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.gene27964.t1 | RHN42810.1 | 96.4 | 194 | 7 | 0 | 1 | 194 | 1 | 194 | 5.80E-94 | 353.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene27964.t1 | C6TG62 | 68.4 | 193 | 61 | 0 | 1 | 193 | 1 | 193 | 5.4e-72 | 271.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene27964.t1 | A0A396GP31 | 96.4 | 194 | 7 | 0 | 1 | 194 | 1 | 194 | 4.2e-94 | 353.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050082 | MS.gene27964 | 0.860973 | 1.42E-63 | -1.69E-46 |
| MS.gene051422 | MS.gene27964 | 0.83712 | 6.27E-57 | -1.69E-46 |
| MS.gene053420 | MS.gene27964 | 0.803323 | 3.68E-49 | -1.69E-46 |
| MS.gene053568 | MS.gene27964 | 0.800201 | 1.61E-48 | -1.69E-46 |
| MS.gene056856 | MS.gene27964 | 0.823307 | 1.49E-53 | -1.69E-46 |
| MS.gene057261 | MS.gene27964 | 0.802348 | 5.85E-49 | -1.69E-46 |
| MS.gene058067 | MS.gene27964 | 0.80965 | 1.70E-50 | -1.69E-46 |
| MS.gene058068 | MS.gene27964 | 0.828575 | 8.33E-55 | -1.69E-46 |
| MS.gene058099 | MS.gene27964 | 0.814138 | 1.79E-51 | -1.69E-46 |
| MS.gene059685 | MS.gene27964 | 0.81857 | 1.83E-52 | -1.69E-46 |
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.gene27964.t1 | MTR_8g089300 | 95.361 | 194 | 9 | 0 | 1 | 194 | 1 | 194 | 4.97e-127 | 355 |
| MS.gene27964.t1 | MTR_0097s0070 | 75.773 | 194 | 46 | 1 | 1 | 193 | 1 | 194 | 1.96e-98 | 283 |
| MS.gene27964.t1 | MTR_4g118810 | 36.111 | 144 | 90 | 2 | 28 | 170 | 35 | 177 | 5.73e-25 | 96.7 |
| MS.gene27964.t1 | MTR_7g108130 | 32.778 | 180 | 114 | 3 | 16 | 194 | 18 | 191 | 8.77e-24 | 93.2 |
| MS.gene27964.t1 | MTR_0004s0210 | 35.185 | 162 | 89 | 2 | 28 | 189 | 10 | 155 | 1.42e-23 | 92.0 |
| MS.gene27964.t1 | MTR_2g020060 | 35.542 | 166 | 101 | 3 | 30 | 194 | 27 | 187 | 1.84e-23 | 92.4 |
| MS.gene27964.t1 | MTR_4g081880 | 29.319 | 191 | 108 | 6 | 7 | 184 | 4 | 180 | 1.47e-16 | 74.3 |
| MS.gene27964.t1 | MTR_4g118800 | 30.159 | 126 | 87 | 1 | 64 | 188 | 56 | 181 | 2.84e-15 | 70.9 |
| MS.gene27964.t1 | MTR_7g011090 | 28.387 | 155 | 104 | 1 | 30 | 184 | 32 | 179 | 3.62e-15 | 70.5 |
| MS.gene27964.t1 | MTR_5g041900 | 28.387 | 155 | 104 | 1 | 30 | 184 | 32 | 179 | 2.63e-12 | 62.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene27964.t1 | AT5G44550 | 53.143 | 175 | 82 | 0 | 19 | 193 | 11 | 185 | 1.14e-60 | 187 |
| MS.gene27964.t1 | AT4G20390 | 54.913 | 173 | 77 | 1 | 23 | 194 | 14 | 186 | 4.10e-55 | 174 |
| MS.gene27964.t1 | AT4G15630 | 31.481 | 162 | 109 | 2 | 28 | 188 | 29 | 189 | 5.03e-20 | 83.6 |
| MS.gene27964.t1 | AT1G03700 | 30.189 | 159 | 95 | 2 | 28 | 186 | 11 | 153 | 1.59e-19 | 81.6 |
| MS.gene27964.t1 | AT4G15610 | 33.099 | 142 | 90 | 3 | 30 | 170 | 33 | 170 | 2.09e-19 | 82.0 |
| MS.gene27964.t1 | AT4G15620 | 29.341 | 167 | 116 | 2 | 23 | 188 | 24 | 189 | 8.47e-19 | 80.5 |
| MS.gene27964.t1 | AT1G14160 | 33.136 | 169 | 95 | 4 | 30 | 194 | 55 | 209 | 1.24e-18 | 80.5 |
| MS.gene27964.t1 | AT5G15290 | 29.545 | 176 | 109 | 4 | 1 | 171 | 1 | 166 | 4.21e-17 | 75.9 |
| MS.gene27964.t1 | AT3G06390 | 32.593 | 135 | 81 | 4 | 31 | 161 | 42 | 170 | 1.86e-15 | 71.6 |
| MS.gene27964.t1 | AT4G03540 | 28.244 | 131 | 78 | 2 | 43 | 173 | 26 | 140 | 1.66e-13 | 65.9 |
Find 48 sgRNAs with CRISPR-Local
Find 62 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATTGTCAGTCTTCATAATT+TGG | 0.186212 | 4.4:+11949065 | MS.gene27964:CDS |
| GCCTTAATAGCCTCTTTCAT+TGG | 0.251071 | 4.4:+11949402 | MS.gene27964:CDS |
| GCAGTAAGAGGAACTGTAAT+TGG | 0.269342 | 4.4:-11948874 | None:intergenic |
| CCCAATGAAAGAGGCTATTA+AGG | 0.277944 | 4.4:-11949403 | None:intergenic |
| AAAAGGATCCAATCCTTCTT+TGG | 0.280238 | 4.4:-11948748 | None:intergenic |
| TCCTTCTTTGGTTTGGTCTC+AGG | 0.290070 | 4.4:-11948736 | None:intergenic |
| GAGCCCTTTGTTATGAAATT+CGG | 0.313057 | 4.4:-11949115 | None:intergenic |
| AGCAACATTTATGTCAGAAT+TGG | 0.314088 | 4.4:+11949302 | MS.gene27964:CDS |
| GGTAGCAACTACAAAGCTTT+TGG | 0.318946 | 4.4:-11948839 | None:intergenic |
| ATGATAGCAATGGATATATT+AGG | 0.342029 | 4.4:+11949090 | MS.gene27964:CDS |
| CCTTAATAGCCTCTTTCATT+GGG | 0.349015 | 4.4:+11949403 | MS.gene27964:CDS |
| AGCCCTTTGTTATGAAATTC+GGG | 0.381888 | 4.4:-11949114 | None:intergenic |
| ATGGTAATTCACATGCAAAA+TGG | 0.384012 | 4.4:+11949331 | MS.gene27964:CDS |
| TTGGGTGAATTAGATGGCTT+TGG | 0.384488 | 4.4:+11949254 | MS.gene27964:intron |
| GATCCAATCCTTCTTTGGTT+TGG | 0.385867 | 4.4:-11948743 | None:intergenic |
| GTTAATTGCGATTTAATTTG+AGG | 0.389744 | 4.4:-11949470 | None:intergenic |
| CAGTAAGAGGAACTGTAATT+GGG | 0.394934 | 4.4:-11948873 | None:intergenic |
| TAATTTGAGGAGTTTGTTGA+TGG | 0.400545 | 4.4:-11949457 | None:intergenic |
| GCAACATTTATGTCAGAATT+GGG | 0.419599 | 4.4:+11949303 | MS.gene27964:CDS |
| TCCTGAGACCAAACCAAAGA+AGG | 0.459469 | 4.4:+11948735 | MS.gene27964:CDS |
| TGCTGAAACTTGGCAGTAAG+AGG | 0.478796 | 4.4:-11948886 | None:intergenic |
| ACCACCACCTCTGTTGCAAT+AGG | 0.484004 | 4.4:-11949379 | None:intergenic |
| CAACCACCCTAAGGGACAAA+AGG | 0.486521 | 4.4:-11948765 | None:intergenic |
| TTATGGACTAACACAAAAGC+TGG | 0.487148 | 4.4:-11948913 | None:intergenic |
| AGCTGGAGTATGCTGAAACT+TGG | 0.488766 | 4.4:-11948896 | None:intergenic |
| GACCCGAATTTCATAACAAA+GGG | 0.489609 | 4.4:+11949112 | MS.gene27964:CDS |
| AGACCAAACCAAAGAAGGAT+TGG | 0.490966 | 4.4:+11948740 | MS.gene27964:CDS |
| AGCTTTGTAGTTGCTACCAT+TGG | 0.493742 | 4.4:+11948844 | MS.gene27964:CDS |
| ATGTCAGAATTGGGAAGGAA+TGG | 0.507856 | 4.4:+11949312 | MS.gene27964:CDS |
| TACACTATCACAATGGCCTC+AGG | 0.512074 | 4.4:+11948676 | None:intergenic |
| GTGAGAATACAGGTACTTTG+TGG | 0.524468 | 4.4:+11949032 | MS.gene27964:intron |
| TAATTTGGTTATGATAGCAA+TGG | 0.531106 | 4.4:+11949080 | MS.gene27964:CDS |
| ATGAAGACTGACAATTCCAT+TGG | 0.535909 | 4.4:-11949058 | None:intergenic |
| TCCTATTGCAACAGAGGTGG+TGG | 0.560694 | 4.4:+11949378 | MS.gene27964:CDS |
| AGGTACTTTGTGGTAGCCAA+TGG | 0.565693 | 4.4:+11949042 | MS.gene27964:intron |
| GAGAATGAGCCCAATGAAAG+AGG | 0.569503 | 4.4:-11949412 | None:intergenic |
| GCTCTAGCATCAAGTGGAGA+TGG | 0.573326 | 4.4:+11949276 | MS.gene27964:CDS |
| GGACCCGAATTTCATAACAA+AGG | 0.591020 | 4.4:+11949111 | MS.gene27964:CDS |
| TGTAATTGGGGTGCTACCAA+TGG | 0.595649 | 4.4:-11948860 | None:intergenic |
| TTTGAGTCCTATTGCAACAG+AGG | 0.599496 | 4.4:+11949372 | MS.gene27964:CDS |
| CATTTATGTCAGAATTGGGA+AGG | 0.599985 | 4.4:+11949307 | MS.gene27964:CDS |
| ATACTGCAATCAGTGCAAGT+TGG | 0.603365 | 4.4:-11949137 | None:intergenic |
| GAGTCCTATTGCAACAGAGG+TGG | 0.611119 | 4.4:+11949375 | MS.gene27964:CDS |
| AACAAGTGTAGCTGATACAG+TGG | 0.613356 | 4.4:-11948797 | None:intergenic |
| ACATCACTGCAATAATGAGT+AGG | 0.620734 | 4.4:-11949434 | None:intergenic |
| GCTTTGGCTCTAGCATCAAG+TGG | 0.633064 | 4.4:+11949270 | MS.gene27964:CDS |
| AGTAAGAGGAACTGTAATTG+GGG | 0.643245 | 4.4:-11948872 | None:intergenic |
| ACTGATTGCAGTATTTGACA+CGG | 0.674366 | 4.4:+11949146 | MS.gene27964:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTAAATTAGAGAGATTTTA+TGG | - | chr4.4:11948933-11948952 | None:intergenic | 15.0% |
| !! | TAACTTAAATGATCAATTAG+AGG | - | chr4.4:11949188-11949207 | None:intergenic | 20.0% |
| ! | AATGAAGAAAAAATAGAGTC+TGG | + | chr4.4:11948700-11948719 | MS.gene27964:CDS | 25.0% |
| ! | AATTGTCAGTCTTCATAATT+TGG | + | chr4.4:11949065-11949084 | MS.gene27964:CDS | 25.0% |
| ! | ATGATAGCAATGGATATATT+AGG | + | chr4.4:11949090-11949109 | MS.gene27964:CDS | 25.0% |
| ! | TAATTTGGTTATGATAGCAA+TGG | + | chr4.4:11949080-11949099 | MS.gene27964:CDS | 25.0% |
| ! | TCACCAGAAATTAAATCATA+AGG | - | chr4.4:11949016-11949035 | None:intergenic | 25.0% |
| !! | TCTCCTTATGATTTAATTTC+TGG | + | chr4.4:11949010-11949029 | MS.gene27964:intron | 25.0% |
| !!! | TATTTTTTCTTCATTTCCTG+AGG | - | chr4.4:11948695-11948714 | None:intergenic | 25.0% |
| AGCAACATTTATGTCAGAAT+TGG | + | chr4.4:11949302-11949321 | MS.gene27964:CDS | 30.0% | |
| ATGGTAATTCACATGCAAAA+TGG | + | chr4.4:11949331-11949350 | MS.gene27964:CDS | 30.0% | |
| GATTAATTGGGTGAATTAGA+TGG | + | chr4.4:11949248-11949267 | MS.gene27964:intron | 30.0% | |
| GCAACATTTATGTCAGAATT+GGG | + | chr4.4:11949303-11949322 | MS.gene27964:CDS | 30.0% | |
| !! | TAATTTGAGGAGTTTGTTGA+TGG | - | chr4.4:11949460-11949479 | None:intergenic | 30.0% |
| !! | TTAATTTCTGGTGAGAATAC+AGG | + | chr4.4:11949022-11949041 | MS.gene27964:intron | 30.0% |
| AAAAGGATCCAATCCTTCTT+TGG | - | chr4.4:11948751-11948770 | None:intergenic | 35.0% | |
| ACATCACTGCAATAATGAGT+AGG | - | chr4.4:11949437-11949456 | None:intergenic | 35.0% | |
| ACTGATTGCAGTATTTGACA+CGG | + | chr4.4:11949146-11949165 | MS.gene27964:CDS | 35.0% | |
| AGTAAGAGGAACTGTAATTG+GGG | - | chr4.4:11948875-11948894 | None:intergenic | 35.0% | |
| ATGAAGACTGACAATTCCAT+TGG | - | chr4.4:11949061-11949080 | None:intergenic | 35.0% | |
| CAGTAAGAGGAACTGTAATT+GGG | - | chr4.4:11948876-11948895 | None:intergenic | 35.0% | |
| CATTTATGTCAGAATTGGGA+AGG | + | chr4.4:11949307-11949326 | MS.gene27964:CDS | 35.0% | |
| CCTTAATAGCCTCTTTCATT+GGG | + | chr4.4:11949403-11949422 | MS.gene27964:CDS | 35.0% | |
| GACCCGAATTTCATAACAAA+GGG | + | chr4.4:11949112-11949131 | MS.gene27964:CDS | 35.0% | |
| ! | AGCCCTTTGTTATGAAATTC+GGG | - | chr4.4:11949117-11949136 | None:intergenic | 35.0% |
| ! | GAGCCCTTTGTTATGAAATT+CGG | - | chr4.4:11949118-11949137 | None:intergenic | 35.0% |
| ! | TTATGGACTAACACAAAAGC+TGG | - | chr4.4:11948916-11948935 | None:intergenic | 35.0% |
| AACAAGTGTAGCTGATACAG+TGG | - | chr4.4:11948800-11948819 | None:intergenic | 40.0% | |
| AGACCAAACCAAAGAAGGAT+TGG | + | chr4.4:11948740-11948759 | MS.gene27964:CDS | 40.0% | |
| ATACTGCAATCAGTGCAAGT+TGG | - | chr4.4:11949140-11949159 | None:intergenic | 40.0% | |
| ATGTCAGAATTGGGAAGGAA+TGG | + | chr4.4:11949312-11949331 | MS.gene27964:CDS | 40.0% | |
| CAAAAATGCAACCACCCTAA+GGG | - | chr4.4:11948776-11948795 | None:intergenic | 40.0% | |
| CCCAATGAAAGAGGCTATTA+AGG | - | chr4.4:11949406-11949425 | None:intergenic | 40.0% | |
| GATCCAATCCTTCTTTGGTT+TGG | - | chr4.4:11948746-11948765 | None:intergenic | 40.0% | |
| GCAGTAAGAGGAACTGTAAT+TGG | - | chr4.4:11948877-11948896 | None:intergenic | 40.0% | |
| GCCTTAATAGCCTCTTTCAT+TGG | + | chr4.4:11949402-11949421 | MS.gene27964:CDS | 40.0% | |
| GGACCCGAATTTCATAACAA+AGG | + | chr4.4:11949111-11949130 | MS.gene27964:CDS | 40.0% | |
| GTGAGAATACAGGTACTTTG+TGG | + | chr4.4:11949032-11949051 | MS.gene27964:intron | 40.0% | |
| TTGGGTGAATTAGATGGCTT+TGG | + | chr4.4:11949254-11949273 | MS.gene27964:intron | 40.0% | |
| TTTGAGTCCTATTGCAACAG+AGG | + | chr4.4:11949372-11949391 | MS.gene27964:CDS | 40.0% | |
| ! | AGCTTTGTAGTTGCTACCAT+TGG | + | chr4.4:11948844-11948863 | MS.gene27964:CDS | 40.0% |
| ! | ATTGGATCCTTTTGTCCCTT+AGG | + | chr4.4:11948758-11948777 | MS.gene27964:CDS | 40.0% |
| ! | GGTAGCAACTACAAAGCTTT+TGG | - | chr4.4:11948842-11948861 | None:intergenic | 40.0% |
| ! | TTGGATCCTTTTGTCCCTTA+GGG | + | chr4.4:11948759-11948778 | MS.gene27964:CDS | 40.0% |
| AGCTGGAGTATGCTGAAACT+TGG | - | chr4.4:11948899-11948918 | None:intergenic | 45.0% | |
| AGGTACTTTGTGGTAGCCAA+TGG | + | chr4.4:11949042-11949061 | MS.gene27964:intron | 45.0% | |
| CCAAAAATGCAACCACCCTA+AGG | - | chr4.4:11948777-11948796 | None:intergenic | 45.0% | |
| GAGAATGAGCCCAATGAAAG+AGG | - | chr4.4:11949415-11949434 | None:intergenic | 45.0% | |
| TCCTGAGACCAAACCAAAGA+AGG | + | chr4.4:11948735-11948754 | MS.gene27964:CDS | 45.0% | |
| TGCTGAAACTTGGCAGTAAG+AGG | - | chr4.4:11948889-11948908 | None:intergenic | 45.0% | |
| ! | CCTTAGGGTGGTTGCATTTT+TGG | + | chr4.4:11948774-11948793 | MS.gene27964:CDS | 45.0% |
| ! | TGTAATTGGGGTGCTACCAA+TGG | - | chr4.4:11948863-11948882 | None:intergenic | 45.0% |
| !! | TCCTTCTTTGGTTTGGTCTC+AGG | - | chr4.4:11948739-11948758 | None:intergenic | 45.0% |
| !!! | ATTATATTTTTTTGATTAAT+TGG | + | chr4.4:11949235-11949254 | MS.gene27964:intron | 5.0% |
| !!! | TTATATTTTTTTGATTAATT+GGG | + | chr4.4:11949236-11949255 | MS.gene27964:intron | 5.0% |
| ACCACCACCTCTGTTGCAAT+AGG | - | chr4.4:11949382-11949401 | None:intergenic | 50.0% | |
| CAACCACCCTAAGGGACAAA+AGG | - | chr4.4:11948768-11948787 | None:intergenic | 50.0% | |
| GAGTCCTATTGCAACAGAGG+TGG | + | chr4.4:11949375-11949394 | MS.gene27964:CDS | 50.0% | |
| GCTCTAGCATCAAGTGGAGA+TGG | + | chr4.4:11949276-11949295 | MS.gene27964:CDS | 50.0% | |
| TCCTATTGCAACAGAGGTGG+TGG | + | chr4.4:11949378-11949397 | MS.gene27964:CDS | 50.0% | |
| ! | GATCCTTTTGTCCCTTAGGG+TGG | + | chr4.4:11948762-11948781 | MS.gene27964:CDS | 50.0% |
| !! | GCTTTGGCTCTAGCATCAAG+TGG | + | chr4.4:11949270-11949289 | MS.gene27964:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 11948688 | 11949491 | 11948688 | ID=MS.gene27964 |
| chr4.4 | mRNA | 11948688 | 11949491 | 11948688 | ID=MS.gene27964.t1;Parent=MS.gene27964 |
| chr4.4 | exon | 11948688 | 11948923 | 11948688 | ID=MS.gene27964.t1.exon1;Parent=MS.gene27964.t1 |
| chr4.4 | CDS | 11948688 | 11948923 | 11948688 | ID=cds.MS.gene27964.t1;Parent=MS.gene27964.t1 |
| chr4.4 | exon | 11949044 | 11949167 | 11949044 | ID=MS.gene27964.t1.exon2;Parent=MS.gene27964.t1 |
| chr4.4 | CDS | 11949044 | 11949167 | 11949044 | ID=cds.MS.gene27964.t1;Parent=MS.gene27964.t1 |
| chr4.4 | exon | 11949267 | 11949491 | 11949267 | ID=MS.gene27964.t1.exon3;Parent=MS.gene27964.t1 |
| chr4.4 | CDS | 11949267 | 11949491 | 11949267 | ID=cds.MS.gene27964.t1;Parent=MS.gene27964.t1 |
| Gene Sequence |
| Protein sequence |
