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.gene56409.t1 | XP_004505294.1 | 90.9 | 219 | 20 | 0 | 1 | 219 | 1 | 219 | 7.00E-104 | 386.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56409.t1 | Q3T168 | 34.6 | 228 | 121 | 5 | 3 | 211 | 6 | 224 | 5.8e-22 | 105.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56409.t1 | A0A1S2YIH2 | 90.9 | 219 | 20 | 0 | 1 | 219 | 1 | 219 | 5.1e-104 | 386.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050384 | MS.gene56409 | 0.827575 | 1.45E-54 | -1.69E-46 |
| MS.gene050386 | MS.gene56409 | 0.836599 | 8.51E-57 | -1.69E-46 |
| MS.gene053008 | MS.gene56409 | 0.814843 | 1.25E-51 | -1.69E-46 |
| MS.gene056181 | MS.gene56409 | 0.835615 | 1.51E-56 | -1.69E-46 |
| MS.gene05781 | MS.gene56409 | 0.819917 | 9.03E-53 | -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.gene56409.t1 | MTR_4g084250 | 94.570 | 221 | 10 | 1 | 1 | 219 | 1 | 221 | 2.59e-154 | 427 |
| MS.gene56409.t1 | MTR_4g084250 | 92.857 | 168 | 10 | 1 | 1 | 166 | 1 | 168 | 1.27e-111 | 317 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56409.t1 | AT1G30070 | 66.516 | 221 | 70 | 1 | 1 | 217 | 1 | 221 | 1.36e-107 | 308 |
| MS.gene56409.t1 | AT1G30070 | 64.474 | 228 | 70 | 2 | 1 | 217 | 1 | 228 | 1.10e-104 | 301 |
Find 53 sgRNAs with CRISPR-Local
Find 88 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACTTGACATCAAACGAATT+TGG | 0.215867 | 4.4:-28683997 | None:intergenic |
| GCTCAACGATAGCTACTTAA+AGG | 0.259882 | 4.4:-28684575 | None:intergenic |
| ACCAGAGAAATGTAAGATTT+TGG | 0.261703 | 4.4:+28684080 | MS.gene56409:CDS |
| ACCAAAATCTTACATTTCTC+TGG | 0.339359 | 4.4:-28684081 | None:intergenic |
| CTCCTCTCGCTTCATTCAGT+TGG | 0.363708 | 4.4:+28683154 | MS.gene56409:CDS |
| ACCGTAGTTCCGGTTGAAAT+TGG | 0.369259 | 4.4:-28683105 | None:intergenic |
| CGCTTCATTCAGTTGGGATC+AGG | 0.369919 | 4.4:+28683161 | MS.gene56409:CDS |
| AGAGGAATTTGCTTTAGATT+TGG | 0.371302 | 4.4:+28682851 | MS.gene56409:CDS |
| CAAATCTAGCCAGTTTGCTT+TGG | 0.378797 | 4.4:-28684142 | None:intergenic |
| TCCTCTCGCTTCATTCAGTT+GGG | 0.385459 | 4.4:+28683155 | MS.gene56409:CDS |
| TCTTTCTCTTTATCCATGGC+TGG | 0.411562 | 4.4:-28684274 | None:intergenic |
| CGGGTCTTTCTCTTTATCCA+TGG | 0.420024 | 4.4:-28684278 | None:intergenic |
| TGAAGGTGAGACCGTAGTTC+CGG | 0.422141 | 4.4:-28683115 | None:intergenic |
| AGTTCTTCCCTTGAATATCA+TGG | 0.429177 | 4.4:-28684020 | None:intergenic |
| CGAGATTCGTAACTTAGAAA+AGG | 0.436022 | 4.4:+28682935 | MS.gene56409:CDS |
| TGAAGGCTTCCAAAGCAAAC+TGG | 0.463661 | 4.4:+28684133 | MS.gene56409:CDS |
| GCATGGACTGATGCTAGAAC+TGG | 0.466170 | 4.4:+28684539 | MS.gene56409:CDS |
| TTTGCACTTCAAAGAAGATA+AGG | 0.467678 | 4.4:+28684161 | MS.gene56409:CDS |
| AGACCCGATGGCAGGAATCA+TGG | 0.483862 | 4.4:+28684294 | MS.gene56409:CDS |
| ATTCCACCACCAATTTCAAC+CGG | 0.485269 | 4.4:+28683096 | MS.gene56409:CDS |
| GTCAAGTTCCATGATATTCA+AGG | 0.487655 | 4.4:+28684012 | MS.gene56409:CDS |
| ACCAATTTCAACCGGAACTA+CGG | 0.489576 | 4.4:+28683104 | MS.gene56409:CDS |
| AGTCCATGATTCCTGCCATC+GGG | 0.496977 | 4.4:-28684297 | None:intergenic |
| GTAGTTCCGGTTGAAATTGG+TGG | 0.503010 | 4.4:-28683102 | None:intergenic |
| TAAAAGGGTAATCATCACTT+TGG | 0.508151 | 4.4:+28684110 | MS.gene56409:CDS |
| TATGTAGATATATGTGTCAC+TGG | 0.518048 | 4.4:+28683936 | MS.gene56409:intron |
| TGCAGAATATGTATGAGGAT+GGG | 0.520999 | 4.4:+28684486 | MS.gene56409:intron |
| CTCAACGATAGCTACTTAAA+GGG | 0.526180 | 4.4:-28684574 | None:intergenic |
| TTGCAGAATATGTATGAGGA+TGG | 0.536928 | 4.4:+28684485 | MS.gene56409:intron |
| GTTCCGGTTGAAATTGGTGG+TGG | 0.541368 | 4.4:-28683099 | None:intergenic |
| AGGAATCATGGACTTGATGA+AGG | 0.541947 | 4.4:+28684306 | MS.gene56409:CDS |
| AAGTCCATGATTCCTGCCAT+CGG | 0.543469 | 4.4:-28684298 | None:intergenic |
| GCAGAATATGTATGAGGATG+GGG | 0.545792 | 4.4:+28684487 | MS.gene56409:intron |
| AAAGAGAAAGACCCGATGGC+AGG | 0.547559 | 4.4:+28684286 | MS.gene56409:CDS |
| AGAGGAGAATAACTGAGTAC+AGG | 0.548081 | 4.4:-28683138 | None:intergenic |
| AGAAAACAATTGCAAAAGCA+TGG | 0.549544 | 4.4:+28684522 | MS.gene56409:CDS |
| GTGAGAAGAGAAAGGATTCG+AGG | 0.555972 | 4.4:-28682909 | None:intergenic |
| TCTCGGAAGTGAGAAGAGAA+AGG | 0.558117 | 4.4:-28682917 | None:intergenic |
| TGAATTGCAGAATATGTATG+AGG | 0.568596 | 4.4:+28684481 | MS.gene56409:intron |
| GGTAATCATCACTTTGGTGA+AGG | 0.580072 | 4.4:+28684116 | MS.gene56409:CDS |
| AATTGAGCAGTTATCGTCTG+AGG | 0.602215 | 4.4:+28683047 | MS.gene56409:intron |
| TCAAGTTCCATGATATTCAA+GGG | 0.618824 | 4.4:+28684013 | MS.gene56409:CDS |
| TGCAATAGTGAAATTGCACA+AGG | 0.622130 | 4.4:+28684050 | MS.gene56409:CDS |
| GTTGCAGCTGAAGCCAGCCA+TGG | 0.626054 | 4.4:+28684261 | MS.gene56409:intron |
| TCAGGATAACGACAAAGTCA+AGG | 0.635580 | 4.4:+28683179 | MS.gene56409:CDS |
| GAATAACTGAGTACAGGTGA+AGG | 0.637142 | 4.4:-28683132 | None:intergenic |
| TAGATATATGTGTCACTGGA+GGG | 0.651331 | 4.4:+28683940 | MS.gene56409:intron |
| TCCCAACTGAATGAAGCGAG+AGG | 0.662613 | 4.4:-28683156 | None:intergenic |
| GGAGGGTGTTGATGAGAGCA+AGG | 0.664107 | 4.4:+28683957 | MS.gene56409:CDS |
| TGATGCTAGAACTGGAAAAG+CGG | 0.666042 | 4.4:+28684547 | MS.gene56409:CDS |
| GGATAAAGAGAAAGACCCGA+TGG | 0.666807 | 4.4:+28684282 | MS.gene56409:CDS |
| TGGAATCTGTGATGCACGTG+CGG | 0.678359 | 4.4:-28683079 | None:intergenic |
| GTAGATATATGTGTCACTGG+AGG | 0.689960 | 4.4:+28683939 | MS.gene56409:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAATAATAACAATACATCA+TGG | - | chr4.4:28683242-28683261 | None:intergenic | 15.0% |
| !! | AAATAAGCTAAAACAATTTA+TGG | + | chr4.4:28683494-28683513 | MS.gene56409:intron | 15.0% |
| !! | ATGATATAGGCATTTAATTA+AGG | - | chr4.4:28683343-28683362 | None:intergenic | 20.0% |
| !! | TACAAGATAGCTTAAAAAAA+TGG | - | chr4.4:28683686-28683705 | None:intergenic | 20.0% |
| !! | TATAGCAAAGAATAAGATAA+AGG | - | chr4.4:28683844-28683863 | None:intergenic | 20.0% |
| !!! | TCTATAAGCTATTTCTATTT+CGG | + | chr4.4:28683397-28683416 | MS.gene56409:intron | 20.0% |
| ! | AATAATTAGCACTAATCAAG+AGG | - | chr4.4:28683023-28683042 | None:intergenic | 25.0% |
| ! | ATTTATGTTGTAGTTACTCT+GGG | + | chr4.4:28683884-28683903 | MS.gene56409:intron | 25.0% |
| ! | TATTTATCTAATCAGTGCAT+AGG | - | chr4.4:28683320-28683339 | None:intergenic | 25.0% |
| ! | TGAAACTGAAAAACACAAAT+TGG | - | chr4.4:28683817-28683836 | None:intergenic | 25.0% |
| !! | TTAAGTTGTTTATCCAAACA+GGG | - | chr4.4:28683630-28683649 | None:intergenic | 25.0% |
| AACTTGACATCAAACGAATT+TGG | - | chr4.4:28684000-28684019 | None:intergenic | 30.0% | |
| ACCAAAATCTTACATTTCTC+TGG | - | chr4.4:28684084-28684103 | None:intergenic | 30.0% | |
| AGAAAACAATTGCAAAAGCA+TGG | + | chr4.4:28684522-28684541 | MS.gene56409:CDS | 30.0% | |
| ATAAATCTTTGTCTGCCATT+TGG | - | chr4.4:28683870-28683889 | None:intergenic | 30.0% | |
| GAGAAATGATTAACGGAAAA+AGG | - | chr4.4:28683001-28683020 | None:intergenic | 30.0% | |
| GATTTATGTTGTAGTTACTC+TGG | + | chr4.4:28683883-28683902 | MS.gene56409:intron | 30.0% | |
| TAAAAGGGTAATCATCACTT+TGG | + | chr4.4:28684110-28684129 | MS.gene56409:CDS | 30.0% | |
| TATGTAGATATATGTGTCAC+TGG | + | chr4.4:28683936-28683955 | MS.gene56409:intron | 30.0% | |
| TCAAGAGGAGAAATGATTAA+CGG | - | chr4.4:28683008-28683027 | None:intergenic | 30.0% | |
| TCAAGTTCCATGATATTCAA+GGG | + | chr4.4:28684013-28684032 | MS.gene56409:CDS | 30.0% | |
| TGAATTGCAGAATATGTATG+AGG | + | chr4.4:28684481-28684500 | MS.gene56409:intron | 30.0% | |
| TTTGCACTTCAAAGAAGATA+AGG | + | chr4.4:28684161-28684180 | MS.gene56409:CDS | 30.0% | |
| ! | AAAGTGATGATTACCCTTTT+AGG | - | chr4.4:28684111-28684130 | None:intergenic | 30.0% |
| ! | ACCAGAGAAATGTAAGATTT+TGG | + | chr4.4:28684080-28684099 | MS.gene56409:CDS | 30.0% |
| ! | AGAGGAATTTGCTTTAGATT+TGG | + | chr4.4:28682851-28682870 | MS.gene56409:CDS | 30.0% |
| ! | ATAAGCTGAATGTTTTGCAA+AGG | + | chr4.4:28683747-28683766 | MS.gene56409:intron | 30.0% |
| ! | CTTTTCTAAGTTACGAATCT+CGG | - | chr4.4:28682937-28682956 | None:intergenic | 30.0% |
| ! | GTTAAGTTGTTTATCCAAAC+AGG | - | chr4.4:28683631-28683650 | None:intergenic | 30.0% |
| ! | TCTTTCATTTCATAGCCTTT+TGG | + | chr4.4:28683269-28683288 | MS.gene56409:intron | 30.0% |
| ! | TTCTTTGCTATAGATCCAAA+TGG | + | chr4.4:28683852-28683871 | MS.gene56409:intron | 30.0% |
| AAATGAGCCAATACAAACAG+AGG | + | chr4.4:28683791-28683810 | MS.gene56409:intron | 35.0% | |
| AGACTGTTCAGAATAACTAG+TGG | - | chr4.4:28683538-28683557 | None:intergenic | 35.0% | |
| AGTTCTTCCCTTGAATATCA+TGG | - | chr4.4:28684023-28684042 | None:intergenic | 35.0% | |
| CATGTCGTAAATGCTAAGAA+TGG | + | chr4.4:28683604-28683623 | MS.gene56409:intron | 35.0% | |
| CGAGATTCGTAACTTAGAAA+AGG | + | chr4.4:28682935-28682954 | MS.gene56409:CDS | 35.0% | |
| GGAATAGAAGCGAAATGAAA+TGG | - | chr4.4:28682980-28682999 | None:intergenic | 35.0% | |
| GTCAAGTTCCATGATATTCA+AGG | + | chr4.4:28684012-28684031 | MS.gene56409:CDS | 35.0% | |
| TCGATCAGTGTCTATGATAT+AGG | - | chr4.4:28683356-28683375 | None:intergenic | 35.0% | |
| TGCAATAGTGAAATTGCACA+AGG | + | chr4.4:28684050-28684069 | MS.gene56409:CDS | 35.0% | |
| TGCAGAATATGTATGAGGAT+GGG | + | chr4.4:28684486-28684505 | MS.gene56409:intron | 35.0% | |
| TTGCAGAATATGTATGAGGA+TGG | + | chr4.4:28684485-28684504 | MS.gene56409:intron | 35.0% | |
| ! | AAATTGGCCTCTGTTTGTAT+TGG | - | chr4.4:28683801-28683820 | None:intergenic | 35.0% |
| ! | CATAGCCTTTTGGATTGAAA+GGG | + | chr4.4:28683279-28683298 | MS.gene56409:intron | 35.0% |
| ! | TAGATATATGTGTCACTGGA+GGG | + | chr4.4:28683940-28683959 | MS.gene56409:intron | 35.0% |
| ! | TCATAGCCTTTTGGATTGAA+AGG | + | chr4.4:28683278-28683297 | MS.gene56409:intron | 35.0% |
| !! | AGATTTTGGTCAAGCCTAAA+AGG | + | chr4.4:28684094-28684113 | MS.gene56409:CDS | 35.0% |
| !! | CTTATTTTCACAAGCTCTTC+GGG | - | chr4.4:28683481-28683500 | None:intergenic | 35.0% |
| !! | GATTTTGGTCAAGCCTAAAA+GGG | + | chr4.4:28684095-28684114 | MS.gene56409:CDS | 35.0% |
| !! | GCTTATTTTCACAAGCTCTT+CGG | - | chr4.4:28683482-28683501 | None:intergenic | 35.0% |
| AATTGAGCAGTTATCGTCTG+AGG | + | chr4.4:28683047-28683066 | MS.gene56409:intron | 40.0% | |
| ACCAATTTCAACCGGAACTA+CGG | + | chr4.4:28683104-28683123 | MS.gene56409:CDS | 40.0% | |
| AGAGGAGAATAACTGAGTAC+AGG | - | chr4.4:28683141-28683160 | None:intergenic | 40.0% | |
| AGGAATCATGGACTTGATGA+AGG | + | chr4.4:28684306-28684325 | MS.gene56409:CDS | 40.0% | |
| ATTCCACCACCAATTTCAAC+CGG | + | chr4.4:28683096-28683115 | MS.gene56409:CDS | 40.0% | |
| GAATAACTGAGTACAGGTGA+AGG | - | chr4.4:28683135-28683154 | None:intergenic | 40.0% | |
| GCAGAATATGTATGAGGATG+GGG | + | chr4.4:28684487-28684506 | MS.gene56409:intron | 40.0% | |
| GCTCATTTGAGCTTATCTAC+TGG | - | chr4.4:28683779-28683798 | None:intergenic | 40.0% | |
| GGTAATCATCACTTTGGTGA+AGG | + | chr4.4:28684116-28684135 | MS.gene56409:CDS | 40.0% | |
| TCAGGATAACGACAAAGTCA+AGG | + | chr4.4:28683179-28683198 | MS.gene56409:CDS | 40.0% | |
| TCGTACCCTTTCAATCCAAA+AGG | - | chr4.4:28683287-28683306 | None:intergenic | 40.0% | |
| TCTTTCTCTTTATCCATGGC+TGG | - | chr4.4:28684277-28684296 | None:intergenic | 40.0% | |
| TGATGCTAGAACTGGAAAAG+CGG | + | chr4.4:28684547-28684566 | MS.gene56409:CDS | 40.0% | |
| ! | CAAATCTAGCCAGTTTGCTT+TGG | - | chr4.4:28684145-28684164 | None:intergenic | 40.0% |
| ! | GTAGATATATGTGTCACTGG+AGG | + | chr4.4:28683939-28683958 | MS.gene56409:intron | 40.0% |
| AAGTCCATGATTCCTGCCAT+CGG | - | chr4.4:28684301-28684320 | None:intergenic | 45.0% | |
| ACCGTAGTTCCGGTTGAAAT+TGG | - | chr4.4:28683108-28683127 | None:intergenic | 45.0% | |
| ATGCTAAGAATGGCCCTGTT+TGG | + | chr4.4:28683614-28683633 | MS.gene56409:intron | 45.0% | |
| CGGGTCTTTCTCTTTATCCA+TGG | - | chr4.4:28684281-28684300 | None:intergenic | 45.0% | |
| GGATAAAGAGAAAGACCCGA+TGG | + | chr4.4:28684282-28684301 | MS.gene56409:CDS | 45.0% | |
| GTAGTTCCGGTTGAAATTGG+TGG | - | chr4.4:28683105-28683124 | None:intergenic | 45.0% | |
| GTGAGAAGAGAAAGGATTCG+AGG | - | chr4.4:28682912-28682931 | None:intergenic | 45.0% | |
| TCCTCTCGCTTCATTCAGTT+GGG | + | chr4.4:28683155-28683174 | MS.gene56409:CDS | 45.0% | |
| TCTCGGAAGTGAGAAGAGAA+AGG | - | chr4.4:28682920-28682939 | None:intergenic | 45.0% | |
| TGAAGGCTTCCAAAGCAAAC+TGG | + | chr4.4:28684133-28684152 | MS.gene56409:CDS | 45.0% | |
| !! | GTCGTTTTGCGATTTCGTGA+AGG | - | chr4.4:28682890-28682909 | None:intergenic | 45.0% |
| AAAGAGAAAGACCCGATGGC+AGG | + | chr4.4:28684286-28684305 | MS.gene56409:CDS | 50.0% | |
| AGTCCATGATTCCTGCCATC+GGG | - | chr4.4:28684300-28684319 | None:intergenic | 50.0% | |
| CGCTTCATTCAGTTGGGATC+AGG | + | chr4.4:28683161-28683180 | MS.gene56409:CDS | 50.0% | |
| CTCCTCTCGCTTCATTCAGT+TGG | + | chr4.4:28683154-28683173 | MS.gene56409:CDS | 50.0% | |
| GTTCCGGTTGAAATTGGTGG+TGG | - | chr4.4:28683102-28683121 | None:intergenic | 50.0% | |
| TCCCAACTGAATGAAGCGAG+AGG | - | chr4.4:28683159-28683178 | None:intergenic | 50.0% | |
| TGAAGGTGAGACCGTAGTTC+CGG | - | chr4.4:28683118-28683137 | None:intergenic | 50.0% | |
| TGGAATCTGTGATGCACGTG+CGG | - | chr4.4:28683082-28683101 | None:intergenic | 50.0% | |
| ! | GCATGGACTGATGCTAGAAC+TGG | + | chr4.4:28684539-28684558 | MS.gene56409:CDS | 50.0% |
| AGACCCGATGGCAGGAATCA+TGG | + | chr4.4:28684294-28684313 | MS.gene56409:CDS | 55.0% | |
| !! | GGAGGGTGTTGATGAGAGCA+AGG | + | chr4.4:28683957-28683976 | MS.gene56409:CDS | 55.0% |
| GTTGCAGCTGAAGCCAGCCA+TGG | + | chr4.4:28684261-28684280 | MS.gene56409:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 28682846 | 28684595 | 28682846 | ID=MS.gene56409 |
| chr4.4 | mRNA | 28682846 | 28684595 | 28682846 | ID=MS.gene56409.t1;Parent=MS.gene56409 |
| chr4.4 | exon | 28682846 | 28682956 | 28682846 | ID=MS.gene56409.t1.exon1;Parent=MS.gene56409.t1 |
| chr4.4 | CDS | 28682846 | 28682956 | 28682846 | ID=cds.MS.gene56409.t1;Parent=MS.gene56409.t1 |
| chr4.4 | exon | 28683057 | 28683200 | 28683057 | ID=MS.gene56409.t1.exon2;Parent=MS.gene56409.t1 |
| chr4.4 | CDS | 28683057 | 28683200 | 28683057 | ID=cds.MS.gene56409.t1;Parent=MS.gene56409.t1 |
| chr4.4 | exon | 28683943 | 28684182 | 28683943 | ID=MS.gene56409.t1.exon3;Parent=MS.gene56409.t1 |
| chr4.4 | CDS | 28683943 | 28684182 | 28683943 | ID=cds.MS.gene56409.t1;Parent=MS.gene56409.t1 |
| chr4.4 | exon | 28684268 | 28684327 | 28684268 | ID=MS.gene56409.t1.exon4;Parent=MS.gene56409.t1 |
| chr4.4 | CDS | 28684268 | 28684327 | 28684268 | ID=cds.MS.gene56409.t1;Parent=MS.gene56409.t1 |
| chr4.4 | exon | 28684491 | 28684595 | 28684491 | ID=MS.gene56409.t1.exon5;Parent=MS.gene56409.t1 |
| chr4.4 | CDS | 28684491 | 28684595 | 28684491 | ID=cds.MS.gene56409.t1;Parent=MS.gene56409.t1 |
| Gene Sequence |
| Protein sequence |
