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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0947010 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0947010 | 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 |
| Msa0947010 | Msa0947120 | 0.808088 | 3.677169e-50 | -8.615850e-47 |
| Msa0947010 | Msa0947140 | 0.810840 | 9.436819e-51 | -8.615850e-47 |
| Msa0947010 | Msa0947250 | 0.801832 | 7.475609e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0947010 | 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:-29473754 | None:intergenic |
| GAATGCATACCATTTGAAAA+AGG | 0.268980 | 6_3:-29473929 | None:intergenic |
| TTCATCAAATGTTGAATGTT+TGG | 0.271423 | 6_3:-29474141 | None:intergenic |
| GTGAGGAATGTTACATAAAA+AGG | 0.291799 | 6_3:-29474188 | None:intergenic |
| CATCGTATTCTTGCTCTTGA+TGG | 0.294445 | 6_3:+29473901 | Msa0947010:CDS |
| TCATCAAATGTTGAATGTTT+GGG | 0.308145 | 6_3:-29474140 | None:intergenic |
| ATCACTCATTACTTGTAATA+TGG | 0.326647 | 6_3:+29473837 | Msa0947010:exon |
| GTGAATGTGTGTTTGCTTGT+TGG | 0.383403 | 6_3:-29473787 | None:intergenic |
| CCGACAAGATTCAATTCAAA+AGG | 0.430763 | 6_3:+29474088 | Msa0947010:CDS |
| AATGTTTGGGCGAGTTCGCT+TGG | 0.457071 | 6_3:-29474127 | None:intergenic |
| AAAAGGCGATAAGGCGAAAT+GGG | 0.467083 | 6_3:-29474171 | None:intergenic |
| TTCAATTCAAAAGGTTACTC+GGG | 0.494752 | 6_3:+29474097 | Msa0947010:CDS |
| TATGTTCGTTGCTATTGCAT+TGG | 0.513814 | 6_3:+29474057 | Msa0947010:CDS |
| ATTCAATTCAAAAGGTTACT+CGG | 0.526470 | 6_3:+29474096 | Msa0947010:CDS |
| TGTGTTTGCTTGTTGGTGTG+TGG | 0.532745 | 6_3:-29473780 | None:intergenic |
| AAGAGCAAGAATACGATGAA+TGG | 0.543557 | 6_3:-29473896 | None:intergenic |
| GGCGATAAGGCGAAATGGGT+TGG | 0.554242 | 6_3:-29474167 | None:intergenic |
| TGTATGTATGTAGGAACTTG+TGG | 0.628148 | 6_3:+29474034 | Msa0947010:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TGTTTTGTTTATTTTCATAA+TGG | + | chr6_3:29473814-29473833 | Msa0947010:five_prime_UTR | 15.0% |
| !! | AAGAATAAGAGTTAAAAAAA+GGG | + | chr6_3:29473867-29473886 | Msa0947010:CDS | 15.0% |
| !! | GTTCAAAATAAACAGAAAAA+GGG | - | chr6_3:29473756-29473775 | None:intergenic | 20.0% |
| !! | TGTTCAAAATAAACAGAAAA+AGG | - | chr6_3:29473757-29473776 | None:intergenic | 20.0% |
| !! | GAAGAATAAGAGTTAAAAAA+AGG | + | chr6_3:29473866-29473885 | Msa0947010:CDS | 20.0% |
| !! | AAAATGAAAGAAAGAAGAAA+AGG | - | chr6_3:29473966-29473985 | None:intergenic | 20.0% |
| ! | ATCACTCATTACTTGTAATA+TGG | + | chr6_3:29473837-29473856 | Msa0947010:exon | 25.0% |
| ! | AATTGAATGTGTATGTATGT+AGG | + | chr6_3:29474025-29474044 | Msa0947010:intron | 25.0% |
| ! | ATTCAATTCAAAAGGTTACT+CGG | + | chr6_3:29474096-29474115 | Msa0947010:CDS | 25.0% |
| ! | TCATCAAATGTTGAATGTTT+GGG | - | chr6_3:29474143-29474162 | None:intergenic | 25.0% |
| ! | TTCATCAAATGTTGAATGTT+TGG | - | chr6_3:29474144-29474163 | None:intergenic | 25.0% |
| GAATGCATACCATTTGAAAA+AGG | - | chr6_3:29473932-29473951 | None:intergenic | 30.0% | |
| ! | CCTTTTGAATTGAATCTTGT+CGG | - | chr6_3:29474091-29474110 | None:intergenic | 30.0% |
| TTCAATTCAAAAGGTTACTC+GGG | + | chr6_3:29474097-29474116 | Msa0947010:CDS | 30.0% | |
| AAGAGCAAGAATACGATGAA+TGG | - | chr6_3:29473899-29473918 | None:intergenic | 35.0% | |
| !!! | ATGGAAGTGCCTTTTTCAAA+TGG | + | chr6_3:29473920-29473939 | Msa0947010:CDS | 35.0% |
| TGTATGTATGTAGGAACTTG+TGG | + | chr6_3:29474034-29474053 | Msa0947010:intron | 35.0% | |
| ! | TATGTTCGTTGCTATTGCAT+TGG | + | chr6_3:29474057-29474076 | Msa0947010:CDS | 35.0% |
| CCGACAAGATTCAATTCAAA+AGG | + | chr6_3:29474088-29474107 | Msa0947010:CDS | 35.0% | |
| GTGAATGTGTGTTTGCTTGT+TGG | - | chr6_3:29473790-29473809 | None:intergenic | 40.0% | |
| CATCGTATTCTTGCTCTTGA+TGG | + | chr6_3:29473901-29473920 | Msa0947010:CDS | 40.0% | |
| AAAAGGCGATAAGGCGAAAT+GGG | - | chr6_3:29474174-29474193 | None:intergenic | 40.0% | |
| AAAAAGGCGATAAGGCGAAA+TGG | - | chr6_3:29474175-29474194 | None:intergenic | 40.0% | |
| ! | TGTGTTTGCTTGTTGGTGTG+TGG | - | chr6_3:29473783-29473802 | None:intergenic | 45.0% |
| AATGTTTGGGCGAGTTCGCT+TGG | - | chr6_3:29474130-29474149 | None:intergenic | 50.0% | |
| GGCGATAAGGCGAAATGGGT+TGG | - | chr6_3:29474170-29474189 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 29473738 | 29474200 | 29473738 | ID=Msa0947010;Name=Msa0947010 |
| chr6_3 | mRNA | 29473738 | 29474200 | 29473738 | ID=Msa0947010-mRNA-1;Parent=Msa0947010;Name=Msa0947010-mRNA-1;_AED=0.03;_eAED=0.18;_QI=118|1|0.5|1|1|1|2|0|79 |
| chr6_3 | exon | 29473738 | 29473941 | 29473738 | ID=Msa0947010-mRNA-1:exon:7783;Parent=Msa0947010-mRNA-1 |
| chr6_3 | exon | 29474047 | 29474200 | 29474047 | ID=Msa0947010-mRNA-1:exon:7784;Parent=Msa0947010-mRNA-1 |
| chr6_3 | five_prime_UTR | 29473738 | 29473855 | 29473738 | ID=Msa0947010-mRNA-1:five_prime_utr;Parent=Msa0947010-mRNA-1 |
| chr6_3 | CDS | 29473856 | 29473941 | 29473856 | ID=Msa0947010-mRNA-1:cds;Parent=Msa0947010-mRNA-1 |
| chr6_3 | CDS | 29474047 | 29474200 | 29474047 | ID=Msa0947010-mRNA-1:cds;Parent=Msa0947010-mRNA-1 |
| Gene Sequence |
| Protein sequence |
