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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0946950 | 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 | Msa0947010 | 0.848991 | 4.306516e-60 | -8.615850e-47 |
| Msa0946950 | Msa0947120 | 0.883797 | 3.309035e-71 | -8.615850e-47 |
| Msa0946950 | Msa0947140 | 0.880444 | 5.460959e-70 | -8.615850e-47 |
| Msa0946950 | Msa0947200 | 0.864633 | 1.056896e-64 | -8.615850e-47 |
| Msa0946950 | Msa0947250 | 0.874022 | 9.339838e-68 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0946950 | 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:-29247691 | None:intergenic |
| GAATGCATACCATTTGAAAA+AGG | 0.268980 | 6_3:-29247866 | None:intergenic |
| TTCATCAAATGTTGAATGTT+TGG | 0.271423 | 6_3:-29248078 | None:intergenic |
| GTGAGGAATGTTACATAAAA+AGG | 0.291799 | 6_3:-29248125 | None:intergenic |
| CATCGTATTCTTGCTCTTGA+TGG | 0.294445 | 6_3:+29247838 | Msa0946950:CDS |
| TCATCAAATGTTGAATGTTT+GGG | 0.308145 | 6_3:-29248077 | None:intergenic |
| ATCACTCATTACTTGTAATA+TGG | 0.326647 | 6_3:+29247774 | Msa0946950:exon |
| GTGAATGTGTGTTTGCTTGT+TGG | 0.383403 | 6_3:-29247724 | None:intergenic |
| CCGACAAGATTCAATTCAAA+AGG | 0.430763 | 6_3:+29248025 | Msa0946950:CDS |
| AATGTTTGGGCGAGTTCGCT+TGG | 0.457071 | 6_3:-29248064 | None:intergenic |
| AAAAGGCGATAAGGCGAAAT+GGG | 0.467083 | 6_3:-29248108 | None:intergenic |
| TTCAATTCAAAAGGTTACTC+GGG | 0.494752 | 6_3:+29248034 | Msa0946950:CDS |
| TATGTTCGTTGCTATTGCAT+TGG | 0.513814 | 6_3:+29247994 | Msa0946950:CDS |
| ATTCAATTCAAAAGGTTACT+CGG | 0.526470 | 6_3:+29248033 | Msa0946950:CDS |
| TGTGTTTGCTTGTTGGTGTG+TGG | 0.532745 | 6_3:-29247717 | None:intergenic |
| AAGAGCAAGAATACGATGAA+TGG | 0.543557 | 6_3:-29247833 | None:intergenic |
| GGCGATAAGGCGAAATGGGT+TGG | 0.554242 | 6_3:-29248104 | None:intergenic |
| TGTATGTATGTAGGAACTTG+TGG | 0.628148 | 6_3:+29247971 | Msa0946950:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TGTTTTGTTTATTTTCATAA+TGG | + | chr6_3:29247751-29247770 | Msa0946950:five_prime_UTR | 15.0% |
| !! | AAGAATAAGAGTTAAAAAAA+GGG | + | chr6_3:29247804-29247823 | Msa0946950:CDS | 15.0% |
| !! | GTTCAAAATAAACAGAAAAA+GGG | - | chr6_3:29247693-29247712 | None:intergenic | 20.0% |
| !! | TGTTCAAAATAAACAGAAAA+AGG | - | chr6_3:29247694-29247713 | None:intergenic | 20.0% |
| !! | GAAGAATAAGAGTTAAAAAA+AGG | + | chr6_3:29247803-29247822 | Msa0946950:CDS | 20.0% |
| !! | AAAATGAAAGAAAGAAGAAA+AGG | - | chr6_3:29247903-29247922 | None:intergenic | 20.0% |
| ! | ATCACTCATTACTTGTAATA+TGG | + | chr6_3:29247774-29247793 | Msa0946950:exon | 25.0% |
| ! | AATTGAATGTGTATGTATGT+AGG | + | chr6_3:29247962-29247981 | Msa0946950:intron | 25.0% |
| ! | ATTCAATTCAAAAGGTTACT+CGG | + | chr6_3:29248033-29248052 | Msa0946950:CDS | 25.0% |
| ! | TCATCAAATGTTGAATGTTT+GGG | - | chr6_3:29248080-29248099 | None:intergenic | 25.0% |
| ! | TTCATCAAATGTTGAATGTT+TGG | - | chr6_3:29248081-29248100 | None:intergenic | 25.0% |
| GAATGCATACCATTTGAAAA+AGG | - | chr6_3:29247869-29247888 | None:intergenic | 30.0% | |
| ! | CCTTTTGAATTGAATCTTGT+CGG | - | chr6_3:29248028-29248047 | None:intergenic | 30.0% |
| TTCAATTCAAAAGGTTACTC+GGG | + | chr6_3:29248034-29248053 | Msa0946950:CDS | 30.0% | |
| AAGAGCAAGAATACGATGAA+TGG | - | chr6_3:29247836-29247855 | None:intergenic | 35.0% | |
| !!! | ATGGAAGTGCCTTTTTCAAA+TGG | + | chr6_3:29247857-29247876 | Msa0946950:CDS | 35.0% |
| TGTATGTATGTAGGAACTTG+TGG | + | chr6_3:29247971-29247990 | Msa0946950:intron | 35.0% | |
| ! | TATGTTCGTTGCTATTGCAT+TGG | + | chr6_3:29247994-29248013 | Msa0946950:CDS | 35.0% |
| CCGACAAGATTCAATTCAAA+AGG | + | chr6_3:29248025-29248044 | Msa0946950:CDS | 35.0% | |
| GTGAATGTGTGTTTGCTTGT+TGG | - | chr6_3:29247727-29247746 | None:intergenic | 40.0% | |
| CATCGTATTCTTGCTCTTGA+TGG | + | chr6_3:29247838-29247857 | Msa0946950:CDS | 40.0% | |
| AAAAGGCGATAAGGCGAAAT+GGG | - | chr6_3:29248111-29248130 | None:intergenic | 40.0% | |
| AAAAAGGCGATAAGGCGAAA+TGG | - | chr6_3:29248112-29248131 | None:intergenic | 40.0% | |
| ! | TGTGTTTGCTTGTTGGTGTG+TGG | - | chr6_3:29247720-29247739 | None:intergenic | 45.0% |
| AATGTTTGGGCGAGTTCGCT+TGG | - | chr6_3:29248067-29248086 | None:intergenic | 50.0% | |
| GGCGATAAGGCGAAATGGGT+TGG | - | chr6_3:29248107-29248126 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 29247675 | 29248137 | 29247675 | ID=Msa0946950;Name=Msa0946950 |
| chr6_3 | mRNA | 29247675 | 29248137 | 29247675 | ID=Msa0946950-mRNA-1;Parent=Msa0946950;Name=Msa0946950-mRNA-1;_AED=0.03;_eAED=0.18;_QI=118|1|0.5|1|1|1|2|0|79 |
| chr6_3 | exon | 29247675 | 29247878 | 29247675 | ID=Msa0946950-mRNA-1:exon:7745;Parent=Msa0946950-mRNA-1 |
| chr6_3 | exon | 29247984 | 29248137 | 29247984 | ID=Msa0946950-mRNA-1:exon:7746;Parent=Msa0946950-mRNA-1 |
| chr6_3 | five_prime_UTR | 29247675 | 29247792 | 29247675 | ID=Msa0946950-mRNA-1:five_prime_utr;Parent=Msa0946950-mRNA-1 |
| chr6_3 | CDS | 29247793 | 29247878 | 29247793 | ID=Msa0946950-mRNA-1:cds;Parent=Msa0946950-mRNA-1 |
| chr6_3 | CDS | 29247984 | 29248137 | 29247984 | ID=Msa0946950-mRNA-1:cds;Parent=Msa0946950-mRNA-1 |
| Gene Sequence |
| Protein sequence |
