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.gene68060.t1 | XP_003612165.1 | 94.1 | 255 | 11 | 2 | 1 | 255 | 39 | 289 | 7.40E-105 | 390.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene68060.t1 | G7JW75 | 94.1 | 255 | 11 | 2 | 1 | 255 | 39 | 289 | 5.3e-105 | 390.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049596 | MS.gene68060 | 0.805077 | 1.59E-49 | -1.69E-46 |
| MS.gene049989 | MS.gene68060 | 0.801529 | 8.63E-49 | -1.69E-46 |
| MS.gene050071 | MS.gene68060 | 0.805215 | 1.49E-49 | -1.69E-46 |
| MS.gene050297 | MS.gene68060 | 0.850367 | 1.78E-60 | -1.69E-46 |
| MS.gene050648 | MS.gene68060 | 0.814049 | 1.88E-51 | -1.69E-46 |
| MS.gene053143 | MS.gene68060 | 0.821921 | 3.12E-53 | -1.69E-46 |
| MS.gene053171 | MS.gene68060 | 0.817218 | 3.70E-52 | -1.69E-46 |
| MS.gene054554 | MS.gene68060 | 0.801317 | 9.53E-49 | -1.69E-46 |
| MS.gene054585 | MS.gene68060 | 0.806777 | 6.98E-50 | -1.69E-46 |
| MS.gene054643 | MS.gene68060 | 0.846004 | 2.85E-59 | -1.69E-46 |
| MS.gene055221 | MS.gene68060 | 0.802933 | 4.44E-49 | -1.69E-46 |
| MS.gene055331 | MS.gene68060 | 0.832254 | 1.05E-55 | -1.69E-46 |
| MS.gene055764 | MS.gene68060 | 0.81591 | 7.26E-52 | -1.69E-46 |
| MS.gene057004 | MS.gene68060 | 0.812184 | 4.82E-51 | -1.69E-46 |
| MS.gene05870 | MS.gene68060 | 0.840078 | 1.08E-57 | -1.69E-46 |
| MS.gene059300 | MS.gene68060 | 0.82627 | 2.97E-54 | -1.69E-46 |
| MS.gene059778 | MS.gene68060 | 0.844811 | 6.00E-59 | -1.69E-46 |
| MS.gene060359 | MS.gene68060 | 0.823394 | 1.42E-53 | -1.69E-46 |
| MS.gene06057 | MS.gene68060 | 0.837167 | 6.10E-57 | -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.gene68060.t1 | MTR_5g022010 | 91.765 | 255 | 17 | 2 | 1 | 255 | 39 | 289 | 8.54e-151 | 422 |
| MS.gene68060.t1 | MTR_8g075950 | 49.315 | 292 | 95 | 9 | 1 | 250 | 59 | 339 | 2.31e-59 | 191 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene68060.t1 | AT5G66230 | 41.216 | 296 | 108 | 12 | 1 | 248 | 52 | 329 | 1.41e-39 | 140 |
| MS.gene68060.t1 | AT5G66230 | 41.216 | 296 | 108 | 12 | 1 | 248 | 268 | 545 | 2.78e-38 | 140 |
| MS.gene68060.t1 | AT3G51230 | 61.404 | 57 | 15 | 2 | 1 | 53 | 53 | 106 | 1.56e-14 | 70.5 |
Find 50 sgRNAs with CRISPR-Local
Find 76 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTCAAATTCAGAGTCTTTC+TGG | 0.117151 | 5.3:-12864593 | MS.gene68060:CDS |
| AAACGAAGATGTTTCCCTTT+TGG | 0.292026 | 5.3:+12863551 | None:intergenic |
| TCACCAATTGTGGGTCTTGC+TGG | 0.314090 | 5.3:-12864743 | MS.gene68060:CDS |
| ATGATGGCAGGTGGTGAAAA+TGG | 0.338531 | 5.3:-12864029 | MS.gene68060:intron |
| CTCTGAGAAGTCAAGGGACT+TGG | 0.360313 | 5.3:+12863970 | None:intergenic |
| CCAGAAAGACTCTGAATTTG+AGG | 0.370802 | 5.3:+12864593 | None:intergenic |
| CCATTCAAATGCAACACATT+AGG | 0.397139 | 5.3:+12863584 | None:intergenic |
| TAGATGAAGATGCTTCTATC+TGG | 0.397277 | 5.3:-12863880 | MS.gene68060:CDS |
| CCTAATGTGTTGCATTTGAA+TGG | 0.401214 | 5.3:-12863584 | MS.gene68060:CDS |
| CTTCTTCAACCATCTGCATA+AGG | 0.410420 | 5.3:+12864624 | None:intergenic |
| AAGGTGGTTCCAAAATTTGC+TGG | 0.416494 | 5.3:-12863686 | MS.gene68060:CDS |
| AATGGATTACCAACACCAAA+AGG | 0.428502 | 5.3:-12863566 | MS.gene68060:CDS |
| TCAACAACAATCAATTTCTC+AGG | 0.429312 | 5.3:-12864543 | MS.gene68060:intron |
| GACAAATGATTCACCAATTG+TGG | 0.435186 | 5.3:-12864753 | MS.gene68060:CDS |
| TTCTTCAACCATCTGCATAA+GGG | 0.467939 | 5.3:+12864625 | None:intergenic |
| AGCAAAGCTTCACCAGATCC+TGG | 0.479015 | 5.3:+12864665 | None:intergenic |
| AGATGATGTGGAGGAAGAAA+TGG | 0.496240 | 5.3:-12863825 | MS.gene68060:CDS |
| CCACCAGCAAGACCCACAAT+TGG | 0.497063 | 5.3:+12864740 | None:intergenic |
| GTGAAGAACACACCAGGATC+TGG | 0.501240 | 5.3:-12864677 | MS.gene68060:CDS |
| GAGATTTCTCTGAGAAGTCA+AGG | 0.515939 | 5.3:+12863963 | None:intergenic |
| TATGCAGATGGTTGAAGAAG+AGG | 0.527703 | 5.3:-12864621 | MS.gene68060:CDS |
| CTACCTCTTTGTTTCGCAGA+CGG | 0.551296 | 5.3:+12864704 | None:intergenic |
| GTGACAGAAGGAAGTGTGGT+TGG | 0.552956 | 5.3:-12863914 | MS.gene68060:CDS |
| ATCTGGTGAAGCTTTGCTGA+GGG | 0.555103 | 5.3:-12864660 | MS.gene68060:CDS |
| CAACATTAGAGTGAATGAAA+AGG | 0.556085 | 5.3:-12863705 | MS.gene68060:CDS |
| AGATTTCTCTGAGAAGTCAA+GGG | 0.560895 | 5.3:+12863964 | None:intergenic |
| ATGGATTACCAACACCAAAA+GGG | 0.569636 | 5.3:-12863565 | MS.gene68060:CDS |
| CCAATTGTGGGTCTTGCTGG+TGG | 0.574159 | 5.3:-12864740 | MS.gene68060:CDS |
| TTTCATATTCACAGCTACCT+TGG | 0.574412 | 5.3:+12864005 | None:intergenic |
| GGCTTGATGAACTGTGTGAA+GGG | 0.581098 | 5.3:-12863733 | MS.gene68060:CDS |
| TGATGAACTTGTGAATGAAG+TGG | 0.585794 | 5.3:-12863633 | MS.gene68060:CDS |
| ACACCGTCTGCGAAACAAAG+AGG | 0.595726 | 5.3:-12864707 | MS.gene68060:CDS |
| ACAAATGATTCACCAATTGT+GGG | 0.597784 | 5.3:-12864752 | MS.gene68060:CDS |
| CAACAATGATGAAGATGATG+TGG | 0.602585 | 5.3:-12863837 | MS.gene68060:CDS |
| AGTGAAGACCCTTATGCAGA+TGG | 0.608040 | 5.3:-12864633 | MS.gene68060:CDS |
| GGGCTTGATGAACTGTGTGA+AGG | 0.612048 | 5.3:-12863734 | MS.gene68060:CDS |
| CATTAGAGTGAATGAAAAGG+TGG | 0.614379 | 5.3:-12863702 | MS.gene68060:CDS |
| TGCACCTCTGAGGTGACAGA+AGG | 0.618247 | 5.3:-12863926 | MS.gene68060:CDS |
| ATCCTGGTGTGTTCTTCACA+CGG | 0.624024 | 5.3:+12864681 | None:intergenic |
| CAATGATGAAGATGATGTGG+AGG | 0.630227 | 5.3:-12863834 | MS.gene68060:CDS |
| ACTTCCTTCTGTCACCTCAG+AGG | 0.635704 | 5.3:+12863922 | None:intergenic |
| TGTGGAGGAAGAAATGGCTG+AGG | 0.640763 | 5.3:-12863819 | MS.gene68060:CDS |
| GATCTGGTGAAGCTTTGCTG+AGG | 0.645257 | 5.3:-12864661 | MS.gene68060:CDS |
| AGCCGTGTGAAGAACACACC+AGG | 0.662563 | 5.3:-12864683 | MS.gene68060:CDS |
| ATCAGAAGAATGCACCTCTG+AGG | 0.671388 | 5.3:-12863936 | MS.gene68060:CDS |
| TCTGGTGAAGCTTTGCTGAG+GGG | 0.673835 | 5.3:-12864659 | MS.gene68060:CDS |
| AATTTGCTGGAAAACACACA+AGG | 0.675885 | 5.3:-12863673 | MS.gene68060:CDS |
| TGAACTTGTGAATGAAGTGG+AGG | 0.693057 | 5.3:-12863630 | MS.gene68060:CDS |
| TGAGGTGACAGAAGGAAGTG+TGG | 0.713802 | 5.3:-12863918 | MS.gene68060:CDS |
| CAGGTGGTGAAAATGGACCA+AGG | 0.731969 | 5.3:-12864022 | MS.gene68060:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTATATTTTTCTGAAATTTT+AGG | - | chr5.3:12863927-12863946 | MS.gene68060:CDS | 10.0% |
| !! | ACTTTATAGATTATATATCT+AGG | + | chr5.3:12864079-12864098 | None:intergenic | 15.0% |
| !!! | TTATTTCATGAATTTTTCTT+TGG | + | chr5.3:12863777-12863796 | None:intergenic | 15.0% |
| !! | AAAAAGAAGAAGATTATGAA+GGG | - | chr5.3:12864521-12864540 | MS.gene68060:intron | 20.0% |
| !! | ATAAGATCTCAATTTAATGA+TGG | - | chr5.3:12864230-12864249 | MS.gene68060:intron | 20.0% |
| !!! | TCAATTGCTTTTGAAAAAAA+TGG | - | chr5.3:12864045-12864064 | MS.gene68060:intron | 20.0% |
| !!! | TTTTGAAAAAAATGGAGATT+TGG | - | chr5.3:12864053-12864072 | MS.gene68060:intron | 20.0% |
| ! | AACATAAAGATTTCAACTAC+TGG | + | chr5.3:12863905-12863924 | None:intergenic | 25.0% |
| ! | ACATGTGAGTTTCAATAAAA+TGG | + | chr5.3:12863873-12863892 | None:intergenic | 25.0% |
| ! | CACTTAATGAACTATTTATG+TGG | - | chr5.3:12864111-12864130 | MS.gene68060:intron | 25.0% |
| ! | CATAAATAGTTCATTAAGTG+AGG | + | chr5.3:12864111-12864130 | None:intergenic | 25.0% |
| ! | CATGTGAGTTTCAATAAAAT+GGG | + | chr5.3:12863872-12863891 | None:intergenic | 25.0% |
| ! | GAAAAAGAAGAAGATTATGA+AGG | - | chr5.3:12864520-12864539 | MS.gene68060:intron | 25.0% |
| !! | CATGAATTTTTCTTTGGTTA+GGG | + | chr5.3:12863771-12863790 | None:intergenic | 25.0% |
| !! | TCATGAATTTTTCTTTGGTT+AGG | + | chr5.3:12863772-12863791 | None:intergenic | 25.0% |
| !!! | GCAAGTCTTTTTAATTAGTT+TGG | - | chr5.3:12863845-12863864 | MS.gene68060:CDS | 25.0% |
| ACAAATGATTCACCAATTGT+GGG | - | chr5.3:12863523-12863542 | MS.gene68060:CDS | 30.0% | |
| CAACATTAGAGTGAATGAAA+AGG | - | chr5.3:12864570-12864589 | MS.gene68060:CDS | 30.0% | |
| TCAACAACAATCAATTTCTC+AGG | - | chr5.3:12863732-12863751 | MS.gene68060:CDS | 30.0% | |
| ! | AGTGATTGTATAAAGTGTCT+TGG | - | chr5.3:12864170-12864189 | MS.gene68060:intron | 30.0% |
| CAACAATGATGAAGATGATG+TGG | - | chr5.3:12864438-12864457 | MS.gene68060:intron | 35.0% | |
| CATTAGAGTGAATGAAAAGG+TGG | - | chr5.3:12864573-12864592 | MS.gene68060:CDS | 35.0% | |
| CCATTCAAATGCAACACATT+AGG | + | chr5.3:12864694-12864713 | None:intergenic | 35.0% | |
| CCTAATGTGTTGCATTTGAA+TGG | - | chr5.3:12864691-12864710 | MS.gene68060:CDS | 35.0% | |
| GACAAATGATTCACCAATTG+TGG | - | chr5.3:12863522-12863541 | MS.gene68060:CDS | 35.0% | |
| GATCTCAATTTAATGATGGC+AGG | - | chr5.3:12864234-12864253 | MS.gene68060:intron | 35.0% | |
| TAGATGAAGATGCTTCTATC+TGG | - | chr5.3:12864395-12864414 | MS.gene68060:intron | 35.0% | |
| TGATGAACTTGTGAATGAAG+TGG | - | chr5.3:12864642-12864661 | MS.gene68060:CDS | 35.0% | |
| TTCTTCAACCATCTGCATAA+GGG | + | chr5.3:12863653-12863672 | None:intergenic | 35.0% | |
| TTTCATATTCACAGCTACCT+TGG | + | chr5.3:12864273-12864292 | None:intergenic | 35.0% | |
| ! | AAACGAAGATGTTTCCCTTT+TGG | + | chr5.3:12864727-12864746 | None:intergenic | 35.0% |
| ! | AGATTTCTCTGAGAAGTCAA+GGG | + | chr5.3:12864314-12864333 | None:intergenic | 35.0% |
| ! | ATGGATTACCAACACCAAAA+GGG | - | chr5.3:12864710-12864729 | MS.gene68060:CDS | 35.0% |
| ! | GTGTGTTTTCCAGCAAATTT+TGG | + | chr5.3:12864601-12864620 | None:intergenic | 35.0% |
| ! | TGTCTTGGTAGCATAATTTG+TGG | - | chr5.3:12864185-12864204 | MS.gene68060:intron | 35.0% |
| !! | AATGGATTACCAACACCAAA+AGG | - | chr5.3:12864709-12864728 | MS.gene68060:CDS | 35.0% |
| !! | AATTTGCTGGAAAACACACA+AGG | - | chr5.3:12864602-12864621 | MS.gene68060:CDS | 35.0% |
| !! | GAAACATCTTCGTTTTTCTG+AGG | - | chr5.3:12864732-12864751 | MS.gene68060:CDS | 35.0% |
| AAGGTGGTTCCAAAATTTGC+TGG | - | chr5.3:12864589-12864608 | MS.gene68060:CDS | 40.0% | |
| AGATGATGTGGAGGAAGAAA+TGG | - | chr5.3:12864450-12864469 | MS.gene68060:intron | 40.0% | |
| CAATGATGAAGATGATGTGG+AGG | - | chr5.3:12864441-12864460 | MS.gene68060:intron | 40.0% | |
| CCAGAAAGACTCTGAATTTG+AGG | + | chr5.3:12863685-12863704 | None:intergenic | 40.0% | |
| CCTCAAATTCAGAGTCTTTC+TGG | - | chr5.3:12863682-12863701 | MS.gene68060:CDS | 40.0% | |
| CTCAATTTAATGATGGCAGG+TGG | - | chr5.3:12864237-12864256 | MS.gene68060:intron | 40.0% | |
| CTTCTTCAACCATCTGCATA+AGG | + | chr5.3:12863654-12863673 | None:intergenic | 40.0% | |
| TATGCAGATGGTTGAAGAAG+AGG | - | chr5.3:12863654-12863673 | MS.gene68060:CDS | 40.0% | |
| TGAACTTGTGAATGAAGTGG+AGG | - | chr5.3:12864645-12864664 | MS.gene68060:CDS | 40.0% | |
| ! | GAGATTTCTCTGAGAAGTCA+AGG | + | chr5.3:12864315-12864334 | None:intergenic | 40.0% |
| !! | ACATCTTCGTTTTTCTGAGG+AGG | - | chr5.3:12864735-12864754 | MS.gene68060:CDS | 40.0% |
| !! | AGATGTTTCCCTTTTGGTGT+TGG | + | chr5.3:12864721-12864740 | None:intergenic | 40.0% |
| AGTGAAGACCCTTATGCAGA+TGG | - | chr5.3:12863642-12863661 | MS.gene68060:CDS | 45.0% | |
| ATCAGAAGAATGCACCTCTG+AGG | - | chr5.3:12864339-12864358 | MS.gene68060:intron | 45.0% | |
| ATCCTGGTGTGTTCTTCACA+CGG | + | chr5.3:12863597-12863616 | None:intergenic | 45.0% | |
| ATCTGGTGAAGCTTTGCTGA+GGG | - | chr5.3:12863615-12863634 | MS.gene68060:CDS | 45.0% | |
| ATGATGGCAGGTGGTGAAAA+TGG | - | chr5.3:12864246-12864265 | MS.gene68060:intron | 45.0% | |
| GGCTTGATGAACTGTGTGAA+GGG | - | chr5.3:12864542-12864561 | MS.gene68060:intron | 45.0% | |
| ! | CTACCTCTTTGTTTCGCAGA+CGG | + | chr5.3:12863574-12863593 | None:intergenic | 45.0% |
| !! | TCGTTTTTCTGAGGAGGAAG+AGG | - | chr5.3:12864741-12864760 | MS.gene68060:CDS | 45.0% |
| !! | TTTTCTGAGGAGGAAGAGGA+AGG | - | chr5.3:12864745-12864764 | MS.gene68060:CDS | 45.0% |
| ACACCGTCTGCGAAACAAAG+AGG | - | chr5.3:12863568-12863587 | MS.gene68060:CDS | 50.0% | |
| ACTTCCTTCTGTCACCTCAG+AGG | + | chr5.3:12864356-12864375 | None:intergenic | 50.0% | |
| AGCAAAGCTTCACCAGATCC+TGG | + | chr5.3:12863613-12863632 | None:intergenic | 50.0% | |
| CAGGTGGTGAAAATGGACCA+AGG | - | chr5.3:12864253-12864272 | MS.gene68060:intron | 50.0% | |
| GATCTGGTGAAGCTTTGCTG+AGG | - | chr5.3:12863614-12863633 | MS.gene68060:CDS | 50.0% | |
| GGGCTTGATGAACTGTGTGA+AGG | - | chr5.3:12864541-12864560 | MS.gene68060:intron | 50.0% | |
| GTGAAGAACACACCAGGATC+TGG | - | chr5.3:12863598-12863617 | MS.gene68060:CDS | 50.0% | |
| TCACCAATTGTGGGTCTTGC+TGG | - | chr5.3:12863532-12863551 | MS.gene68060:CDS | 50.0% | |
| TCTGGTGAAGCTTTGCTGAG+GGG | - | chr5.3:12863616-12863635 | MS.gene68060:CDS | 50.0% | |
| TGAGGTGACAGAAGGAAGTG+TGG | - | chr5.3:12864357-12864376 | MS.gene68060:intron | 50.0% | |
| TGTGGAGGAAGAAATGGCTG+AGG | - | chr5.3:12864456-12864475 | MS.gene68060:intron | 50.0% | |
| ! | CTCTGAGAAGTCAAGGGACT+TGG | + | chr5.3:12864308-12864327 | None:intergenic | 50.0% |
| ! | GTGACAGAAGGAAGTGTGGT+TGG | - | chr5.3:12864361-12864380 | MS.gene68060:intron | 50.0% |
| AGCCGTGTGAAGAACACACC+AGG | - | chr5.3:12863592-12863611 | MS.gene68060:CDS | 55.0% | |
| CCAATTGTGGGTCTTGCTGG+TGG | - | chr5.3:12863535-12863554 | MS.gene68060:CDS | 55.0% | |
| CCACCAGCAAGACCCACAAT+TGG | + | chr5.3:12863538-12863557 | None:intergenic | 55.0% | |
| !! | TGCACCTCTGAGGTGACAGA+AGG | - | chr5.3:12864349-12864368 | MS.gene68060:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.3 | gene | 12863514 | 12864783 | 12863514 | ID=MS.gene68060 |
| chr5.3 | mRNA | 12863514 | 12864783 | 12863514 | ID=MS.gene68060.t1;Parent=MS.gene68060 |
| chr5.3 | exon | 12864544 | 12864783 | 12864544 | ID=MS.gene68060.t1.exon1;Parent=MS.gene68060.t1 |
| chr5.3 | CDS | 12864544 | 12864783 | 12864544 | ID=cds.MS.gene68060.t1;Parent=MS.gene68060.t1 |
| chr5.3 | exon | 12863514 | 12864041 | 12863514 | ID=MS.gene68060.t1.exon2;Parent=MS.gene68060.t1 |
| chr5.3 | CDS | 12863514 | 12864041 | 12863514 | ID=cds.MS.gene68060.t1;Parent=MS.gene68060.t1 |
| Gene Sequence |
| Protein sequence |
