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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1462390 | XP_024632725.2 | 67.797 | 118 | 38 | 0 | 3 | 120 | 1 | 118 | 5.39e-49 | 176 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1462390 | sp|Q9LKR4|FRS10_ARATH | 47.541 | 61 | 29 | 2 | 62 | 119 | 53 | 113 | 5.23e-13 | 67.4 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1462390 | A4PRH7 | 84.507 | 71 | 10 | 1 | 1 | 70 | 1 | 71 | 2.17e-32 | 118 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1462390 | TF | FAR1 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1462390 | MtrunA17_Chr2g0294841 | 42.697 | 89 | 45 | 2 | 39 | 121 | 17 | 105 | 5.87e-15 | 69.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1462390 | AT5G28530.1 | 47.541 | 61 | 29 | 2 | 62 | 119 | 53 | 113 | 5.31e-14 | 67.4 |
| Msa1462390 | AT5G28530.3 | 47.541 | 61 | 29 | 2 | 62 | 119 | 53 | 113 | 5.41e-14 | 67.4 |
| Msa1462390 | AT5G28530.2 | 47.541 | 61 | 29 | 2 | 62 | 119 | 53 | 113 | 5.41e-14 | 67.4 |
| Msa1462390 | AT5G28530.5 | 47.541 | 61 | 29 | 2 | 62 | 119 | 53 | 113 | 6.83e-14 | 67.0 |
| Msa1462390 | AT5G28530.4 | 47.541 | 61 | 29 | 2 | 62 | 119 | 53 | 113 | 6.83e-14 | 67.0 |
Find 13 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTATCACATGGTTCATTATT+TGG | 0.125786 | tig0042208:-2053 | Msa1462390:intergenic |
| AGAAAACATTGTCCAATAAA+AGG | 0.261110 | tig0042208:-2146 | Msa1462390:intergenic |
| GATTGAGAACCCACTCCTTT+TGG | 0.334536 | tig0042208:-2207 | Msa1462390:intergenic |
| CTAAGTGAGGAAGAAGCTTT+CGG | 0.384552 | tig0042208:+2167 | Msa1462390:CDS |
| GAGAATTATGCCAAAAGGAG+TGG | 0.432756 | tig0042208:+2197 | Msa1462390:CDS |
| AAAGGAGTGGGTTCTCAATC+CGG | 0.438711 | tig0042208:+2210 | Msa1462390:CDS |
| TTTATGAGAATTATGCCAAA+AGG | 0.493635 | tig0042208:+2192 | Msa1462390:CDS |
| TGATTTGAGCAACGACGAGC+AGG | 0.506619 | tig0042208:+2094 | Msa1462390:CDS |
| AAAATGGGATGATACATAGG+AGG | 0.572376 | tig0042208:+2252 | Msa1462390:CDS |
| CTCAATCAATTGTTCTCATG+TGG | 0.580264 | tig0042208:+1767 | Msa1462390:CDS |
| AAATGGGATGATACATAGGA+GGG | 0.584474 | tig0042208:+2253 | Msa1462390:CDS |
| AGAATTATGCCAAAAGGAGT+GGG | 0.597719 | tig0042208:+2198 | Msa1462390:CDS |
| AGTGGGTTCTCAATCCGGAA+AGG | 0.654585 | tig0042208:+2215 | Msa1462390:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATTCAACAATAATATTTTG+TGG | + | tig0042208:1929-1948 | Msa1462390:intron | 15.0% |
| !!! | GTAATATGAATTTTTTTTGT+AGG | + | tig0042208:1994-2013 | Msa1462390:intron | 15.0% |
| !! | TTGAGAACAATATAAGAAAA+AGG | - | tig0042208:1841-1860 | Msa1462390:intergenic | 20.0% |
| !! | AATTCGTATATAAGGAATTA+GGG | - | tig0042208:1913-1932 | Msa1462390:intergenic | 20.0% |
| !! | TATTGTTGAATTCGTATATA+AGG | - | tig0042208:1921-1940 | Msa1462390:intergenic | 20.0% |
| !!! | ATGAATTTTTTTTGTAGGTT+AGG | + | tig0042208:1999-2018 | Msa1462390:intron | 20.0% |
| !!! | AATTGTTTTGAACCTTTTAT+TGG | + | tig0042208:2134-2153 | Msa1462390:CDS | 20.0% |
| !!! | GTCGATTTCTTAAAAAAAAT+GGG | + | tig0042208:2237-2256 | Msa1462390:CDS | 20.0% |
| ! | ATTCGTATATAAGGAATTAG+GGG | - | tig0042208:1912-1931 | Msa1462390:intergenic | 25.0% |
| ! | GAATTCGTATATAAGGAATT+AGG | - | tig0042208:1914-1933 | Msa1462390:intergenic | 25.0% |
| ! | TTATCACATGGTTCATTATT+TGG | - | tig0042208:2056-2075 | Msa1462390:intergenic | 25.0% |
| !! | TCATTTTCTGAATTATCACA+TGG | - | tig0042208:2068-2087 | Msa1462390:intergenic | 25.0% |
| ! | AGAAAACATTGTCCAATAAA+AGG | - | tig0042208:2149-2168 | Msa1462390:intergenic | 25.0% |
| ! | TTTATGAGAATTATGCCAAA+AGG | + | tig0042208:2192-2211 | Msa1462390:CDS | 25.0% |
| !! | GGTCGATTTCTTAAAAAAAA+TGG | + | tig0042208:2236-2255 | Msa1462390:CDS | 25.0% |
| ! | AAAAAAATGGGATGATACAT+AGG | + | tig0042208:2249-2268 | Msa1462390:CDS | 25.0% |
| !! | TTTTAAGAAATCGACCTTTC+CGG | - | tig0042208:2232-2251 | Msa1462390:intergenic | 30.0% |
| !!! | TTTTTTCTGGAAATCCTTCT+CGG | - | tig0042208:2292-2311 | Msa1462390:intergenic | 30.0% |
| CTCAATCAATTGTTCTCATG+TGG | + | tig0042208:1767-1786 | Msa1462390:CDS | 35.0% | |
| ! | TGGACAATGTTTTCTAAGTG+AGG | + | tig0042208:2154-2173 | Msa1462390:CDS | 35.0% |
| AGAATTATGCCAAAAGGAGT+GGG | + | tig0042208:2198-2217 | Msa1462390:CDS | 35.0% | |
| AAAATGGGATGATACATAGG+AGG | + | tig0042208:2252-2271 | Msa1462390:CDS | 35.0% | |
| AAATGGGATGATACATAGGA+GGG | + | tig0042208:2253-2272 | Msa1462390:CDS | 35.0% | |
| CTAAGTGAGGAAGAAGCTTT+CGG | + | tig0042208:2167-2186 | Msa1462390:CDS | 40.0% | |
| GAGAATTATGCCAAAAGGAG+TGG | + | tig0042208:2197-2216 | Msa1462390:CDS | 40.0% | |
| !!! | GATTTTTTCTGTCACCGAGA+AGG | + | tig0042208:2275-2294 | Msa1462390:CDS | 40.0% |
| ! | GATTGAGAACCCACTCCTTT+TGG | - | tig0042208:2210-2229 | Msa1462390:intergenic | 45.0% |
| ! | AAAGGAGTGGGTTCTCAATC+CGG | + | tig0042208:2210-2229 | Msa1462390:CDS | 45.0% |
| TGATTTGAGCAACGACGAGC+AGG | + | tig0042208:2094-2113 | Msa1462390:CDS | 50.0% | |
| ! | AGTGGGTTCTCAATCCGGAA+AGG | + | tig0042208:2215-2234 | Msa1462390:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0042208 | gene | 1744 | 2322 | 1744 | ID=Msa1462390;Name=Msa1462390 |
| tig0042208 | mRNA | 1744 | 2322 | 1744 | ID=Msa1462390-mRNA-1;Parent=Msa1462390;Name=Msa1462390-mRNA-1;_AED=0.23;_eAED=0.24;_QI=0|0|0|1|1|1|2|0|121 |
| tig0042208 | exon | 1744 | 1802 | 1744 | ID=Msa1462390-mRNA-1:exon:23622;Parent=Msa1462390-mRNA-1 |
| tig0042208 | exon | 2016 | 2322 | 2016 | ID=Msa1462390-mRNA-1:exon:23623;Parent=Msa1462390-mRNA-1 |
| tig0042208 | CDS | 1744 | 1802 | 1744 | ID=Msa1462390-mRNA-1:cds;Parent=Msa1462390-mRNA-1 |
| tig0042208 | CDS | 2016 | 2322 | 2016 | ID=Msa1462390-mRNA-1:cds;Parent=Msa1462390-mRNA-1 |
| Gene Sequence |
| Protein sequence |
