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.gene94336.t1 | XP_024633451.1 | 84 | 131 | 21 | 0 | 37 | 167 | 50 | 180 | 1.10E-52 | 216.5 |
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.gene94336.t1 | A0A072UWI9 | 83.3 | 126 | 21 | 0 | 40 | 165 | 1 | 126 | 1.9e-49 | 205.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene058426 | MS.gene94336 | 0.800008 | 1.76E-48 | -1.69E-46 |
| MS.gene058515 | MS.gene94336 | 0.804425 | 2.17E-49 | -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.gene94336.t1 | MTR_3g055517 | 79.739 | 153 | 28 | 1 | 40 | 192 | 1 | 150 | 3.44e-82 | 243 |
| MS.gene94336.t1 | MTR_7g012300 | 77.941 | 68 | 15 | 0 | 122 | 189 | 35 | 102 | 1.98e-29 | 106 |
| MS.gene94336.t1 | MTR_5g061300 | 71.739 | 46 | 13 | 0 | 37 | 82 | 231 | 276 | 4.26e-15 | 72.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 30 sgRNAs with CRISPR-Local
Find 70 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGTTGTATGACGGGCTTAA+AGG | 0.293574 | 1.3:+19786771 | None:intergenic |
| ATGCAATCTTCAATTAAATA+TGG | 0.295737 | 1.3:-19786749 | MS.gene94336:CDS |
| CCTGGCAGGTTACGCTGTTA+TGG | 0.332934 | 1.3:-19786919 | MS.gene94336:CDS |
| AATTTATTGAGGACATGTTT+TGG | 0.359263 | 1.3:-19785784 | MS.gene94336:CDS |
| TCAAATGGTTGATGGCGATT+TGG | 0.366673 | 1.3:-19787268 | None:intergenic |
| TACTTGTGGTTGCGAGAGTT+TGG | 0.381741 | 1.3:+19787212 | None:intergenic |
| TGTGCTCGACTATATCCTTT+GGG | 0.384628 | 1.3:+19786677 | None:intergenic |
| CTGGCAGGTTACGCTGTTAT+GGG | 0.406389 | 1.3:-19786918 | MS.gene94336:CDS |
| TTAAGAAATGGCTGAAAAGA+AGG | 0.422198 | 1.3:-19786986 | MS.gene94336:intron |
| GGACATGGAGTATGAATTGA+TGG | 0.439302 | 1.3:+19786643 | None:intergenic |
| ATGTGCTCGACTATATCCTT+TGG | 0.455823 | 1.3:+19786676 | None:intergenic |
| TATCAATGAAGATGTTGAAA+AGG | 0.471255 | 1.3:-19785849 | MS.gene94336:CDS |
| GAACGAGTTCAAATGGTTGA+TGG | 0.483985 | 1.3:-19787276 | None:intergenic |
| TCATACTCCATGTCCTGAAA+AGG | 0.486607 | 1.3:-19786635 | MS.gene94336:intron |
| CGTAGATGATGAATTTATTG+AGG | 0.495527 | 1.3:-19785795 | MS.gene94336:CDS |
| CCATAACAGCGTAACCTGCC+AGG | 0.506878 | 1.3:+19786919 | None:intergenic |
| GCATGATCTTTCATTACTTG+TGG | 0.530474 | 1.3:+19787198 | None:intergenic |
| AGATTGCATTGTTGTATGAC+GGG | 0.542187 | 1.3:+19786763 | None:intergenic |
| TAAAACTTGCTTAAAGCGAA+AGG | 0.552255 | 1.3:-19786884 | MS.gene94336:CDS |
| TGAGAAAGGAGCATCCTGGC+AGG | 0.563677 | 1.3:-19786933 | MS.gene94336:CDS |
| TAAGAAATGGCTGAAAAGAA+GGG | 0.576576 | 1.3:-19786985 | MS.gene94336:intron |
| AAGATTGCATTGTTGTATGA+CGG | 0.582231 | 1.3:+19786762 | None:intergenic |
| GATTTGCTAAGATTATCTCA+TGG | 0.587089 | 1.3:-19786715 | MS.gene94336:CDS |
| TGGAGTATGAATTGATGGAG+AGG | 0.621751 | 1.3:+19786648 | None:intergenic |
| GAAACAAGCACATAGTCAAG+AGG | 0.625977 | 1.3:-19786845 | MS.gene94336:CDS |
| CATAGATGAGGAATTTCAAG+AGG | 0.630357 | 1.3:-19785822 | MS.gene94336:CDS |
| GTGCTCGACTATATCCTTTG+GGG | 0.636661 | 1.3:+19786678 | None:intergenic |
| TGAAAAGGATGACATAGATG+AGG | 0.643538 | 1.3:-19785834 | MS.gene94336:CDS |
| AGATGCTAACAGTTCCCCAA+AGG | 0.661509 | 1.3:-19786692 | MS.gene94336:CDS |
| GTAATGAAAGATCATGCACA+TGG | 0.720262 | 1.3:-19787192 | MS.gene94336:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATCAATAATATTTCTATATA+TGG | + | chr1.3:19786427-19786446 | None:intergenic | 10.0% |
| !! | TAAAACAAATTTCATATTTC+TGG | - | chr1.3:19787029-19787048 | MS.gene94336:intron | 15.0% |
| !! | ATATTATAAACAATGTTTGC+TGG | + | chr1.3:19785982-19786001 | None:intergenic | 20.0% |
| !! | ATGCAATCTTCAATTAAATA+TGG | - | chr1.3:19786284-19786303 | MS.gene94336:intron | 20.0% |
| !! | GAATTTATGATTATGTTGTT+TGG | - | chr1.3:19786587-19786606 | MS.gene94336:intron | 20.0% |
| !! | TATTTGAATTATGTAGAAAC+TGG | - | chr1.3:19785895-19785914 | MS.gene94336:intron | 20.0% |
| !! | TGTAATGATAGAATAAAGAA+GGG | - | chr1.3:19786999-19787018 | MS.gene94336:intron | 20.0% |
| !! | TTGTAATGATAGAATAAAGA+AGG | - | chr1.3:19786998-19787017 | MS.gene94336:intron | 20.0% |
| ! | AAGCTTATGATTATGTTGTT+TGG | - | chr1.3:19786798-19786817 | MS.gene94336:CDS | 25.0% |
| ! | TATCAATGAAGATGTTGAAA+AGG | - | chr1.3:19787184-19787203 | MS.gene94336:CDS | 25.0% |
| !! | AATTTATTGAGGACATGTTT+TGG | - | chr1.3:19787249-19787268 | MS.gene94336:CDS | 25.0% |
| !!! | TAAATTGTTTCTGCAATTTG+TGG | - | chr1.3:19786882-19786901 | MS.gene94336:CDS | 25.0% |
| !!! | TTTTGGTTTTTATTTTTGCG+AGG | - | chr1.3:19787078-19787097 | MS.gene94336:intron | 25.0% |
| AAGATTGCATTGTTGTATGA+CGG | + | chr1.3:19786274-19786293 | None:intergenic | 30.0% | |
| AAGGTGCAGAAACTTAAAAA+TGG | - | chr1.3:19786973-19786992 | MS.gene94336:CDS | 30.0% | |
| ACATCAACCATAGATATTGT+TGG | + | chr1.3:19787139-19787158 | None:intergenic | 30.0% | |
| AGGTGCAGAAACTTAAAAAT+GGG | - | chr1.3:19786974-19786993 | MS.gene94336:CDS | 30.0% | |
| CGTAGATGATGAATTTATTG+AGG | - | chr1.3:19787238-19787257 | MS.gene94336:CDS | 30.0% | |
| CTTTGAACCAACAATATCTA+TGG | - | chr1.3:19787129-19787148 | MS.gene94336:intron | 30.0% | |
| TAAGAAATGGCTGAAAAGAA+GGG | - | chr1.3:19786048-19786067 | MS.gene94336:intron | 30.0% | |
| TTAAGAAATGGCTGAAAAGA+AGG | - | chr1.3:19786047-19786066 | MS.gene94336:intron | 30.0% | |
| TTATTAGTAGTGACATCACA+TGG | - | chr1.3:19786503-19786522 | MS.gene94336:intron | 30.0% | |
| TTCAGCCATTTCTTAAAGTT+GGG | + | chr1.3:19786043-19786062 | None:intergenic | 30.0% | |
| TTTCAGCCATTTCTTAAAGT+TGG | + | chr1.3:19786044-19786063 | None:intergenic | 30.0% | |
| ! | CTATATATGGTTACCTTTTC+AGG | + | chr1.3:19786414-19786433 | None:intergenic | 30.0% |
| ! | TAAAACTTGCTTAAAGCGAA+AGG | - | chr1.3:19786149-19786168 | MS.gene94336:intron | 30.0% |
| !! | CATAGATATTGTTGGTTCAA+AGG | + | chr1.3:19787131-19787150 | None:intergenic | 30.0% |
| !! | GATTTGCTAAGATTATCTCA+TGG | - | chr1.3:19786318-19786337 | MS.gene94336:intron | 30.0% |
| !!! | GTGTGTTTTACTTGTTGTTT+TGG | - | chr1.3:19787061-19787080 | MS.gene94336:intron | 30.0% |
| !!! | TTTTCAAGCTGTTTTGAGAA+AGG | - | chr1.3:19786086-19786105 | MS.gene94336:intron | 30.0% |
| ACAATCAAGACATCAACAAG+TGG | + | chr1.3:19787108-19787127 | None:intergenic | 35.0% | |
| ACATGCAACTTAACAGTTTC+AGG | + | chr1.3:19786543-19786562 | None:intergenic | 35.0% | |
| AGATTGCATTGTTGTATGAC+GGG | + | chr1.3:19786273-19786292 | None:intergenic | 35.0% | |
| CATAGATGAGGAATTTCAAG+AGG | - | chr1.3:19787211-19787230 | MS.gene94336:CDS | 35.0% | |
| GCATGATCTTTCATTACTTG+TGG | + | chr1.3:19785838-19785857 | None:intergenic | 35.0% | |
| GTAATGAAAGATCATGCACA+TGG | - | chr1.3:19785841-19785860 | MS.gene94336:CDS | 35.0% | |
| TGAAAAGGATGACATAGATG+AGG | - | chr1.3:19787199-19787218 | MS.gene94336:CDS | 35.0% | |
| TTGTTAGTAGTGACTTCACT+TGG | - | chr1.3:19786714-19786733 | MS.gene94336:CDS | 35.0% | |
| ! | AACTGTTAAGTTGCATGTGT+AGG | - | chr1.3:19786545-19786564 | MS.gene94336:intron | 35.0% |
| ! | ACTGTTAAGTTGCATGTGTA+GGG | - | chr1.3:19786546-19786565 | MS.gene94336:intron | 35.0% |
| ! | ATTGTTTAAGATGTGTGTGC+AGG | - | chr1.3:19786614-19786633 | MS.gene94336:intron | 35.0% |
| ! | CTAGTCCCAACTTTAAGAAA+TGG | - | chr1.3:19786035-19786054 | MS.gene94336:intron | 35.0% |
| ! | TTGTTTAAGATGTGTGTGCA+GGG | - | chr1.3:19786615-19786634 | MS.gene94336:intron | 35.0% |
| !! | AATTGTTAACTTGCGTGTGT+AGG | - | chr1.3:19786756-19786775 | MS.gene94336:CDS | 35.0% |
| !! | TTTGTTGTTCTTATGCAGCA+AGG | - | chr1.3:19787161-19787180 | MS.gene94336:intron | 35.0% |
| ACACAATCAAAATCCGACCT+TGG | + | chr1.3:19786846-19786865 | None:intergenic | 40.0% | |
| AGTGACATCACATGGAATGT+AGG | - | chr1.3:19786511-19786530 | MS.gene94336:intron | 40.0% | |
| AGTGACTTCACTTGGAATGT+AGG | - | chr1.3:19786722-19786741 | MS.gene94336:CDS | 40.0% | |
| ATGTGCTCGACTATATCCTT+TGG | + | chr1.3:19786360-19786379 | None:intergenic | 40.0% | |
| GAAACAAGCACATAGTCAAG+AGG | - | chr1.3:19786188-19786207 | MS.gene94336:intron | 40.0% | |
| GGACATGGAGTATGAATTGA+TGG | + | chr1.3:19786393-19786412 | None:intergenic | 40.0% | |
| GTGTTGCATAACATTGCACA+AGG | - | chr1.3:19786954-19786973 | MS.gene94336:CDS | 40.0% | |
| TCATACTCCATGTCCTGAAA+AGG | - | chr1.3:19786398-19786417 | MS.gene94336:intron | 40.0% | |
| TGGAGTATGAATTGATGGAG+AGG | + | chr1.3:19786388-19786407 | None:intergenic | 40.0% | |
| TGTGCTCGACTATATCCTTT+GGG | + | chr1.3:19786359-19786378 | None:intergenic | 40.0% | |
| ! | TTGTTTAAGATGCGTGTCCA+AGG | - | chr1.3:19786826-19786845 | MS.gene94336:CDS | 40.0% |
| !! | ATGGTTACCTTTTCAGGACA+TGG | + | chr1.3:19786408-19786427 | None:intergenic | 40.0% |
| !! | TTGTTGTATGACGGGCTTAA+AGG | + | chr1.3:19786265-19786284 | None:intergenic | 40.0% |
| AGATGCTAACAGTTCCCCAA+AGG | - | chr1.3:19786341-19786360 | MS.gene94336:intron | 45.0% | |
| GTGCTCGACTATATCCTTTG+GGG | + | chr1.3:19786358-19786377 | None:intergenic | 45.0% | |
| TACTTGTGGTTGCGAGAGTT+TGG | + | chr1.3:19785824-19785843 | None:intergenic | 45.0% | |
| TTAAGATGCGTGTCCAAGGT+CGG | - | chr1.3:19786830-19786849 | MS.gene94336:CDS | 45.0% | |
| !!! | GTTTTGAGAAAGGAGCATCC+TGG | - | chr1.3:19786096-19786115 | MS.gene94336:intron | 45.0% |
| AAGATGTGTGTGCAGGGTCA+GGG | - | chr1.3:19786621-19786640 | MS.gene94336:intron | 50.0% | |
| CTGGCAGGTTACGCTGTTAT+GGG | - | chr1.3:19786115-19786134 | MS.gene94336:intron | 50.0% | |
| TAAGATGTGTGTGCAGGGTC+AGG | - | chr1.3:19786620-19786639 | MS.gene94336:intron | 50.0% | |
| CCATAACAGCGTAACCTGCC+AGG | + | chr1.3:19786117-19786136 | None:intergenic | 55.0% | |
| CCTGGCAGGTTACGCTGTTA+TGG | - | chr1.3:19786114-19786133 | MS.gene94336:intron | 55.0% | |
| !! | TGAGAAAGGAGCATCCTGGC+AGG | - | chr1.3:19786100-19786119 | MS.gene94336:intron | 55.0% |
| TGTGTGTGCAGGGTCAGGGT+CGG | - | chr1.3:19786625-19786644 | MS.gene94336:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.3 | gene | 19785769 | 19787286 | 19785769 | ID=MS.gene94336 |
| chr1.3 | mRNA | 19785769 | 19787286 | 19785769 | ID=MS.gene94336.t1;Parent=MS.gene94336 |
| chr1.3 | exon | 19787172 | 19787286 | 19787172 | ID=MS.gene94336.t1.exon1;Parent=MS.gene94336.t1 |
| chr1.3 | CDS | 19787172 | 19787286 | 19787172 | ID=cds.MS.gene94336.t1;Parent=MS.gene94336.t1 |
| chr1.3 | exon | 19786636 | 19787003 | 19786636 | ID=MS.gene94336.t1.exon2;Parent=MS.gene94336.t1 |
| chr1.3 | CDS | 19786636 | 19787003 | 19786636 | ID=cds.MS.gene94336.t1;Parent=MS.gene94336.t1 |
| chr1.3 | exon | 19785769 | 19785876 | 19785769 | ID=MS.gene94336.t1.exon3;Parent=MS.gene94336.t1 |
| chr1.3 | CDS | 19785769 | 19785876 | 19785769 | ID=cds.MS.gene94336.t1;Parent=MS.gene94336.t1 |
| Gene Sequence |
| Protein sequence |
