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.gene55776.t1 | XP_013447162.1 | 98.4 | 63 | 1 | 0 | 1 | 63 | 13 | 75 | 9.60E-22 | 112.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene55776.t1 | Q9M373 | 64.1 | 64 | 20 | 2 | 1 | 62 | 7 | 69 | 7.7e-12 | 70.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene55776.t1 | I3SJE8 | 98.4 | 63 | 1 | 0 | 1 | 63 | 13 | 75 | 6.9e-22 | 112.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene06050 | MS.gene55776 | 0.848185 | 7.20E-60 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene55776 | MS.gene054138 | PPI |
| MS.gene026707 | MS.gene55776 | PPI |
| MS.gene55776 | MS.gene06756 | PPI |
| MS.gene55776 | MS.gene84143 | PPI |
| MS.gene55776 | MS.gene013633 | PPI |
| MS.gene55776 | MS.gene32342 | PPI |
| MS.gene31828 | MS.gene55776 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene55776.t1 | MTR_8g099245 | 98.413 | 63 | 1 | 0 | 1 | 63 | 13 | 75 | 5.20e-37 | 118 |
| MS.gene55776.t1 | MTR_3g090830 | 70.270 | 37 | 11 | 0 | 19 | 55 | 27 | 63 | 5.29e-14 | 60.1 |
| MS.gene55776.t1 | MTR_6g086390 | 50.943 | 53 | 26 | 0 | 3 | 55 | 12 | 64 | 1.50e-12 | 56.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene55776.t1 | AT3G61640 | 64.062 | 64 | 20 | 2 | 1 | 62 | 7 | 69 | 4.37e-19 | 73.2 |
| MS.gene55776.t1 | AT2G46330 | 73.333 | 45 | 12 | 0 | 19 | 63 | 26 | 70 | 1.41e-18 | 71.6 |
| MS.gene55776.t1 | AT5G53250 | 65.789 | 38 | 13 | 0 | 18 | 55 | 26 | 63 | 1.13e-13 | 59.3 |
Find 18 sgRNAs with CRISPR-Local
Find 35 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGCTTATTTGTTGATGTTGT+TGG | 0.350496 | 4.3:+4849482 | MS.gene55776:CDS |
| GTTTGAGCTTGAACAGCGGC+AGG | 0.459763 | 4.3:-4848876 | None:intergenic |
| TTTGTTGATGTTGTTGGCGC+TGG | 0.487327 | 4.3:+4849488 | MS.gene55776:CDS |
| AGAGAGAAAGTTACCGTCGC+TGG | 0.490610 | 4.3:-4848922 | None:intergenic |
| TGTAATGTGTTCAGGGTCAT+CGG | 0.501208 | 4.3:+4849446 | MS.gene55776:intron |
| TCGCTGGTAGGAGAAGGTGC+AGG | 0.512007 | 4.3:-4848906 | None:intergenic |
| CGCTGGTAGGAGAAGGTGCA+GGG | 0.523424 | 4.3:-4848905 | None:intergenic |
| TCAGGGTCATCGGTTGATCA+AGG | 0.556824 | 4.3:+4849456 | MS.gene55776:intron |
| ACTCACGTACATCATTCATT+CGG | 0.558338 | 4.3:+4849512 | MS.gene55776:CDS |
| TCAACATTCAATTCAGAAGG+TGG | 0.580798 | 4.3:-4849547 | None:intergenic |
| AAATCAACATTCAATTCAGA+AGG | 0.584402 | 4.3:-4849550 | None:intergenic |
| TTACCGTCGCTGGTAGGAGA+AGG | 0.584470 | 4.3:-4848912 | None:intergenic |
| AGAAAGTTACCGTCGCTGGT+AGG | 0.586425 | 4.3:-4848918 | None:intergenic |
| TTTGAGCTTGAACAGCGGCA+GGG | 0.641146 | 4.3:-4848875 | None:intergenic |
| AAGAGTTTGAGCTTGAACAG+CGG | 0.647341 | 4.3:-4848880 | None:intergenic |
| CGAAATTGCGAAAATGAGAG+TGG | 0.649027 | 4.3:-4848850 | None:intergenic |
| GCACCTTCTCCTACCAGCGA+CGG | 0.671933 | 4.3:+4848909 | MS.gene55776:CDS |
| GCTGGTAGGAGAAGGTGCAG+GGG | 0.704099 | 4.3:-4848904 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAGAAATTCAAATTAGAAAA+TGG | - | chr4.3:4849239-4849258 | None:intergenic | 15.0% |
| !!! | TTCAAATTCAAGTTAATTTT+AGG | - | chr4.3:4849210-4849229 | None:intergenic | 15.0% |
| !! | GAAAATTTATCAAAATACAG+TGG | - | chr4.3:4849405-4849424 | None:intergenic | 20.0% |
| !!! | AAAACCTAATATTAACTTGA+GGG | - | chr4.3:4849175-4849194 | None:intergenic | 20.0% |
| ! | ATGAAAAAATGCATGATTGT+AGG | + | chr4.3:4849336-4849355 | MS.gene55776:intron | 25.0% |
| ! | TGAAAAAATGCATGATTGTA+GGG | + | chr4.3:4849337-4849356 | MS.gene55776:intron | 25.0% |
| !! | AAACCTAATATTAACTTGAG+GGG | - | chr4.3:4849174-4849193 | None:intergenic | 25.0% |
| !! | CAAAACCTAATATTAACTTG+AGG | - | chr4.3:4849176-4849195 | None:intergenic | 25.0% |
| !! | GTTAATATTAGGTTTTGCTT+TGG | + | chr4.3:4849179-4849198 | MS.gene55776:intron | 25.0% |
| !!! | AACTATTTTTGAATTTGCTG+AGG | + | chr4.3:4849269-4849288 | MS.gene55776:intron | 25.0% |
| !!! | ACTATTTTTGAATTTGCTGA+GGG | + | chr4.3:4849270-4849289 | MS.gene55776:intron | 25.0% |
| !!! | ATTGTTTTTGTAATGTGTTC+AGG | + | chr4.3:4849438-4849457 | MS.gene55776:intron | 25.0% |
| !!! | CTGATTTTTTCAGGAATAAA+AGG | - | chr4.3:4849053-4849072 | None:intergenic | 25.0% |
| !!! | TTGTTTTTGTAATGTGTTCA+GGG | + | chr4.3:4849439-4849458 | MS.gene55776:intron | 25.0% |
| CAGATCTAGAAAAATAGATC+TGG | - | chr4.3:4848984-4849003 | None:intergenic | 30.0% | |
| ! | AGCTTATTTGTTGATGTTGT+TGG | + | chr4.3:4849482-4849501 | MS.gene55776:CDS | 30.0% |
| !! | CAGATCTATTTTTCTAGATC+TGG | + | chr4.3:4848982-4849001 | MS.gene55776:intron | 30.0% |
| ACTCACGTACATCATTCATT+CGG | + | chr4.3:4849512-4849531 | MS.gene55776:CDS | 35.0% | |
| !!! | AGATTGCAGCTGATTTTTTC+AGG | - | chr4.3:4849062-4849081 | None:intergenic | 35.0% |
| AAGAGTTTGAGCTTGAACAG+CGG | - | chr4.3:4848883-4848902 | None:intergenic | 40.0% | |
| CCACCCCTCAAGTTAATATT+AGG | + | chr4.3:4849168-4849187 | MS.gene55776:intron | 40.0% | |
| CGAAATTGCGAAAATGAGAG+TGG | - | chr4.3:4848853-4848872 | None:intergenic | 40.0% | |
| TGTAATGTGTTCAGGGTCAT+CGG | + | chr4.3:4849446-4849465 | MS.gene55776:intron | 40.0% | |
| ! | CCTAATATTAACTTGAGGGG+TGG | - | chr4.3:4849171-4849190 | None:intergenic | 40.0% |
| TTTGTTGATGTTGTTGGCGC+TGG | + | chr4.3:4849488-4849507 | MS.gene55776:CDS | 45.0% | |
| AGAAAGTTACCGTCGCTGGT+AGG | - | chr4.3:4848921-4848940 | None:intergenic | 50.0% | |
| AGAGAGAAAGTTACCGTCGC+TGG | - | chr4.3:4848925-4848944 | None:intergenic | 50.0% | |
| TTTGAGCTTGAACAGCGGCA+GGG | - | chr4.3:4848878-4848897 | None:intergenic | 50.0% | |
| ! | TCAGGGTCATCGGTTGATCA+AGG | + | chr4.3:4849456-4849475 | MS.gene55776:intron | 50.0% |
| GTTTGAGCTTGAACAGCGGC+AGG | - | chr4.3:4848879-4848898 | None:intergenic | 55.0% | |
| TTACCGTCGCTGGTAGGAGA+AGG | - | chr4.3:4848915-4848934 | None:intergenic | 55.0% | |
| GCACCTTCTCCTACCAGCGA+CGG | + | chr4.3:4848909-4848928 | MS.gene55776:CDS | 60.0% | |
| ! | CGCTGGTAGGAGAAGGTGCA+GGG | - | chr4.3:4848908-4848927 | None:intergenic | 60.0% |
| ! | GCTGGTAGGAGAAGGTGCAG+GGG | - | chr4.3:4848907-4848926 | None:intergenic | 60.0% |
| ! | TCGCTGGTAGGAGAAGGTGC+AGG | - | chr4.3:4848909-4848928 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.3 | gene | 4848837 | 4849557 | 4848837 | ID=MS.gene55776 |
| chr4.3 | mRNA | 4848837 | 4849557 | 4848837 | ID=MS.gene55776.t1;Parent=MS.gene55776 |
| chr4.3 | exon | 4848837 | 4848930 | 4848837 | ID=MS.gene55776.t1.exon1;Parent=MS.gene55776.t1 |
| chr4.3 | CDS | 4848837 | 4848930 | 4848837 | ID=cds.MS.gene55776.t1;Parent=MS.gene55776.t1 |
| chr4.3 | exon | 4849460 | 4849557 | 4849460 | ID=MS.gene55776.t1.exon2;Parent=MS.gene55776.t1 |
| chr4.3 | CDS | 4849460 | 4849557 | 4849460 | ID=cds.MS.gene55776.t1;Parent=MS.gene55776.t1 |
| Gene Sequence |
| Protein sequence |
