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.gene06349.t1 | XP_003602689.1 | 93.2 | 148 | 10 | 0 | 1 | 148 | 1 | 148 | 1.60E-71 | 278.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene06349.t1 | O64885 | 52.3 | 155 | 62 | 4 | 1 | 146 | 1 | 152 | 8.3e-29 | 128.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene06349.t1 | G7J2M5 | 93.2 | 148 | 10 | 0 | 1 | 148 | 1 | 148 | 1.1e-71 | 278.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049140 | MS.gene06349 | -0.800852 | 1.19E-48 | -1.69E-46 |
| MS.gene049235 | MS.gene06349 | 0.90775 | 3.62E-81 | -1.69E-46 |
| MS.gene049580 | MS.gene06349 | -0.807824 | 4.19E-50 | -1.69E-46 |
| MS.gene049680 | MS.gene06349 | -0.801122 | 1.05E-48 | -1.69E-46 |
| MS.gene05029 | MS.gene06349 | -0.802772 | 4.79E-49 | -1.69E-46 |
| MS.gene050752 | MS.gene06349 | -0.813502 | 2.48E-51 | -1.69E-46 |
| MS.gene051003 | MS.gene06349 | -0.807262 | 5.51E-50 | -1.69E-46 |
| MS.gene051903 | MS.gene06349 | -0.801655 | 8.13E-49 | -1.69E-46 |
| MS.gene052296 | MS.gene06349 | -0.800878 | 1.17E-48 | -1.69E-46 |
| MS.gene052370 | MS.gene06349 | -0.808729 | 2.68E-50 | -1.69E-46 |
| MS.gene053879 | MS.gene06349 | -0.814754 | 1.31E-51 | -1.69E-46 |
| MS.gene054403 | MS.gene06349 | -0.818721 | 1.69E-52 | -1.69E-46 |
| MS.gene05469 | MS.gene06349 | -0.802961 | 4.38E-49 | -1.69E-46 |
| MS.gene05781 | MS.gene06349 | -0.80062 | 1.32E-48 | -1.69E-46 |
| MS.gene057999 | MS.gene06349 | -0.816128 | 6.49E-52 | -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.gene06349.t1 | MTR_3g096970 | 93.243 | 148 | 10 | 0 | 1 | 148 | 1 | 148 | 2.88e-99 | 289 |
| MS.gene06349.t1 | MTR_3g088850 | 88.742 | 151 | 14 | 1 | 1 | 148 | 1 | 151 | 6.15e-95 | 278 |
| MS.gene06349.t1 | MTR_3g088850 | 88.742 | 151 | 14 | 1 | 1 | 148 | 64 | 214 | 2.75e-94 | 278 |
| MS.gene06349.t1 | MTR_3g088850 | 88.742 | 151 | 14 | 1 | 1 | 148 | 38 | 188 | 3.21e-94 | 278 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene06349.t1 | AT2G44510 | 47.977 | 173 | 78 | 4 | 1 | 164 | 1 | 170 | 1.80e-39 | 136 |
| MS.gene06349.t1 | AT5G03830 | 38.255 | 149 | 55 | 6 | 1 | 148 | 1 | 113 | 4.18e-15 | 71.2 |
| MS.gene06349.t1 | AT5G03830 | 38.255 | 149 | 55 | 6 | 1 | 148 | 1 | 113 | 4.18e-15 | 71.2 |
| MS.gene06349.t1 | AT5G03830 | 38.255 | 149 | 55 | 6 | 1 | 148 | 1 | 113 | 4.18e-15 | 71.2 |
Find 54 sgRNAs with CRISPR-Local
Find 67 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGTTACCGCTCTTAATTTA+TGG | 0.174434 | 3.1:+77394102 | MS.gene06349:CDS |
| TGGCTTTGCAGACTTGATTT+TGG | 0.241139 | 3.1:+77394016 | MS.gene06349:CDS |
| TTGGGTCGTTGACGCCTTCT+TGG | 0.252549 | 3.1:-77393515 | None:intergenic |
| GAATATAATGGGCCAAGATT+TGG | 0.291911 | 3.1:-77393534 | None:intergenic |
| CCATGGAAATCATTGGGTTT+AGG | 0.305918 | 3.1:-77393942 | None:intergenic |
| GCCAAATGGGGAGAATATAA+TGG | 0.310615 | 3.1:-77393546 | None:intergenic |
| CTCTTAATTTATGGAGGTAT+AGG | 0.323978 | 3.1:+77394111 | MS.gene06349:CDS |
| CGAGCAAGAGCGCGGCCAAA+TGG | 0.341638 | 3.1:-77393560 | None:intergenic |
| CCCATTATATTCTCCCCATT+TGG | 0.342026 | 3.1:+77393545 | MS.gene06349:CDS |
| AATATAATGGGCCAAGATTT+GGG | 0.346246 | 3.1:-77393533 | None:intergenic |
| CTTAACTCCATGGAAATCAT+TGG | 0.376136 | 3.1:-77393949 | None:intergenic |
| TCTTAATTTATGGAGGTATA+GGG | 0.378376 | 3.1:+77394112 | MS.gene06349:CDS |
| TCAGATGACTCTGACCCTTC+AGG | 0.384150 | 3.1:-77393799 | None:intergenic |
| GAGCAAGAGCGCGGCCAAAT+GGG | 0.392951 | 3.1:-77393559 | None:intergenic |
| ATGACGGTTTGGCTTAGAAA+TGG | 0.416643 | 3.1:-77393591 | None:intergenic |
| ATGGATTCGTAATGACGGTT+TGG | 0.422019 | 3.1:-77393602 | None:intergenic |
| GGCGTCAACGACCCAAATCT+TGG | 0.432825 | 3.1:+77393522 | MS.gene06349:CDS |
| TTAACTCCATGGAAATCATT+GGG | 0.437074 | 3.1:-77393948 | None:intergenic |
| TTACCTAGATGTTGAAGAAT+GGG | 0.437722 | 3.1:+77393986 | MS.gene06349:CDS |
| AATCCCATTCTTCAACATCT+AGG | 0.445601 | 3.1:-77393989 | None:intergenic |
| TGGCCGCGCTCTTGCTCGTA+TGG | 0.446929 | 3.1:+77393565 | MS.gene06349:CDS |
| CTTACCTAGATGTTGAAGAA+TGG | 0.457923 | 3.1:+77393985 | MS.gene06349:CDS |
| TGACGCCTTCTTGGCTTTCG+AGG | 0.467184 | 3.1:-77393506 | None:intergenic |
| CCAAATGGGGAGAATATAAT+GGG | 0.469210 | 3.1:-77393545 | None:intergenic |
| CATCTAGGTAAGTTTGCAGC+AGG | 0.476506 | 3.1:-77393974 | None:intergenic |
| CGTCTTACTAGTAGAGGAAA+GGG | 0.484380 | 3.1:-77393636 | None:intergenic |
| TATTACATTAGAAAAGAAAG+AGG | 0.512699 | 3.1:-77394181 | None:intergenic |
| TGGCTTCAACAAGCACACTT+TGG | 0.512805 | 3.1:+77393768 | MS.gene06349:CDS |
| CCTAAACCCAATGATTTCCA+TGG | 0.540138 | 3.1:+77393942 | MS.gene06349:CDS |
| TTACTAGTAGAGGAAAGGGT+AGG | 0.545836 | 3.1:-77393632 | None:intergenic |
| GCGTCTTACTAGTAGAGGAA+AGG | 0.553247 | 3.1:-77393637 | None:intergenic |
| CACTGTAGGGACTGTTGTGA+AGG | 0.561683 | 3.1:+77394046 | MS.gene06349:CDS |
| GTAGAGGATGATGAGGACGA+AGG | 0.562570 | 3.1:+77394068 | MS.gene06349:CDS |
| AAGGGTCAGAGTCATCTGAC+GGG | 0.567670 | 3.1:+77393803 | MS.gene06349:CDS |
| AAATGCCTCGAAAGCCAAGA+AGG | 0.571167 | 3.1:+77393501 | None:intergenic |
| AAAAGGCGTCTTACTAGTAG+AGG | 0.571577 | 3.1:-77393642 | None:intergenic |
| GCAGCAGGGTCTTAACTCCA+TGG | 0.576405 | 3.1:-77393959 | None:intergenic |
| AGCAAGAGCGCGGCCAAATG+GGG | 0.577789 | 3.1:-77393558 | None:intergenic |
| TTACCGCTCTTAATTTATGG+AGG | 0.583198 | 3.1:+77394105 | MS.gene06349:CDS |
| TACTAGTAGAGGAAAGGGTA+GGG | 0.587803 | 3.1:-77393631 | None:intergenic |
| AAGAAAGAGGCAAACAGATG+AGG | 0.599031 | 3.1:-77394168 | None:intergenic |
| GAAGGGTCAGAGTCATCTGA+CGG | 0.599996 | 3.1:+77393802 | MS.gene06349:CDS |
| TCGCAATGGATTCGTAATGA+CGG | 0.622074 | 3.1:-77393607 | None:intergenic |
| ACTTTGGAAGAAAGACCTGA+AGG | 0.627107 | 3.1:+77393784 | MS.gene06349:CDS |
| GGAAAGGGTAGGGTTCGCAA+TGG | 0.644789 | 3.1:-77393621 | None:intergenic |
| ATGCCATACGAGCAAGAGCG+CGG | 0.646129 | 3.1:-77393568 | None:intergenic |
| AGGGACTGTTGTGAAGGTAG+AGG | 0.647189 | 3.1:+77394052 | MS.gene06349:CDS |
| CTTTGGAAGAAAGACCTGAA+GGG | 0.652042 | 3.1:+77393785 | MS.gene06349:CDS |
| ATCTAGGTAAGTTTGCAGCA+GGG | 0.655089 | 3.1:-77393973 | None:intergenic |
| GTTGAAGAATGGGATTTGAG+TGG | 0.660162 | 3.1:+77393996 | MS.gene06349:CDS |
| ATACCTCCATAAATTAAGAG+CGG | 0.696195 | 3.1:-77394108 | None:intergenic |
| TGTGAAGGTAGAGGATGATG+AGG | 0.709733 | 3.1:+77394061 | MS.gene06349:CDS |
| AGGGTCAGAGTCATCTGACG+GGG | 0.709794 | 3.1:+77393804 | MS.gene06349:CDS |
| CTTCACAACAGTCCCTACAG+TGG | 0.715752 | 3.1:-77394045 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTAAATTATAAAAGAGAAAA+AGG | - | chr3.1:77393662-77393681 | None:intergenic | 10.0% |
| !! | AAGTAAAATTGATTGATACA+AGG | + | chr3.1:77393871-77393890 | MS.gene06349:intron | 20.0% |
| !! | TGTAAGACATAAAACATAAA+AGG | - | chr3.1:77393712-77393731 | None:intergenic | 20.0% |
| !! | TCTTAATTTATGGAGGTATA+GGG | + | chr3.1:77394112-77394131 | MS.gene06349:CDS | 25.0% |
| ATACCTCCATAAATTAAGAG+CGG | - | chr3.1:77394111-77394130 | None:intergenic | 30.0% | |
| TTAACTCCATGGAAATCATT+GGG | - | chr3.1:77393951-77393970 | None:intergenic | 30.0% | |
| TTACCTAGATGTTGAAGAAT+GGG | + | chr3.1:77393986-77394005 | MS.gene06349:CDS | 30.0% | |
| TTGTTACCGCTCTTAATTTA+TGG | + | chr3.1:77394102-77394121 | MS.gene06349:CDS | 30.0% | |
| ! | ATTGGGTTTAGGATCAAAAA+AGG | - | chr3.1:77393934-77393953 | None:intergenic | 30.0% |
| ! | CTCTTAATTTATGGAGGTAT+AGG | + | chr3.1:77394111-77394130 | MS.gene06349:CDS | 30.0% |
| !! | AATATAATGGGCCAAGATTT+GGG | - | chr3.1:77393536-77393555 | None:intergenic | 30.0% |
| !! | ATAAAAGGCACTTAAAAGCA+TGG | - | chr3.1:77393697-77393716 | None:intergenic | 30.0% |
| AATCCCATTCTTCAACATCT+AGG | - | chr3.1:77393992-77394011 | None:intergenic | 35.0% | |
| CAAAAAAGGCAAAATCAGCT+TGG | - | chr3.1:77393920-77393939 | None:intergenic | 35.0% | |
| CCAAATGGGGAGAATATAAT+GGG | - | chr3.1:77393548-77393567 | None:intergenic | 35.0% | |
| CTTAACTCCATGGAAATCAT+TGG | - | chr3.1:77393952-77393971 | None:intergenic | 35.0% | |
| CTTACCTAGATGTTGAAGAA+TGG | + | chr3.1:77393985-77394004 | MS.gene06349:CDS | 35.0% | |
| TTACCGCTCTTAATTTATGG+AGG | + | chr3.1:77394105-77394124 | MS.gene06349:CDS | 35.0% | |
| !! | GAATATAATGGGCCAAGATT+TGG | - | chr3.1:77393537-77393556 | None:intergenic | 35.0% |
| AAGAAAGAGGCAAACAGATG+AGG | - | chr3.1:77394171-77394190 | None:intergenic | 40.0% | |
| ATCTAGGTAAGTTTGCAGCA+GGG | - | chr3.1:77393976-77393995 | None:intergenic | 40.0% | |
| ATGGATTCGTAATGACGGTT+TGG | - | chr3.1:77393605-77393624 | None:intergenic | 40.0% | |
| CCATGGAAATCATTGGGTTT+AGG | - | chr3.1:77393945-77393964 | None:intergenic | 40.0% | |
| CCCATTATATTCTCCCCATT+TGG | + | chr3.1:77393545-77393564 | MS.gene06349:CDS | 40.0% | |
| CCTAAACCCAATGATTTCCA+TGG | + | chr3.1:77393942-77393961 | MS.gene06349:CDS | 40.0% | |
| CGTCTTACTAGTAGAGGAAA+GGG | - | chr3.1:77393639-77393658 | None:intergenic | 40.0% | |
| GCCAAATGGGGAGAATATAA+TGG | - | chr3.1:77393549-77393568 | None:intergenic | 40.0% | |
| GTTGAAGAATGGGATTTGAG+TGG | + | chr3.1:77393996-77394015 | MS.gene06349:CDS | 40.0% | |
| TACTAGTAGAGGAAAGGGTA+GGG | - | chr3.1:77393634-77393653 | None:intergenic | 40.0% | |
| TTACTAGTAGAGGAAAGGGT+AGG | - | chr3.1:77393635-77393654 | None:intergenic | 40.0% | |
| ! | ACTTTGGAAGAAAGACCTGA+AGG | + | chr3.1:77393784-77393803 | MS.gene06349:CDS | 40.0% |
| ! | ATGACGGTTTGGCTTAGAAA+TGG | - | chr3.1:77393594-77393613 | None:intergenic | 40.0% |
| ! | CTTTGGAAGAAAGACCTGAA+GGG | + | chr3.1:77393785-77393804 | MS.gene06349:CDS | 40.0% |
| ! | TCGCAATGGATTCGTAATGA+CGG | - | chr3.1:77393610-77393629 | None:intergenic | 40.0% |
| !! | AAAAGGCGTCTTACTAGTAG+AGG | - | chr3.1:77393645-77393664 | None:intergenic | 40.0% |
| !! | ACAAGGTCTCTGTTGTTTCA+GGG | + | chr3.1:77393888-77393907 | MS.gene06349:intron | 40.0% |
| !! | TACAAGGTCTCTGTTGTTTC+AGG | + | chr3.1:77393887-77393906 | MS.gene06349:intron | 40.0% |
| !! | TGGCTTTGCAGACTTGATTT+TGG | + | chr3.1:77394016-77394035 | MS.gene06349:CDS | 40.0% |
| !!! | ATTTTGGAACAGACCACTGT+AGG | + | chr3.1:77394032-77394051 | MS.gene06349:CDS | 40.0% |
| !!! | TTTTGGAACAGACCACTGTA+GGG | + | chr3.1:77394033-77394052 | MS.gene06349:CDS | 40.0% |
| CATCTAGGTAAGTTTGCAGC+AGG | - | chr3.1:77393977-77393996 | None:intergenic | 45.0% | |
| CATTACCTAGGAAGTGGATC+AGG | - | chr3.1:77393750-77393769 | None:intergenic | 45.0% | |
| CTATTCCTGATCCACTTCCT+AGG | + | chr3.1:77393742-77393761 | MS.gene06349:intron | 45.0% | |
| CTGATCCACTTCCTAGGTAA+TGG | + | chr3.1:77393748-77393767 | MS.gene06349:intron | 45.0% | |
| GCGTCTTACTAGTAGAGGAA+AGG | - | chr3.1:77393640-77393659 | None:intergenic | 45.0% | |
| TGAAGCCATTACCTAGGAAG+TGG | - | chr3.1:77393756-77393775 | None:intergenic | 45.0% | |
| TGGCTTCAACAAGCACACTT+TGG | + | chr3.1:77393768-77393787 | MS.gene06349:CDS | 45.0% | |
| TGTGAAGGTAGAGGATGATG+AGG | + | chr3.1:77394061-77394080 | MS.gene06349:CDS | 45.0% | |
| ! | GCTTGTTGAAGCCATTACCT+AGG | - | chr3.1:77393762-77393781 | None:intergenic | 45.0% |
| AAGGGTCAGAGTCATCTGAC+GGG | + | chr3.1:77393803-77393822 | MS.gene06349:CDS | 50.0% | |
| AGGGACTGTTGTGAAGGTAG+AGG | + | chr3.1:77394052-77394071 | MS.gene06349:CDS | 50.0% | |
| CACTGTAGGGACTGTTGTGA+AGG | + | chr3.1:77394046-77394065 | MS.gene06349:CDS | 50.0% | |
| CTTCACAACAGTCCCTACAG+TGG | - | chr3.1:77394048-77394067 | None:intergenic | 50.0% | |
| GAAGGGTCAGAGTCATCTGA+CGG | + | chr3.1:77393802-77393821 | MS.gene06349:CDS | 50.0% | |
| GTAGAGGATGATGAGGACGA+AGG | + | chr3.1:77394068-77394087 | MS.gene06349:CDS | 50.0% | |
| TCAGATGACTCTGACCCTTC+AGG | - | chr3.1:77393802-77393821 | None:intergenic | 50.0% | |
| AGGGTCAGAGTCATCTGACG+GGG | + | chr3.1:77393804-77393823 | MS.gene06349:CDS | 55.0% | |
| ATGCCATACGAGCAAGAGCG+CGG | - | chr3.1:77393571-77393590 | None:intergenic | 55.0% | |
| GCAGCAGGGTCTTAACTCCA+TGG | - | chr3.1:77393962-77393981 | None:intergenic | 55.0% | |
| GGAAAGGGTAGGGTTCGCAA+TGG | - | chr3.1:77393624-77393643 | None:intergenic | 55.0% | |
| GGCGTCAACGACCCAAATCT+TGG | + | chr3.1:77393522-77393541 | MS.gene06349:CDS | 55.0% | |
| TTGGGTCGTTGACGCCTTCT+TGG | - | chr3.1:77393518-77393537 | None:intergenic | 55.0% | |
| ! | TGACGCCTTCTTGGCTTTCG+AGG | - | chr3.1:77393509-77393528 | None:intergenic | 55.0% |
| ! | AGCAAGAGCGCGGCCAAATG+GGG | - | chr3.1:77393561-77393580 | None:intergenic | 60.0% |
| ! | GAGCAAGAGCGCGGCCAAAT+GGG | - | chr3.1:77393562-77393581 | None:intergenic | 60.0% |
| TGGCCGCGCTCTTGCTCGTA+TGG | + | chr3.1:77393565-77393584 | MS.gene06349:CDS | 65.0% | |
| ! | CGAGCAAGAGCGCGGCCAAA+TGG | - | chr3.1:77393563-77393582 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 77393503 | 77394196 | 77393503 | ID=MS.gene06349 |
| chr3.1 | mRNA | 77393503 | 77394196 | 77393503 | ID=MS.gene06349.t1;Parent=MS.gene06349 |
| chr3.1 | exon | 77393503 | 77393650 | 77393503 | ID=MS.gene06349.t1.exon1;Parent=MS.gene06349.t1 |
| chr3.1 | CDS | 77393503 | 77393650 | 77393503 | ID=cds.MS.gene06349.t1;Parent=MS.gene06349.t1 |
| chr3.1 | exon | 77393764 | 77393834 | 77393764 | ID=MS.gene06349.t1.exon2;Parent=MS.gene06349.t1 |
| chr3.1 | CDS | 77393764 | 77393834 | 77393764 | ID=cds.MS.gene06349.t1;Parent=MS.gene06349.t1 |
| chr3.1 | exon | 77393909 | 77394196 | 77393909 | ID=MS.gene06349.t1.exon3;Parent=MS.gene06349.t1 |
| chr3.1 | CDS | 77393909 | 77394196 | 77393909 | ID=cds.MS.gene06349.t1;Parent=MS.gene06349.t1 |
| Gene Sequence |
| Protein sequence |
