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.gene069639.t1 | XP_024634712.1 | 89.7 | 155 | 16 | 0 | 1 | 155 | 1 | 155 | 1.80E-77 | 298.5 |
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.gene069639.t1 | A0A396IUK6 | 77.7 | 157 | 33 | 1 | 1 | 155 | 1 | 157 | 3.3e-65 | 257.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051544 | MS.gene069639 | 0.817326 | 3.50E-52 | -1.69E-46 |
| MS.gene053356 | MS.gene069639 | 0.842768 | 2.11E-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.gene069639.t1 | MTR_6g066340 | 56.688 | 157 | 24 | 2 | 1 | 155 | 37 | 151 | 2.43e-43 | 141 |
| MS.gene069639.t1 | MTR_2g099105 | 63.636 | 88 | 25 | 2 | 1 | 81 | 1 | 88 | 4.01e-29 | 103 |
| MS.gene069639.t1 | MTR_7g099240 | 35.000 | 120 | 53 | 4 | 40 | 156 | 83 | 180 | 3.46e-13 | 65.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene069639.t1 | AT1G19260 | 38.583 | 127 | 71 | 4 | 24 | 149 | 11 | 131 | 1.20e-24 | 99.4 |
| MS.gene069639.t1 | AT4G09660 | 37.795 | 127 | 72 | 4 | 24 | 149 | 11 | 131 | 8.85e-23 | 94.0 |
Find 33 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGAGGAAAACTTGACAAATT+TGG | 0.204759 | 3.4:+27707844 | None:intergenic |
| CCAATCTTTAAATCCGTCTT+TGG | 0.280934 | 3.4:+27707663 | None:intergenic |
| CTCACTTGGTCTTGAATATC+AGG | 0.303118 | 3.4:+27707898 | None:intergenic |
| CCAAAGACGGATTTAAAGAT+TGG | 0.323002 | 3.4:-27707663 | MS.gene069639:CDS |
| CTTGACAAATTTGGTTGCAT+TGG | 0.334233 | 3.4:+27707853 | None:intergenic |
| CTCATTTGGATTAAATTCAT+TGG | 0.341888 | 3.4:+27707966 | None:intergenic |
| GGATCACGCACAATCTCATT+TGG | 0.382227 | 3.4:+27707952 | None:intergenic |
| AAAATCTTGCATGATCATAT+TGG | 0.382450 | 3.4:-27707628 | MS.gene069639:CDS |
| GGTTCTTCTACTTCGACTTC+CGG | 0.422132 | 3.4:+27708003 | None:intergenic |
| AATGAGATTGTGCGTGATCC+AGG | 0.422235 | 3.4:-27707949 | MS.gene069639:CDS |
| TTAAATTCATTGGCCACATT+AGG | 0.465850 | 3.4:+27707976 | None:intergenic |
| CCCGCGAGGGCTGAGTACTT+TGG | 0.465860 | 3.4:-27707700 | MS.gene069639:CDS |
| GCTCTTGTTTGACTCCCAAA+TGG | 0.475954 | 3.4:+27707817 | None:intergenic |
| TTCGATATCTTCACCAAAGA+CGG | 0.487765 | 3.4:-27707676 | MS.gene069639:CDS |
| TAATGTGAATGTTGTGCAAC+CGG | 0.488213 | 3.4:-27708022 | MS.gene069639:CDS |
| GAGGAGGGCATATATCTTGA+AGG | 0.496344 | 3.4:-27707878 | MS.gene069639:CDS |
| GATTGAATACAGTGAGTTCA+AGG | 0.498483 | 3.4:-27707761 | MS.gene069639:CDS |
| AGATATATGCCCTCCTCACT+TGG | 0.509334 | 3.4:+27707884 | None:intergenic |
| TGAATTTGTTTCCTACGACC+TGG | 0.542287 | 3.4:+27707931 | None:intergenic |
| AATTCATTGGCCACATTAGG+CGG | 0.563218 | 3.4:+27707979 | None:intergenic |
| CTGATATTCAAGACCAAGTG+AGG | 0.582545 | 3.4:-27707897 | MS.gene069639:CDS |
| CCAAAGTACTCAGCCCTCGC+GGG | 0.584490 | 3.4:+27707700 | None:intergenic |
| AGAAGAACCACCGCCTAATG+TGG | 0.590890 | 3.4:-27707989 | MS.gene069639:CDS |
| CATGGTATGAGAAGTATGCA+TGG | 0.600857 | 3.4:-27707783 | MS.gene069639:CDS |
| ACCAAAGTACTCAGCCCTCG+CGG | 0.604508 | 3.4:+27707699 | None:intergenic |
| TCATTGGCCACATTAGGCGG+TGG | 0.616172 | 3.4:+27707982 | None:intergenic |
| TATTCAAGACCAAGTGAGGA+GGG | 0.618445 | 3.4:-27707893 | MS.gene069639:CDS |
| TTGTGCGTGATCCAGGTCGT+AGG | 0.619322 | 3.4:-27707942 | MS.gene069639:CDS |
| ATATTCAAGACCAAGTGAGG+AGG | 0.627378 | 3.4:-27707894 | MS.gene069639:CDS |
| AGGAGGGCATATATCTTGAA+GGG | 0.635940 | 3.4:-27707877 | MS.gene069639:CDS |
| TGACTCCCAAATGGAGTACG+AGG | 0.701429 | 3.4:+27707826 | None:intergenic |
| TTCTCTTTAAGAAACCCGCG+AGG | 0.710825 | 3.4:-27707714 | MS.gene069639:CDS |
| TCTCTTTAAGAAACCCGCGA+GGG | 0.713663 | 3.4:-27707713 | MS.gene069639:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAAATCTTGCATGATCATAT+TGG | - | chr3.4:27708023-27708042 | MS.gene069639:CDS | 25.0% |
| ! | CTCATTTGGATTAAATTCAT+TGG | + | chr3.4:27707688-27707707 | None:intergenic | 25.0% |
| TTAAATTCATTGGCCACATT+AGG | + | chr3.4:27707678-27707697 | None:intergenic | 30.0% | |
| CCAATCTTTAAATCCGTCTT+TGG | + | chr3.4:27707991-27708010 | None:intergenic | 35.0% | |
| CGAGGAAAACTTGACAAATT+TGG | + | chr3.4:27707810-27707829 | None:intergenic | 35.0% | |
| CTTGACAAATTTGGTTGCAT+TGG | + | chr3.4:27707801-27707820 | None:intergenic | 35.0% | |
| GATTGAATACAGTGAGTTCA+AGG | - | chr3.4:27707890-27707909 | MS.gene069639:CDS | 35.0% | |
| TAATGTGAATGTTGTGCAAC+CGG | - | chr3.4:27707629-27707648 | MS.gene069639:CDS | 35.0% | |
| TTCGATATCTTCACCAAAGA+CGG | - | chr3.4:27707975-27707994 | MS.gene069639:CDS | 35.0% | |
| ! | CCAAAGACGGATTTAAAGAT+TGG | - | chr3.4:27707988-27708007 | MS.gene069639:CDS | 35.0% |
| !!! | CAAGAGCATTTTGTAGATCA+TGG | - | chr3.4:27707850-27707869 | MS.gene069639:CDS | 35.0% |
| AATTCATTGGCCACATTAGG+CGG | + | chr3.4:27707675-27707694 | None:intergenic | 40.0% | |
| ATATTCAAGACCAAGTGAGG+AGG | - | chr3.4:27707757-27707776 | MS.gene069639:CDS | 40.0% | |
| CTGATATTCAAGACCAAGTG+AGG | - | chr3.4:27707754-27707773 | MS.gene069639:CDS | 40.0% | |
| TATTCAAGACCAAGTGAGGA+GGG | - | chr3.4:27707758-27707777 | MS.gene069639:CDS | 40.0% | |
| ! | AGGAGGGCATATATCTTGAA+GGG | - | chr3.4:27707774-27707793 | MS.gene069639:CDS | 40.0% |
| ! | AGTTTTCCTCGTACTCCATT+TGG | - | chr3.4:27707819-27707838 | MS.gene069639:CDS | 40.0% |
| ! | CATGGTATGAGAAGTATGCA+TGG | - | chr3.4:27707868-27707887 | MS.gene069639:CDS | 40.0% |
| ! | GTTTTCCTCGTACTCCATTT+GGG | - | chr3.4:27707820-27707839 | MS.gene069639:CDS | 40.0% |
| ! | TGAATTTGTTTCCTACGACC+TGG | + | chr3.4:27707723-27707742 | None:intergenic | 40.0% |
| !! | CTCACTTGGTCTTGAATATC+AGG | + | chr3.4:27707756-27707775 | None:intergenic | 40.0% |
| AATGAGATTGTGCGTGATCC+AGG | - | chr3.4:27707702-27707721 | MS.gene069639:CDS | 45.0% | |
| AGATATATGCCCTCCTCACT+TGG | + | chr3.4:27707770-27707789 | None:intergenic | 45.0% | |
| GGATCACGCACAATCTCATT+TGG | + | chr3.4:27707702-27707721 | None:intergenic | 45.0% | |
| GGTTCTTCTACTTCGACTTC+CGG | + | chr3.4:27707651-27707670 | None:intergenic | 45.0% | |
| ! | GAGGAGGGCATATATCTTGA+AGG | - | chr3.4:27707773-27707792 | MS.gene069639:CDS | 45.0% |
| ! | GCTCTTGTTTGACTCCCAAA+TGG | + | chr3.4:27707837-27707856 | None:intergenic | 45.0% |
| ! | TCTCTTTAAGAAACCCGCGA+GGG | - | chr3.4:27707938-27707957 | MS.gene069639:CDS | 45.0% |
| ! | TTCTCTTTAAGAAACCCGCG+AGG | - | chr3.4:27707937-27707956 | MS.gene069639:CDS | 45.0% |
| AGAAGAACCACCGCCTAATG+TGG | - | chr3.4:27707662-27707681 | MS.gene069639:CDS | 50.0% | |
| TGACTCCCAAATGGAGTACG+AGG | + | chr3.4:27707828-27707847 | None:intergenic | 50.0% | |
| TCATTGGCCACATTAGGCGG+TGG | + | chr3.4:27707672-27707691 | None:intergenic | 55.0% | |
| TTGTGCGTGATCCAGGTCGT+AGG | - | chr3.4:27707709-27707728 | MS.gene069639:CDS | 55.0% | |
| ! | ACCAAAGTACTCAGCCCTCG+CGG | + | chr3.4:27707955-27707974 | None:intergenic | 55.0% |
| ! | CCAAAGTACTCAGCCCTCGC+GGG | + | chr3.4:27707954-27707973 | None:intergenic | 60.0% |
| CCCGCGAGGGCTGAGTACTT+TGG | - | chr3.4:27707951-27707970 | MS.gene069639:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 27707600 | 27708073 | 27707600 | ID=MS.gene069639 |
| chr3.4 | mRNA | 27707600 | 27708073 | 27707600 | ID=MS.gene069639.t1;Parent=MS.gene069639 |
| chr3.4 | exon | 27707600 | 27708073 | 27707600 | ID=MS.gene069639.t1.exon1;Parent=MS.gene069639.t1 |
| chr3.4 | CDS | 27707600 | 27708073 | 27707600 | ID=cds.MS.gene069639.t1;Parent=MS.gene069639.t1 |
| Gene Sequence |
| Protein sequence |
