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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0604070 | XP_013456236.1 | 94.048 | 84 | 3 | 1 | 1 | 84 | 1 | 82 | 1.29e-48 | 158 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0604070 | A0A072UKM6 | 94.048 | 84 | 3 | 1 | 1 | 84 | 1 | 82 | 6.18e-49 | 158 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0604070 | Msa0632830 | 0.873290 | 1.648666e-67 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0604070 | MtrunA17_Chr4g0033121 | 94.048 | 84 | 3 | 1 | 1 | 84 | 1 | 82 | 1.19e-52 | 158 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 14 sgRNAs with CRISPR-Local
Find 24 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAAAGTTAACACTTTGTTCT+TGG | 0.265427 | 4_2:-49194213 | Msa0604070:CDS |
| CTAACAACTTAAGGTTCAAA+AGG | 0.366933 | 4_2:+49193758 | None:intergenic |
| TTTGCAAGGTTTAAGAATGA+AGG | 0.443415 | 4_2:-49193857 | Msa0604070:CDS |
| TTGTTGTGATGAAGAGGGTC+AGG | 0.472110 | 4_2:+49193785 | None:intergenic |
| GATATTAGGTTGCATTTGCA+AGG | 0.488673 | 4_2:-49193871 | Msa0604070:intron |
| TAACAACTTAAGGTTCAAAA+GGG | 0.508828 | 4_2:+49193759 | None:intergenic |
| TCAGCAAGAGAAGTTCCAAC+TGG | 0.518114 | 4_2:-49193809 | Msa0604070:CDS |
| AAGAATGAAGGAGTAACTGT+TGG | 0.526498 | 4_2:-49193845 | Msa0604070:CDS |
| GGGTTATTGTTGTGATGAAG+AGG | 0.548786 | 4_2:+49193779 | None:intergenic |
| GGTTATTGTTGTGATGAAGA+GGG | 0.581176 | 4_2:+49193780 | None:intergenic |
| TGAAGAGGGTCAGGTCCAGT+TGG | 0.596354 | 4_2:+49193794 | None:intergenic |
| ATTTATCGTTCAAACATGGA+AGG | 0.596798 | 4_2:-49194039 | Msa0604070:CDS |
| TCGTATTTATCGTTCAAACA+TGG | 0.631736 | 4_2:-49194043 | Msa0604070:CDS |
| TATCGTTCAAACATGGAAGG+AGG | 0.633179 | 4_2:-49194036 | Msa0604070:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ACAATAATGATATAAAAAAA+TGG | + | chr4_2:49193924-49193943 | None:intergenic | 10.0% |
| !!! | CTTTTTTTTCTTTTGATATT+AGG | - | chr4_2:49194105-49194124 | Msa0604070:intron | 15.0% |
| !!! | ATTAGTTTTTCTTGGTTTTT+GGG | - | chr4_2:49193878-49193897 | Msa0604070:intron | 20.0% |
| !!! | AAGATGAAAACTTTGTTTTT+TGG | - | chr4_2:49194027-49194046 | Msa0604070:CDS | 20.0% |
| !! | TATTAACATAGACCAAAAAA+GGG | + | chr4_2:49194077-49194096 | None:intergenic | 20.0% |
| !! | TTATTAACATAGACCAAAAA+AGG | + | chr4_2:49194078-49194097 | None:intergenic | 20.0% |
| !! | TTGGTCTATGTTAATAAAAA+TGG | - | chr4_2:49194081-49194100 | Msa0604070:intron | 20.0% |
| !!! | CATTAGTTTTTCTTGGTTTT+TGG | - | chr4_2:49193877-49193896 | Msa0604070:intron | 25.0% |
| !!! | AAACATAACAAAAAGCATTG+AGG | - | chr4_2:49193983-49194002 | Msa0604070:intron | 25.0% |
| GAAAGTTAACACTTTGTTCT+TGG | - | chr4_2:49193777-49193796 | Msa0604070:CDS | 30.0% | |
| TAATGAAGAGTGATTGAACA+TGG | + | chr4_2:49193862-49193881 | None:intergenic | 30.0% | |
| !!! | CACTCTTCATTAGTTTTTCT+TGG | - | chr4_2:49193870-49193889 | Msa0604070:intron | 30.0% |
| TCGTATTTATCGTTCAAACA+TGG | - | chr4_2:49193947-49193966 | Msa0604070:intron | 30.0% | |
| ATTTATCGTTCAAACATGGA+AGG | - | chr4_2:49193951-49193970 | Msa0604070:intron | 30.0% | |
| !!! | GAACTTTCAAAACCCTTTTT+TGG | - | chr4_2:49194062-49194081 | Msa0604070:intron | 30.0% |
| TTTGCAAGGTTTAAGAATGA+AGG | - | chr4_2:49194133-49194152 | Msa0604070:intron | 30.0% | |
| ! | GATATTAGGTTGCATTTGCA+AGG | - | chr4_2:49194119-49194138 | Msa0604070:intron | 35.0% |
| AAGAATGAAGGAGTAACTGT+TGG | - | chr4_2:49194145-49194164 | Msa0604070:intron | 35.0% | |
| GGTTATTGTTGTGATGAAGA+GGG | + | chr4_2:49194213-49194232 | None:intergenic | 35.0% | |
| TATCGTTCAAACATGGAAGG+AGG | - | chr4_2:49193954-49193973 | Msa0604070:intron | 40.0% | |
| GGGTTATTGTTGTGATGAAG+AGG | + | chr4_2:49194214-49194233 | None:intergenic | 40.0% | |
| TCAGCAAGAGAAGTTCCAAC+TGG | - | chr4_2:49194181-49194200 | Msa0604070:CDS | 45.0% | |
| TTGTTGTGATGAAGAGGGTC+AGG | + | chr4_2:49194208-49194227 | None:intergenic | 45.0% | |
| TGAAGAGGGTCAGGTCCAGT+TGG | + | chr4_2:49194199-49194218 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 49193766 | 49194246 | 49193766 | ID=Msa0604070;Name=Msa0604070 |
| chr4_2 | mRNA | 49193766 | 49194246 | 49193766 | ID=Msa0604070-mRNA-1;Parent=Msa0604070;Name=Msa0604070-mRNA-1;_AED=0.03;_eAED=0.03;_QI=0|0|0|1|1|1|3|0|84 |
| chr4_2 | exon | 49194171 | 49194246 | 49194171 | ID=Msa0604070-mRNA-1:exon:11381;Parent=Msa0604070-mRNA-1 |
| chr4_2 | exon | 49194008 | 49194066 | 49194008 | ID=Msa0604070-mRNA-1:exon:11380;Parent=Msa0604070-mRNA-1 |
| chr4_2 | exon | 49193766 | 49193885 | 49193766 | ID=Msa0604070-mRNA-1:exon:11379;Parent=Msa0604070-mRNA-1 |
| chr4_2 | CDS | 49194171 | 49194246 | 49194171 | ID=Msa0604070-mRNA-1:cds;Parent=Msa0604070-mRNA-1 |
| chr4_2 | CDS | 49194008 | 49194066 | 49194008 | ID=Msa0604070-mRNA-1:cds;Parent=Msa0604070-mRNA-1 |
| chr4_2 | CDS | 49193766 | 49193885 | 49193766 | ID=Msa0604070-mRNA-1:cds;Parent=Msa0604070-mRNA-1 |
| Gene Sequence |
| Protein sequence |
