62756725-62756744 | MS.gene32509:intron | 45.0% |
| ! | GTCAGGGTTTCTAAGAAGGA+TGG | + | chr5.1:62756448-62756467 | MS.gene32509:CDS | 45.0% |
| ! | TGTTGCTTACCCTGATGAGA+TGG | + | chr5.1:62756492-62756511 | MS.gene32509:CDS | 45.0% |
| !! | AAGTGATTGACTTGGTGCGA+AGG | - | chr5.1:62755767-62755786 | None:intergenic | 45.0% |
| CTGCGGATAACCATCTCATC+AGG | - | chr5.1:62756505-62756524 | None:intergenic | 50.0% | |
| GTTTACAGCGCGGAACTCAT+CGG | - | chr5.1:62755994-62756013 | None:intergenic | 50.0% | |
| CAACGCCTCATCCAAATCCC+TGG | - | chr5.1:62756914-62756933 | None:intergenic | 55.0% | |
| GGAAGACGAGGTTTACAGCG+CGG | - | chr5.1:62756004-62756023 | None:intergenic | 55.0% | |
| GTTGACGGCAGCAGAAAGCA+CGG | - | chr5.1:62755850-62755869 | None:intergenic | 55.0% | |
| TGAACCCTCGTAGCGGTTGA+CGG | - | chr5.1:62755865-62755884 | None:intergenic | 55.0% | |
| GCTGCCGTCAACCGCTACGA+GGG | + | chr5.1:62755858-62755877 | MS.gene32509:CDS | 65.0% | |
| TGCTGCCGTCAACCGCTACG+AGG | + | chr5.1:62755857-62755876 | MS.gene32509:CDS | 65.0% | |
| ! | GAAAGCACGGCGCGATGACC+CGG | - | chr5.1:62755837-62755856 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.1 | gene | 62755747 | 62757074 | 62755747 | ID=MS.gene32509 |
| chr5.1 | mRNA | 62755747 | 62757074 | 62755747 | ID=MS.gene32509.t1;Parent=MS.gene32509 |
| chr5.1 | exon | 62755747 | 62756007 | 62755747 | ID=MS.gene32509.t1.exon1;Parent=MS.gene32509.t1 |
| chr5.1 | CDS | 62755747 | 62756007 | 62755747 | ID=cds.MS.gene32509.t1;Parent=MS.gene32509.t1 |
| chr5.1 | exon | 62756238 | 62756581 | 62756238 | ID=MS.gene32509.t1.exon2;Parent=MS.gene32509.t1 |
| chr5.1 | CDS | 62756238 | 62756581 | 62756238 | ID=cds.MS.gene32509.t1;Parent=MS.gene32509.t1 |
| chr5.1 | exon | 62756915 | 62757074 | 62756915 | ID=MS.gene32509.t1.exon3;Parent=MS.gene32509.t1 |
| chr5.1 | CDS | 62756915 | 62757074 | 62756915 | ID=cds.MS.gene32509.t1;Parent=MS.gene32509.t1 |
| Gene Sequence |
| Protein sequence |
