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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480023094.01.T01 | XP_003629770.1 | 96.277 | 188 | 4 | 1 | 1 | 188 | 1 | 185 | 1.04E-129 | 372 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480023094.01.T01 | Q9S7R3 | 80.576 | 139 | 27 | 0 | 33 | 171 | 24 | 162 | 1.29E-78 | 235 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480023094.01.T01 | G7LJE1 | 96.277 | 188 | 4 | 1 | 1 | 188 | 1 | 185 | 4.96e-130 | 372 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0080048652.01 | MsG0480023094.01 | 0.800531 | 1.379744e-48 | 6.439515e-46 |
| MsG0380012918.01 | MsG0480023094.01 | 0.801389 | 9.214878e-49 | 4.395210e-46 |
| MsG0480018965.01 | MsG0480023094.01 | 0.805483 | 1.306007e-49 | 6.917528e-47 |
| MsG0280006725.01 | MsG0480023094.01 | 0.803843 | 2.873196e-49 | 1.459005e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480023094.01.T01 | MTR_8g086350 | 96.277 | 188 | 4 | 1 | 1 | 188 | 1 | 185 | 1.26e-133 | 372 |
| MsG0480023094.01.T01 | MTR_2g016110 | 72.093 | 172 | 42 | 2 | 5 | 172 | 2 | 171 | 1.38e-80 | 238 |
| MsG0480023094.01.T01 | MTR_4g079930 | 72.848 | 151 | 32 | 1 | 16 | 157 | 2 | 152 | 1.62e-80 | 237 |
| MsG0480023094.01.T01 | MTR_2g092950 | 83.333 | 126 | 21 | 0 | 32 | 157 | 21 | 146 | 2.69e-80 | 236 |
| MsG0480023094.01.T01 | MTR_2g076400 | 79.021 | 143 | 30 | 0 | 31 | 173 | 30 | 172 | 9.75e-80 | 235 |
| MsG0480023094.01.T01 | MTR_5g072510 | 70.896 | 134 | 39 | 0 | 33 | 166 | 36 | 169 | 8.01e-72 | 217 |
| MsG0480023094.01.T01 | MTR_4g094428 | 73.134 | 134 | 36 | 0 | 31 | 164 | 43 | 176 | 2.12e-71 | 216 |
| MsG0480023094.01.T01 | MTR_1g442860 | 70.400 | 125 | 37 | 0 | 34 | 158 | 65 | 189 | 3.86e-64 | 197 |
| MsG0480023094.01.T01 | MTR_7g115700 | 68.382 | 136 | 36 | 4 | 32 | 163 | 25 | 157 | 7.10e-63 | 192 |
| MsG0480023094.01.T01 | MTR_1g075990 | 72.180 | 133 | 37 | 0 | 32 | 164 | 51 | 183 | 1.34e-60 | 187 |
| MsG0480023094.01.T01 | MTR_3g031830 | 67.143 | 140 | 46 | 0 | 34 | 173 | 42 | 181 | 3.61e-60 | 187 |
| MsG0480023094.01.T01 | MTR_7g097030 | 71.970 | 132 | 37 | 0 | 33 | 164 | 63 | 194 | 2.87e-58 | 182 |
| MsG0480023094.01.T01 | MTR_1g069825 | 71.756 | 131 | 37 | 0 | 34 | 164 | 52 | 182 | 1.32e-57 | 181 |
| MsG0480023094.01.T01 | MTR_1g080210 | 68.000 | 125 | 40 | 0 | 34 | 158 | 40 | 164 | 1.37e-52 | 166 |
| MsG0480023094.01.T01 | MTR_1g114020 | 62.222 | 45 | 17 | 0 | 33 | 77 | 70 | 114 | 1.41e-11 | 60.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0480023094.01.T01 | AT2G42610 | 80.576 | 139 | 27 | 0 | 33 | 171 | 24 | 162 | 1.31e-79 | 235 |
| MsG0480023094.01.T01 | AT2G42610 | 80.576 | 139 | 27 | 0 | 33 | 171 | 24 | 162 | 1.31e-79 | 235 |
| MsG0480023094.01.T01 | AT4G18610 | 75.862 | 145 | 31 | 2 | 17 | 157 | 17 | 161 | 7.68e-73 | 218 |
| MsG0480023094.01.T01 | AT1G78815 | 76.190 | 126 | 30 | 0 | 32 | 157 | 38 | 163 | 8.82e-71 | 213 |
| MsG0480023094.01.T01 | AT1G07090 | 62.987 | 154 | 51 | 1 | 33 | 180 | 30 | 183 | 4.54e-70 | 211 |
| MsG0480023094.01.T01 | AT1G16910 | 71.756 | 131 | 37 | 0 | 32 | 162 | 21 | 151 | 1.25e-67 | 204 |
| MsG0480023094.01.T01 | AT5G58500 | 69.925 | 133 | 39 | 1 | 33 | 164 | 18 | 150 | 1.81e-66 | 202 |
| MsG0480023094.01.T01 | AT3G04510 | 67.647 | 136 | 44 | 0 | 34 | 169 | 33 | 168 | 6.68e-59 | 183 |
| MsG0480023094.01.T01 | AT3G23290 | 74.803 | 127 | 32 | 0 | 32 | 158 | 46 | 172 | 2.19e-58 | 182 |
| MsG0480023094.01.T01 | AT2G31160 | 70.229 | 131 | 39 | 0 | 34 | 164 | 54 | 184 | 2.97e-58 | 182 |
| MsG0480023094.01.T01 | AT5G28490 | 70.229 | 131 | 39 | 0 | 33 | 163 | 24 | 154 | 2.83e-57 | 179 |
Find 49 sgRNAs with CRISPR-Local
Find 55 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTCGTTACCTTGATCAATT+TGG | 0.179894 | 4:+80762896 | MsG0480023094.01.T01:CDS |
| ACTCTTGAGATATTGATTAA+AGG | 0.209241 | 4:-80762819 | None:intergenic |
| CTTGAGTAGTCCCCTTAATT+TGG | 0.223949 | 4:-80763186 | None:intergenic |
| GAAGAAAAGTTACCAAATTA+AGG | 0.233605 | 4:+80763174 | MsG0480023094.01.T01:CDS |
| TTTCAAGGTTGCATCTTCTT+TGG | 0.250614 | 4:+80762935 | MsG0480023094.01.T01:CDS |
| ATGATCATGATGATTGGATT+TGG | 0.342921 | 4:-80762738 | None:intergenic |
| TGAGATTCATACCTGCTTAG+TGG | 0.351076 | 4:-80762776 | None:intergenic |
| CTTGTCCTCTCAAGCAAGCT+TGG | 0.355615 | 4:+80762984 | MsG0480023094.01.T01:CDS |
| CCTTTGCCGGAGGAGCTATT+CGG | 0.365308 | 4:+80763080 | MsG0480023094.01.T01:CDS |
| CTTTGCCGGAGGAGCTATTC+GGG | 0.390335 | 4:+80763081 | MsG0480023094.01.T01:CDS |
| TTGTCCTCTCAAGCAAGCTT+GGG | 0.395914 | 4:+80762985 | MsG0480023094.01.T01:CDS |
| TCGGAGACTAACCCCTTTGC+CGG | 0.402692 | 4:+80763067 | MsG0480023094.01.T01:CDS |
| AAGACTAAGGTTCACTTTCA+AGG | 0.409691 | 4:+80762920 | MsG0480023094.01.T01:CDS |
| CAGTGTGATAGTGGAACTAT+TGG | 0.409844 | 4:-80762848 | None:intergenic |
| CTGATGATGATCATGATGAT+TGG | 0.424129 | 4:-80762744 | None:intergenic |
| TGATCAATTTGGAAAGACTA+AGG | 0.447537 | 4:+80762907 | MsG0480023094.01.T01:CDS |
| AAGAAAAGTTACCAAATTAA+GGG | 0.448633 | 4:+80763175 | MsG0480023094.01.T01:CDS |
| CGAATAGCTCCTCCGGCAAA+GGG | 0.448939 | 4:-80763079 | None:intergenic |
| TAGTCTTTCCAAATTGATCA+AGG | 0.467755 | 4:-80762904 | None:intergenic |
| CTTCCCCAAGCTTGCTTGAG+AGG | 0.469362 | 4:-80762989 | None:intergenic |
| CGAAGAGAACGGTGGATCAT+CGG | 0.469733 | 4:+80763048 | MsG0480023094.01.T01:CDS |
| CCGAATAGCTCCTCCGGCAA+AGG | 0.494461 | 4:-80763080 | None:intergenic |
| GTAAACCCGAATAGCTCCTC+CGG | 0.521395 | 4:-80763086 | None:intergenic |
| GGTTTACCTTCGTGAGGTGA+AGG | 0.526981 | 4:+80763102 | MsG0480023094.01.T01:CDS |
| GGTGAAGGATAGTCAACAAA+AGG | 0.534311 | 4:+80763117 | MsG0480023094.01.T01:CDS |
| AGAGGACAAGCACAAGGTGC+AGG | 0.534757 | 4:-80762971 | None:intergenic |
| TTGAAGTTACAGTGTGATAG+TGG | 0.540734 | 4:-80762857 | None:intergenic |
| GCACAAGGTGCAGGTGGGGT+AGG | 0.548293 | 4:-80762962 | None:intergenic |
| GGGACTACTCAAGCAGATCA+AGG | 0.562036 | 4:+80763196 | MsG0480023094.01.T01:CDS |
| AGCAACAACAGCCACTAAGC+AGG | 0.566051 | 4:+80762765 | MsG0480023094.01.T01:CDS |
| GGACAAGCACAAGGTGCAGG+TGG | 0.580568 | 4:-80762968 | None:intergenic |
| ACAAGCACAAGGTGCAGGTG+GGG | 0.589736 | 4:-80762966 | None:intergenic |
| TGATCCACCGTTCTCTTCGT+AGG | 0.593342 | 4:-80763044 | None:intergenic |
| GACAAGCACAAGGTGCAGGT+GGG | 0.594234 | 4:-80762967 | None:intergenic |
| AGAAAAGTTACCAAATTAAG+GGG | 0.595981 | 4:+80763176 | MsG0480023094.01.T01:CDS |
| TGTCCTCTCAAGCAAGCTTG+GGG | 0.598885 | 4:+80762986 | MsG0480023094.01.T01:CDS |
| GGAAGTCTTGATGCACTCAT+CGG | 0.605369 | 4:+80763007 | MsG0480023094.01.T01:CDS |
| TATTCGGGTTTACCTTCGTG+AGG | 0.609132 | 4:+80763096 | MsG0480023094.01.T01:CDS |
| TGGATTTGGAAGAAGATGCG+AGG | 0.617333 | 4:-80762724 | None:intergenic |
| GATAGTCAACAAAAGGCAAG+AGG | 0.633743 | 4:+80763124 | MsG0480023094.01.T01:CDS |
| ATAGTCAACAAAAGGCAAGA+GGG | 0.646981 | 4:+80763125 | MsG0480023094.01.T01:CDS |
| TCTCTTCGTAGGCAGCTCGA+AGG | 0.651841 | 4:-80763033 | None:intergenic |
| GAGACTAACCCCTTTGCCGG+AGG | 0.652127 | 4:+80763070 | MsG0480023094.01.T01:CDS |
| CGAGCTGCCTACGAAGAGAA+CGG | 0.662041 | 4:+80763037 | MsG0480023094.01.T01:CDS |
| AACGAAGAAAATCAAGAACA+TGG | 0.665632 | 4:-80762880 | None:intergenic |
| TGCTTGAGAGGACAAGCACA+AGG | 0.677587 | 4:-80762977 | None:intergenic |
| GAATAGCTCCTCCGGCAAAG+GGG | 0.699942 | 4:-80763078 | None:intergenic |
| GACTATCCTTCACCTCACGA+AGG | 0.701737 | 4:-80763108 | None:intergenic |
| GCTGCCTACGAAGAGAACGG+TGG | 0.715708 | 4:+80763040 | MsG0480023094.01.T01:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAGAAAAGTTACCAAATTAA+GGG | + | Chr4:80763175-80763194 | MsG0480023094.01.T01:CDS | 20.0% |
| !!! | TCTTTTTCTTCTTCTTATAT+GGG | - | Chr4:80763153-80763172 | None:intergenic | 20.0% |
| !!! | TTCTTTTTCTTCTTCTTATA+TGG | - | Chr4:80763154-80763173 | None:intergenic | 20.0% |
| ! | AGAAAAGTTACCAAATTAAG+GGG | + | Chr4:80763176-80763195 | MsG0480023094.01.T01:CDS | 25.0% |
| ! | GAAGAAAAGTTACCAAATTA+AGG | + | Chr4:80763174-80763193 | MsG0480023094.01.T01:CDS | 25.0% |
| !! | ACTCTTGAGATATTGATTAA+AGG | - | Chr4:80762822-80762841 | None:intergenic | 25.0% |
| AACGAAGAAAATCAAGAACA+TGG | - | Chr4:80762883-80762902 | None:intergenic | 30.0% | |
| ATGATCATGATGATTGGATT+TGG | - | Chr4:80762741-80762760 | None:intergenic | 30.0% | |
| TAGTCTTTCCAAATTGATCA+AGG | - | Chr4:80762907-80762926 | None:intergenic | 30.0% | |
| TGATCAATTTGGAAAGACTA+AGG | + | Chr4:80762907-80762926 | MsG0480023094.01.T01:CDS | 30.0% | |
| AAGACTAAGGTTCACTTTCA+AGG | + | Chr4:80762920-80762939 | MsG0480023094.01.T01:CDS | 35.0% | |
| AATCTCAAAAACGGAGAGAT+TGG | + | Chr4:80762792-80762811 | MsG0480023094.01.T01:CDS | 35.0% | |
| ATAGTCAACAAAAGGCAAGA+GGG | + | Chr4:80763125-80763144 | MsG0480023094.01.T01:CDS | 35.0% | |
| CTTCGTTACCTTGATCAATT+TGG | + | Chr4:80762896-80762915 | MsG0480023094.01.T01:CDS | 35.0% | |
| GCAGGTATGAATCTCAAAAA+CGG | + | Chr4:80762783-80762802 | MsG0480023094.01.T01:CDS | 35.0% | |
| TTGAAGTTACAGTGTGATAG+TGG | - | Chr4:80762860-80762879 | None:intergenic | 35.0% | |
| TTTCAAGGTTGCATCTTCTT+TGG | + | Chr4:80762935-80762954 | MsG0480023094.01.T01:CDS | 35.0% | |
| ! | CTGATGATGATCATGATGAT+TGG | - | Chr4:80762747-80762766 | None:intergenic | 35.0% |
| ! | GAGAGAAGAGTTTTCGATTT+GGG | - | Chr4:80762705-80762724 | None:intergenic | 35.0% |
| CTTGAGTAGTCCCCTTAATT+TGG | - | Chr4:80763189-80763208 | None:intergenic | 40.0% | |
| GATAGTCAACAAAAGGCAAG+AGG | + | Chr4:80763124-80763143 | MsG0480023094.01.T01:CDS | 40.0% | |
| GGTGAAGGATAGTCAACAAA+AGG | + | Chr4:80763117-80763136 | MsG0480023094.01.T01:CDS | 40.0% | |
| TGAGATTCATACCTGCTTAG+TGG | - | Chr4:80762779-80762798 | None:intergenic | 40.0% | |
| ! | GGAGAGAAGAGTTTTCGATT+TGG | - | Chr4:80762706-80762725 | None:intergenic | 40.0% |
| !! | CAGTGTGATAGTGGAACTAT+TGG | - | Chr4:80762851-80762870 | None:intergenic | 40.0% |
| GGAAGTCTTGATGCACTCAT+CGG | + | Chr4:80763007-80763026 | MsG0480023094.01.T01:CDS | 45.0% | |
| TGGATTTGGAAGAAGATGCG+AGG | - | Chr4:80762727-80762746 | None:intergenic | 45.0% | |
| TTGTCCTCTCAAGCAAGCTT+GGG | + | Chr4:80762985-80763004 | MsG0480023094.01.T01:CDS | 45.0% | |
| ! | TATTCGGGTTTACCTTCGTG+AGG | + | Chr4:80763096-80763115 | MsG0480023094.01.T01:CDS | 45.0% |
| AGCAACAACAGCCACTAAGC+AGG | + | Chr4:80762765-80762784 | MsG0480023094.01.T01:CDS | 50.0% | |
| CGAAGAGAACGGTGGATCAT+CGG | + | Chr4:80763048-80763067 | MsG0480023094.01.T01:CDS | 50.0% | |
| CTTGTCCTCTCAAGCAAGCT+TGG | + | Chr4:80762984-80763003 | MsG0480023094.01.T01:CDS | 50.0% | |
| GACTATCCTTCACCTCACGA+AGG | - | Chr4:80763111-80763130 | None:intergenic | 50.0% | |
| GGGACTACTCAAGCAGATCA+AGG | + | Chr4:80763196-80763215 | MsG0480023094.01.T01:CDS | 50.0% | |
| GGTTTACCTTCGTGAGGTGA+AGG | + | Chr4:80763102-80763121 | MsG0480023094.01.T01:CDS | 50.0% | |
| GTAAACCCGAATAGCTCCTC+CGG | - | Chr4:80763089-80763108 | None:intergenic | 50.0% | |
| TGATCCACCGTTCTCTTCGT+AGG | - | Chr4:80763047-80763066 | None:intergenic | 50.0% | |
| TGCTTGAGAGGACAAGCACA+AGG | - | Chr4:80762980-80762999 | None:intergenic | 50.0% | |
| TGTCCTCTCAAGCAAGCTTG+GGG | + | Chr4:80762986-80763005 | MsG0480023094.01.T01:CDS | 50.0% | |
| ACAAGCACAAGGTGCAGGTG+GGG | - | Chr4:80762969-80762988 | None:intergenic | 55.0% | |
| AGAGGACAAGCACAAGGTGC+AGG | - | Chr4:80762974-80762993 | None:intergenic | 55.0% | |
| CCTTTGCCGGAGGAGCTATT+CGG | + | Chr4:80763080-80763099 | MsG0480023094.01.T01:CDS | 55.0% | |
| CGAATAGCTCCTCCGGCAAA+GGG | - | Chr4:80763082-80763101 | None:intergenic | 55.0% | |
| CGAGCTGCCTACGAAGAGAA+CGG | + | Chr4:80763037-80763056 | MsG0480023094.01.T01:CDS | 55.0% | |
| CTTTGCCGGAGGAGCTATTC+GGG | + | Chr4:80763081-80763100 | MsG0480023094.01.T01:CDS | 55.0% | |
| GAATAGCTCCTCCGGCAAAG+GGG | - | Chr4:80763081-80763100 | None:intergenic | 55.0% | |
| GACAAGCACAAGGTGCAGGT+GGG | - | Chr4:80762970-80762989 | None:intergenic | 55.0% | |
| TCGGAGACTAACCCCTTTGC+CGG | + | Chr4:80763067-80763086 | MsG0480023094.01.T01:CDS | 55.0% | |
| TCTCTTCGTAGGCAGCTCGA+AGG | - | Chr4:80763036-80763055 | None:intergenic | 55.0% | |
| ! | CTTCCCCAAGCTTGCTTGAG+AGG | - | Chr4:80762992-80763011 | None:intergenic | 55.0% |
| CCGAATAGCTCCTCCGGCAA+AGG | - | Chr4:80763083-80763102 | None:intergenic | 60.0% | |
| GAGACTAACCCCTTTGCCGG+AGG | + | Chr4:80763070-80763089 | MsG0480023094.01.T01:CDS | 60.0% | |
| GCTGCCTACGAAGAGAACGG+TGG | + | Chr4:80763040-80763059 | MsG0480023094.01.T01:CDS | 60.0% | |
| GGACAAGCACAAGGTGCAGG+TGG | - | Chr4:80762971-80762990 | None:intergenic | 60.0% | |
| GCACAAGGTGCAGGTGGGGT+AGG | - | Chr4:80762965-80762984 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr4 | gene | 80762686 | 80763252 | 80762686 | ID=MsG0480023094.01;Name=MsG0480023094.01 |
| Chr4 | mRNA | 80762686 | 80763252 | 80762686 | ID=MsG0480023094.01.T01;Parent=MsG0480023094.01;Name=MsG0480023094.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|188 |
| Chr4 | exon | 80762686 | 80763252 | 80762686 | ID=MsG0480023094.01.T01:exon:23723;Parent=MsG0480023094.01.T01 |
| Chr4 | CDS | 80762686 | 80763252 | 80762686 | ID=MsG0480023094.01.T01:cds;Parent=MsG0480023094.01.T01 |
| Gene Sequence |
| Protein sequence |
