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.gene42859.t1 | GAU35533.1 | 82.4 | 108 | 19 | 0 | 1 | 108 | 112 | 219 | 1.70E-42 | 181.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42859.t1 | P08770 | 47.7 | 109 | 52 | 2 | 4 | 108 | 680 | 787 | 8.6e-19 | 94.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42859.t1 | A0A2Z6N0A2 | 82.4 | 108 | 19 | 0 | 1 | 108 | 112 | 219 | 1.2e-42 | 181.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051594 | MS.gene42859 | 0.80571 | 1.17E-49 | -1.69E-46 |
| MS.gene053998 | MS.gene42859 | 0.815469 | 9.10E-52 | -1.69E-46 |
| MS.gene056174 | MS.gene42859 | 0.813297 | 2.75E-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.gene42859.t1 | MTR_3g020520 | 93.750 | 32 | 2 | 0 | 65 | 96 | 1 | 32 | 2.02e-14 | 67.8 |
| MS.gene42859.t1 | MTR_3g020520 | 93.750 | 32 | 2 | 0 | 65 | 96 | 1 | 32 | 2.53e-14 | 67.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42859.t1 | AT3G42170 | 44.118 | 68 | 38 | 0 | 8 | 75 | 607 | 674 | 7.57e-17 | 74.7 |
| MS.gene42859.t1 | AT3G42170 | 44.118 | 68 | 38 | 0 | 8 | 75 | 585 | 652 | 8.82e-17 | 74.7 |
| MS.gene42859.t1 | AT1G18560 | 29.167 | 96 | 66 | 1 | 10 | 103 | 584 | 679 | 1.61e-11 | 59.7 |
Find 24 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACAAGCGCTTCCACCATTT+TGG | 0.115821 | 7.2:-32257625 | None:intergenic |
| CTTAACTAGATATCCTATTT+TGG | 0.165624 | 7.2:+32257494 | MS.gene42859:CDS |
| CGAGCTATGCTTGCCAAAAT+AGG | 0.230959 | 7.2:-32257507 | None:intergenic |
| TACTTGTCTAACACCCAAAA+TGG | 0.319891 | 7.2:+32257611 | MS.gene42859:CDS |
| AAATCAACTTCTTTCTTGTA+AGG | 0.340231 | 7.2:-32257444 | None:intergenic |
| CGCTTGTTTGCACGCAAGAC+TGG | 0.354417 | 7.2:+32257640 | MS.gene42859:CDS |
| AATAGGATATCTAGTTAAGT+TGG | 0.452293 | 7.2:-32257490 | None:intergenic |
| CCTTGATGAGATTCATCGAT+TGG | 0.469679 | 7.2:+32257701 | MS.gene42859:CDS |
| TCAGAGTCGGCATTCAGCAC+TGG | 0.509438 | 7.2:+32257564 | MS.gene42859:CDS |
| TGCACGCAAGACTGGTTGAA+AGG | 0.530842 | 7.2:+32257648 | MS.gene42859:CDS |
| CGGCATTCAGCACTGGTGGA+AGG | 0.534250 | 7.2:+32257571 | MS.gene42859:CDS |
| ATCAACTTTAATCATCTAAG+TGG | 0.535282 | 7.2:-32257842 | None:intergenic |
| GAGATTCATCGATTGGAGAA+AGG | 0.548419 | 7.2:+32257708 | MS.gene42859:CDS |
| GCAAGACTGGTTGAAAGGAA+AGG | 0.557171 | 7.2:+32257653 | MS.gene42859:CDS |
| GGCATTCAGCACTGGTGGAA+GGG | 0.561125 | 7.2:+32257572 | MS.gene42859:CDS |
| TCTGAAGCTACTGTAGATGC+AGG | 0.580487 | 7.2:-32257546 | None:intergenic |
| GAGTCGGCATTCAGCACTGG+TGG | 0.583771 | 7.2:+32257567 | MS.gene42859:CDS |
| TTTGGCAAGCATAGCTCGAG+AGG | 0.591224 | 7.2:+32257512 | MS.gene42859:CDS |
| CCAATCGATGAATCTCATCA+AGG | 0.601953 | 7.2:-32257701 | None:intergenic |
| CTCTTCAGAAAACAAGTGGA+GGG | 0.603788 | 7.2:-32257676 | None:intergenic |
| GGTCCTCTTCAGAAAACAAG+TGG | 0.606377 | 7.2:-32257680 | None:intergenic |
| CCTCTTCAGAAAACAAGTGG+AGG | 0.617808 | 7.2:-32257677 | None:intergenic |
| TTGTCTAACACCCAAAATGG+TGG | 0.621592 | 7.2:+32257614 | MS.gene42859:CDS |
| ATCTACAGTAGCTTCAGAGT+CGG | 0.621759 | 7.2:+32257551 | MS.gene42859:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTGATTCATATTTTCAACAT+TGG | + | chr7.2:32257769-32257788 | MS.gene42859:intron | 20.0% |
| ! | AAATCAACTTCTTTCTTGTA+AGG | - | chr7.2:32257447-32257466 | None:intergenic | 25.0% |
| ! | AATAGGATATCTAGTTAAGT+TGG | - | chr7.2:32257493-32257512 | None:intergenic | 25.0% |
| !! | CTTAACTAGATATCCTATTT+TGG | + | chr7.2:32257494-32257513 | MS.gene42859:CDS | 25.0% |
| !! | GAAGTTGATTTTGACATCTT+AGG | + | chr7.2:32257456-32257475 | MS.gene42859:CDS | 30.0% |
| !! | TTGATTTTGACATCTTAGGT+TGG | + | chr7.2:32257460-32257479 | MS.gene42859:CDS | 30.0% |
| TACTTGTCTAACACCCAAAA+TGG | + | chr7.2:32257611-32257630 | MS.gene42859:CDS | 35.0% | |
| !! | TTTTGGGTGTTAGACAAGTA+CGG | - | chr7.2:32257611-32257630 | None:intergenic | 35.0% |
| !!! | ATTTTGACATCTTAGGTTGG+TGG | + | chr7.2:32257463-32257482 | MS.gene42859:CDS | 35.0% |
| ATCTACAGTAGCTTCAGAGT+CGG | + | chr7.2:32257551-32257570 | MS.gene42859:CDS | 40.0% | |
| CCAATCGATGAATCTCATCA+AGG | - | chr7.2:32257704-32257723 | None:intergenic | 40.0% | |
| CCTTGATGAGATTCATCGAT+TGG | + | chr7.2:32257701-32257720 | MS.gene42859:CDS | 40.0% | |
| CTCTTCAGAAAACAAGTGGA+GGG | - | chr7.2:32257679-32257698 | None:intergenic | 40.0% | |
| TTGTCTAACACCCAAAATGG+TGG | + | chr7.2:32257614-32257633 | MS.gene42859:CDS | 40.0% | |
| ! | GAGATTCATCGATTGGAGAA+AGG | + | chr7.2:32257708-32257727 | MS.gene42859:CDS | 40.0% |
| CCTCTTCAGAAAACAAGTGG+AGG | - | chr7.2:32257680-32257699 | None:intergenic | 45.0% | |
| CGAGCTATGCTTGCCAAAAT+AGG | - | chr7.2:32257510-32257529 | None:intergenic | 45.0% | |
| GGTCCTCTTCAGAAAACAAG+TGG | - | chr7.2:32257683-32257702 | None:intergenic | 45.0% | |
| ! | AACAAGCGCTTCCACCATTT+TGG | - | chr7.2:32257628-32257647 | None:intergenic | 45.0% |
| ! | ACAAGCGCTTCCACCATTTT+GGG | - | chr7.2:32257627-32257646 | None:intergenic | 45.0% |
| ! | GCAAGACTGGTTGAAAGGAA+AGG | + | chr7.2:32257653-32257672 | MS.gene42859:CDS | 45.0% |
| ! | TCTGAAGCTACTGTAGATGC+AGG | - | chr7.2:32257549-32257568 | None:intergenic | 45.0% |
| !! | CCTCCACTTGTTTTCTGAAG+AGG | + | chr7.2:32257677-32257696 | MS.gene42859:CDS | 45.0% |
| TTTGGCAAGCATAGCTCGAG+AGG | + | chr7.2:32257512-32257531 | MS.gene42859:CDS | 50.0% | |
| ! | TGCACGCAAGACTGGTTGAA+AGG | + | chr7.2:32257648-32257667 | MS.gene42859:CDS | 50.0% |
| CGCTTGTTTGCACGCAAGAC+TGG | + | chr7.2:32257640-32257659 | MS.gene42859:CDS | 55.0% | |
| TCAGAGTCGGCATTCAGCAC+TGG | + | chr7.2:32257564-32257583 | MS.gene42859:CDS | 55.0% | |
| !! | GGCATTCAGCACTGGTGGAA+GGG | + | chr7.2:32257572-32257591 | MS.gene42859:CDS | 55.0% |
| ! | GAGTCGGCATTCAGCACTGG+TGG | + | chr7.2:32257567-32257586 | MS.gene42859:CDS | 60.0% |
| !! | CGGCATTCAGCACTGGTGGA+AGG | + | chr7.2:32257571-32257590 | MS.gene42859:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.2 | gene | 32257441 | 32257857 | 32257441 | ID=MS.gene42859 |
| chr7.2 | mRNA | 32257441 | 32257857 | 32257441 | ID=MS.gene42859.t1;Parent=MS.gene42859 |
| chr7.2 | exon | 32257441 | 32257729 | 32257441 | ID=MS.gene42859.t1.exon1;Parent=MS.gene42859.t1 |
| chr7.2 | CDS | 32257441 | 32257729 | 32257441 | ID=cds.MS.gene42859.t1;Parent=MS.gene42859.t1 |
| chr7.2 | exon | 32257820 | 32257857 | 32257820 | ID=MS.gene42859.t1.exon2;Parent=MS.gene42859.t1 |
| chr7.2 | CDS | 32257820 | 32257857 | 32257820 | ID=cds.MS.gene42859.t1;Parent=MS.gene42859.t1 |
| Gene Sequence |
| Protein sequence |
