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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0587560 | XP_024638013.1 | 96.226 | 106 | 4 | 0 | 1 | 106 | 1 | 106 | 6.39e-67 | 206 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0587560 | sp|Q9SSC1|Y1801_ARATH | 42.254 | 142 | 42 | 6 | 1 | 106 | 1 | 138 | 3.67e-23 | 89.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0067370 | Msa0587560 | -0.810563 | 1.083201e-50 | -8.615850e-47 |
| Msa0405200 | Msa0587560 | 0.840786 | 7.049408e-58 | -8.615850e-47 |
| Msa0449500 | Msa0587560 | 0.822456 | 2.345520e-53 | -8.615850e-47 |
| Msa0473000 | Msa0587560 | 0.807190 | 5.704937e-50 | -8.615850e-47 |
| Msa0345050 | Msa0587560 | 0.847574 | 1.061371e-59 | -8.615850e-47 |
| Msa0497680 | Msa0587560 | 0.822710 | 2.048200e-53 | -8.615850e-47 |
| Msa0512950 | Msa0587560 | -0.803024 | 4.247267e-49 | -8.615850e-47 |
| Msa0530730 | Msa0587560 | 0.839070 | 1.973751e-57 | -8.615850e-47 |
| Msa0565370 | Msa0587560 | -0.804983 | 1.662309e-49 | -8.615850e-47 |
| Msa0565430 | Msa0587560 | -0.806909 | 6.541712e-50 | -8.615850e-47 |
| Msa0581350 | Msa0587560 | 0.814827 | 1.263647e-51 | -8.615850e-47 |
| Msa0587560 | Msa0665540 | 0.941142 | 6.955628e-101 | -8.615850e-47 |
| Msa0587560 | Msa0675630 | 0.802193 | 6.301122e-49 | -8.615850e-47 |
| Msa0587560 | Msa0873910 | 0.836865 | 7.283187e-57 | -8.615850e-47 |
| Msa0587560 | Msa0906660 | 0.822977 | 1.775051e-53 | -8.615850e-47 |
| Msa0587560 | Msa0975960 | 0.812648 | 3.813406e-51 | -8.615850e-47 |
| Msa0587560 | Msa1058950 | 0.810059 | 1.391227e-50 | -8.615850e-47 |
| Msa0587560 | Msa1062060 | 0.806397 | 8.390966e-50 | -8.615850e-47 |
| Msa0587560 | Msa1080130 | 0.818683 | 1.724731e-52 | -8.615850e-47 |
| Msa0587560 | Msa1167310 | 0.817069 | 3.991150e-52 | -8.615850e-47 |
| Msa0587560 | Msa1215740 | 0.815808 | 7.648517e-52 | -8.615850e-47 |
| Msa0587560 | Msa1221270 | 0.813821 | 2.108593e-51 | -8.615850e-47 |
| Msa0587560 | Msa1255210 | 0.800317 | 1.525074e-48 | -8.615850e-47 |
| Msa0587560 | Msa1325560 | -0.805291 | 1.433229e-49 | -8.615850e-47 |
| Msa0587560 | Msa1332420 | 0.815750 | 7.879415e-52 | -8.615850e-47 |
| Msa0587560 | Msa1333880 | 0.800547 | 1.369106e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0587560 | MtrunA17_Chr4g0003631 | 96.226 | 106 | 4 | 0 | 1 | 106 | 1 | 106 | 5.88e-71 | 206 |
| Msa0587560 | MtrunA17_Chr2g0332771 | 57.627 | 118 | 38 | 1 | 1 | 106 | 1 | 118 | 1.10e-39 | 128 |
| Msa0587560 | MtrunA17_Chr4g0063471 | 53.191 | 94 | 32 | 4 | 1 | 93 | 1 | 83 | 4.34e-23 | 85.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0587560 | AT1G80180.1 | 42.254 | 142 | 42 | 6 | 1 | 106 | 1 | 138 | 3.73e-24 | 89.7 |
| Msa0587560 | AT5G20100.1 | 47.959 | 98 | 47 | 2 | 3 | 96 | 2 | 99 | 6.85e-22 | 83.2 |
| Msa0587560 | AT1G15400.3 | 40.152 | 132 | 45 | 6 | 1 | 103 | 1 | 127 | 5.43e-20 | 79.3 |
| Msa0587560 | AT1G15400.2 | 40.152 | 132 | 45 | 6 | 1 | 103 | 1 | 127 | 5.67e-20 | 79.0 |
| Msa0587560 | AT1G15400.1 | 40.152 | 132 | 45 | 6 | 1 | 103 | 1 | 127 | 5.94e-20 | 79.3 |
Find 31 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAGGTTCATCTGGTCTTGTT+TGG | 0.224185 | 4_2:-9130376 | Msa0587560:CDS |
| AGGTTCATCTGGTCTTGTTT+GGG | 0.315565 | 4_2:-9130375 | Msa0587560:CDS |
| TGTGGATTCTGTAGCCCTTT+TGG | 0.323362 | 4_2:-9130164 | Msa0587560:CDS |
| CTACCTCGACCGACGTTTAC+CGG | 0.339840 | 4_2:+9130118 | None:intergenic |
| TGGGATGACAGATTCTTATC+AGG | 0.348639 | 4_2:-9130356 | Msa0587560:CDS |
| CTGAATGATACTTCAGATCT+TGG | 0.351403 | 4_2:+9130404 | None:intergenic |
| GGAGACGGTGGTTCGATCGC+TGG | 0.391781 | 4_2:+9130200 | None:intergenic |
| TTCAGAAGATCAGGTTCATC+TGG | 0.432719 | 4_2:-9130386 | Msa0587560:CDS |
| GAAGTATCATTCAGAAGATC+AGG | 0.445781 | 4_2:-9130395 | Msa0587560:CDS |
| AGAAGCCATTCCACCGGTGC+TGG | 0.447002 | 4_2:-9130251 | Msa0587560:CDS |
| GGTGGAATGGCTTCTTTGTA+CGG | 0.453050 | 4_2:+9130259 | None:intergenic |
| GAGACGGTGGTTCGATCGCT+GGG | 0.462717 | 4_2:+9130201 | None:intergenic |
| CTCGTCCAGCACCGGTGGAA+TGG | 0.498060 | 4_2:+9130246 | None:intergenic |
| TCTCCGAAGGTTTCTGCGTG+TGG | 0.512115 | 4_2:-9130182 | Msa0587560:CDS |
| CATTCCACCGGTGCTGGACG+AGG | 0.514080 | 4_2:-9130245 | Msa0587560:CDS |
| TACCTCGACCGACGTTTACC+GGG | 0.526089 | 4_2:+9130119 | None:intergenic |
| AATCCACACGCAGAAACCTT+CGG | 0.536395 | 4_2:+9130179 | None:intergenic |
| ACGGTATCCTCGTCCAGCAC+CGG | 0.568784 | 4_2:+9130238 | None:intergenic |
| AGCCCGGTAAACGTCGGTCG+AGG | 0.570758 | 4_2:-9130121 | Msa0587560:CDS |
| TAGAGAGAGAACATCATGGC+TGG | 0.573751 | 4_2:-9130431 | None:intergenic |
| CACGCAGAAACCTTCGGAGA+CGG | 0.583247 | 4_2:+9130185 | None:intergenic |
| AAGGGTCAACGATCAAAGCC+CGG | 0.598386 | 4_2:-9130137 | Msa0587560:CDS |
| GATCGAACCACCGTCTCCGA+AGG | 0.606120 | 4_2:-9130195 | Msa0587560:CDS |
| CGGTAAACGTCGGTCGAGGT+AGG | 0.609038 | 4_2:-9130117 | None:intergenic |
| GGAATGGCTTCTTTGTACGG+TGG | 0.613872 | 4_2:+9130262 | None:intergenic |
| GTATCCTCGTCCAGCACCGG+TGG | 0.623334 | 4_2:+9130241 | None:intergenic |
| GCTGGACGAGGATACCGTAC+CGG | 0.652103 | 4_2:-9130233 | Msa0587560:CDS |
| GCAGAAACCTTCGGAGACGG+TGG | 0.660406 | 4_2:+9130188 | None:intergenic |
| AGACGGTGGTTCGATCGCTG+GGG | 0.689604 | 4_2:+9130202 | None:intergenic |
| GTACAAAGAAGCCATTCCAC+CGG | 0.692582 | 4_2:-9130257 | Msa0587560:CDS |
| GATCAAAGCCCGGTAAACGT+CGG | 0.721418 | 4_2:-9130127 | Msa0587560:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CTGAATGATACTTCAGATCT+TGG | + | chr4_2:9130133-9130152 | None:intergenic | 35.0% | |
| ! | GAAGTATCATTCAGAAGATC+AGG | - | chr4_2:9130139-9130158 | Msa0587560:CDS | 35.0% |
| !! | TGTAGCCCTTTTGGAAAAAA+GGG | - | chr4_2:9130379-9130398 | Msa0587560:CDS | 35.0% |
| !!! | GTTGACCCTTTTTTCCAAAA+GGG | + | chr4_2:9130387-9130406 | None:intergenic | 35.0% |
| TTCAGAAGATCAGGTTCATC+TGG | - | chr4_2:9130148-9130167 | Msa0587560:CDS | 40.0% | |
| !! | AGGTTCATCTGGTCTTGTTT+GGG | - | chr4_2:9130159-9130178 | Msa0587560:CDS | 40.0% |
| TGGGATGACAGATTCTTATC+AGG | - | chr4_2:9130178-9130197 | Msa0587560:CDS | 40.0% | |
| ! | GGTTTTCACATGAAGCTCTT+TGG | + | chr4_2:9130254-9130273 | None:intergenic | 40.0% |
| !! | CTGTAGCCCTTTTGGAAAAA+AGG | - | chr4_2:9130378-9130397 | Msa0587560:CDS | 40.0% |
| !!! | CGTTGACCCTTTTTTCCAAA+AGG | + | chr4_2:9130388-9130407 | None:intergenic | 40.0% |
| !! | CAGGTTCATCTGGTCTTGTT+TGG | - | chr4_2:9130158-9130177 | Msa0587560:CDS | 45.0% |
| GGTGGAATGGCTTCTTTGTA+CGG | + | chr4_2:9130278-9130297 | None:intergenic | 45.0% | |
| GTACAAAGAAGCCATTCCAC+CGG | - | chr4_2:9130277-9130296 | Msa0587560:CDS | 45.0% | |
| AATCCACACGCAGAAACCTT+CGG | + | chr4_2:9130358-9130377 | None:intergenic | 45.0% | |
| ! | TGTGGATTCTGTAGCCCTTT+TGG | - | chr4_2:9130370-9130389 | Msa0587560:CDS | 45.0% |
| GGAATGGCTTCTTTGTACGG+TGG | + | chr4_2:9130275-9130294 | None:intergenic | 50.0% | |
| AAGGGTCAACGATCAAAGCC+CGG | - | chr4_2:9130397-9130416 | Msa0587560:CDS | 50.0% | |
| GATCAAAGCCCGGTAAACGT+CGG | - | chr4_2:9130407-9130426 | Msa0587560:CDS | 50.0% | |
| ! | CTGGGGAGACTTTTCCGGTA+CGG | + | chr4_2:9130318-9130337 | None:intergenic | 55.0% |
| ! | GATCGCTGGGGAGACTTTTC+CGG | + | chr4_2:9130323-9130342 | None:intergenic | 55.0% |
| CACGCAGAAACCTTCGGAGA+CGG | + | chr4_2:9130352-9130371 | None:intergenic | 55.0% | |
| TCTCCGAAGGTTTCTGCGTG+TGG | - | chr4_2:9130352-9130371 | Msa0587560:CDS | 55.0% | |
| TACCTCGACCGACGTTTACC+GGG | + | chr4_2:9130418-9130437 | None:intergenic | 55.0% | |
| CTACCTCGACCGACGTTTAC+CGG | + | chr4_2:9130419-9130438 | None:intergenic | 55.0% | |
| AGAAGCCATTCCACCGGTGC+TGG | - | chr4_2:9130283-9130302 | Msa0587560:CDS | 60.0% | |
| ACGGTATCCTCGTCCAGCAC+CGG | + | chr4_2:9130299-9130318 | None:intergenic | 60.0% | |
| GCTGGACGAGGATACCGTAC+CGG | - | chr4_2:9130301-9130320 | Msa0587560:CDS | 60.0% | |
| AGACGGTGGTTCGATCGCTG+GGG | + | chr4_2:9130335-9130354 | None:intergenic | 60.0% | |
| GAGACGGTGGTTCGATCGCT+GGG | + | chr4_2:9130336-9130355 | None:intergenic | 60.0% | |
| GATCGAACCACCGTCTCCGA+AGG | - | chr4_2:9130339-9130358 | Msa0587560:CDS | 60.0% | |
| GCAGAAACCTTCGGAGACGG+TGG | + | chr4_2:9130349-9130368 | None:intergenic | 60.0% | |
| !! | CTCGTCCAGCACCGGTGGAA+TGG | + | chr4_2:9130291-9130310 | None:intergenic | 65.0% |
| ! | CATTCCACCGGTGCTGGACG+AGG | - | chr4_2:9130289-9130308 | Msa0587560:CDS | 65.0% |
| ! | GTATCCTCGTCCAGCACCGG+TGG | + | chr4_2:9130296-9130315 | None:intergenic | 65.0% |
| GGAGACGGTGGTTCGATCGC+TGG | + | chr4_2:9130337-9130356 | None:intergenic | 65.0% | |
| AGCCCGGTAAACGTCGGTCG+AGG | - | chr4_2:9130413-9130432 | Msa0587560:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 9130118 | 9130438 | 9130118 | ID=Msa0587560;Name=Msa0587560 |
| chr4_2 | mRNA | 9130118 | 9130438 | 9130118 | ID=Msa0587560-mRNA-1;Parent=Msa0587560;Name=Msa0587560-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|106 |
| chr4_2 | exon | 9130118 | 9130438 | 9130118 | ID=Msa0587560-mRNA-1:exon:2515;Parent=Msa0587560-mRNA-1 |
| chr4_2 | CDS | 9130118 | 9130438 | 9130118 | ID=Msa0587560-mRNA-1:cds;Parent=Msa0587560-mRNA-1 |
| Gene Sequence |
| Protein sequence |
