Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene052949.t1 | XP_013442539.1 | 93.8 | 161 | 10 | 0 | 1 | 161 | 45 | 205 | 1.70E-78 | 302 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene052949.t1 | A0A072TG65 | 93.8 | 161 | 10 | 0 | 1 | 161 | 45 | 205 | 1.2e-78 | 302.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene052949 | MS.gene33382 | 0.841921 | 3.54E-58 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene052949.t1 | MTR_0147s0050 | 93.789 | 161 | 10 | 0 | 1 | 161 | 45 | 205 | 4.69e-112 | 317 |
| MS.gene052949.t1 | MTR_2g101980 | 48.795 | 166 | 67 | 5 | 2 | 158 | 47 | 203 | 1.60e-40 | 135 |
| MS.gene052949.t1 | MTR_0147s0020 | 75.862 | 87 | 11 | 1 | 79 | 155 | 1 | 87 | 3.34e-40 | 132 |
| MS.gene052949.t1 | MTR_8g103530 | 38.202 | 89 | 47 | 2 | 65 | 145 | 103 | 191 | 3.07e-15 | 70.1 |
| MS.gene052949.t1 | MTR_6g086915 | 39.130 | 69 | 41 | 1 | 69 | 136 | 100 | 168 | 8.49e-13 | 63.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene052949.t1 | AT1G15260 | 39.423 | 104 | 60 | 1 | 58 | 158 | 75 | 178 | 5.02e-18 | 77.0 |
| MS.gene052949.t1 | AT3G16070 | 46.377 | 69 | 36 | 1 | 67 | 135 | 83 | 150 | 2.69e-15 | 69.3 |
Find 25 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAATTCACAAAACATGAATA+AGG | 0.296971 | 4.1:+83536078 | MS.gene052949:CDS |
| CTTGCAGTATCTTCCATTGC+AGG | 0.306986 | 4.1:-83535962 | None:intergenic |
| CCTTCATAAGTGCTTCTTTG+TGG | 0.310981 | 4.1:-83536019 | None:intergenic |
| GCTTCTTTGTGGACTTTGTT+TGG | 0.335982 | 4.1:-83536008 | None:intergenic |
| CATAGAACTCATTGTAGAAT+TGG | 0.346345 | 4.1:-83535886 | None:intergenic |
| AGCACAGAAGATGAAGAAAT+TGG | 0.353260 | 4.1:+83536114 | MS.gene052949:CDS |
| GATGAAGAAATTGGATATGA+TGG | 0.381301 | 4.1:+83536123 | MS.gene052949:CDS |
| ACGATCACAACTGAGGAAAA+AGG | 0.381662 | 4.1:+83536048 | MS.gene052949:CDS |
| CAGAGGGCTGTGGAAGAGTC+AGG | 0.415158 | 4.1:-83536264 | None:intergenic |
| CTCAGCACAATGAAGATGTT+TGG | 0.428580 | 4.1:+83535926 | MS.gene052949:CDS |
| TCCGGTTTATTTAGATATTG+TGG | 0.429248 | 4.1:+83536213 | MS.gene052949:CDS |
| AACTGGACCAAGTCTTTCCT+TGG | 0.434890 | 4.1:-83536302 | None:intergenic |
| CTATTCTCGCCTTAAAAGTC+CGG | 0.438812 | 4.1:+83536195 | MS.gene052949:CDS |
| TCCACAATATCTAAATAAAC+CGG | 0.450069 | 4.1:-83536214 | None:intergenic |
| AAATTGGATATGATGGAATC+AGG | 0.453910 | 4.1:+83536130 | MS.gene052949:CDS |
| TTGAAGCTGGCAGAGGGCTG+TGG | 0.468785 | 4.1:-83536274 | None:intergenic |
| AATTCACAAAACATGAATAA+GGG | 0.481457 | 4.1:+83536079 | MS.gene052949:CDS |
| TTTATTTAGATATTGTGGAC+AGG | 0.515044 | 4.1:+83536218 | MS.gene052949:CDS |
| ACAATGAAGATGTTTGGTAA+AGG | 0.547940 | 4.1:+83535932 | MS.gene052949:CDS |
| CCACAAAGAAGCACTTATGA+AGG | 0.551698 | 4.1:+83536019 | MS.gene052949:CDS |
| AAAAGATCCAAGGAAAGACT+TGG | 0.563595 | 4.1:+83536295 | MS.gene052949:CDS |
| ATGGAAGATACTGCAAGAAG+TGG | 0.578425 | 4.1:+83535968 | MS.gene052949:CDS |
| TGCCAGCTTCAAAAGATCCA+AGG | 0.579056 | 4.1:+83536285 | MS.gene052949:CDS |
| TAAAGGAAAAGAGCCTGCAA+TGG | 0.618557 | 4.1:+83535949 | MS.gene052949:CDS |
| GTAGCGTACGATCACAACTG+AGG | 0.731543 | 4.1:+83536041 | MS.gene052949:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATTCACAAAACATGAATAA+GGG | + | chr4.1:83536079-83536098 | MS.gene052949:CDS | 20.0% |
| ! | GAATTCACAAAACATGAATA+AGG | + | chr4.1:83536078-83536097 | MS.gene052949:CDS | 25.0% |
| ! | TCCACAATATCTAAATAAAC+CGG | - | chr4.1:83536217-83536236 | None:intergenic | 25.0% |
| ! | TTTATTTAGATATTGTGGAC+AGG | + | chr4.1:83536218-83536237 | MS.gene052949:CDS | 25.0% |
| !! | TATCTTTTATGTAACTGAAC+TGG | - | chr4.1:83536322-83536341 | None:intergenic | 25.0% |
| ACAATGAAGATGTTTGGTAA+AGG | + | chr4.1:83535932-83535951 | MS.gene052949:CDS | 30.0% | |
| CATAGAACTCATTGTAGAAT+TGG | - | chr4.1:83535889-83535908 | None:intergenic | 30.0% | |
| GATGAAGAAATTGGATATGA+TGG | + | chr4.1:83536123-83536142 | MS.gene052949:CDS | 30.0% | |
| TCCGGTTTATTTAGATATTG+TGG | + | chr4.1:83536213-83536232 | MS.gene052949:CDS | 30.0% | |
| ! | AAATTGGATATGATGGAATC+AGG | + | chr4.1:83536130-83536149 | MS.gene052949:CDS | 30.0% |
| ! | CTAAATAAACCGGACTTTTA+AGG | - | chr4.1:83536207-83536226 | None:intergenic | 30.0% |
| AAAAGATCCAAGGAAAGACT+TGG | + | chr4.1:83536295-83536314 | MS.gene052949:CDS | 35.0% | |
| AGCACAGAAGATGAAGAAAT+TGG | + | chr4.1:83536114-83536133 | MS.gene052949:CDS | 35.0% | |
| ACGATCACAACTGAGGAAAA+AGG | + | chr4.1:83536048-83536067 | MS.gene052949:CDS | 40.0% | |
| ATCACAACTGAGGAAAAAGG+AGG | + | chr4.1:83536051-83536070 | MS.gene052949:CDS | 40.0% | |
| ATGGAAGATACTGCAAGAAG+TGG | + | chr4.1:83535968-83535987 | MS.gene052949:CDS | 40.0% | |
| CCTTCATAAGTGCTTCTTTG+TGG | - | chr4.1:83536022-83536041 | None:intergenic | 40.0% | |
| CTATTCTCGCCTTAAAAGTC+CGG | + | chr4.1:83536195-83536214 | MS.gene052949:CDS | 40.0% | |
| CTCAGCACAATGAAGATGTT+TGG | + | chr4.1:83535926-83535945 | MS.gene052949:CDS | 40.0% | |
| GCTTCTTTGTGGACTTTGTT+TGG | - | chr4.1:83536011-83536030 | None:intergenic | 40.0% | |
| TAAAGGAAAAGAGCCTGCAA+TGG | + | chr4.1:83535949-83535968 | MS.gene052949:CDS | 40.0% | |
| !! | CCACAAAGAAGCACTTATGA+AGG | + | chr4.1:83536019-83536038 | MS.gene052949:CDS | 40.0% |
| !!! | TTCCTTGGATCTTTTGAAGC+TGG | - | chr4.1:83536290-83536309 | None:intergenic | 40.0% |
| AACTGGACCAAGTCTTTCCT+TGG | - | chr4.1:83536305-83536324 | None:intergenic | 45.0% | |
| CTTGCAGTATCTTCCATTGC+AGG | - | chr4.1:83535965-83535984 | None:intergenic | 45.0% | |
| TGCCAGCTTCAAAAGATCCA+AGG | + | chr4.1:83536285-83536304 | MS.gene052949:CDS | 45.0% | |
| !!! | GATCTTTTGAAGCTGGCAGA+GGG | - | chr4.1:83536283-83536302 | None:intergenic | 45.0% |
| GTAGCGTACGATCACAACTG+AGG | + | chr4.1:83536041-83536060 | MS.gene052949:CDS | 50.0% | |
| !!! | GGATCTTTTGAAGCTGGCAG+AGG | - | chr4.1:83536284-83536303 | None:intergenic | 50.0% |
| CAGAGGGCTGTGGAAGAGTC+AGG | - | chr4.1:83536267-83536286 | None:intergenic | 60.0% | |
| TTGAAGCTGGCAGAGGGCTG+TGG | - | chr4.1:83536277-83536296 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.1 | gene | 83535857 | 83536342 | 83535857 | ID=MS.gene052949 |
| chr4.1 | mRNA | 83535857 | 83536342 | 83535857 | ID=MS.gene052949.t1;Parent=MS.gene052949 |
| chr4.1 | exon | 83535857 | 83536342 | 83535857 | ID=MS.gene052949.t1.exon1;Parent=MS.gene052949.t1 |
| chr4.1 | CDS | 83535857 | 83536342 | 83535857 | ID=cds.MS.gene052949.t1;Parent=MS.gene052949.t1 |
| Gene Sequence |
| Protein sequence |
