Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene78628.t1 | RHN42010.1 | 96.6 | 58 | 2 | 0 | 2 | 59 | 75 | 132 | 2.20E-21 | 110.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene78628.t1 | Q1PF50 | 58.6 | 58 | 24 | 0 | 2 | 59 | 217 | 274 | 6.2e-12 | 70.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene78628.t1 | G7LCZ9 | 96.6 | 58 | 2 | 0 | 2 | 59 | 183 | 240 | 1.6e-21 | 110.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049159 | MS.gene78628 | 0.813454 | 2.54E-51 | -1.69E-46 |
| MS.gene052519 | MS.gene78628 | 0.803282 | 3.76E-49 | -1.69E-46 |
| MS.gene052863 | MS.gene78628 | 0.806571 | 7.71E-50 | -1.69E-46 |
| MS.gene054651 | MS.gene78628 | 0.810721 | 1.00E-50 | -1.69E-46 |
| MS.gene055228 | MS.gene78628 | 0.809504 | 1.83E-50 | -1.69E-46 |
| MS.gene057915 | MS.gene78628 | 0.804102 | 2.54E-49 | -1.69E-46 |
| MS.gene060312 | MS.gene78628 | 0.8089 | 2.47E-50 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene78628.t1 | MTR_8g076210 | 96.552 | 58 | 2 | 0 | 2 | 59 | 183 | 240 | 1.92e-32 | 115 |
| MS.gene78628.t1 | MTR_5g021530 | 75.862 | 58 | 14 | 0 | 2 | 59 | 206 | 263 | 3.29e-24 | 93.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene78628.t1 | AT4G36195 | 56.897 | 58 | 25 | 0 | 2 | 59 | 216 | 273 | 1.81e-18 | 77.4 |
| MS.gene78628.t1 | AT4G36195 | 56.897 | 58 | 25 | 0 | 2 | 59 | 216 | 273 | 1.82e-18 | 77.4 |
| MS.gene78628.t1 | AT4G36195 | 56.897 | 58 | 25 | 0 | 2 | 59 | 216 | 273 | 1.82e-18 | 77.4 |
| MS.gene78628.t1 | AT2G18080 | 58.621 | 58 | 24 | 0 | 2 | 59 | 217 | 274 | 3.67e-17 | 73.6 |
| MS.gene78628.t1 | AT4G36190 | 51.724 | 58 | 28 | 0 | 2 | 59 | 216 | 273 | 1.12e-16 | 72.4 |
Find 11 sgRNAs with CRISPR-Local
Find 27 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTATATCATTCAAGTTGAC+CGG | 0.442146 | 1.4:-41798346 | None:intergenic |
| TGGAGACTTCTTGTACTACT+TGG | 0.463962 | 1.4:+41798102 | MS.gene78628:CDS |
| AACTACAGGGTGGAGCGATC+CGG | 0.484606 | 1.4:+41798327 | MS.gene78628:intron |
| ATGCAGATTGGTGAGTCGGC+TGG | 0.513772 | 1.4:+41797828 | MS.gene78628:CDS |
| AGTTCTATCTATATGCAGAT+TGG | 0.518517 | 1.4:+41797816 | None:intergenic |
| TGATCTCAGTGCCTTTCCAT+CGG | 0.550176 | 1.4:-41797910 | None:intergenic |
| CTATATGCAGATTGGTGAGT+CGG | 0.550492 | 1.4:+41797824 | None:intergenic |
| TGTAATACTGCTTTACACTC+AGG | 0.565579 | 1.4:-41797852 | None:intergenic |
| AAAACTTGCAACCGATGGAA+AGG | 0.568972 | 1.4:+41797899 | MS.gene78628:CDS |
| GAAACAAAACTTGCAACCGA+TGG | 0.615044 | 1.4:+41797894 | MS.gene78628:CDS |
| GGCTGATGCTGCTGTTATAG+CGG | 0.635301 | 1.4:+41798123 | MS.gene78628:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AACTATAATGTAATTTTGCA+AGG | - | chr1.4:41797989-41798008 | None:intergenic | 20.0% |
| ! | AAAGAGTAACTAAGTAACTA+AGG | - | chr1.4:41797966-41797985 | None:intergenic | 25.0% |
| ! | ATTACATTTATCCAACTACA+GGG | + | chr1.4:41798314-41798333 | MS.gene78628:intron | 25.0% |
| ! | TTGGATAAATGTAATGCAAA+AGG | - | chr1.4:41798309-41798328 | None:intergenic | 25.0% |
| !! | TATGTTTCCTTTCTTGTTTA+TGG | + | chr1.4:41798158-41798177 | MS.gene78628:intron | 25.0% |
| !!! | TCAAATTTTGATGAGAACAT+AGG | - | chr1.4:41798189-41798208 | None:intergenic | 25.0% |
| AAACAAGAAAGGAAACATAG+AGG | - | chr1.4:41798157-41798176 | None:intergenic | 30.0% | |
| CAATTTCAAGCTGCAAAATA+GGG | - | chr1.4:41798081-41798100 | None:intergenic | 30.0% | |
| CATTACATTTATCCAACTAC+AGG | + | chr1.4:41798313-41798332 | MS.gene78628:intron | 30.0% | |
| TCAATTTCAAGCTGCAAAAT+AGG | - | chr1.4:41798082-41798101 | None:intergenic | 30.0% | |
| ! | AAAGAACATGATTTGTGTTC+TGG | - | chr1.4:41798016-41798035 | None:intergenic | 30.0% |
| ! | ATTTGAGATGCTGTAATAAG+AGG | + | chr1.4:41798203-41798222 | MS.gene78628:intron | 30.0% |
| ! | ATTTTGCAGCTTGAAATTGA+TGG | + | chr1.4:41798082-41798101 | MS.gene78628:intron | 30.0% |
| GGAAGATCCATAAACAAGAA+AGG | - | chr1.4:41798168-41798187 | None:intergenic | 35.0% | |
| TGTAATACTGCTTTACACTC+AGG | - | chr1.4:41797855-41797874 | None:intergenic | 35.0% | |
| AAAACTTGCAACCGATGGAA+AGG | + | chr1.4:41797899-41797918 | MS.gene78628:CDS | 40.0% | |
| ACATTTATCCAACTACAGGG+TGG | + | chr1.4:41798317-41798336 | MS.gene78628:intron | 40.0% | |
| GAAACAAAACTTGCAACCGA+TGG | + | chr1.4:41797894-41797913 | MS.gene78628:CDS | 40.0% | |
| TGGAGACTTCTTGTACTACT+TGG | + | chr1.4:41798102-41798121 | MS.gene78628:CDS | 40.0% | |
| TTCTCTCTTAGTCATGCAGA+AGG | - | chr1.4:41798277-41798296 | None:intergenic | 40.0% | |
| TCTCTTAGTCATGCAGAAGG+AGG | - | chr1.4:41798274-41798293 | None:intergenic | 45.0% | |
| TGATCTCAGTGCCTTTCCAT+CGG | - | chr1.4:41797913-41797932 | None:intergenic | 45.0% | |
| GGCTGATGCTGCTGTTATAG+CGG | + | chr1.4:41798123-41798142 | MS.gene78628:CDS | 50.0% | |
| AACTACAGGGTGGAGCGATC+CGG | + | chr1.4:41798327-41798346 | MS.gene78628:intron | 55.0% | |
| ATGCAGATTGGTGAGTCGGC+TGG | + | chr1.4:41797828-41797847 | MS.gene78628:CDS | 55.0% | |
| GGGCAAGTCAGCACACAACA+CGG | - | chr1.4:41798061-41798080 | None:intergenic | 55.0% | |
| GGATCGCTCCACCCTGTAGT+TGG | - | chr1.4:41798328-41798347 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 41797828 | 41798358 | 41797828 | ID=MS.gene78628 |
| chr1.4 | mRNA | 41797828 | 41798358 | 41797828 | ID=MS.gene78628.t1;Parent=MS.gene78628 |
| chr1.4 | exon | 41797828 | 41797950 | 41797828 | ID=MS.gene78628.t1.exon1;Parent=MS.gene78628.t1 |
| chr1.4 | CDS | 41797828 | 41797950 | 41797828 | ID=cds.MS.gene78628.t1;Parent=MS.gene78628.t1 |
| chr1.4 | exon | 41798091 | 41798144 | 41798091 | ID=MS.gene78628.t1.exon2;Parent=MS.gene78628.t1 |
| chr1.4 | CDS | 41798091 | 41798144 | 41798091 | ID=cds.MS.gene78628.t1;Parent=MS.gene78628.t1 |
| chr1.4 | exon | 41798335 | 41798358 | 41798335 | ID=MS.gene78628.t1.exon3;Parent=MS.gene78628.t1 |
| chr1.4 | CDS | 41798335 | 41798358 | 41798335 | ID=cds.MS.gene78628.t1;Parent=MS.gene78628.t1 |
| Gene Sequence |
| Protein sequence |
