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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0889430 | KEH25323.1 | 88.764 | 89 | 10 | 0 | 17 | 105 | 41 | 129 | 3.64e-50 | 167 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0889430 | A0A072U878 | 88.764 | 89 | 10 | 0 | 17 | 105 | 41 | 129 | 1.74e-50 | 167 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0889430 | TF | FAR1 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0889430 | MtrunA17_Chr3g0082121 | 65.476 | 84 | 29 | 0 | 22 | 105 | 31 | 114 | 1.63e-31 | 117 |
| Msa0889430 | MtrunA17_Chr5g0401121 | 59.524 | 84 | 34 | 0 | 22 | 105 | 44 | 127 | 5.73e-28 | 101 |
| Msa0889430 | MtrunA17_Chr6g0458391 | 53.030 | 66 | 31 | 0 | 28 | 93 | 219 | 284 | 1.69e-17 | 77.8 |
| Msa0889430 | MtrunA17_Chr6g0458391 | 44.615 | 65 | 36 | 0 | 33 | 97 | 90 | 154 | 3.96e-11 | 59.3 |
| Msa0889430 | MtrunA17_Chr1g0203721 | 38.272 | 81 | 50 | 0 | 25 | 105 | 54 | 134 | 2.22e-12 | 63.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 26 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GATTCTGAGGCGGTGGCTTA+TGG | 0.213006 | 6_1:-57105307 | Msa0889430:CDS |
| TTTGGTATTCGTCGAGAATA+TGG | 0.287007 | 6_1:-57105253 | Msa0889430:CDS |
| TCTGCTTTATGCTCCCCTTT+TGG | 0.298586 | 6_1:+57105142 | None:intergenic |
| ATTGAGTACAGTAAAAGAAT+TGG | 0.326573 | 6_1:-57105277 | Msa0889430:CDS |
| GGAAATAAAAGCAGAGTAGA+TGG | 0.337125 | 6_1:-57105232 | Msa0889430:CDS |
| CTTGATTTGGTTATGACTCT+TGG | 0.341470 | 6_1:+57105037 | None:intergenic |
| TGCCAACAATGTACCTTACT+TGG | 0.341955 | 6_1:-57105341 | Msa0889430:CDS |
| ATAAAGCAGAAATTAGAAAT+TGG | 0.362913 | 6_1:-57105129 | Msa0889430:CDS |
| TACAGTAAAAGAATTGGATT+TGG | 0.373883 | 6_1:-57105271 | Msa0889430:CDS |
| TCAAACTTCATTTCCAAGTA+AGG | 0.400020 | 6_1:+57105328 | None:intergenic |
| ATGTATGTGTCAACTTGATT+TGG | 0.422918 | 6_1:+57105024 | None:intergenic |
| CAATCAAGTCAAGTTGGAAA+TGG | 0.427480 | 6_1:-57105081 | Msa0889430:CDS |
| CAGAAATTAGAAATTGGAAA+TGG | 0.429148 | 6_1:-57105123 | Msa0889430:CDS |
| GACAAAAGACGTCAACCAAA+AGG | 0.461065 | 6_1:-57105157 | Msa0889430:CDS |
| TTCCAAGTAAGGTACATTGT+TGG | 0.489972 | 6_1:+57105339 | None:intergenic |
| ACAAAAGACGTCAACCAAAA+GGG | 0.496414 | 6_1:-57105156 | Msa0889430:CDS |
| GGAAATGAAGTTTGATTCTG+AGG | 0.518232 | 6_1:-57105320 | Msa0889430:CDS |
| GCGACACAATCAAGTCAAGT+TGG | 0.524936 | 6_1:-57105087 | Msa0889430:CDS |
| GAAGTTTGATTCTGAGGCGG+TGG | 0.534831 | 6_1:-57105314 | Msa0889430:CDS |
| CAGAATGTGCAACGCGGACA+AGG | 0.541485 | 6_1:-57105370 | Msa0889430:CDS |
| CAAAAGACGTCAACCAAAAG+GGG | 0.607006 | 6_1:-57105155 | Msa0889430:CDS |
| TGCTTCAAAGAGGGTGTACG+AGG | 0.626130 | 6_1:-57105184 | Msa0889430:CDS |
| AAGATTCACATGCTTCAAAG+AGG | 0.633613 | 6_1:-57105194 | Msa0889430:CDS |
| AGATTCACATGCTTCAAAGA+GGG | 0.643478 | 6_1:-57105193 | Msa0889430:CDS |
| AATGAAGTTTGATTCTGAGG+CGG | 0.710835 | 6_1:-57105317 | Msa0889430:CDS |
| CATGAACAGAATGTGCAACG+CGG | 0.747512 | 6_1:-57105376 | Msa0889430:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAACCGAAATTTACAATTA+AGG | + | chr6_1:57105117-57105136 | None:intergenic | 20.0% |
| !! | ATAAAGCAGAAATTAGAAAT+TGG | - | chr6_1:57105418-57105437 | Msa0889430:intron | 20.0% |
| !! | TTTAGATTGTGTCGATAAAT+TGG | - | chr6_1:57105137-57105156 | Msa0889430:CDS | 25.0% |
| ! | ATTGAGTACAGTAAAAGAAT+TGG | - | chr6_1:57105270-57105289 | Msa0889430:CDS | 25.0% |
| ! | TACAGTAAAAGAATTGGATT+TGG | - | chr6_1:57105276-57105295 | Msa0889430:CDS | 25.0% |
| ! | CAGAAATTAGAAATTGGAAA+TGG | - | chr6_1:57105424-57105443 | Msa0889430:intron | 25.0% |
| ! | GTGGCCTTAATTGTAAATTT+CGG | - | chr6_1:57105110-57105129 | Msa0889430:CDS | 30.0% |
| TCAAACTTCATTTCCAAGTA+AGG | + | chr6_1:57105222-57105241 | None:intergenic | 30.0% | |
| ATGCCTGCAATTATCAGTTA+TGG | - | chr6_1:57105088-57105107 | Msa0889430:CDS | 35.0% | |
| TTCCAAGTAAGGTACATTGT+TGG | + | chr6_1:57105211-57105230 | None:intergenic | 35.0% | |
| GGAAATGAAGTTTGATTCTG+AGG | - | chr6_1:57105227-57105246 | Msa0889430:CDS | 35.0% | |
| ! | AATGAAGTTTGATTCTGAGG+CGG | - | chr6_1:57105230-57105249 | Msa0889430:CDS | 35.0% |
| TTTGGTATTCGTCGAGAATA+TGG | - | chr6_1:57105294-57105313 | Msa0889430:CDS | 35.0% | |
| GGAAATAAAAGCAGAGTAGA+TGG | - | chr6_1:57105315-57105334 | Msa0889430:CDS | 35.0% | |
| AAGATTCACATGCTTCAAAG+AGG | - | chr6_1:57105353-57105372 | Msa0889430:CDS | 35.0% | |
| AGATTCACATGCTTCAAAGA+GGG | - | chr6_1:57105354-57105373 | Msa0889430:CDS | 35.0% | |
| ACAAAAGACGTCAACCAAAA+GGG | - | chr6_1:57105391-57105410 | Msa0889430:intron | 35.0% | |
| !! | CAATCAAGTCAAGTTGGAAA+TGG | - | chr6_1:57105466-57105485 | Msa0889430:intron | 35.0% |
| !! | CTTGATTTGGTTATGACTCT+TGG | + | chr6_1:57105513-57105532 | None:intergenic | 35.0% |
| CCACCATAACTGATAATTGC+AGG | + | chr6_1:57105094-57105113 | None:intergenic | 40.0% | |
| CCTGCAATTATCAGTTATGG+TGG | - | chr6_1:57105091-57105110 | Msa0889430:CDS | 40.0% | |
| TGCCAACAATGTACCTTACT+TGG | - | chr6_1:57105206-57105225 | Msa0889430:CDS | 40.0% | |
| GACAAAAGACGTCAACCAAA+AGG | - | chr6_1:57105390-57105409 | Msa0889430:intron | 40.0% | |
| CAAAAGACGTCAACCAAAAG+GGG | - | chr6_1:57105392-57105411 | Msa0889430:intron | 40.0% | |
| CATGAACAGAATGTGCAACG+CGG | - | chr6_1:57105171-57105190 | Msa0889430:CDS | 45.0% | |
| ! | TCTGCTTTATGCTCCCCTTT+TGG | + | chr6_1:57105408-57105427 | None:intergenic | 45.0% |
| GCGACACAATCAAGTCAAGT+TGG | - | chr6_1:57105460-57105479 | Msa0889430:intron | 45.0% | |
| !! | GAAGTTTGATTCTGAGGCGG+TGG | - | chr6_1:57105233-57105252 | Msa0889430:CDS | 50.0% |
| ! | TGCTTCAAAGAGGGTGTACG+AGG | - | chr6_1:57105363-57105382 | Msa0889430:CDS | 50.0% |
| CAGAATGTGCAACGCGGACA+AGG | - | chr6_1:57105177-57105196 | Msa0889430:CDS | 55.0% | |
| !! | GATTCTGAGGCGGTGGCTTA+TGG | - | chr6_1:57105240-57105259 | Msa0889430:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_1 | gene | 57105033 | 57105536 | 57105033 | ID=Msa0889430;Name=Msa0889430 |
| chr6_1 | mRNA | 57105033 | 57105536 | 57105033 | ID=Msa0889430-mRNA-1;Parent=Msa0889430;Name=Msa0889430-mRNA-1;_AED=0.35;_eAED=0.35;_QI=0|0|0|0.5|1|1|2|0|138 |
| chr6_1 | exon | 57105490 | 57105536 | 57105490 | ID=Msa0889430-mRNA-1:exon:11172;Parent=Msa0889430-mRNA-1 |
| chr6_1 | exon | 57105033 | 57105402 | 57105033 | ID=Msa0889430-mRNA-1:exon:11171;Parent=Msa0889430-mRNA-1 |
| chr6_1 | CDS | 57105490 | 57105536 | 57105490 | ID=Msa0889430-mRNA-1:cds;Parent=Msa0889430-mRNA-1 |
| chr6_1 | CDS | 57105033 | 57105402 | 57105033 | ID=Msa0889430-mRNA-1:cds;Parent=Msa0889430-mRNA-1 |
| Gene Sequence |
| Protein sequence |
