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.gene85479.t1 | XP_003628625.1 | 98.6 | 73 | 1 | 0 | 1 | 73 | 1 | 73 | 2.50E-33 | 151.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene85479.t1 | P58728 | 89.0 | 73 | 8 | 0 | 1 | 73 | 1 | 73 | 2.8e-33 | 142.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene85479.t1 | G7IW51 | 98.6 | 73 | 1 | 0 | 1 | 73 | 1 | 73 | 1.8e-33 | 151.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050277 | MS.gene85479 | 0.811817 | 5.79E-51 | -1.69E-46 |
| MS.gene052302 | MS.gene85479 | 0.802079 | 6.65E-49 | -1.69E-46 |
| MS.gene058238 | MS.gene85479 | 0.809246 | 2.08E-50 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene018837 | MS.gene85479 | PPI |
| MS.gene85479 | MS.gene018837 | PPI |
| MS.gene78633 | MS.gene85479 | PPI |
| MS.gene85479 | MS.gene040992 | PPI |
| MS.gene65850 | MS.gene85479 | PPI |
| MS.gene85479 | MS.gene039781 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene85479.t1 | MTR_3g019310 | 87.952 | 83 | 10 | 0 | 1 | 83 | 1 | 83 | 1.67e-49 | 153 |
| MS.gene85479.t1 | MTR_3g019300 | 87.952 | 83 | 10 | 0 | 1 | 83 | 1 | 83 | 1.67e-49 | 153 |
| MS.gene85479.t1 | MTR_8g062750 | 98.630 | 73 | 1 | 0 | 1 | 73 | 1 | 73 | 1.92e-49 | 153 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene85479.t1 | AT4G14342 | 70.297 | 101 | 28 | 1 | 1 | 101 | 1 | 99 | 4.10e-46 | 145 |
| MS.gene85479.t1 | AT4G14342 | 89.041 | 73 | 8 | 0 | 1 | 73 | 1 | 73 | 1.19e-45 | 144 |
| MS.gene85479.t1 | AT3G23325 | 78.313 | 83 | 18 | 0 | 1 | 83 | 1 | 83 | 5.52e-45 | 142 |
Find 32 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCAAACTCTGGTCGGTTATT+TGG | 0.170901 | 3.4:-12670754 | MS.gene85479:CDS |
| CCAAATAACCGACCAGAGTT+TGG | 0.252627 | 3.4:+12670754 | None:intergenic |
| GATAGCTATGCTTCGTATAT+TGG | 0.282004 | 3.4:-12671176 | MS.gene85479:CDS |
| TGACAGAGAATTGGGGCCTT+TGG | 0.304093 | 3.4:-12670652 | MS.gene85479:CDS |
| CAAGCGATTTGACAGAGAAT+TGG | 0.308184 | 3.4:-12670661 | MS.gene85479:CDS |
| AAGCGATTTGACAGAGAATT+GGG | 0.345762 | 3.4:-12670660 | MS.gene85479:CDS |
| GACAGAGAATTGGGGCCTTT+GGG | 0.347567 | 3.4:-12670651 | MS.gene85479:CDS |
| CTAAAGCGTTTGCCGCAAAT+AGG | 0.359925 | 3.4:-12670798 | MS.gene85479:CDS |
| ATTGCTCAAAACGAATCTAT+TGG | 0.369668 | 3.4:-12671125 | MS.gene85479:CDS |
| AGAATTGGGGCCTTTGGGTT+GGG | 0.369816 | 3.4:-12670646 | MS.gene85479:CDS |
| CAAATAACCGACCAGAGTTT+GGG | 0.405326 | 3.4:+12670755 | None:intergenic |
| GCAATATGCAGGCGAGTGAT+AGG | 0.420071 | 3.4:-12671298 | None:intergenic |
| TCTGGTCGGTTATTTGGAAA+TGG | 0.439376 | 3.4:-12670748 | MS.gene85479:CDS |
| CAAGCTAAATATGTTGGAAC+TGG | 0.450379 | 3.4:-12671245 | MS.gene85479:CDS |
| GAGAATTGGGGCCTTTGGGT+TGG | 0.461778 | 3.4:-12670647 | MS.gene85479:CDS |
| GACCGTGATTTAGAAATAAT+AGG | 0.464747 | 3.4:-12670705 | MS.gene85479:CDS |
| GTCGGTTATTTGGAAATGGC+AGG | 0.466962 | 3.4:-12670744 | MS.gene85479:CDS |
| CTGATATCAATAGATTTGAA+TGG | 0.473717 | 3.4:-12671217 | MS.gene85479:CDS |
| AGCTTGCAGATGCTCGAGTT+GGG | 0.481702 | 3.4:+12671262 | None:intergenic |
| AATAAGAAAGTAAAGGGTAA+TGG | 0.502423 | 3.4:+12671153 | None:intergenic |
| TAGCTTGCAGATGCTCGAGT+TGG | 0.512932 | 3.4:+12671261 | None:intergenic |
| CATCTGCAAGCTAAATATGT+TGG | 0.518362 | 3.4:-12671251 | MS.gene85479:CDS |
| CTCTCCTCGACGCCTATTTG+CGG | 0.521209 | 3.4:+12670786 | None:intergenic |
| ATCCTATTATTTCTAAATCA+CGG | 0.522724 | 3.4:+12670703 | None:intergenic |
| AATAATAGGATACGATGAGA+AGG | 0.549854 | 3.4:-12670691 | MS.gene85479:CDS |
| TGATATCAATAGATTTGAAT+GGG | 0.559675 | 3.4:-12671216 | MS.gene85479:CDS |
| GAGTGTTGGTACCCAAACTC+TGG | 0.586491 | 3.4:-12670766 | MS.gene85479:CDS |
| ATAGGCGTCGAGGAGAGTGT+TGG | 0.648853 | 3.4:-12670780 | MS.gene85479:CDS |
| AGCGATTTGACAGAGAATTG+GGG | 0.653308 | 3.4:-12670659 | MS.gene85479:CDS |
| GTTGGTACCCAAACTCTGGT+CGG | 0.659627 | 3.4:-12670762 | MS.gene85479:CDS |
| GGATATGAATCCCAACCCAA+AGG | 0.674653 | 3.4:+12670636 | None:intergenic |
| TTTGCCGCAAATAGGCGTCG+AGG | 0.699807 | 3.4:-12670790 | MS.gene85479:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATAGAAAAATAAGAAAGTAA+AGG | + | chr3.4:12670770-12670789 | None:intergenic | 15.0% |
| !! | TAGAAAAATAAGAAAGTAAA+GGG | + | chr3.4:12670769-12670788 | None:intergenic | 15.0% |
| !! | AAAGAAAATAGTAACAATCT+AGG | + | chr3.4:12670882-12670901 | None:intergenic | 20.0% |
| !! | TGATATCAATAGATTTGAAT+GGG | - | chr3.4:12670697-12670716 | MS.gene85479:CDS | 20.0% |
| !!! | ATCCTATTATTTCTAAATCA+CGG | + | chr3.4:12671213-12671232 | None:intergenic | 20.0% |
| ! | AATAAGAAAGTAAAGGGTAA+TGG | + | chr3.4:12670763-12670782 | None:intergenic | 25.0% |
| ! | CTGATATCAATAGATTTGAA+TGG | - | chr3.4:12670696-12670715 | MS.gene85479:CDS | 25.0% |
| AATAATAGGATACGATGAGA+AGG | - | chr3.4:12671222-12671241 | MS.gene85479:CDS | 30.0% | |
| ATTGCTCAAAACGAATCTAT+TGG | - | chr3.4:12670788-12670807 | MS.gene85479:CDS | 30.0% | |
| GACCGTGATTTAGAAATAAT+AGG | - | chr3.4:12671208-12671227 | MS.gene85479:CDS | 30.0% | |
| TCAAAACATTGAACTTGGTT+AGG | - | chr3.4:12670939-12670958 | MS.gene85479:intron | 30.0% | |
| AAGCGATTTGACAGAGAATT+GGG | - | chr3.4:12671253-12671272 | MS.gene85479:CDS | 35.0% | |
| CAAGCTAAATATGTTGGAAC+TGG | - | chr3.4:12670668-12670687 | MS.gene85479:CDS | 35.0% | |
| CATCTGCAAGCTAAATATGT+TGG | - | chr3.4:12670662-12670681 | MS.gene85479:CDS | 35.0% | |
| GATAGCTATGCTTCGTATAT+TGG | - | chr3.4:12670737-12670756 | MS.gene85479:CDS | 35.0% | |
| TGACGTCAAAACATTGAACT+TGG | - | chr3.4:12670934-12670953 | MS.gene85479:intron | 35.0% | |
| TTGACACATCAACTTGTAGT+AGG | - | chr3.4:12670977-12670996 | MS.gene85479:intron | 35.0% | |
| ! | TATTTCGCTATTGCTTGCTA+TGG | + | chr3.4:12671066-12671085 | None:intergenic | 35.0% |
| AGCAAGCAATAGCGAAATAG+CGG | - | chr3.4:12671067-12671086 | MS.gene85479:intron | 40.0% | |
| AGCGATTTGACAGAGAATTG+GGG | - | chr3.4:12671254-12671273 | MS.gene85479:CDS | 40.0% | |
| CAAATAACCGACCAGAGTTT+GGG | + | chr3.4:12671161-12671180 | None:intergenic | 40.0% | |
| CAAGCGATTTGACAGAGAAT+TGG | - | chr3.4:12671252-12671271 | MS.gene85479:CDS | 40.0% | |
| TCTGGTCGGTTATTTGGAAA+TGG | - | chr3.4:12671165-12671184 | MS.gene85479:CDS | 40.0% | |
| ! | ACAGCGTTACACTTTTATGC+AGG | - | chr3.4:12670814-12670833 | MS.gene85479:CDS | 40.0% |
| CCAAACTCTGGTCGGTTATT+TGG | - | chr3.4:12671159-12671178 | MS.gene85479:CDS | 45.0% | |
| CCAAATAACCGACCAGAGTT+TGG | + | chr3.4:12671162-12671181 | None:intergenic | 45.0% | |
| GGATATGAATCCCAACCCAA+AGG | + | chr3.4:12671280-12671299 | None:intergenic | 45.0% | |
| GTCGGTTATTTGGAAATGGC+AGG | - | chr3.4:12671169-12671188 | MS.gene85479:CDS | 45.0% | |
| ! | CTAAAGCGTTTGCCGCAAAT+AGG | - | chr3.4:12671115-12671134 | MS.gene85479:CDS | 45.0% |
| AGCTTGCAGATGCTCGAGTT+GGG | + | chr3.4:12670654-12670673 | None:intergenic | 50.0% | |
| GACAGAGAATTGGGGCCTTT+GGG | - | chr3.4:12671262-12671281 | MS.gene85479:CDS | 50.0% | |
| GTTGGTACCCAAACTCTGGT+CGG | - | chr3.4:12671151-12671170 | MS.gene85479:CDS | 50.0% | |
| TGACAGAGAATTGGGGCCTT+TGG | - | chr3.4:12671261-12671280 | MS.gene85479:CDS | 50.0% | |
| ! | AGAATTGGGGCCTTTGGGTT+GGG | - | chr3.4:12671267-12671286 | MS.gene85479:CDS | 50.0% |
| ! | GCAATAGCGAAATAGCGGAG+AGG | - | chr3.4:12671072-12671091 | MS.gene85479:intron | 50.0% |
| ! | GCGAAATAGCGGAGAGGATT+AGG | - | chr3.4:12671078-12671097 | MS.gene85479:intron | 50.0% |
| ! | TAGCTTGCAGATGCTCGAGT+TGG | + | chr3.4:12670655-12670674 | None:intergenic | 50.0% |
| !! | GAGTGTTGGTACCCAAACTC+TGG | - | chr3.4:12671147-12671166 | MS.gene85479:CDS | 50.0% |
| CTCTCCTCGACGCCTATTTG+CGG | + | chr3.4:12671130-12671149 | None:intergenic | 55.0% | |
| GAGAATTGGGGCCTTTGGGT+TGG | - | chr3.4:12671266-12671285 | MS.gene85479:CDS | 55.0% | |
| ! | TTTGCCGCAAATAGGCGTCG+AGG | - | chr3.4:12671123-12671142 | MS.gene85479:CDS | 55.0% |
| !! | ATAGGCGTCGAGGAGAGTGT+TGG | - | chr3.4:12671133-12671152 | MS.gene85479:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 12670620 | 12671315 | 12670620 | ID=MS.gene85479 |
| chr3.4 | mRNA | 12670620 | 12671315 | 12670620 | ID=MS.gene85479.t1;Parent=MS.gene85479 |
| chr3.4 | exon | 12671100 | 12671315 | 12671100 | ID=MS.gene85479.t1.exon1;Parent=MS.gene85479.t1 |
| chr3.4 | CDS | 12671100 | 12671315 | 12671100 | ID=cds.MS.gene85479.t1;Parent=MS.gene85479.t1 |
| chr3.4 | exon | 12670620 | 12670835 | 12670620 | ID=MS.gene85479.t1.exon2;Parent=MS.gene85479.t1 |
| chr3.4 | CDS | 12670620 | 12670835 | 12670620 | ID=cds.MS.gene85479.t1;Parent=MS.gene85479.t1 |
| Gene Sequence |
| Protein sequence |
