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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0842730 | XP_024639353.1 | 58.779 | 131 | 52 | 1 | 74 | 202 | 1 | 131 | 1.10e-45 | 157 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0842730 | A0A2Z6MM48 | 31.980 | 197 | 130 | 3 | 2 | 197 | 17 | 210 | 6.04e-28 | 114 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0842730 | TF | B3 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0842730 | MtrunA17_Chr5g0393501 | 30.500 | 200 | 132 | 3 | 2 | 197 | 43 | 239 | 4.57e-25 | 98.2 |
| Msa0842730 | MtrunA17_Chr4g0044671 | 31.156 | 199 | 126 | 8 | 4 | 198 | 28 | 219 | 3.77e-19 | 82.0 |
| Msa0842730 | MtrunA17_Chr4g0034781 | 30.653 | 199 | 127 | 8 | 4 | 198 | 22 | 213 | 2.71e-18 | 79.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 48 sgRNAs with CRISPR-Local
Find 52 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCAAATTCATCAGTGAATT+TGG | 0.083082 | 5_4:-20024736 | None:intergenic |
| ACAATGTGTCTTTAGGAATT+TGG | 0.142567 | 5_4:+20024702 | None:intergenic |
| CTGATTTCAATGATTTCTTA+TGG | 0.239474 | 5_4:+20025193 | Msa0842730:CDS |
| TCAAATTCATCAGTGAATTT+GGG | 0.265368 | 5_4:-20024735 | None:intergenic |
| CCAACCCTTCGTTAGCTTGC+TGG | 0.293858 | 5_4:-20025304 | None:intergenic |
| GCACATCTCCAGCCTGATAT+TGG | 0.349705 | 5_4:-20025347 | None:intergenic |
| CACATTGACCCCTTTGCAAA+TGG | 0.355395 | 5_4:+20025034 | Msa0842730:CDS |
| CTGCGTTTCAAGTTCTTTGA+TGG | 0.370866 | 5_4:+20025369 | Msa0842730:CDS |
| CTGCACGACCAGCCAATATC+AGG | 0.371998 | 5_4:+20025335 | Msa0842730:CDS |
| CTGATTCTGTTTAGCTATGT+TGG | 0.402336 | 5_4:+20024897 | Msa0842730:CDS |
| GATTATTTGACCATTGTCAT+TGG | 0.404983 | 5_4:-20025244 | None:intergenic |
| CATAAGAAATCATTGAAATC+AGG | 0.427387 | 5_4:-20025192 | None:intergenic |
| TTGATGACGTGGGTCCAGTC+TGG | 0.455683 | 5_4:+20024754 | Msa0842730:CDS |
| GAAGTCTTGTGCTTCTGCTA+TGG | 0.476473 | 5_4:-20024983 | None:intergenic |
| TCAGCTTCATGCCTTCAAAC+TGG | 0.481449 | 5_4:-20024878 | None:intergenic |
| AGTAGATTTGTTATCACACT+TGG | 0.481808 | 5_4:+20024924 | Msa0842730:CDS |
| ACTCTGCCACGGTTAACTAA+TGG | 0.484622 | 5_4:+20024831 | Msa0842730:CDS |
| AATTCGCATCCATTTGCAAA+GGG | 0.485601 | 5_4:-20025043 | None:intergenic |
| CAGCAAGCTAACGAAGGGTT+GGG | 0.497952 | 5_4:+20025305 | Msa0842730:CDS |
| CACACTTGGGAATACAATTG+AGG | 0.504352 | 5_4:+20024938 | Msa0842730:CDS |
| ATCTCCAGCCTGATATTGGC+TGG | 0.512753 | 5_4:-20025343 | None:intergenic |
| CCAGCAAGCTAACGAAGGGT+TGG | 0.517788 | 5_4:+20025304 | Msa0842730:CDS |
| TGCGTTTCAAGTTCTTTGAT+GGG | 0.523138 | 5_4:+20025370 | Msa0842730:CDS |
| TTCAATGATTTCTTATGGAA+TGG | 0.526065 | 5_4:+20025198 | Msa0842730:CDS |
| CAAATTCATCAGTGAATTTG+GGG | 0.528317 | 5_4:-20024734 | None:intergenic |
| AATGGATGCGAATTCTGAAC+TGG | 0.528366 | 5_4:+20025052 | Msa0842730:CDS |
| TGCCACGGTTAACTAATGGC+TGG | 0.531042 | 5_4:+20024835 | Msa0842730:CDS |
| CACTGATGAATTTGATGACG+TGG | 0.540972 | 5_4:+20024743 | Msa0842730:CDS |
| ACTGCTATTCATTACCAAGT+TGG | 0.542667 | 5_4:+20025270 | Msa0842730:CDS |
| TGGAATTTAATTGACGCTGA+AGG | 0.570875 | 5_4:+20024774 | Msa0842730:CDS |
| GAATTCGCATCCATTTGCAA+AGG | 0.571229 | 5_4:-20025044 | None:intergenic |
| AAGAAATCATTGAAATCAGG+TGG | 0.573987 | 5_4:-20025189 | None:intergenic |
| GCGTCAATTAAATTCCAGAC+TGG | 0.579334 | 5_4:-20024768 | None:intergenic |
| AATCATTGAAATCAGGTGGA+AGG | 0.583795 | 5_4:-20025185 | None:intergenic |
| GTAGATTTGTTATCACACTT+GGG | 0.584740 | 5_4:+20024925 | Msa0842730:CDS |
| TTGTTCCTCTCCAATGACAA+TGG | 0.585814 | 5_4:+20025234 | Msa0842730:CDS |
| TTTGACCATTGTCATTGGAG+AGG | 0.597349 | 5_4:-20025239 | None:intergenic |
| ACAATTCAGCTACTCTGCCA+CGG | 0.617034 | 5_4:+20024820 | Msa0842730:CDS |
| ACTCACCAGCAAGCTAACGA+AGG | 0.624585 | 5_4:+20025299 | Msa0842730:CDS |
| CGCTGAAGGAAATTCTCATG+AGG | 0.625269 | 5_4:+20024788 | Msa0842730:CDS |
| GTGCTTCTGCTATGGTACGT+AGG | 0.636405 | 5_4:-20024975 | None:intergenic |
| CAAGCTAACGAAGGGTTGGG+AGG | 0.643100 | 5_4:+20025308 | Msa0842730:CDS |
| ACGACCAGCCAATATCAGGC+TGG | 0.644275 | 5_4:+20025339 | Msa0842730:CDS |
| CTCACCAGCAAGCTAACGAA+GGG | 0.650798 | 5_4:+20025300 | Msa0842730:CDS |
| ATTCGCATCCATTTGCAAAG+GGG | 0.653436 | 5_4:-20025042 | None:intergenic |
| TGGTGAGTGAGTCACCAACT+TGG | 0.680717 | 5_4:-20025284 | None:intergenic |
| GTCCAGCCATTAGTTAACCG+TGG | 0.698189 | 5_4:-20024837 | None:intergenic |
| ACTGATGAATTTGATGACGT+GGG | 0.707740 | 5_4:+20024744 | Msa0842730:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TGTTTATTAAAATCTGCAAA+TGG | + | chr5_4:20025102-20025121 | Msa0842730:intron | 20.0% |
| !! | CAACAATGAAAATTAAGATT+AGG | - | chr5_4:20025152-20025171 | None:intergenic | 20.0% |
| ! | TCAAATTCATCAGTGAATTT+GGG | - | chr5_4:20024738-20024757 | None:intergenic | 25.0% |
| ! | ATCAAATTCATCAGTGAATT+TGG | - | chr5_4:20024739-20024758 | None:intergenic | 25.0% |
| !!! | TGCAGATTTTAATAAACACA+TGG | - | chr5_4:20025100-20025119 | None:intergenic | 25.0% |
| ! | CATAAGAAATCATTGAAATC+AGG | - | chr5_4:20025195-20025214 | None:intergenic | 25.0% |
| ! | CTGATTTCAATGATTTCTTA+TGG | + | chr5_4:20025193-20025212 | Msa0842730:CDS | 25.0% |
| ! | TTCAATGATTTCTTATGGAA+TGG | + | chr5_4:20025198-20025217 | Msa0842730:CDS | 25.0% |
| CAAATTCATCAGTGAATTTG+GGG | - | chr5_4:20024737-20024756 | None:intergenic | 30.0% | |
| ! | AGACAATTTTACCAGTTTGA+AGG | + | chr5_4:20024867-20024886 | Msa0842730:CDS | 30.0% |
| !! | AGTAGATTTGTTATCACACT+TGG | + | chr5_4:20024924-20024943 | Msa0842730:CDS | 30.0% |
| !! | GTAGATTTGTTATCACACTT+GGG | + | chr5_4:20024925-20024944 | Msa0842730:CDS | 30.0% |
| TTTCATTGTTGTCTAAATGC+AGG | + | chr5_4:20025161-20025180 | Msa0842730:intron | 30.0% | |
| AAGAAATCATTGAAATCAGG+TGG | - | chr5_4:20025192-20025211 | None:intergenic | 30.0% | |
| GATTATTTGACCATTGTCAT+TGG | - | chr5_4:20025247-20025266 | None:intergenic | 30.0% | |
| !! | ACTGATGAATTTGATGACGT+GGG | + | chr5_4:20024744-20024763 | Msa0842730:CDS | 35.0% |
| TGGAATTTAATTGACGCTGA+AGG | + | chr5_4:20024774-20024793 | Msa0842730:CDS | 35.0% | |
| CTGATTCTGTTTAGCTATGT+TGG | + | chr5_4:20024897-20024916 | Msa0842730:CDS | 35.0% | |
| AATTCGCATCCATTTGCAAA+GGG | - | chr5_4:20025046-20025065 | None:intergenic | 35.0% | |
| AATCATTGAAATCAGGTGGA+AGG | - | chr5_4:20025188-20025207 | None:intergenic | 35.0% | |
| ACTGCTATTCATTACCAAGT+TGG | + | chr5_4:20025270-20025289 | Msa0842730:CDS | 35.0% | |
| !! | TGCGTTTCAAGTTCTTTGAT+GGG | + | chr5_4:20025370-20025389 | Msa0842730:CDS | 35.0% |
| !! | CACTGATGAATTTGATGACG+TGG | + | chr5_4:20024743-20024762 | Msa0842730:CDS | 40.0% |
| GCGTCAATTAAATTCCAGAC+TGG | - | chr5_4:20024771-20024790 | None:intergenic | 40.0% | |
| CACACTTGGGAATACAATTG+AGG | + | chr5_4:20024938-20024957 | Msa0842730:CDS | 40.0% | |
| ATTCGCATCCATTTGCAAAG+GGG | - | chr5_4:20025045-20025064 | None:intergenic | 40.0% | |
| GAATTCGCATCCATTTGCAA+AGG | - | chr5_4:20025047-20025066 | None:intergenic | 40.0% | |
| AATGGATGCGAATTCTGAAC+TGG | + | chr5_4:20025052-20025071 | Msa0842730:CDS | 40.0% | |
| TTGTTCCTCTCCAATGACAA+TGG | + | chr5_4:20025234-20025253 | Msa0842730:CDS | 40.0% | |
| TTTGACCATTGTCATTGGAG+AGG | - | chr5_4:20025242-20025261 | None:intergenic | 40.0% | |
| !! | CTGCGTTTCAAGTTCTTTGA+TGG | + | chr5_4:20025369-20025388 | Msa0842730:CDS | 40.0% |
| CGCTGAAGGAAATTCTCATG+AGG | + | chr5_4:20024788-20024807 | Msa0842730:CDS | 45.0% | |
| ACAATTCAGCTACTCTGCCA+CGG | + | chr5_4:20024820-20024839 | Msa0842730:CDS | 45.0% | |
| ACTCTGCCACGGTTAACTAA+TGG | + | chr5_4:20024831-20024850 | Msa0842730:CDS | 45.0% | |
| TCAGCTTCATGCCTTCAAAC+TGG | - | chr5_4:20024881-20024900 | None:intergenic | 45.0% | |
| ! | GAAGTCTTGTGCTTCTGCTA+TGG | - | chr5_4:20024986-20025005 | None:intergenic | 45.0% |
| CACATTGACCCCTTTGCAAA+TGG | + | chr5_4:20025034-20025053 | Msa0842730:CDS | 45.0% | |
| TGCCACGGTTAACTAATGGC+TGG | + | chr5_4:20024835-20024854 | Msa0842730:CDS | 50.0% | |
| GTCCAGCCATTAGTTAACCG+TGG | - | chr5_4:20024840-20024859 | None:intergenic | 50.0% | |
| GTGCTTCTGCTATGGTACGT+AGG | - | chr5_4:20024978-20024997 | None:intergenic | 50.0% | |
| TGGTGAGTGAGTCACCAACT+TGG | - | chr5_4:20025287-20025306 | None:intergenic | 50.0% | |
| ACTCACCAGCAAGCTAACGA+AGG | + | chr5_4:20025299-20025318 | Msa0842730:CDS | 50.0% | |
| CTCACCAGCAAGCTAACGAA+GGG | + | chr5_4:20025300-20025319 | Msa0842730:CDS | 50.0% | |
| CAGCAAGCTAACGAAGGGTT+GGG | + | chr5_4:20025305-20025324 | Msa0842730:CDS | 50.0% | |
| ATCTCCAGCCTGATATTGGC+TGG | - | chr5_4:20025346-20025365 | None:intergenic | 50.0% | |
| GCACATCTCCAGCCTGATAT+TGG | - | chr5_4:20025350-20025369 | None:intergenic | 50.0% | |
| !! | TTGATGACGTGGGTCCAGTC+TGG | + | chr5_4:20024754-20024773 | Msa0842730:CDS | 55.0% |
| !! | CCAACCCTTCGTTAGCTTGC+TGG | - | chr5_4:20025307-20025326 | None:intergenic | 55.0% |
| CCAGCAAGCTAACGAAGGGT+TGG | + | chr5_4:20025304-20025323 | Msa0842730:CDS | 55.0% | |
| CAAGCTAACGAAGGGTTGGG+AGG | + | chr5_4:20025308-20025327 | Msa0842730:CDS | 55.0% | |
| CTGCACGACCAGCCAATATC+AGG | + | chr5_4:20025335-20025354 | Msa0842730:CDS | 55.0% | |
| ACGACCAGCCAATATCAGGC+TGG | + | chr5_4:20025339-20025358 | Msa0842730:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_4 | gene | 20024717 | 20025434 | 20024717 | ID=Msa0842730;Name=Msa0842730 |
| chr5_4 | mRNA | 20024717 | 20025434 | 20024717 | ID=Msa0842730-mRNA-1;Parent=Msa0842730;Name=Msa0842730-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|1|0|1|1|1|2|0|202 |
| chr5_4 | exon | 20024717 | 20025073 | 20024717 | ID=Msa0842730-mRNA-1:exon:8271;Parent=Msa0842730-mRNA-1 |
| chr5_4 | exon | 20025183 | 20025434 | 20025183 | ID=Msa0842730-mRNA-1:exon:8272;Parent=Msa0842730-mRNA-1 |
| chr5_4 | CDS | 20024717 | 20025073 | 20024717 | ID=Msa0842730-mRNA-1:cds;Parent=Msa0842730-mRNA-1 |
| chr5_4 | CDS | 20025183 | 20025434 | 20025183 | ID=Msa0842730-mRNA-1:cds;Parent=Msa0842730-mRNA-1 |
| Gene Sequence |
| Protein sequence |
