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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0947250 | XP_013442392.1 | 69.048 | 84 | 20 | 2 | 1 | 79 | 1 | 83 | 2.11e-26 | 105 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0947250 | A0A072TGE6 | 69.048 | 84 | 20 | 2 | 1 | 79 | 1 | 83 | 1.01e-26 | 105 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0946950 | Msa0947250 | 0.874022 | 9.339838e-68 | -8.615850e-47 |
| Msa0947010 | Msa0947250 | 0.801832 | 7.475609e-49 | -8.615850e-47 |
| Msa0947120 | Msa0947250 | 0.973632 | 9.287979e-137 | -8.615850e-47 |
| Msa0947140 | Msa0947250 | 0.969064 | 1.410081e-129 | -8.615850e-47 |
| Msa0947200 | Msa0947250 | 0.988495 | 3.056054e-174 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0947250 | MtrunA17_Chr5g0421971 | 69.048 | 84 | 20 | 2 | 1 | 79 | 1 | 83 | 1.94e-30 | 105 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 18 sgRNAs with CRISPR-Local
Find 26 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTTCAAAATAAACAGAAAA+AGG | 0.258915 | 6_3:-29780493 | None:intergenic |
| GAATGCATACCATTTGAAAA+AGG | 0.268980 | 6_3:-29780668 | None:intergenic |
| TTCATCAAATGTTGAATGTT+TGG | 0.271423 | 6_3:-29780880 | None:intergenic |
| GTGAGGAATGTTACATAAAA+AGG | 0.291799 | 6_3:-29780927 | None:intergenic |
| CATCGTATTCTTGCTCTTGA+TGG | 0.294445 | 6_3:+29780640 | Msa0947250:CDS |
| TCATCAAATGTTGAATGTTT+GGG | 0.308145 | 6_3:-29780879 | None:intergenic |
| ATCACTCATTACTTGTAATA+TGG | 0.326647 | 6_3:+29780576 | Msa0947250:exon |
| GTGAATGTGTGTTTGCTTGT+TGG | 0.383403 | 6_3:-29780526 | None:intergenic |
| CCGACAAGATTCAATTCAAA+AGG | 0.430763 | 6_3:+29780827 | Msa0947250:CDS |
| AATGTTTGGGCGAGTTCGCT+TGG | 0.457071 | 6_3:-29780866 | None:intergenic |
| AAAAGGCGATAAGGCGAAAT+GGG | 0.467083 | 6_3:-29780910 | None:intergenic |
| TTCAATTCAAAAGGTTACTC+GGG | 0.494752 | 6_3:+29780836 | Msa0947250:CDS |
| TATGTTCGTTGCTATTGCAT+TGG | 0.513814 | 6_3:+29780796 | Msa0947250:CDS |
| ATTCAATTCAAAAGGTTACT+CGG | 0.526470 | 6_3:+29780835 | Msa0947250:CDS |
| TGTGTTTGCTTGTTGGTGTG+TGG | 0.532745 | 6_3:-29780519 | None:intergenic |
| AAGAGCAAGAATACGATGAA+TGG | 0.543557 | 6_3:-29780635 | None:intergenic |
| GGCGATAAGGCGAAATGGGT+TGG | 0.554242 | 6_3:-29780906 | None:intergenic |
| TGTATGTATGTAGGAACTTG+TGG | 0.628148 | 6_3:+29780773 | Msa0947250:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TGTTTTGTTTATTTTCATAA+TGG | + | chr6_3:29780553-29780572 | Msa0947250:five_prime_UTR | 15.0% |
| !! | AAGAATAAGAGTTAAAAAAA+GGG | + | chr6_3:29780606-29780625 | Msa0947250:CDS | 15.0% |
| !! | GTTCAAAATAAACAGAAAAA+GGG | - | chr6_3:29780495-29780514 | None:intergenic | 20.0% |
| !! | TGTTCAAAATAAACAGAAAA+AGG | - | chr6_3:29780496-29780515 | None:intergenic | 20.0% |
| !! | GAAGAATAAGAGTTAAAAAA+AGG | + | chr6_3:29780605-29780624 | Msa0947250:CDS | 20.0% |
| !! | AAAATGAAAGAAAGAAGAAA+AGG | - | chr6_3:29780705-29780724 | None:intergenic | 20.0% |
| ! | ATCACTCATTACTTGTAATA+TGG | + | chr6_3:29780576-29780595 | Msa0947250:exon | 25.0% |
| ! | AATTGAATGTGTATGTATGT+AGG | + | chr6_3:29780764-29780783 | Msa0947250:intron | 25.0% |
| ! | ATTCAATTCAAAAGGTTACT+CGG | + | chr6_3:29780835-29780854 | Msa0947250:CDS | 25.0% |
| ! | TCATCAAATGTTGAATGTTT+GGG | - | chr6_3:29780882-29780901 | None:intergenic | 25.0% |
| ! | TTCATCAAATGTTGAATGTT+TGG | - | chr6_3:29780883-29780902 | None:intergenic | 25.0% |
| GAATGCATACCATTTGAAAA+AGG | - | chr6_3:29780671-29780690 | None:intergenic | 30.0% | |
| ! | CCTTTTGAATTGAATCTTGT+CGG | - | chr6_3:29780830-29780849 | None:intergenic | 30.0% |
| TTCAATTCAAAAGGTTACTC+GGG | + | chr6_3:29780836-29780855 | Msa0947250:CDS | 30.0% | |
| AAGAGCAAGAATACGATGAA+TGG | - | chr6_3:29780638-29780657 | None:intergenic | 35.0% | |
| !!! | ATGGAAGTGCCTTTTTCAAA+TGG | + | chr6_3:29780659-29780678 | Msa0947250:CDS | 35.0% |
| TGTATGTATGTAGGAACTTG+TGG | + | chr6_3:29780773-29780792 | Msa0947250:intron | 35.0% | |
| ! | TATGTTCGTTGCTATTGCAT+TGG | + | chr6_3:29780796-29780815 | Msa0947250:CDS | 35.0% |
| CCGACAAGATTCAATTCAAA+AGG | + | chr6_3:29780827-29780846 | Msa0947250:CDS | 35.0% | |
| GTGAATGTGTGTTTGCTTGT+TGG | - | chr6_3:29780529-29780548 | None:intergenic | 40.0% | |
| CATCGTATTCTTGCTCTTGA+TGG | + | chr6_3:29780640-29780659 | Msa0947250:CDS | 40.0% | |
| AAAAGGCGATAAGGCGAAAT+GGG | - | chr6_3:29780913-29780932 | None:intergenic | 40.0% | |
| AAAAAGGCGATAAGGCGAAA+TGG | - | chr6_3:29780914-29780933 | None:intergenic | 40.0% | |
| ! | TGTGTTTGCTTGTTGGTGTG+TGG | - | chr6_3:29780522-29780541 | None:intergenic | 45.0% |
| AATGTTTGGGCGAGTTCGCT+TGG | - | chr6_3:29780869-29780888 | None:intergenic | 50.0% | |
| GGCGATAAGGCGAAATGGGT+TGG | - | chr6_3:29780909-29780928 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 29780477 | 29780939 | 29780477 | ID=Msa0947250;Name=Msa0947250 |
| chr6_3 | mRNA | 29780477 | 29780939 | 29780477 | ID=Msa0947250-mRNA-1;Parent=Msa0947250;Name=Msa0947250-mRNA-1;_AED=0.03;_eAED=0.18;_QI=118|1|0.5|1|1|1|2|0|79 |
| chr6_3 | exon | 29780477 | 29780680 | 29780477 | ID=Msa0947250-mRNA-1:exon:7859;Parent=Msa0947250-mRNA-1 |
| chr6_3 | exon | 29780786 | 29780939 | 29780786 | ID=Msa0947250-mRNA-1:exon:7860;Parent=Msa0947250-mRNA-1 |
| chr6_3 | five_prime_UTR | 29780477 | 29780594 | 29780477 | ID=Msa0947250-mRNA-1:five_prime_utr;Parent=Msa0947250-mRNA-1 |
| chr6_3 | CDS | 29780595 | 29780680 | 29780595 | ID=Msa0947250-mRNA-1:cds;Parent=Msa0947250-mRNA-1 |
| chr6_3 | CDS | 29780786 | 29780939 | 29780786 | ID=Msa0947250-mRNA-1:cds;Parent=Msa0947250-mRNA-1 |
| Gene Sequence |
| Protein sequence |
