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.gene75604.t1 | XP_003601792.1 | 94.5 | 128 | 6 | 1 | 1 | 128 | 18 | 144 | 1.10E-53 | 219.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene75604.t1 | Q9XE33 | 35.8 | 106 | 64 | 3 | 4 | 108 | 79 | 181 | 9.3e-06 | 51.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene75604.t1 | G7JC00 | 94.5 | 128 | 6 | 1 | 1 | 128 | 18 | 144 | 7.7e-54 | 219.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene75604.t1 | TF | NF-YC |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049142 | MS.gene75604 | 0.817977 | 2.49E-52 | -1.69E-46 |
| MS.gene049255 | MS.gene75604 | 0.82376 | 1.16E-53 | -1.69E-46 |
| MS.gene049341 | MS.gene75604 | 0.804356 | 2.25E-49 | -1.69E-46 |
| MS.gene049350 | MS.gene75604 | 0.817595 | 3.04E-52 | -1.69E-46 |
| MS.gene049807 | MS.gene75604 | 0.826681 | 2.37E-54 | -1.69E-46 |
| MS.gene049821 | MS.gene75604 | 0.847929 | 8.47E-60 | -1.69E-46 |
| MS.gene049850 | MS.gene75604 | 0.806472 | 8.09E-50 | -1.69E-46 |
| MS.gene049887 | MS.gene75604 | 0.851553 | 8.23E-61 | -1.69E-46 |
| MS.gene050020 | MS.gene75604 | 0.82475 | 6.82E-54 | -1.69E-46 |
| MS.gene050437 | MS.gene75604 | 0.8223 | 2.55E-53 | -1.69E-46 |
| MS.gene050585 | MS.gene75604 | 0.807038 | 6.14E-50 | -1.69E-46 |
| MS.gene050689 | MS.gene75604 | 0.836689 | 8.08E-57 | -1.69E-46 |
| MS.gene050752 | MS.gene75604 | 0.804526 | 2.07E-49 | -1.69E-46 |
| MS.gene050807 | MS.gene75604 | 0.862958 | 3.50E-64 | -1.69E-46 |
| MS.gene050808 | MS.gene75604 | 0.832628 | 8.48E-56 | -1.69E-46 |
| MS.gene050838 | MS.gene75604 | 0.860891 | 1.51E-63 | -1.69E-46 |
| MS.gene050901 | MS.gene75604 | 0.837865 | 4.04E-57 | -1.69E-46 |
| MS.gene051003 | MS.gene75604 | 0.801845 | 7.43E-49 | -1.69E-46 |
| MS.gene051234 | MS.gene75604 | 0.838019 | 3.69E-57 | -1.69E-46 |
| MS.gene051328 | MS.gene75604 | 0.843851 | 1.09E-58 | -1.69E-46 |
| MS.gene051343 | MS.gene75604 | 0.806294 | 8.82E-50 | -1.69E-46 |
| MS.gene05157 | MS.gene75604 | 0.827728 | 1.33E-54 | -1.69E-46 |
| MS.gene051700 | MS.gene75604 | 0.807557 | 4.77E-50 | -1.69E-46 |
| MS.gene051719 | MS.gene75604 | 0.818548 | 1.85E-52 | -1.69E-46 |
| MS.gene051720 | MS.gene75604 | 0.837507 | 4.99E-57 | -1.69E-46 |
| MS.gene052133 | MS.gene75604 | 0.874185 | 8.23E-68 | -1.69E-46 |
| MS.gene052335 | MS.gene75604 | 0.848044 | 7.88E-60 | -1.69E-46 |
| MS.gene052397 | MS.gene75604 | 0.819253 | 1.28E-52 | -1.69E-46 |
| MS.gene052516 | MS.gene75604 | 0.849553 | 3.00E-60 | -1.69E-46 |
| MS.gene052665 | MS.gene75604 | 0.840631 | 7.74E-58 | -1.69E-46 |
| MS.gene052732 | MS.gene75604 | 0.823597 | 1.27E-53 | -1.69E-46 |
| MS.gene052947 | MS.gene75604 | 0.831483 | 1.63E-55 | -1.69E-46 |
| MS.gene053122 | MS.gene75604 | 0.801231 | 9.93E-49 | -1.69E-46 |
| MS.gene053143 | MS.gene75604 | 0.829987 | 3.78E-55 | -1.69E-46 |
| MS.gene053144 | MS.gene75604 | 0.839819 | 1.26E-57 | -1.69E-46 |
| MS.gene053171 | MS.gene75604 | 0.815623 | 8.41E-52 | -1.69E-46 |
| MS.gene053174 | MS.gene75604 | 0.809503 | 1.83E-50 | -1.69E-46 |
| MS.gene053563 | MS.gene75604 | 0.821613 | 3.68E-53 | -1.69E-46 |
| MS.gene053581 | MS.gene75604 | 0.890224 | 1.20E-73 | -1.69E-46 |
| MS.gene05364 | MS.gene75604 | 0.808116 | 3.63E-50 | -1.69E-46 |
| MS.gene054403 | MS.gene75604 | 0.801249 | 9.84E-49 | -1.69E-46 |
| MS.gene054550 | MS.gene75604 | 0.806675 | 7.33E-50 | -1.69E-46 |
| MS.gene054554 | MS.gene75604 | 0.802449 | 5.58E-49 | -1.69E-46 |
| MS.gene054584 | MS.gene75604 | 0.82873 | 7.64E-55 | -1.69E-46 |
| MS.gene054824 | MS.gene75604 | 0.803235 | 3.84E-49 | -1.69E-46 |
| MS.gene055465 | MS.gene75604 | 0.856073 | 4.11E-62 | -1.69E-46 |
| MS.gene055466 | MS.gene75604 | 0.845833 | 3.17E-59 | -1.69E-46 |
| MS.gene055467 | MS.gene75604 | 0.802512 | 5.42E-49 | -1.69E-46 |
| MS.gene055468 | MS.gene75604 | 0.860321 | 2.24E-63 | -1.69E-46 |
| MS.gene055469 | MS.gene75604 | 0.850877 | 1.28E-60 | -1.69E-46 |
| MS.gene055512 | MS.gene75604 | 0.824668 | 7.12E-54 | -1.69E-46 |
| MS.gene055513 | MS.gene75604 | 0.817712 | 2.86E-52 | -1.69E-46 |
| MS.gene055537 | MS.gene75604 | 0.810562 | 1.08E-50 | -1.69E-46 |
| MS.gene055580 | MS.gene75604 | -0.847947 | 8.38E-60 | -1.69E-46 |
| MS.gene055891 | MS.gene75604 | 0.825909 | 3.62E-54 | -1.69E-46 |
| MS.gene055912 | MS.gene75604 | 0.822106 | 2.83E-53 | -1.69E-46 |
| MS.gene056005 | MS.gene75604 | 0.850059 | 2.17E-60 | -1.69E-46 |
| MS.gene056043 | MS.gene75604 | -0.844088 | 9.39E-59 | -1.69E-46 |
| MS.gene056308 | MS.gene75604 | 0.837874 | 4.02E-57 | -1.69E-46 |
| MS.gene057057 | MS.gene75604 | 0.81667 | 4.91E-52 | -1.69E-46 |
| MS.gene057446 | MS.gene75604 | 0.814815 | 1.27E-51 | -1.69E-46 |
| MS.gene057694 | MS.gene75604 | 0.812314 | 4.51E-51 | -1.69E-46 |
| MS.gene057705 | MS.gene75604 | 0.830371 | 3.05E-55 | -1.69E-46 |
| MS.gene058339 | MS.gene75604 | 0.801454 | 8.93E-49 | -1.69E-46 |
| MS.gene05870 | MS.gene75604 | 0.812722 | 3.67E-51 | -1.69E-46 |
| MS.gene058852 | MS.gene75604 | 0.836144 | 1.11E-56 | -1.69E-46 |
| MS.gene059171 | MS.gene75604 | 0.825438 | 4.69E-54 | -1.69E-46 |
| MS.gene059725 | MS.gene75604 | 0.81045 | 1.15E-50 | -1.69E-46 |
| MS.gene05978 | MS.gene75604 | 0.825134 | 5.53E-54 | -1.69E-46 |
| MS.gene059937 | MS.gene75604 | 0.810029 | 1.41E-50 | -1.69E-46 |
| MS.gene060429 | MS.gene75604 | 0.802527 | 5.38E-49 | -1.69E-46 |
| MS.gene060519 | MS.gene75604 | 0.814349 | 1.61E-51 | -1.69E-46 |
| MS.gene060587 | MS.gene75604 | 0.827928 | 1.19E-54 | -1.69E-46 |
| MS.gene061006 | MS.gene75604 | 0.845888 | 3.07E-59 | -1.69E-46 |
| MS.gene061100 | MS.gene75604 | 0.811883 | 5.60E-51 | -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.gene75604.t1 | MTR_3g085430 | 92.424 | 132 | 9 | 1 | 1 | 132 | 18 | 148 | 2.04e-80 | 235 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene75604.t1 | AT5G43250 | 57.143 | 133 | 51 | 3 | 3 | 134 | 2 | 129 | 4.75e-44 | 142 |
| MS.gene75604.t1 | AT3G12480 | 38.961 | 77 | 46 | 1 | 11 | 87 | 5 | 80 | 3.49e-11 | 60.1 |
| MS.gene75604.t1 | AT1G08970 | 34.400 | 125 | 72 | 4 | 3 | 118 | 68 | 191 | 3.76e-11 | 59.7 |
| MS.gene75604.t1 | AT1G08970 | 34.400 | 125 | 72 | 4 | 3 | 118 | 68 | 191 | 3.76e-11 | 59.7 |
| MS.gene75604.t1 | AT1G08970 | 34.400 | 125 | 72 | 4 | 3 | 118 | 68 | 191 | 3.76e-11 | 59.7 |
| MS.gene75604.t1 | AT1G08970 | 34.400 | 125 | 72 | 4 | 3 | 118 | 68 | 191 | 3.76e-11 | 59.7 |
Find 45 sgRNAs with CRISPR-Local
Find 41 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCCTCCATGGGTTCCGGTTC+AGG | 0.246040 | 3.3:-71328861 | None:intergenic |
| TCGAGTAGAAAATCACTTAT+TGG | 0.284969 | 3.3:-71328660 | None:intergenic |
| CAACTTCGGCTTCAGACTTT+CGG | 0.357492 | 3.3:-71328791 | None:intergenic |
| ATGGGTTCCGGTTCAGGTTC+AGG | 0.371834 | 3.3:-71328855 | None:intergenic |
| GAGTTCAGAAGCGTTGTTCT+TGG | 0.377847 | 3.3:+71328515 | MS.gene75604:CDS |
| TCAGGTTCCGACTCAGGTTC+CGG | 0.385853 | 3.3:-71328837 | None:intergenic |
| TATGCCTCCTCCATGGGTTC+CGG | 0.409906 | 3.3:-71328867 | None:intergenic |
| ATCTTCTTCACTCTACTCTT+CGG | 0.421448 | 3.3:-71328462 | None:intergenic |
| CGATCCGCAACCGCCGCCGC+TGG | 0.421993 | 3.3:-71328723 | None:intergenic |
| GTACCAACCGGAACAGATTT+AGG | 0.424572 | 3.3:-71328747 | None:intergenic |
| GTCGGAACCTGAACCTGAAC+CGG | 0.433867 | 3.3:+71328848 | MS.gene75604:CDS |
| GGATCGGCCTAAATCTGTTC+CGG | 0.447912 | 3.3:+71328740 | MS.gene75604:CDS |
| GTTCTTGGTGTCACGATCTA+CGG | 0.459375 | 3.3:+71328530 | MS.gene75604:CDS |
| TCCGACTCAGGTTCCGGCGG+TGG | 0.464476 | 3.3:-71328831 | None:intergenic |
| CAGCGGCGGCGGTTGCGGAT+CGG | 0.466428 | 3.3:+71328724 | MS.gene75604:CDS |
| TAAACCAGCGGCGGCGGTTG+CGG | 0.474107 | 3.3:+71328719 | MS.gene75604:CDS |
| ATCTGATAAACCAGCGGCGG+CGG | 0.487271 | 3.3:+71328713 | MS.gene75604:CDS |
| TCAGGTTCAGGTTCCGACTC+AGG | 0.489777 | 3.3:-71328843 | None:intergenic |
| CACAACCTATGCCTCCTCCA+TGG | 0.514005 | 3.3:-71328874 | None:intergenic |
| ACTCTACTCTTCGGAAACTC+TGG | 0.522689 | 3.3:-71328453 | None:intergenic |
| TCAATGCGGCGAGTACCAAC+CGG | 0.541474 | 3.3:-71328759 | None:intergenic |
| ACAACCTATGCCTCCTCCAT+GGG | 0.542610 | 3.3:-71328873 | None:intergenic |
| CTCTGGACAAAGACGTGAAG+AGG | 0.546039 | 3.3:+71328490 | MS.gene75604:CDS |
| TTCGCAGTTTCCGACGGCAT+CGG | 0.549112 | 3.3:-71328690 | None:intergenic |
| AATTGCAATTGTTATGGCAG+AGG | 0.550560 | 3.3:+71328404 | None:intergenic |
| TTGCGCTTGAGCATCAACTT+CGG | 0.551263 | 3.3:-71328805 | None:intergenic |
| GGAACCCATGGAGGAGGCAT+AGG | 0.556067 | 3.3:+71328869 | MS.gene75604:CDS |
| TCAGATTTCGCAGTTTCCGA+CGG | 0.560923 | 3.3:-71328696 | None:intergenic |
| GTAGAAAATCACTTATTGGA+CGG | 0.569952 | 3.3:-71328656 | None:intergenic |
| TGAACCTGAACCGGAACCCA+TGG | 0.579146 | 3.3:+71328857 | MS.gene75604:CDS |
| TCAAGCGCAAGCGCCACCGC+CGG | 0.588095 | 3.3:+71328818 | MS.gene75604:CDS |
| CGGCCTAAATCTGTTCCGGT+TGG | 0.590306 | 3.3:+71328744 | MS.gene75604:CDS |
| AGTGAAGAAGATAATCACTC+TGG | 0.599750 | 3.3:+71328473 | MS.gene75604:CDS |
| TGAACCGGAACCCATGGAGG+AGG | 0.608400 | 3.3:+71328863 | MS.gene75604:CDS |
| GCCACCGCCGGAACCTGAGT+CGG | 0.613247 | 3.3:+71328830 | MS.gene75604:CDS |
| TCTGGACAAAGACGTGAAGA+GGG | 0.629567 | 3.3:+71328491 | MS.gene75604:CDS |
| CGATTCGCTTCCGATGCCGT+CGG | 0.664511 | 3.3:+71328680 | MS.gene75604:CDS |
| ACCTGAACCGGAACCCATGG+AGG | 0.681479 | 3.3:+71328860 | MS.gene75604:CDS |
| GGTTCCGACTCAGGTTCCGG+CGG | 0.689237 | 3.3:-71328834 | None:intergenic |
| TATTGAGAAGAAGCGCAAGA+CGG | 0.692763 | 3.3:+71328596 | MS.gene75604:CDS |
| GTTACTTGCTGAAAAGTCTG+CGG | 0.696867 | 3.3:+71328566 | MS.gene75604:CDS |
| GCTTGAACATATAAGAATCG+CGG | 0.698334 | 3.3:+71328623 | MS.gene75604:CDS |
| GAAATCTGATAAACCAGCGG+CGG | 0.702085 | 3.3:+71328710 | MS.gene75604:CDS |
| TGCGAAATCTGATAAACCAG+CGG | 0.703898 | 3.3:+71328707 | MS.gene75604:CDS |
| TTCGGAAGATCTGATCAATG+CGG | 0.759168 | 3.3:-71328773 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GTAGAAAATCACTTATTGGA+CGG | - | chr3.3:71328659-71328678 | None:intergenic | 30.0% | |
| TCGAGTAGAAAATCACTTAT+TGG | - | chr3.3:71328663-71328682 | None:intergenic | 30.0% | |
| AGTGAAGAAGATAATCACTC+TGG | + | chr3.3:71328473-71328492 | MS.gene75604:CDS | 35.0% | |
| ATCTTCTTCACTCTACTCTT+CGG | - | chr3.3:71328465-71328484 | None:intergenic | 35.0% | |
| GCTTGAACATATAAGAATCG+CGG | + | chr3.3:71328623-71328642 | MS.gene75604:CDS | 35.0% | |
| TGCGAAATCTGATAAACCAG+CGG | + | chr3.3:71328707-71328726 | MS.gene75604:CDS | 40.0% | |
| TTCGGAAGATCTGATCAATG+CGG | - | chr3.3:71328776-71328795 | None:intergenic | 40.0% | |
| ! | GTTACTTGCTGAAAAGTCTG+CGG | + | chr3.3:71328566-71328585 | MS.gene75604:CDS | 40.0% |
| ! | TATTGAGAAGAAGCGCAAGA+CGG | + | chr3.3:71328596-71328615 | MS.gene75604:CDS | 40.0% |
| ACTCTACTCTTCGGAAACTC+TGG | - | chr3.3:71328456-71328475 | None:intergenic | 45.0% | |
| CAACTTCGGCTTCAGACTTT+CGG | - | chr3.3:71328794-71328813 | None:intergenic | 45.0% | |
| GAAATCTGATAAACCAGCGG+CGG | + | chr3.3:71328710-71328729 | MS.gene75604:CDS | 45.0% | |
| GTACCAACCGGAACAGATTT+AGG | - | chr3.3:71328750-71328769 | None:intergenic | 45.0% | |
| TCAGATTTCGCAGTTTCCGA+CGG | - | chr3.3:71328699-71328718 | None:intergenic | 45.0% | |
| TCTGGACAAAGACGTGAAGA+GGG | + | chr3.3:71328491-71328510 | MS.gene75604:CDS | 45.0% | |
| TTGCGCTTGAGCATCAACTT+CGG | - | chr3.3:71328808-71328827 | None:intergenic | 45.0% | |
| !! | GAGTTCAGAAGCGTTGTTCT+TGG | + | chr3.3:71328515-71328534 | MS.gene75604:CDS | 45.0% |
| !! | GTTCTTGGTGTCACGATCTA+CGG | + | chr3.3:71328530-71328549 | MS.gene75604:CDS | 45.0% |
| CTCTGGACAAAGACGTGAAG+AGG | + | chr3.3:71328490-71328509 | MS.gene75604:CDS | 50.0% | |
| GGATCGGCCTAAATCTGTTC+CGG | + | chr3.3:71328740-71328759 | MS.gene75604:CDS | 50.0% | |
| ATCTGATAAACCAGCGGCGG+CGG | + | chr3.3:71328713-71328732 | MS.gene75604:CDS | 55.0% | |
| CGGCCTAAATCTGTTCCGGT+TGG | + | chr3.3:71328744-71328763 | MS.gene75604:CDS | 55.0% | |
| GTCGGAACCTGAACCTGAAC+CGG | + | chr3.3:71328848-71328867 | MS.gene75604:CDS | 55.0% | |
| TATGCCTCCTCCATGGGTTC+CGG | - | chr3.3:71328870-71328889 | None:intergenic | 55.0% | |
| TCAATGCGGCGAGTACCAAC+CGG | - | chr3.3:71328762-71328781 | None:intergenic | 55.0% | |
| TCAGGTTCCGACTCAGGTTC+CGG | - | chr3.3:71328840-71328859 | None:intergenic | 55.0% | |
| TGAACCTGAACCGGAACCCA+TGG | + | chr3.3:71328857-71328876 | MS.gene75604:CDS | 55.0% | |
| TTCGCAGTTTCCGACGGCAT+CGG | - | chr3.3:71328693-71328712 | None:intergenic | 55.0% | |
| ! | ATGGGTTCCGGTTCAGGTTC+AGG | - | chr3.3:71328858-71328877 | None:intergenic | 55.0% |
| ! | TCAGGTTCAGGTTCCGACTC+AGG | - | chr3.3:71328846-71328865 | None:intergenic | 55.0% |
| ACCTGAACCGGAACCCATGG+AGG | + | chr3.3:71328860-71328879 | MS.gene75604:CDS | 60.0% | |
| CGATTCGCTTCCGATGCCGT+CGG | + | chr3.3:71328680-71328699 | MS.gene75604:CDS | 60.0% | |
| TCCTCCATGGGTTCCGGTTC+AGG | - | chr3.3:71328864-71328883 | None:intergenic | 60.0% | |
| TGAACCGGAACCCATGGAGG+AGG | + | chr3.3:71328863-71328882 | MS.gene75604:CDS | 60.0% | |
| GGTTCCGACTCAGGTTCCGG+CGG | - | chr3.3:71328837-71328856 | None:intergenic | 65.0% | |
| TAAACCAGCGGCGGCGGTTG+CGG | + | chr3.3:71328719-71328738 | MS.gene75604:CDS | 65.0% | |
| GCCACCGCCGGAACCTGAGT+CGG | + | chr3.3:71328830-71328849 | MS.gene75604:CDS | 70.0% | |
| TCAAGCGCAAGCGCCACCGC+CGG | + | chr3.3:71328818-71328837 | MS.gene75604:CDS | 70.0% | |
| TCCGACTCAGGTTCCGGCGG+TGG | - | chr3.3:71328834-71328853 | None:intergenic | 70.0% | |
| CAGCGGCGGCGGTTGCGGAT+CGG | + | chr3.3:71328724-71328743 | MS.gene75604:CDS | 75.0% | |
| ! | CGATCCGCAACCGCCGCCGC+TGG | - | chr3.3:71328726-71328745 | None:intergenic | 80.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 71328417 | 71328890 | 71328417 | ID=MS.gene75604 |
| chr3.3 | mRNA | 71328417 | 71328890 | 71328417 | ID=MS.gene75604.t1;Parent=MS.gene75604 |
| chr3.3 | exon | 71328417 | 71328890 | 71328417 | ID=MS.gene75604.t1.exon1;Parent=MS.gene75604.t1 |
| chr3.3 | CDS | 71328417 | 71328890 | 71328417 | ID=cds.MS.gene75604.t1;Parent=MS.gene75604.t1 |
| Gene Sequence |
| Protein sequence |
