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.gene073870.t1 | XP_013467115.1 | 96.3 | 161 | 6 | 0 | 1 | 161 | 5 | 165 | 9.20E-85 | 322.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene073870.t1 | Q9LHS9 | 48.9 | 47 | 24 | 0 | 17 | 63 | 48 | 94 | 3.9e-07 | 56.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene073870.t1 | A0A072VHQ4 | 96.3 | 161 | 6 | 0 | 1 | 161 | 5 | 165 | 6.6e-85 | 322.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene073870.t1 | TF | C2H2 |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene04926 | MS.gene073870 | 0.811933 | 5.46E-51 | -1.69E-46 |
| MS.gene051996 | MS.gene073870 | 0.818022 | 2.43E-52 | -1.69E-46 |
| MS.gene05240 | MS.gene073870 | 0.83323 | 6.01E-56 | -1.69E-46 |
| MS.gene053406 | MS.gene073870 | 0.803273 | 3.77E-49 | -1.69E-46 |
| MS.gene054147 | MS.gene073870 | 0.801617 | 8.27E-49 | -1.69E-46 |
| MS.gene054277 | MS.gene073870 | 0.850305 | 1.85E-60 | -1.69E-46 |
| MS.gene054742 | MS.gene073870 | 0.860886 | 1.51E-63 | -1.69E-46 |
| MS.gene056076 | MS.gene073870 | 0.815361 | 9.61E-52 | -1.69E-46 |
| MS.gene056330 | MS.gene073870 | 0.815803 | 7.67E-52 | -1.69E-46 |
| MS.gene056680 | MS.gene073870 | 0.823626 | 1.25E-53 | -1.69E-46 |
| MS.gene056920 | MS.gene073870 | 0.853279 | 2.65E-61 | -1.69E-46 |
| MS.gene056922 | MS.gene073870 | 0.826607 | 2.47E-54 | -1.69E-46 |
| MS.gene056923 | MS.gene073870 | 0.803786 | 2.95E-49 | -1.69E-46 |
| MS.gene059892 | MS.gene073870 | 0.803454 | 3.46E-49 | -1.69E-46 |
| MS.gene061092 | MS.gene073870 | 0.835673 | 1.46E-56 | -1.69E-46 |
| MS.gene061094 | MS.gene073870 | 0.84228 | 2.85E-58 | -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.gene073870.t1 | MTR_1g044225 | 96.273 | 161 | 6 | 0 | 1 | 161 | 5 | 165 | 1.25e-117 | 329 |
| MS.gene073870.t1 | MTR_1g075430 | 39.500 | 200 | 65 | 11 | 1 | 157 | 1 | 187 | 1.00e-22 | 89.4 |
| MS.gene073870.t1 | MTR_4g064873 | 33.548 | 155 | 88 | 4 | 14 | 157 | 13 | 163 | 8.32e-16 | 70.9 |
| MS.gene073870.t1 | MTR_7g063220 | 65.000 | 40 | 14 | 0 | 22 | 61 | 24 | 63 | 1.37e-13 | 64.3 |
| MS.gene073870.t1 | MTR_1g070250 | 34.416 | 154 | 79 | 7 | 22 | 155 | 38 | 189 | 2.65e-13 | 64.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene073870.t1 | AT5G43540 | 35.115 | 131 | 56 | 5 | 24 | 154 | 35 | 136 | 1.99e-13 | 63.9 |
| MS.gene073870.t1 | AT3G09290 | 31.081 | 148 | 84 | 3 | 15 | 154 | 26 | 163 | 4.43e-13 | 63.9 |
| MS.gene073870.t1 | AT4G17810 | 33.333 | 144 | 70 | 7 | 22 | 155 | 44 | 171 | 3.82e-11 | 58.9 |
| MS.gene073870.t1 | AT5G06070 | 48.936 | 47 | 24 | 0 | 17 | 63 | 48 | 94 | 8.00e-11 | 58.5 |
| MS.gene073870.t1 | AT4G17810 | 57.895 | 38 | 16 | 0 | 22 | 59 | 44 | 81 | 8.63e-11 | 58.2 |
Find 44 sgRNAs with CRISPR-Local
Find 48 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTCATGGCTTGAACCAATT+TGG | 0.170590 | 1.4:+28703660 | None:intergenic |
| ACCAATTTGAGTCTCCAAAT+TGG | 0.269681 | 1.4:-28703674 | MS.gene073870:CDS |
| ACCAATTTGGAGACTCAAAT+TGG | 0.270170 | 1.4:+28703673 | None:intergenic |
| AATGTAGGTGGAGGGTTTCT+AGG | 0.296141 | 1.4:+28703740 | None:intergenic |
| CACAAACTCTCAATCTTTGT+TGG | 0.318614 | 1.4:-28703699 | MS.gene073870:CDS |
| TTCACTAATGCTAGGGCATT+AGG | 0.349869 | 1.4:-28703935 | MS.gene073870:CDS |
| AAAAGAAAGAACAAACTATA+AGG | 0.377913 | 1.4:-28703891 | MS.gene073870:CDS |
| ATGAGGGTAATGATCAAGTT+TGG | 0.398644 | 1.4:-28703643 | MS.gene073870:CDS |
| GGAATTGGGTGTGCCTTGCT+TGG | 0.408994 | 1.4:+28703868 | None:intergenic |
| ACAAACTCTCAATCTTTGTT+GGG | 0.411359 | 1.4:-28703698 | MS.gene073870:CDS |
| TGATACATGTCATAGTTTCT+AGG | 0.413631 | 1.4:+28703782 | None:intergenic |
| TGGAGAGGAATTGAGAAAGA+TGG | 0.421622 | 1.4:-28703623 | MS.gene073870:CDS |
| TGGACCTAGAGCTTAGGCTT+GGG | 0.441602 | 1.4:-28703592 | MS.gene073870:CDS |
| GAAACAACTGTTGGAACAAA+AGG | 0.457243 | 1.4:+28703842 | None:intergenic |
| TGGAACAAAAGGTGAGGAAT+TGG | 0.460304 | 1.4:+28703853 | None:intergenic |
| AGAAAATCATATTGAAATGT+AGG | 0.460308 | 1.4:+28703725 | None:intergenic |
| TGTGCAATCATAAGATCTCT+TGG | 0.482224 | 1.4:+28703973 | None:intergenic |
| ATGTAGGTGGAGGGTTTCTA+GGG | 0.497755 | 1.4:+28703741 | None:intergenic |
| TGCAGTAATAAGTTGAGGGT+TGG | 0.500074 | 1.4:+28703816 | None:intergenic |
| AAAATGCAGTAATAAGTTGA+GGG | 0.517548 | 1.4:+28703812 | None:intergenic |
| TCATATTGAAATGTAGGTGG+AGG | 0.518141 | 1.4:+28703731 | None:intergenic |
| GGAACAAAAGGTGAGGAATT+GGG | 0.519859 | 1.4:+28703854 | None:intergenic |
| AAAGGGGTTTCACTAATGCT+AGG | 0.523611 | 1.4:-28703943 | MS.gene073870:CDS |
| GTGGACCTAGAGCTTAGGCT+TGG | 0.524569 | 1.4:-28703593 | MS.gene073870:CDS |
| GAATTGAGAAAGATGGTGAA+GGG | 0.527167 | 1.4:-28703616 | MS.gene073870:CDS |
| CGTGCCCAAGCCTAAGCTCT+AGG | 0.528423 | 1.4:+28703588 | None:intergenic |
| AAACTTGATCATTACCCTCA+TGG | 0.539153 | 1.4:+28703645 | None:intergenic |
| AAGGGGTGGACCTAGAGCTT+AGG | 0.542022 | 1.4:-28703598 | MS.gene073870:CDS |
| TAAAATGCAGTAATAAGTTG+AGG | 0.543134 | 1.4:+28703811 | None:intergenic |
| GATTCATACTCAAATTACTA+AGG | 0.552650 | 1.4:-28703566 | None:intergenic |
| GGAATTGAGAAAGATGGTGA+AGG | 0.553109 | 1.4:-28703617 | MS.gene073870:CDS |
| CATATTGAAATGTAGGTGGA+GGG | 0.568321 | 1.4:+28703732 | None:intergenic |
| CAAATTGGTTCAAGCCATGA+GGG | 0.580633 | 1.4:-28703659 | MS.gene073870:CDS |
| GGTTGGCTTGAAACAACTGT+TGG | 0.581903 | 1.4:+28703833 | None:intergenic |
| TGAGAAAGATGGTGAAGGGG+TGG | 0.585137 | 1.4:-28703612 | MS.gene073870:CDS |
| AAGGGGTTTCACTAATGCTA+GGG | 0.603593 | 1.4:-28703942 | MS.gene073870:CDS |
| AAATCATATTGAAATGTAGG+TGG | 0.609277 | 1.4:+28703728 | None:intergenic |
| ACTAATGCTAGGGCATTAGG+AGG | 0.612021 | 1.4:-28703932 | MS.gene073870:CDS |
| AATTGAGAAAGATGGTGAAG+GGG | 0.613512 | 1.4:-28703615 | MS.gene073870:CDS |
| ACAAACTATAAGGCCAAGCA+AGG | 0.614101 | 1.4:-28703881 | MS.gene073870:CDS |
| CCAAATTGGTTCAAGCCATG+AGG | 0.617699 | 1.4:-28703660 | MS.gene073870:CDS |
| AACTGTTGGAACAAAAGGTG+AGG | 0.623850 | 1.4:+28703847 | None:intergenic |
| GGTAATGATCAAGTTTGGAG+AGG | 0.652429 | 1.4:-28703638 | MS.gene073870:CDS |
| TACATGTCATAGTTTCTAGG+AGG | 0.679751 | 1.4:+28703785 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAGAAAGAACAAACTATA+AGG | - | chr1.4:28703708-28703727 | MS.gene073870:CDS | 20.0% |
| !! | AGAAAATCATATTGAAATGT+AGG | + | chr1.4:28703877-28703896 | None:intergenic | 20.0% |
| ! | AAATCATATTGAAATGTAGG+TGG | + | chr1.4:28703874-28703893 | None:intergenic | 25.0% |
| ! | TAAAATGCAGTAATAAGTTG+AGG | + | chr1.4:28703791-28703810 | None:intergenic | 25.0% |
| !! | AAAATGCAGTAATAAGTTGA+GGG | + | chr1.4:28703790-28703809 | None:intergenic | 25.0% |
| !!! | AGTTTGTTCTTTCTTTTCTA+TGG | + | chr1.4:28703705-28703724 | None:intergenic | 25.0% |
| ACAAACTCTCAATCTTTGTT+GGG | - | chr1.4:28703901-28703920 | MS.gene073870:CDS | 30.0% | |
| TGATACATGTCATAGTTTCT+AGG | + | chr1.4:28703820-28703839 | None:intergenic | 30.0% | |
| ! | ATGATTGCACATTTTGCAAA+AGG | - | chr1.4:28703638-28703657 | MS.gene073870:CDS | 30.0% |
| ! | CTTTTCTATGGATATTCATG+TGG | + | chr1.4:28703693-28703712 | None:intergenic | 30.0% |
| ! | TGATTGCACATTTTGCAAAA+GGG | - | chr1.4:28703639-28703658 | MS.gene073870:CDS | 30.0% |
| AAACTTGATCATTACCCTCA+TGG | + | chr1.4:28703957-28703976 | None:intergenic | 35.0% | |
| AATTGAGAAAGATGGTGAAG+GGG | - | chr1.4:28703984-28704003 | MS.gene073870:CDS | 35.0% | |
| ACCAATTTGAGTCTCCAAAT+TGG | - | chr1.4:28703925-28703944 | MS.gene073870:CDS | 35.0% | |
| ACCAATTTGGAGACTCAAAT+TGG | + | chr1.4:28703929-28703948 | None:intergenic | 35.0% | |
| ATGAGGGTAATGATCAAGTT+TGG | - | chr1.4:28703956-28703975 | MS.gene073870:CDS | 35.0% | |
| CACAAACTCTCAATCTTTGT+TGG | - | chr1.4:28703900-28703919 | MS.gene073870:CDS | 35.0% | |
| CATATTGAAATGTAGGTGGA+GGG | + | chr1.4:28703870-28703889 | None:intergenic | 35.0% | |
| GAAACAACTGTTGGAACAAA+AGG | + | chr1.4:28703760-28703779 | None:intergenic | 35.0% | |
| GAATTGAGAAAGATGGTGAA+GGG | - | chr1.4:28703983-28704002 | MS.gene073870:CDS | 35.0% | |
| TCATATTGAAATGTAGGTGG+AGG | + | chr1.4:28703871-28703890 | None:intergenic | 35.0% | |
| TGTGCAATCATAAGATCTCT+TGG | + | chr1.4:28703629-28703648 | None:intergenic | 35.0% | |
| ! | GATTGCACATTTTGCAAAAG+GGG | - | chr1.4:28703640-28703659 | MS.gene073870:CDS | 35.0% |
| ! | TACATGTCATAGTTTCTAGG+AGG | + | chr1.4:28703817-28703836 | None:intergenic | 35.0% |
| AAAGGGGTTTCACTAATGCT+AGG | - | chr1.4:28703656-28703675 | MS.gene073870:CDS | 40.0% | |
| AACTGTTGGAACAAAAGGTG+AGG | + | chr1.4:28703755-28703774 | None:intergenic | 40.0% | |
| AAGGGGTTTCACTAATGCTA+GGG | - | chr1.4:28703657-28703676 | MS.gene073870:CDS | 40.0% | |
| ACAAACTATAAGGCCAAGCA+AGG | - | chr1.4:28703718-28703737 | MS.gene073870:CDS | 40.0% | |
| GGAACAAAAGGTGAGGAATT+GGG | + | chr1.4:28703748-28703767 | None:intergenic | 40.0% | |
| GGAATTGAGAAAGATGGTGA+AGG | - | chr1.4:28703982-28704001 | MS.gene073870:CDS | 40.0% | |
| GGTAATGATCAAGTTTGGAG+AGG | - | chr1.4:28703961-28703980 | MS.gene073870:CDS | 40.0% | |
| TGGAACAAAAGGTGAGGAAT+TGG | + | chr1.4:28703749-28703768 | None:intergenic | 40.0% | |
| TGGAGAGGAATTGAGAAAGA+TGG | - | chr1.4:28703976-28703995 | MS.gene073870:CDS | 40.0% | |
| ! | CAAATTGGTTCAAGCCATGA+GGG | - | chr1.4:28703940-28703959 | MS.gene073870:CDS | 40.0% |
| ! | TGCAGTAATAAGTTGAGGGT+TGG | + | chr1.4:28703786-28703805 | None:intergenic | 40.0% |
| ! | TTCACTAATGCTAGGGCATT+AGG | - | chr1.4:28703664-28703683 | MS.gene073870:CDS | 40.0% |
| AATGTAGGTGGAGGGTTTCT+AGG | + | chr1.4:28703862-28703881 | None:intergenic | 45.0% | |
| ATGTAGGTGGAGGGTTTCTA+GGG | + | chr1.4:28703861-28703880 | None:intergenic | 45.0% | |
| CCTCATGGCTTGAACCAATT+TGG | + | chr1.4:28703942-28703961 | None:intergenic | 45.0% | |
| ! | ACTAATGCTAGGGCATTAGG+AGG | - | chr1.4:28703667-28703686 | MS.gene073870:CDS | 45.0% |
| ! | CCAAATTGGTTCAAGCCATG+AGG | - | chr1.4:28703939-28703958 | MS.gene073870:CDS | 45.0% |
| !! | GGTTGGCTTGAAACAACTGT+TGG | + | chr1.4:28703769-28703788 | None:intergenic | 45.0% |
| TGAGAAAGATGGTGAAGGGG+TGG | - | chr1.4:28703987-28704006 | MS.gene073870:CDS | 50.0% | |
| TGGACCTAGAGCTTAGGCTT+GGG | - | chr1.4:28704007-28704026 | MS.gene073870:CDS | 50.0% | |
| AAGGGGTGGACCTAGAGCTT+AGG | - | chr1.4:28704001-28704020 | MS.gene073870:CDS | 55.0% | |
| GGAATTGGGTGTGCCTTGCT+TGG | + | chr1.4:28703734-28703753 | None:intergenic | 55.0% | |
| GTGGACCTAGAGCTTAGGCT+TGG | - | chr1.4:28704006-28704025 | MS.gene073870:CDS | 55.0% | |
| CGTGCCCAAGCCTAAGCTCT+AGG | + | chr1.4:28704014-28704033 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 28703568 | 28704053 | 28703568 | ID=MS.gene073870 |
| chr1.4 | mRNA | 28703568 | 28704053 | 28703568 | ID=MS.gene073870.t1;Parent=MS.gene073870 |
| chr1.4 | exon | 28703568 | 28704053 | 28703568 | ID=MS.gene073870.t1.exon1;Parent=MS.gene073870.t1 |
| chr1.4 | CDS | 28703568 | 28704053 | 28703568 | ID=cds.MS.gene073870.t1;Parent=MS.gene073870.t1 |
| Gene Sequence |
| Protein sequence |
