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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0835620 | XP_024632725.2 | 63.636 | 110 | 39 | 1 | 3 | 112 | 1 | 109 | 1.92e-38 | 147 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0835620 | A4PRH7 | 91.379 | 58 | 5 | 0 | 1 | 58 | 1 | 58 | 6.23e-29 | 108 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0835620 | 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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 12 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTATCACATGGTTCATTATT+TGG | 0.136012 | 5_4:+9000192 | None:intergenic |
| AGAAAGCATTGCCTAATAAA+AGG | 0.305675 | 5_4:+9000099 | None:intergenic |
| CTCAGTGAGGAAGAAGCTTT+CGG | 0.314082 | 5_4:-9000078 | Msa0835620:CDS |
| GATTGAGAAACCACTCCTTT+TGG | 0.331753 | 5_4:+9000038 | None:intergenic |
| AAAGGAGTGGTTTCTCAATC+CGG | 0.480907 | 5_4:-9000035 | Msa0835620:CDS |
| TTTATGAGAATTATGCCAAA+AGG | 0.493635 | 5_4:-9000053 | Msa0835620:CDS |
| GAGAATTATGCCAAAAGGAG+TGG | 0.544730 | 5_4:-9000048 | Msa0835620:CDS |
| ATGGGATGATATACATAGGA+GGG | 0.548165 | 5_4:-8999989 | Msa0835620:CDS |
| CTCAATCAATTGTTCTCATG+TGG | 0.560735 | 5_4:-9000523 | Msa0835620:CDS |
| AATGGGATGATATACATAGG+AGG | 0.613939 | 5_4:-8999990 | Msa0835620:CDS |
| AGTGGTTTCTCAATCCGGAA+AGG | 0.654585 | 5_4:-9000030 | Msa0835620:CDS |
| TAGGCAATGCTTTCTCAGTG+AGG | 0.672173 | 5_4:-9000091 | Msa0835620:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATTCAATAGTAATATTTTG+TGG | - | chr5_4:9000201-9000220 | Msa0835620:CDS | 15.0% |
| !! | TAATATGAATTTATTTGTGT+AGG | - | chr5_4:9000267-9000286 | Msa0835620:intron | 15.0% |
| !! | TCGATTTCTTAAAAAAAAAT+GGG | - | chr5_4:9000511-9000530 | Msa0835620:CDS | 15.0% |
| !! | AATTCGTATATAAGGAATTA+GGG | + | chr5_4:9000185-9000204 | None:intergenic | 20.0% |
| !! | TACTATTGAATTCGTATATA+AGG | + | chr5_4:9000193-9000212 | None:intergenic | 20.0% |
| !!! | ATTGTTTTGAACCTTTTATT+AGG | - | chr5_4:9000408-9000427 | Msa0835620:intron | 20.0% |
| !!! | GTCGATTTCTTAAAAAAAAA+TGG | - | chr5_4:9000510-9000529 | Msa0835620:CDS | 20.0% |
| ! | ATTCGTATATAAGGAATTAG+GGG | + | chr5_4:9000184-9000203 | None:intergenic | 25.0% |
| ! | GAATTCGTATATAAGGAATT+AGG | + | chr5_4:9000186-9000205 | None:intergenic | 25.0% |
| ! | TGAATTTATTTGTGTAGGTT+AGG | - | chr5_4:9000272-9000291 | Msa0835620:intron | 25.0% |
| ! | TTATCACATGGTTCATTATT+TGG | + | chr5_4:9000329-9000348 | None:intergenic | 25.0% |
| ! | TTTATGAGAATTATGCCAAA+AGG | - | chr5_4:9000465-9000484 | Msa0835620:intron | 25.0% |
| ! | AAAAATGGGATGATATACAT+AGG | - | chr5_4:9000525-9000544 | Msa0835620:CDS | 25.0% |
| GTTGAGAACATATGAGAAAA+AGG | + | chr5_4:9000069-9000088 | None:intergenic | 30.0% | |
| GGTATATAATGTGTGACATA+AGG | + | chr5_4:9000097-9000116 | None:intergenic | 30.0% | |
| AAGGAAAGAAATTGAGAACA+AGG | + | chr5_4:9000123-9000142 | None:intergenic | 30.0% | |
| TAATATGTGTGTGTGACTTA+AGG | + | chr5_4:9000142-9000161 | None:intergenic | 30.0% | |
| ! | TCATTTTCTGAGTTATCACA+TGG | + | chr5_4:9000341-9000360 | None:intergenic | 30.0% |
| !! | AGAAAGCATTGCCTAATAAA+AGG | + | chr5_4:9000422-9000441 | None:intergenic | 30.0% |
| !! | TTTTAAGAAATCGACCTTTC+CGG | + | chr5_4:9000505-9000524 | None:intergenic | 30.0% |
| CTCAATCAATTGTTCTCATG+TGG | - | chr5_4:8999995-9000014 | Msa0835620:CDS | 35.0% | |
| AAGAAATTGAGAACAAGGTG+TGG | + | chr5_4:9000118-9000137 | None:intergenic | 35.0% | |
| AATGGGATGATATACATAGG+AGG | - | chr5_4:9000528-9000547 | Msa0835620:CDS | 35.0% | |
| ATGGGATGATATACATAGGA+GGG | - | chr5_4:9000529-9000548 | Msa0835620:CDS | 35.0% | |
| GAGAATTATGCCAAAAGGAG+TGG | - | chr5_4:9000470-9000489 | Msa0835620:intron | 40.0% | |
| ! | GATTGAGAAACCACTCCTTT+TGG | + | chr5_4:9000483-9000502 | None:intergenic | 40.0% |
| AAAGGAGTGGTTTCTCAATC+CGG | - | chr5_4:9000483-9000502 | Msa0835620:intron | 40.0% | |
| TAGGCAATGCTTTCTCAGTG+AGG | - | chr5_4:9000427-9000446 | Msa0835620:intron | 45.0% | |
| CTCAGTGAGGAAGAAGCTTT+CGG | - | chr5_4:9000440-9000459 | Msa0835620:intron | 45.0% | |
| AGTGGTTTCTCAATCCGGAA+AGG | - | chr5_4:9000488-9000507 | Msa0835620:intron | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_4 | gene | 8999972 | 9000568 | 8999972 | ID=Msa0835620;Name=Msa0835620 |
| chr5_4 | mRNA | 8999972 | 9000568 | 8999972 | ID=Msa0835620-mRNA-1;Parent=Msa0835620;Name=Msa0835620-mRNA-1;_AED=0.42;_eAED=0.43;_QI=0|0|0|1|1|1|2|0|112 |
| chr5_4 | exon | 9000510 | 9000568 | 9000510 | ID=Msa0835620-mRNA-1:exon:3990;Parent=Msa0835620-mRNA-1 |
| chr5_4 | exon | 8999972 | 9000251 | 8999972 | ID=Msa0835620-mRNA-1:exon:3989;Parent=Msa0835620-mRNA-1 |
| chr5_4 | CDS | 9000510 | 9000568 | 9000510 | ID=Msa0835620-mRNA-1:cds;Parent=Msa0835620-mRNA-1 |
| chr5_4 | CDS | 8999972 | 9000251 | 8999972 | ID=Msa0835620-mRNA-1:cds;Parent=Msa0835620-mRNA-1 |
| Gene Sequence |
| Protein sequence |
