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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880046236.01.T01 | XP_042482621.1 | 69.595 | 148 | 12 | 1 | 50 | 164 | 314 | 461 | 2.04E-57 | 197 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880046236.01.T01 | Q9SZX3 | 68.919 | 148 | 13 | 1 | 50 | 164 | 312 | 459 | 8.31E-61 | 198 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880046236.01.T01 | G7JLG0 | 77.027 | 148 | 1 | 1 | 50 | 164 | 296 | 443 | 3.68e-66 | 218 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0080048040.01 | MsG0880046236.01 | 0.843021 | 1.809723e-58 | 2.794154e-55 |
| MsG0880045836.01 | MsG0880046236.01 | 0.843431 | 1.406909e-58 | 2.200812e-55 |
| MsG0880046220.01 | MsG0880046236.01 | 0.808471 | 3.047853e-50 | 1.744233e-47 |
| MsG0880046236.01 | MsG0880047146.01 | 0.807978 | 3.880893e-50 | 2.192257e-47 |
| MsG0180005329.01 | MsG0880046236.01 | 0.806257 | 8.982237e-50 | 4.853009e-47 |
| MsG0180005573.01 | MsG0880046236.01 | 0.826161 | 3.157734e-54 | 2.938096e-51 |
| MsG0780040830.01 | MsG0880046236.01 | 0.803160 | 3.980596e-49 | 1.986117e-46 |
| MsG0880041941.01 | MsG0880046236.01 | 0.804671 | 1.931632e-49 | 1.001949e-46 |
| MsG0480020796.01 | MsG0880046236.01 | 0.808430 | 3.108807e-50 | 1.777230e-47 |
| MsG0480023602.01 | MsG0880046236.01 | 0.826885 | 2.121860e-54 | 2.015601e-51 |
| MsG0480023774.01 | MsG0880046236.01 | 0.817741 | 2.817000e-52 | 2.068700e-49 |
| MsG0480023996.01 | MsG0880046236.01 | 0.831555 | 1.561945e-55 | 1.701036e-52 |
| MsG0580024481.01 | MsG0880046236.01 | 0.807594 | 4.683578e-50 | 2.619099e-47 |
| MsG0580024894.01 | MsG0880046236.01 | 0.807110 | 5.930761e-50 | 3.275162e-47 |
| MsG0380017119.01 | MsG0880046236.01 | 0.802571 | 5.266124e-49 | 2.588287e-46 |
| MsG0480018164.01 | MsG0880046236.01 | 0.809482 | 1.851509e-50 | 1.088326e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880046236.01.T01 | MTR_4g103680 | 77.027 | 148 | 1 | 1 | 50 | 164 | 296 | 443 | 9.34e-70 | 218 |
| MsG0880046236.01.T01 | MTR_5g042880 | 73.649 | 148 | 6 | 1 | 50 | 164 | 298 | 445 | 2.19e-66 | 210 |
| MsG0880046236.01.T01 | MTR_3g088970 | 60.811 | 148 | 25 | 1 | 50 | 164 | 295 | 442 | 9.31e-56 | 182 |
| MsG0880046236.01.T01 | MTR_3g088940 | 58.571 | 140 | 25 | 1 | 50 | 156 | 10 | 149 | 6.47e-52 | 163 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0880046236.01.T01 | AT4G24830 | 68.919 | 148 | 13 | 1 | 50 | 164 | 312 | 459 | 8.47e-62 | 198 |
| MsG0880046236.01.T01 | AT4G24830 | 80.000 | 115 | 12 | 1 | 50 | 164 | 312 | 415 | 6.60e-57 | 184 |
Find 46 sgRNAs with CRISPR-Local
Find 75 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATGATTTCTTGCAGATATT+TGG | 0.139184 | 8:-70873096 | MsG0880046236.01.T01:intron |
| TCTTGCAGATATTTGGAAAT+TGG | 0.199883 | 8:-70873089 | MsG0880046236.01.T01:intron |
| TGTCACTAAAGGTGATATTT+TGG | 0.224096 | 8:-70873550 | MsG0880046236.01.T01:CDS |
| CATCATGTACATATCCTTCT+TGG | 0.311938 | 8:+70873510 | None:intergenic |
| TCTTGCCTATACAGGCTAAA+AGG | 0.329004 | 8:+70872665 | None:intergenic |
| TTGGAAATTGGTATTGAGTC+TGG | 0.354536 | 8:-70873077 | MsG0880046236.01.T01:CDS |
| ATCCTTCTTGGGTCATTAGC+CGG | 0.373383 | 8:+70873522 | None:intergenic |
| TGATGAGATCTTGCCTATAC+AGG | 0.392475 | 8:+70872657 | None:intergenic |
| GCTTGATCTGGAGCATCCTC+CGG | 0.393049 | 8:+70873478 | None:intergenic |
| CGCAGTAATCTTCTGCATAA+AGG | 0.397397 | 8:+70872754 | None:intergenic |
| AAGATTACTGCGACCACAAC+AGG | 0.398632 | 8:-70872743 | MsG0880046236.01.T01:CDS |
| GGACTTCCCGTTTCACTCAA+TGG | 0.408949 | 8:-70873056 | MsG0880046236.01.T01:CDS |
| GAAGCTTACTCTGCTTGATC+TGG | 0.429139 | 8:+70873466 | None:intergenic |
| ATAGGTGGAAAGCACGGAAT+TGG | 0.430346 | 8:-70872990 | MsG0880046236.01.T01:CDS |
| AGTTGGTGTATGCTGGTAGA+TGG | 0.450417 | 8:-70872805 | MsG0880046236.01.T01:CDS |
| AGCTCAGCGAGTAAAGTTGC+TGG | 0.451716 | 8:+70873020 | None:intergenic |
| CTTGATCTGGAGCATCCTCC+GGG | 0.455389 | 8:+70873479 | None:intergenic |
| TCCTTCTTGGGTCATTAGCC+GGG | 0.466738 | 8:+70873523 | None:intergenic |
| ATGGTTGAGAATAGGCTTGT+AGG | 0.469420 | 8:-70872957 | MsG0880046236.01.T01:CDS |
| AAAGGTTCTGTTACTGTAGC+AGG | 0.471477 | 8:-70872698 | MsG0880046236.01.T01:CDS |
| CTCGCTGAGCTCAATGAGAT+AGG | 0.474365 | 8:-70873008 | MsG0880046236.01.T01:CDS |
| GTCTTGCCATTGAGTGAAAC+GGG | 0.476700 | 8:+70873050 | None:intergenic |
| CGTCTTGCCATTGAGTGAAA+CGG | 0.482531 | 8:+70873049 | None:intergenic |
| CAGAGTAAGCTTCCTTCTCA+TGG | 0.498690 | 8:-70873456 | MsG0880046236.01.T01:CDS |
| ATCATGTACATATCCTTCTT+GGG | 0.503759 | 8:+70873511 | None:intergenic |
| AGGCAAGATCTCATCATTTG+AGG | 0.505109 | 8:-70872650 | None:intergenic |
| TATTCTCAACCATGTCGATC+CGG | 0.516319 | 8:+70872967 | None:intergenic |
| GGCAAGATCTCATCATTTGA+GGG | 0.516541 | 8:-70872649 | None:intergenic |
| TATGCAATCTGTGTCACTAA+AGG | 0.518091 | 8:-70873561 | MsG0880046236.01.T01:CDS |
| GGATCGACATGGTTGAGAAT+AGG | 0.521327 | 8:-70872965 | MsG0880046236.01.T01:CDS |
| TGATCCACTTCGTGAGTCGA+TGG | 0.531316 | 8:-70872780 | MsG0880046236.01.T01:CDS |
| CGCGGAGTTTATGAAACTCC+TGG | 0.532888 | 8:-70872924 | MsG0880046236.01.T01:intron |
| GTGGAAAGCACGGAATTGGC+CGG | 0.550439 | 8:-70872986 | MsG0880046236.01.T01:CDS |
| CAAAGTAACAGAACCTGTTG+TGG | 0.572279 | 8:+70872730 | None:intergenic |
| TATGCAGAGTTGGTGTATGC+TGG | 0.582525 | 8:-70872812 | MsG0880046236.01.T01:intron |
| GCGTCCATCGACTCACGAAG+TGG | 0.588223 | 8:+70872776 | None:intergenic |
| CGGAATTGGCCGGATCGACA+TGG | 0.592013 | 8:-70872976 | MsG0880046236.01.T01:CDS |
| ACCCGGCTAATGACCCAAGA+AGG | 0.600715 | 8:-70873524 | MsG0880046236.01.T01:CDS |
| GTTACTTTGAAATTGTACAA+AGG | 0.620393 | 8:-70872716 | MsG0880046236.01.T01:CDS |
| GTACATGATGTCTGTAGACC+CGG | 0.626351 | 8:-70873497 | MsG0880046236.01.T01:CDS |
| GCTGAGCTCAATGAGATAGG+TGG | 0.646043 | 8:-70873005 | MsG0880046236.01.T01:CDS |
| AATGAGATAGGTGGAAAGCA+CGG | 0.647318 | 8:-70872996 | MsG0880046236.01.T01:CDS |
| CTTGTAGGCATGAAGAGCCG+CGG | 0.663600 | 8:-70872942 | MsG0880046236.01.T01:CDS |
| TAGTTAATAGAACCATGAGA+AGG | 0.668094 | 8:+70873444 | None:intergenic |
| CAGGAGTTTCATAAACTCCG+CGG | 0.735124 | 8:+70872925 | None:intergenic |
| CATGATGTCTGTAGACCCGG+AGG | 0.809606 | 8:-70873494 | MsG0880046236.01.T01:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTCTGTTATGCTTTTAAAAA+GGG | - | Chr8:70873044-70873063 | MsG0880046236.01.T01:CDS | 20.0% |
| !!! | TTTCTGTTATGCTTTTAAAA+AGG | - | Chr8:70873043-70873062 | MsG0880046236.01.T01:CDS | 20.0% |
| ! | CTATTAACTAATGATCTGTT+TGG | - | Chr8:70872781-70872800 | MsG0880046236.01.T01:CDS | 25.0% |
| ! | TTGAAGCTGTATATATAGTT+GGG | + | Chr8:70873022-70873041 | None:intergenic | 25.0% |
| !! | ATTAAGTTGTTTATCCAAAC+AGG | - | Chr8:70872995-70873014 | MsG0880046236.01.T01:CDS | 25.0% |
| !! | TTAAGTTGTTTATCCAAACA+GGG | - | Chr8:70872996-70873015 | MsG0880046236.01.T01:CDS | 25.0% |
| !!! | GTTACTTTGAAATTGTACAA+AGG | - | Chr8:70873496-70873515 | MsG0880046236.01.T01:CDS | 25.0% |
| AACTAATGATCTGTTTGGAT+TGG | - | Chr8:70872786-70872805 | MsG0880046236.01.T01:CDS | 30.0% | |
| ATCATGTACATATCCTTCTT+GGG | + | Chr8:70872704-70872723 | None:intergenic | 30.0% | |
| CATGATTTCTTGCAGATATT+TGG | - | Chr8:70873116-70873135 | MsG0880046236.01.T01:intron | 30.0% | |
| CTTGAAGCTGTATATATAGT+TGG | + | Chr8:70873023-70873042 | None:intergenic | 30.0% | |
| GTGTGCTTTCAAAAAATGTA+AGG | + | Chr8:70873097-70873116 | None:intergenic | 30.0% | |
| TAGTTAATAGAACCATGAGA+AGG | + | Chr8:70872771-70872790 | None:intergenic | 30.0% | |
| TCTTGCAGATATTTGGAAAT+TGG | - | Chr8:70873123-70873142 | MsG0880046236.01.T01:intron | 30.0% | |
| ! | GCTTGTTTGAGTTTATTTAC+TGG | - | Chr8:70872808-70872827 | MsG0880046236.01.T01:CDS | 30.0% |
| ! | TGTCACTAAAGGTGATATTT+TGG | - | Chr8:70872662-70872681 | MsG0880046236.01.T01:CDS | 30.0% |
| !! | AGTAAGCTAAAAGCATCTTA+TGG | + | Chr8:70872889-70872908 | None:intergenic | 30.0% |
| ACACCAACTCTGCATATTTA+AGG | + | Chr8:70873396-70873415 | None:intergenic | 35.0% | |
| ACTTGATCGAGAAACAATAC+AGG | - | Chr8:70873354-70873373 | MsG0880046236.01.T01:intron | 35.0% | |
| CACCAACTCTGCATATTTAA+GGG | + | Chr8:70873395-70873414 | None:intergenic | 35.0% | |
| CATCATGTACATATCCTTCT+TGG | + | Chr8:70872705-70872724 | None:intergenic | 35.0% | |
| GCATCTTATGGACATATCAT+AGG | + | Chr8:70872877-70872896 | None:intergenic | 35.0% | |
| ! | TTGGAAATTGGTATTGAGTC+TGG | - | Chr8:70873135-70873154 | MsG0880046236.01.T01:intron | 35.0% |
| !! | AGGGTGCTTACTATTGTTTT+TGG | - | Chr8:70873063-70873082 | MsG0880046236.01.T01:CDS | 35.0% |
| !!! | ACTATCCTTTTTAAAGCAGC+GGG | - | Chr8:70873315-70873334 | MsG0880046236.01.T01:intron | 35.0% |
| !!! | GACTATCCTTTTTAAAGCAG+CGG | - | Chr8:70873314-70873333 | MsG0880046236.01.T01:intron | 35.0% |
| AAACACCTGTGAGACTCTTT+GGG | - | Chr8:70872834-70872853 | MsG0880046236.01.T01:intron | 40.0% | |
| AAAGGTTCTGTTACTGTAGC+AGG | - | Chr8:70873514-70873533 | MsG0880046236.01.T01:CDS | 40.0% | |
| AAGCTATCCTTGAGAGCTTA+TGG | + | Chr8:70872913-70872932 | None:intergenic | 40.0% | |
| AATGAGATAGGTGGAAAGCA+CGG | - | Chr8:70873216-70873235 | MsG0880046236.01.T01:intron | 40.0% | |
| AGCCCTTAAATATGCAGAGT+TGG | - | Chr8:70873390-70873409 | MsG0880046236.01.T01:intron | 40.0% | |
| ATATATAGTTGGGCCCTGTT+TGG | + | Chr8:70873012-70873031 | None:intergenic | 40.0% | |
| ATGGTTGAGAATAGGCTTGT+AGG | - | Chr8:70873255-70873274 | MsG0880046236.01.T01:intron | 40.0% | |
| CAAAGTAACAGAACCTGTTG+TGG | + | Chr8:70873485-70873504 | None:intergenic | 40.0% | |
| CGCAGTAATCTTCTGCATAA+AGG | + | Chr8:70873461-70873480 | None:intergenic | 40.0% | |
| CTTACTTCCATAAGCTCTCA+AGG | - | Chr8:70872903-70872922 | MsG0880046236.01.T01:intron | 40.0% | |
| GAGTTTATGAAACTCCTGGT+GGG | - | Chr8:70873292-70873311 | MsG0880046236.01.T01:intron | 40.0% | |
| TAAACACCTGTGAGACTCTT+TGG | - | Chr8:70872833-70872852 | MsG0880046236.01.T01:intron | 40.0% | |
| TATTCTCAACCATGTCGATC+CGG | + | Chr8:70873248-70873267 | None:intergenic | 40.0% | |
| TCTTGCCTATACAGGCTAAA+AGG | + | Chr8:70873550-70873569 | None:intergenic | 40.0% | |
| TGATGAGATCTTGCCTATAC+AGG | + | Chr8:70873558-70873577 | None:intergenic | 40.0% | |
| TTAAAAAGGATAGTCCCACC+AGG | + | Chr8:70873309-70873328 | None:intergenic | 40.0% | |
| ! | AGAGTCCTTTTAGCCTGTAT+AGG | - | Chr8:70873542-70873561 | MsG0880046236.01.T01:CDS | 40.0% |
| !! | AGGTGATATTTTGGAAGACC+CGG | - | Chr8:70872671-70872690 | MsG0880046236.01.T01:CDS | 40.0% |
| AAGATTACTGCGACCACAAC+AGG | - | Chr8:70873469-70873488 | MsG0880046236.01.T01:CDS | 45.0% | |
| ATCCTTCTTGGGTCATTAGC+CGG | + | Chr8:70872693-70872712 | None:intergenic | 45.0% | |
| CAGAGTAAGCTTCCTTCTCA+TGG | - | Chr8:70872756-70872775 | MsG0880046236.01.T01:CDS | 45.0% | |
| CAGGAGTTTCATAAACTCCG+CGG | + | Chr8:70873290-70873309 | None:intergenic | 45.0% | |
| CGTCTTGCCATTGAGTGAAA+CGG | + | Chr8:70873166-70873185 | None:intergenic | 45.0% | |
| GAAGCTTACTCTGCTTGATC+TGG | + | Chr8:70872749-70872768 | None:intergenic | 45.0% | |
| GGAGTTTATGAAACTCCTGG+TGG | - | Chr8:70873291-70873310 | MsG0880046236.01.T01:intron | 45.0% | |
| GGATCGACATGGTTGAGAAT+AGG | - | Chr8:70873247-70873266 | MsG0880046236.01.T01:intron | 45.0% | |
| GTACATGATGTCTGTAGACC+CGG | - | Chr8:70872715-70872734 | MsG0880046236.01.T01:CDS | 45.0% | |
| GTCTTGCCATTGAGTGAAAC+GGG | + | Chr8:70873165-70873184 | None:intergenic | 45.0% | |
| ! | AGTTGGTGTATGCTGGTAGA+TGG | - | Chr8:70873407-70873426 | MsG0880046236.01.T01:intron | 45.0% |
| ! | ATAGGTGGAAAGCACGGAAT+TGG | - | Chr8:70873222-70873241 | MsG0880046236.01.T01:intron | 45.0% |
| !! | CAACTCCCGCTGCTTTAAAA+AGG | + | Chr8:70873323-70873342 | None:intergenic | 45.0% |
| !! | TATGCAGAGTTGGTGTATGC+TGG | - | Chr8:70873400-70873419 | MsG0880046236.01.T01:intron | 45.0% |
| !!! | CTTTTTAAAGCAGCGGGAGT+TGG | - | Chr8:70873321-70873340 | MsG0880046236.01.T01:intron | 45.0% |
| AGCTCAGCGAGTAAAGTTGC+TGG | + | Chr8:70873195-70873214 | None:intergenic | 50.0% | |
| CGCGGAGTTTATGAAACTCC+TGG | - | Chr8:70873288-70873307 | MsG0880046236.01.T01:intron | 50.0% | |
| CTCGCTGAGCTCAATGAGAT+AGG | - | Chr8:70873204-70873223 | MsG0880046236.01.T01:intron | 50.0% | |
| GCTGAGCTCAATGAGATAGG+TGG | - | Chr8:70873207-70873226 | MsG0880046236.01.T01:intron | 50.0% | |
| GGACTTCCCGTTTCACTCAA+TGG | - | Chr8:70873156-70873175 | MsG0880046236.01.T01:intron | 50.0% | |
| GTTCTCCCAAAGAGTCTCAC+AGG | + | Chr8:70872842-70872861 | None:intergenic | 50.0% | |
| TCCTTCTTGGGTCATTAGCC+GGG | + | Chr8:70872692-70872711 | None:intergenic | 50.0% | |
| TGATCCACTTCGTGAGTCGA+TGG | - | Chr8:70873432-70873451 | MsG0880046236.01.T01:intron | 50.0% | |
| ACCCGGCTAATGACCCAAGA+AGG | - | Chr8:70872688-70872707 | MsG0880046236.01.T01:CDS | 55.0% | |
| CATGATGTCTGTAGACCCGG+AGG | - | Chr8:70872718-70872737 | MsG0880046236.01.T01:CDS | 55.0% | |
| CTTGTAGGCATGAAGAGCCG+CGG | - | Chr8:70873270-70873289 | MsG0880046236.01.T01:intron | 55.0% | |
| ! | CTTGATCTGGAGCATCCTCC+GGG | + | Chr8:70872736-70872755 | None:intergenic | 55.0% |
| ! | GCTTGATCTGGAGCATCCTC+CGG | + | Chr8:70872737-70872756 | None:intergenic | 55.0% |
| ! | GTGGAAAGCACGGAATTGGC+CGG | - | Chr8:70873226-70873245 | MsG0880046236.01.T01:intron | 55.0% |
| CGGAATTGGCCGGATCGACA+TGG | - | Chr8:70873236-70873255 | MsG0880046236.01.T01:intron | 60.0% | |
| !! | GCGTCCATCGACTCACGAAG+TGG | + | Chr8:70873439-70873458 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr8 | gene | 70872652 | 70873582 | 70872652 | ID=MsG0880046236.01;Name=MsG0880046236.01 |
| Chr8 | mRNA | 70872652 | 70873582 | 70872652 | ID=MsG0880046236.01.T01;Parent=MsG0880046236.01;Name=MsG0880046236.01.T01;_AED=0.44;_eAED=0.60;_QI=0|0|0|1|0.5|0.66|3|0|166 |
| Chr8 | exon | 70873437 | 70873582 | 70873437 | ID=MsG0880046236.01.T01:exon:15337;Parent=MsG0880046236.01.T01 |
| Chr8 | exon | 70872925 | 70873103 | 70872925 | ID=MsG0880046236.01.T01:exon:15336;Parent=MsG0880046236.01.T01 |
| Chr8 | exon | 70872652 | 70872827 | 70872652 | ID=MsG0880046236.01.T01:exon:15335;Parent=MsG0880046236.01.T01 |
| Chr8 | CDS | 70873437 | 70873582 | 70873437 | ID=MsG0880046236.01.T01:cds;Parent=MsG0880046236.01.T01 |
| Chr8 | CDS | 70872925 | 70873103 | 70872925 | ID=MsG0880046236.01.T01:cds;Parent=MsG0880046236.01.T01 |
| Chr8 | CDS | 70872652 | 70872827 | 70872652 | ID=MsG0880046236.01.T01:cds;Parent=MsG0880046236.01.T01 |
| Gene Sequence |
| Protein sequence |
