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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0357220 | XP_013461791.1 | 74.163 | 209 | 29 | 2 | 1 | 184 | 1 | 209 | 4.17e-91 | 276 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0357220 | A0A072V2E5 | 74.163 | 209 | 29 | 2 | 1 | 184 | 1 | 209 | 1.99e-91 | 276 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0092410 | Msa0357220 | 0.803139 | 4.019607e-49 | -8.615850e-47 |
| Msa0178510 | Msa0357220 | 0.800355 | 1.498455e-48 | -8.615850e-47 |
| Msa0190530 | Msa0357220 | 0.825462 | 4.626522e-54 | -8.615850e-47 |
| Msa0201570 | Msa0357220 | 0.806705 | 7.225414e-50 | -8.615850e-47 |
| Msa0244140 | Msa0357220 | 0.801586 | 8.397877e-49 | -8.615850e-47 |
| Msa0244190 | Msa0357220 | 0.811890 | 5.582484e-51 | -8.615850e-47 |
| Msa0347750 | Msa0357220 | 0.806984 | 6.306917e-50 | -8.615850e-47 |
| Msa0357220 | Msa0389390 | 0.800241 | 1.580424e-48 | -8.615850e-47 |
| Msa0357220 | Msa0398200 | 0.803855 | 2.856759e-49 | -8.615850e-47 |
| Msa0357220 | Msa0449850 | 0.943851 | 5.700982e-103 | -8.615850e-47 |
| Msa0357220 | Msa0532930 | 0.802022 | 6.831966e-49 | -8.615850e-47 |
| Msa0357220 | Msa0624960 | 0.825002 | 5.944520e-54 | -8.615850e-47 |
| Msa0357220 | Msa0667740 | 0.811854 | 5.683906e-51 | -8.615850e-47 |
| Msa0357220 | Msa0689780 | 0.825991 | 3.465244e-54 | -8.615850e-47 |
| Msa0357220 | Msa1007230 | 0.805949 | 1.042884e-49 | -8.615850e-47 |
| Msa0357220 | Msa1063420 | 0.804028 | 2.628985e-49 | -8.615850e-47 |
| Msa0357220 | Msa1177560 | 0.817049 | 4.033311e-52 | -8.615850e-47 |
| Msa0357220 | Msa1225100 | 0.803591 | 3.241194e-49 | -8.615850e-47 |
| Msa0357220 | Msa1329870 | 0.802484 | 5.488933e-49 | -8.615850e-47 |
| Msa0357220 | Msa1343250 | 0.805717 | 1.166450e-49 | -8.615850e-47 |
| Msa0357220 | Msa1355890 | 0.801579 | 8.423250e-49 | -8.615850e-47 |
| Msa0357220 | Msa1394310 | 0.812986 | 3.216142e-51 | -8.615850e-47 |
| Msa0357220 | Msa1405220 | 0.800839 | 1.193700e-48 | -8.615850e-47 |
| Msa0357220 | Msa1420270 | 0.834209 | 3.421446e-56 | -8.615850e-47 |
| Msa0357220 | Msa1462360 | 0.819343 | 1.220978e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0357220 | MtrunA17_Chr3g0134881 | 74.163 | 209 | 29 | 2 | 1 | 184 | 1 | 209 | 3.83e-95 | 276 |
| Msa0357220 | MtrunA17_Chr1g0152461 | 43.902 | 205 | 86 | 8 | 1 | 184 | 1 | 197 | 3.31e-43 | 145 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0357220 | AT1G59590.1 | 34.409 | 186 | 96 | 5 | 19 | 184 | 8 | 187 | 6.82e-27 | 101 |
| Msa0357220 | AT1G10220.1 | 34.270 | 178 | 93 | 6 | 19 | 174 | 4 | 179 | 4.41e-17 | 75.9 |
| Msa0357220 | AT1G10220.2 | 32.275 | 189 | 93 | 6 | 19 | 174 | 4 | 190 | 1.86e-15 | 71.6 |
Find 25 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCGAACTATCTTTCAAAAT+AGG | 0.247880 | 3_1:-38487490 | None:intergenic |
| GGAAATTGCCACAAACTAAA+TGG | 0.257314 | 3_1:-38486951 | None:intergenic |
| AGAGAAATTGATGAAGAAAA+AGG | 0.259298 | 3_1:+38487516 | Msa0357220:CDS |
| TTTGATCAAGTTCAGATAGA+AGG | 0.288309 | 3_1:-38487089 | None:intergenic |
| CCAAAAGAAAAGACAACAAT+AGG | 0.309829 | 3_1:+38487022 | Msa0357220:CDS |
| ATGGTATATCATCTTCTAAT+TGG | 0.359629 | 3_1:-38486978 | None:intergenic |
| ATGCTTAACCATTTAGTTTG+TGG | 0.373237 | 3_1:+38486943 | Msa0357220:CDS |
| TCTAAGCCTCTTGAAGCATA+AGG | 0.392424 | 3_1:-38487054 | None:intergenic |
| TTGTTGTTGTTGACTGTGTT+TGG | 0.422356 | 3_1:+38487421 | Msa0357220:CDS |
| TCAACATGTTTATGATCCAT+TGG | 0.448150 | 3_1:-38487256 | None:intergenic |
| ATGGTGAGATATTTCCAACT+TGG | 0.480861 | 3_1:-38487293 | None:intergenic |
| TATCATCTTCTAATTGGTGT+TGG | 0.486872 | 3_1:-38486972 | None:intergenic |
| CAAGAGTGAAGAACATGTTA+AGG | 0.497546 | 3_1:+38487207 | Msa0357220:CDS |
| TATCTGAACTTGATCAAAGA+AGG | 0.501411 | 3_1:+38487094 | Msa0357220:CDS |
| AAAATCAATATCACAACAGC+AGG | 0.519128 | 3_1:-38487400 | None:intergenic |
| CAAAAGAAAAGACAACAATA+GGG | 0.523809 | 3_1:+38487023 | Msa0357220:CDS |
| TGGTGAGATATTTCCAACTT+GGG | 0.526102 | 3_1:-38487292 | None:intergenic |
| TTGATCAAGTTCAGATAGAA+GGG | 0.545038 | 3_1:-38487088 | None:intergenic |
| AGAAACAAAACAACCCAAGT+TGG | 0.556433 | 3_1:+38487279 | Msa0357220:CDS |
| GATAATCCTTATGCTTCAAG+AGG | 0.584005 | 3_1:+38487048 | Msa0357220:CDS |
| CGAACAAAAGATATGTCATG+TGG | 0.588570 | 3_1:-38487141 | None:intergenic |
| CGCTTTGCACATGTATTGTG+TGG | 0.598253 | 3_1:+38487458 | Msa0357220:CDS |
| ACAGCAGGCACATAGAAAGA+AGG | 0.600782 | 3_1:-38487385 | None:intergenic |
| GAACAAAAGATATGTCATGT+GGG | 0.637973 | 3_1:-38487140 | None:intergenic |
| ATATCTCACCATGTTGACGA+TGG | 0.679358 | 3_1:+38487304 | Msa0357220:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ATGGTATATCATCTTCTAAT+TGG | - | chr3_1:38486981-38487000 | None:intergenic | 25.0% |
| !! | TTCTTTTGGATTTGGATTTT+GGG | - | chr3_1:38487011-38487030 | None:intergenic | 25.0% |
| !! | TTTCTTTTGGATTTGGATTT+TGG | - | chr3_1:38487012-38487031 | None:intergenic | 25.0% |
| ! | CAAAAGAAAAGACAACAATA+GGG | + | chr3_1:38487023-38487042 | Msa0357220:CDS | 25.0% |
| !! | AACATCTTTTTATGAACCAA+TGG | + | chr3_1:38487240-38487259 | Msa0357220:CDS | 25.0% |
| ! | TTCGAACTATCTTTCAAAAT+AGG | - | chr3_1:38487493-38487512 | None:intergenic | 25.0% |
| ! | AGAGAAATTGATGAAGAAAA+AGG | + | chr3_1:38487516-38487535 | Msa0357220:CDS | 25.0% |
| !! | ATGCTTAACCATTTAGTTTG+TGG | + | chr3_1:38486943-38486962 | Msa0357220:CDS | 30.0% |
| TATCATCTTCTAATTGGTGT+TGG | - | chr3_1:38486975-38486994 | None:intergenic | 30.0% | |
| ! | GTTGTCTTTTCTTTTGGATT+TGG | - | chr3_1:38487019-38487038 | None:intergenic | 30.0% |
| ! | CCTATTGTTGTCTTTTCTTT+TGG | - | chr3_1:38487025-38487044 | None:intergenic | 30.0% |
| CCAAAAGAAAAGACAACAAT+AGG | + | chr3_1:38487022-38487041 | Msa0357220:CDS | 30.0% | |
| TTGATCAAGTTCAGATAGAA+GGG | - | chr3_1:38487091-38487110 | None:intergenic | 30.0% | |
| TTTGATCAAGTTCAGATAGA+AGG | - | chr3_1:38487092-38487111 | None:intergenic | 30.0% | |
| TATCTGAACTTGATCAAAGA+AGG | + | chr3_1:38487094-38487113 | Msa0357220:CDS | 30.0% | |
| GAACAAAAGATATGTCATGT+GGG | - | chr3_1:38487143-38487162 | None:intergenic | 30.0% | |
| TCAACATGTTTATGATCCAT+TGG | - | chr3_1:38487259-38487278 | None:intergenic | 30.0% | |
| TCAAACAAGATTGTAAGCTT+TGG | + | chr3_1:38487337-38487356 | Msa0357220:intron | 30.0% | |
| TCTCTTTGAATATGTTGAAG+AGG | + | chr3_1:38487362-38487381 | Msa0357220:intron | 30.0% | |
| AAAATCAATATCACAACAGC+AGG | - | chr3_1:38487403-38487422 | None:intergenic | 30.0% | |
| GGAAATTGCCACAAACTAAA+TGG | - | chr3_1:38486954-38486973 | None:intergenic | 35.0% | |
| GATAATCCTTATGCTTCAAG+AGG | + | chr3_1:38487048-38487067 | Msa0357220:CDS | 35.0% | |
| CGAACAAAAGATATGTCATG+TGG | - | chr3_1:38487144-38487163 | None:intergenic | 35.0% | |
| CAAGAGTGAAGAACATGTTA+AGG | + | chr3_1:38487207-38487226 | Msa0357220:CDS | 35.0% | |
| AGAAACAAAACAACCCAAGT+TGG | + | chr3_1:38487279-38487298 | Msa0357220:CDS | 35.0% | |
| TGGTGAGATATTTCCAACTT+GGG | - | chr3_1:38487295-38487314 | None:intergenic | 35.0% | |
| ATGGTGAGATATTTCCAACT+TGG | - | chr3_1:38487296-38487315 | None:intergenic | 35.0% | |
| ! | CATTTTTACCATCGTCAACA+TGG | - | chr3_1:38487315-38487334 | None:intergenic | 35.0% |
| ! | TTGTTGTTGTTGACTGTGTT+TGG | + | chr3_1:38487421-38487440 | Msa0357220:CDS | 35.0% |
| ! | TTGGATTTTGGGCTTGAACA+TGG | - | chr3_1:38487000-38487019 | None:intergenic | 40.0% |
| TCTAAGCCTCTTGAAGCATA+AGG | - | chr3_1:38487057-38487076 | None:intergenic | 40.0% | |
| ATATCTCACCATGTTGACGA+TGG | + | chr3_1:38487304-38487323 | Msa0357220:CDS | 40.0% | |
| ACAGCAGGCACATAGAAAGA+AGG | - | chr3_1:38487388-38487407 | None:intergenic | 45.0% | |
| CGCTTTGCACATGTATTGTG+TGG | + | chr3_1:38487458-38487477 | Msa0357220:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 38486943 | 38487543 | 38486943 | ID=Msa0357220;Name=Msa0357220 |
| chr3_1 | mRNA | 38486943 | 38487543 | 38486943 | ID=Msa0357220-mRNA-1;Parent=Msa0357220;Name=Msa0357220-mRNA-1;_AED=0.07;_eAED=0.07;_QI=0|0|0|1|0|0|3|0|184 |
| chr3_1 | exon | 38486943 | 38487162 | 38486943 | ID=Msa0357220-mRNA-1:exon:6950;Parent=Msa0357220-mRNA-1 |
| chr3_1 | exon | 38487179 | 38487348 | 38487179 | ID=Msa0357220-mRNA-1:exon:6951;Parent=Msa0357220-mRNA-1 |
| chr3_1 | exon | 38487382 | 38487543 | 38487382 | ID=Msa0357220-mRNA-1:exon:6952;Parent=Msa0357220-mRNA-1 |
| chr3_1 | CDS | 38486943 | 38487162 | 38486943 | ID=Msa0357220-mRNA-1:cds;Parent=Msa0357220-mRNA-1 |
| chr3_1 | CDS | 38487179 | 38487348 | 38487179 | ID=Msa0357220-mRNA-1:cds;Parent=Msa0357220-mRNA-1 |
| chr3_1 | CDS | 38487382 | 38487543 | 38487382 | ID=Msa0357220-mRNA-1:cds;Parent=Msa0357220-mRNA-1 |
| Gene Sequence |
| Protein sequence |
