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 |
|---|
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0071150 | A0A072TE13 | 74.490 | 196 | 23 | 2 | 1 | 169 | 1 | 196 | 6.85e-94 | 284 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0071150 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0071150 | MtrunA17_Chr1g0172971 | 63.248 | 117 | 16 | 2 | 1 | 90 | 1 | 117 | 8.88e-38 | 136 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 29 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAACATCTTATGAAGTGATA+TGG | 0.272318 | 1_2:+42704298 | Msa0071150:CDS |
| TTTAAGTCCGAAAATCAAAA+AGG | 0.371320 | 1_2:-42704350 | None:intergenic |
| TTCTCATACTCAACAAGAAC+TGG | 0.395633 | 1_2:-42704057 | None:intergenic |
| CCATGATTCTTTATCACTAA+AGG | 0.406174 | 1_2:-42703818 | None:intergenic |
| TAAAGAATCATGGAAGTCTT+TGG | 0.408500 | 1_2:+42703828 | Msa0071150:CDS |
| ATAACACTGGATTCTCTGTT+AGG | 0.417808 | 1_2:+42703899 | Msa0071150:CDS |
| CGAGAAGTAAATGAAGTTCA+AGG | 0.430014 | 1_2:+42704234 | Msa0071150:CDS |
| ATCTGAGAGTGGACAATTGA+TGG | 0.439047 | 1_2:+42703753 | Msa0071150:CDS |
| TGAATGTCTATAAGATATAT+AGG | 0.445219 | 1_2:+42704148 | Msa0071150:CDS |
| AGATGGAATATATTTGAAGT+TGG | 0.449518 | 1_2:+42704116 | Msa0071150:CDS |
| GCTTTAATAAATTCTAAAGC+TGG | 0.450264 | 1_2:+42704264 | Msa0071150:CDS |
| CTCAAGTAGCGCAAATGCTC+TGG | 0.460440 | 1_2:-42704204 | None:intergenic |
| GAAAGGGTTGGTTGTAAAGA+TGG | 0.469485 | 1_2:+42704099 | Msa0071150:CDS |
| TTACAACCAACCCTTTCCTC+TGG | 0.473006 | 1_2:-42704093 | None:intergenic |
| AACATCTTATGAAGTGATAT+GGG | 0.475987 | 1_2:+42704299 | Msa0071150:CDS |
| TTTAATTATGCATATAACAC+TGG | 0.485542 | 1_2:+42703886 | Msa0071150:CDS |
| AGTGATATGGGTCAAGGAGT+TGG | 0.486059 | 1_2:+42704311 | Msa0071150:CDS |
| TGTCTATAAGATATATAGGT+GGG | 0.523740 | 1_2:+42704152 | Msa0071150:CDS |
| TAACAAAGAAGGTTTCAAGA+AGG | 0.538422 | 1_2:+42703993 | Msa0071150:intron |
| CCTTTAGTGATAAAGAATCA+TGG | 0.543522 | 1_2:+42703818 | Msa0071150:CDS |
| AACAAAGAAGGTTTCAAGAA+GGG | 0.545537 | 1_2:+42703994 | Msa0071150:intron |
| AAATGCTCTGGTTTATGTAA+TGG | 0.552634 | 1_2:-42704192 | None:intergenic |
| TGAAAATTCAGTTATTGATG+CGG | 0.565546 | 1_2:+42703777 | Msa0071150:CDS |
| GATATGGGTCAAGGAGTTGG+AGG | 0.574033 | 1_2:+42704314 | Msa0071150:CDS |
| TTATGAAGTGATATGGGTCA+AGG | 0.597565 | 1_2:+42704305 | Msa0071150:CDS |
| ATATCAACTTCATCTGAGAG+TGG | 0.614980 | 1_2:+42703742 | Msa0071150:CDS |
| AGAACTGGACTGTCACATGT+TGG | 0.620791 | 1_2:-42704042 | None:intergenic |
| GGGTCAAGGAGTTGGAGGCA+CGG | 0.637387 | 1_2:+42704319 | Msa0071150:CDS |
| ATGTCTATAAGATATATAGG+TGG | 0.643489 | 1_2:+42704151 | Msa0071150:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTAATTATGCATATAACAC+TGG | + | chr1_2:42703886-42703905 | Msa0071150:CDS | 20.0% |
| !! | CAATTCACAAAATAAGAAAT+AGG | + | chr1_2:42703942-42703961 | Msa0071150:intron | 20.0% |
| !! | ACAAAATAAGAAATAGGATA+AGG | + | chr1_2:42703948-42703967 | Msa0071150:intron | 20.0% |
| !! | TGAATGTCTATAAGATATAT+AGG | + | chr1_2:42704148-42704167 | Msa0071150:CDS | 20.0% |
| ! | TGAAAATTCAGTTATTGATG+CGG | + | chr1_2:42703777-42703796 | Msa0071150:CDS | 25.0% |
| !!! | CTTATTTTGTGAATTGTTCT+TGG | - | chr1_2:42703938-42703957 | None:intergenic | 25.0% |
| !! | AGATGGAATATATTTGAAGT+TGG | + | chr1_2:42704116-42704135 | Msa0071150:CDS | 25.0% |
| ! | ATGTCTATAAGATATATAGG+TGG | + | chr1_2:42704151-42704170 | Msa0071150:CDS | 25.0% |
| ! | TGTCTATAAGATATATAGGT+GGG | + | chr1_2:42704152-42704171 | Msa0071150:CDS | 25.0% |
| !!! | GCTTTAATAAATTCTAAAGC+TGG | + | chr1_2:42704264-42704283 | Msa0071150:CDS | 25.0% |
| ! | AACATCTTATGAAGTGATAT+GGG | + | chr1_2:42704299-42704318 | Msa0071150:CDS | 25.0% |
| !!! | GAATCTTCCTTTTTGATTTT+CGG | + | chr1_2:42704343-42704362 | Msa0071150:CDS | 25.0% |
| CCATGATTCTTTATCACTAA+AGG | - | chr1_2:42703821-42703840 | None:intergenic | 30.0% | |
| CCTTTAGTGATAAAGAATCA+TGG | + | chr1_2:42703818-42703837 | Msa0071150:CDS | 30.0% | |
| TAAAGAATCATGGAAGTCTT+TGG | + | chr1_2:42703828-42703847 | Msa0071150:CDS | 30.0% | |
| CATTATGCTTGTAACAAAGA+AGG | + | chr1_2:42703982-42704001 | Msa0071150:intron | 30.0% | |
| TAACAAAGAAGGTTTCAAGA+AGG | + | chr1_2:42703993-42704012 | Msa0071150:intron | 30.0% | |
| AACAAAGAAGGTTTCAAGAA+GGG | + | chr1_2:42703994-42704013 | Msa0071150:intron | 30.0% | |
| TAAAGAAAAACCAGAGGAAA+GGG | + | chr1_2:42704083-42704102 | Msa0071150:CDS | 30.0% | |
| ! | AAATGCTCTGGTTTATGTAA+TGG | - | chr1_2:42704195-42704214 | None:intergenic | 30.0% |
| GAACATCTTATGAAGTGATA+TGG | + | chr1_2:42704298-42704317 | Msa0071150:CDS | 30.0% | |
| ATATCAACTTCATCTGAGAG+TGG | + | chr1_2:42703742-42703761 | Msa0071150:CDS | 35.0% | |
| ATAACACTGGATTCTCTGTT+AGG | + | chr1_2:42703899-42703918 | Msa0071150:CDS | 35.0% | |
| GTCTGCTTAATCCTAAAAAC+AGG | + | chr1_2:42704019-42704038 | Msa0071150:CDS | 35.0% | |
| TTCTCATACTCAACAAGAAC+TGG | - | chr1_2:42704060-42704079 | None:intergenic | 35.0% | |
| GAAAGCTAAAGAAAAACCAG+AGG | + | chr1_2:42704077-42704096 | Msa0071150:CDS | 35.0% | |
| CTAAAGAAAAACCAGAGGAA+AGG | + | chr1_2:42704082-42704101 | Msa0071150:CDS | 35.0% | |
| CGAGAAGTAAATGAAGTTCA+AGG | + | chr1_2:42704234-42704253 | Msa0071150:CDS | 35.0% | |
| TTATGAAGTGATATGGGTCA+AGG | + | chr1_2:42704305-42704324 | Msa0071150:CDS | 35.0% | |
| ATCTGAGAGTGGACAATTGA+TGG | + | chr1_2:42703753-42703772 | Msa0071150:CDS | 40.0% | |
| !! | TCACATGTTGGCCTGTTTTT+AGG | - | chr1_2:42704033-42704052 | None:intergenic | 40.0% |
| !! | GAAAGGGTTGGTTGTAAAGA+TGG | + | chr1_2:42704099-42704118 | Msa0071150:CDS | 40.0% |
| AGAACTGGACTGTCACATGT+TGG | - | chr1_2:42704045-42704064 | None:intergenic | 45.0% | |
| GAAAAACCAGAGGAAAGGGT+TGG | + | chr1_2:42704087-42704106 | Msa0071150:CDS | 45.0% | |
| TTACAACCAACCCTTTCCTC+TGG | - | chr1_2:42704096-42704115 | None:intergenic | 45.0% | |
| AGTGATATGGGTCAAGGAGT+TGG | + | chr1_2:42704311-42704330 | Msa0071150:CDS | 45.0% | |
| CTCAAGTAGCGCAAATGCTC+TGG | - | chr1_2:42704207-42704226 | None:intergenic | 50.0% | |
| GATATGGGTCAAGGAGTTGG+AGG | + | chr1_2:42704314-42704333 | Msa0071150:CDS | 50.0% | |
| GGGTCAAGGAGTTGGAGGCA+CGG | + | chr1_2:42704319-42704338 | Msa0071150:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 42703733 | 42704371 | 42703733 | ID=Msa0071150;Name=Msa0071150 |
| chr1_2 | mRNA | 42703733 | 42704371 | 42703733 | ID=Msa0071150-mRNA-1;Parent=Msa0071150;Name=Msa0071150-mRNA-1;_AED=0.37;_eAED=0.43;_QI=0|0|0|1|1|1|2|0|186 |
| chr1_2 | exon | 42703733 | 42703922 | 42703733 | ID=Msa0071150-mRNA-1:exon:12960;Parent=Msa0071150-mRNA-1 |
| chr1_2 | exon | 42704001 | 42704371 | 42704001 | ID=Msa0071150-mRNA-1:exon:12961;Parent=Msa0071150-mRNA-1 |
| chr1_2 | CDS | 42703733 | 42703922 | 42703733 | ID=Msa0071150-mRNA-1:cds;Parent=Msa0071150-mRNA-1 |
| chr1_2 | CDS | 42704001 | 42704371 | 42704001 | ID=Msa0071150-mRNA-1:cds;Parent=Msa0071150-mRNA-1 |
| Gene Sequence |
| Protein sequence |
