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.gene39878.t1 | XP_013468528.1 | 98.5 | 133 | 2 | 0 | 3 | 135 | 24 | 156 | 1.20E-66 | 262.3 |
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.gene39878.t1 | B7FH85 | 98.5 | 133 | 2 | 0 | 3 | 135 | 24 | 156 | 8.9e-67 | 262.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049166 | MS.gene39878 | 0.801866 | 7.36E-49 | -1.69E-46 |
| MS.gene049887 | MS.gene39878 | 0.813316 | 2.72E-51 | -1.69E-46 |
| MS.gene050752 | MS.gene39878 | 0.824866 | 6.40E-54 | -1.69E-46 |
| MS.gene050838 | MS.gene39878 | 0.846325 | 2.33E-59 | -1.69E-46 |
| MS.gene051003 | MS.gene39878 | 0.865413 | 6.01E-65 | -1.69E-46 |
| MS.gene051234 | MS.gene39878 | 0.855042 | 8.23E-62 | -1.69E-46 |
| MS.gene051746 | MS.gene39878 | 0.803207 | 3.89E-49 | -1.69E-46 |
| MS.gene051748 | MS.gene39878 | 0.820479 | 6.71E-53 | -1.69E-46 |
| MS.gene051903 | MS.gene39878 | 0.807829 | 4.17E-50 | -1.69E-46 |
| MS.gene053786 | MS.gene39878 | 0.80308 | 4.14E-49 | -1.69E-46 |
| MS.gene054403 | MS.gene39878 | 0.824364 | 8.40E-54 | -1.69E-46 |
| MS.gene056181 | MS.gene39878 | 0.807436 | 5.06E-50 | -1.69E-46 |
| MS.gene05781 | MS.gene39878 | 0.823331 | 1.47E-53 | -1.69E-46 |
| MS.gene059146 | MS.gene39878 | 0.810615 | 1.06E-50 | -1.69E-46 |
| MS.gene060563 | MS.gene39878 | 0.81285 | 3.45E-51 | -1.69E-46 |
| MS.gene060763 | MS.gene39878 | 0.815856 | 7.46E-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.gene39878.t1 | MTR_1g070190 | 98.496 | 133 | 2 | 0 | 3 | 135 | 24 | 156 | 6.07e-93 | 265 |
| MS.gene39878.t1 | MTR_7g096640 | 76.423 | 123 | 29 | 0 | 3 | 125 | 24 | 146 | 9.77e-68 | 202 |
| MS.gene39878.t1 | MTR_1g073940 | 50.000 | 136 | 64 | 2 | 2 | 133 | 23 | 158 | 5.00e-39 | 129 |
| MS.gene39878.t1 | MTR_1g073940 | 50.370 | 135 | 63 | 2 | 3 | 133 | 39 | 173 | 9.49e-39 | 129 |
| MS.gene39878.t1 | MTR_7g096640 | 63.768 | 69 | 25 | 0 | 3 | 71 | 24 | 92 | 1.66e-28 | 101 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene39878.t1 | AT4G14420 | 60.448 | 134 | 51 | 1 | 3 | 134 | 24 | 157 | 2.28e-46 | 147 |
| MS.gene39878.t1 | AT1G04340 | 48.529 | 136 | 67 | 1 | 2 | 134 | 23 | 158 | 4.34e-41 | 134 |
| MS.gene39878.t1 | AT5G43460 | 48.438 | 128 | 64 | 1 | 9 | 134 | 26 | 153 | 7.65e-38 | 126 |
| MS.gene39878.t1 | AT5G43460 | 48.438 | 128 | 64 | 1 | 9 | 134 | 26 | 153 | 7.65e-38 | 126 |
| MS.gene39878.t1 | AT3G23190 | 38.710 | 93 | 44 | 1 | 11 | 103 | 45 | 124 | 2.66e-12 | 61.6 |
| MS.gene39878.t1 | AT3G23180 | 46.032 | 63 | 34 | 0 | 41 | 103 | 66 | 128 | 6.73e-12 | 60.8 |
| MS.gene39878.t1 | AT3G23180 | 46.032 | 63 | 34 | 0 | 41 | 103 | 66 | 128 | 6.73e-12 | 60.8 |
Find 27 sgRNAs with CRISPR-Local
Find 85 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCCTTCTTTGGTTGTCTTCT+AGG | 0.155377 | 1.4:+57352046 | None:intergenic |
| CTATATAGATATAACGAATT+TGG | 0.168785 | 1.4:-57353089 | MS.gene39878:intron |
| CAGATTAAACTTGTAATTAC+TGG | 0.264664 | 1.4:-57352468 | MS.gene39878:CDS |
| TTCATATTCGGAAGCTCTTT+CGG | 0.294913 | 1.4:-57352411 | MS.gene39878:CDS |
| CTCTTTCGGAGCTTTGCTGC+TGG | 0.368078 | 1.4:-57352397 | MS.gene39878:intron |
| GCTATTGCTCTGAAGGGCCT+TGG | 0.375035 | 1.4:-57352444 | MS.gene39878:CDS |
| ATTGCTCTGAAGGGCCTTGG+AGG | 0.394581 | 1.4:-57352441 | MS.gene39878:CDS |
| CTTTGGTTGTCTTCTAGGAA+TGG | 0.422045 | 1.4:+57352051 | None:intergenic |
| TATAACGAATTTGGAGTTGA+GGG | 0.426480 | 1.4:-57353080 | MS.gene39878:CDS |
| GTTGAAAGCCAACTTGAGAA+TGG | 0.444032 | 1.4:+57353003 | None:intergenic |
| TGTGCAAAGGAATCAAGCTT+TGG | 0.445686 | 1.4:+57353032 | None:intergenic |
| GGTTTCAGTGCTGTTGCAGA+AGG | 0.469228 | 1.4:+57353053 | None:intergenic |
| TTGCTCTGAAGGGCCTTGGA+GGG | 0.470152 | 1.4:-57352440 | MS.gene39878:CDS |
| TGCTCTGAAGGGCCTTGGAG+GGG | 0.472119 | 1.4:-57352439 | MS.gene39878:CDS |
| AGATTAAACTTGTAATTACT+GGG | 0.475430 | 1.4:-57352467 | MS.gene39878:CDS |
| GAGAGACTAACATCAATCTC+TGG | 0.486838 | 1.4:+57352978 | None:intergenic |
| TACTGGGGCTATTGCTCTGA+AGG | 0.491768 | 1.4:-57352451 | MS.gene39878:CDS |
| CATCGAATCCATTCTCAAGT+TGG | 0.513513 | 1.4:-57353011 | MS.gene39878:CDS |
| TCCTAGAAGACAACCAAAGA+AGG | 0.517286 | 1.4:-57352047 | MS.gene39878:CDS |
| ATATAACGAATTTGGAGTTG+AGG | 0.561681 | 1.4:-57353081 | MS.gene39878:CDS |
| TAACGAATTTGGAGTTGAGG+GGG | 0.607819 | 1.4:-57353078 | MS.gene39878:CDS |
| ACTGGGGCTATTGCTCTGAA+GGG | 0.616718 | 1.4:-57352450 | MS.gene39878:CDS |
| AGAATGGATTCGATGTGCAA+AGG | 0.617931 | 1.4:+57353019 | None:intergenic |
| ATAACGAATTTGGAGTTGAG+GGG | 0.638240 | 1.4:-57353079 | MS.gene39878:CDS |
| AACGAATTTGGAGTTGAGGG+GGG | 0.640083 | 1.4:-57353077 | MS.gene39878:CDS |
| ATATGAAAAGAACCCCTCCA+AGG | 0.650548 | 1.4:+57352427 | None:intergenic |
| GATTAAACTTGTAATTACTG+GGG | 0.669590 | 1.4:-57352466 | MS.gene39878:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TGAACAATTATAATATCAAA+TGG | + | chr1.4:57352321-57352340 | None:intergenic | 15.0% |
| !! | AATGCAAAAAAGTTAACAAA+TGG | + | chr1.4:57352894-57352913 | None:intergenic | 20.0% |
| !! | AGATTAAACTTGTAATTACT+GGG | - | chr1.4:57353060-57353079 | MS.gene39878:CDS | 20.0% |
| !! | ATAGAAAATAATGAGCAAAT+GGG | + | chr1.4:57353006-57353025 | None:intergenic | 20.0% |
| !! | ATTCAGTAAGAATTAAAACA+TGG | + | chr1.4:57352145-57352164 | None:intergenic | 20.0% |
| !! | CTATATAGATATAACGAATT+TGG | - | chr1.4:57352438-57352457 | MS.gene39878:CDS | 20.0% |
| !! | TTAAGTTAAATTGAAAAGAC+CGG | - | chr1.4:57352846-57352865 | MS.gene39878:intron | 20.0% |
| !! | TTCACTAAAGCATAAAAATA+GGG | + | chr1.4:57352388-57352407 | None:intergenic | 20.0% |
| !! | TTGTAAAAATCATAACGAAT+TGG | + | chr1.4:57353266-57353285 | None:intergenic | 20.0% |
| !!! | TAATTTGTGATGAAATTGTA+TGG | + | chr1.4:57352743-57352762 | None:intergenic | 20.0% |
| !!! | TAGTTACGATCTTTTTTTTT+TGG | - | chr1.4:57353205-57353224 | MS.gene39878:intron | 20.0% |
| ! | AACAATAGAAAAAGTTTACC+AGG | + | chr1.4:57352037-57352056 | None:intergenic | 25.0% |
| ! | ACATCACATCAGTTATATTA+GGG | + | chr1.4:57353038-57353057 | None:intergenic | 25.0% |
| ! | CAGATTAAACTTGTAATTAC+TGG | - | chr1.4:57353059-57353078 | MS.gene39878:CDS | 25.0% |
| ! | CATAGAAAATAATGAGCAAA+TGG | + | chr1.4:57353007-57353026 | None:intergenic | 25.0% |
| ! | CTTCACTAAAGCATAAAAAT+AGG | + | chr1.4:57352389-57352408 | None:intergenic | 25.0% |
| ! | GATTAAACTTGTAATTACTG+GGG | - | chr1.4:57353061-57353080 | MS.gene39878:CDS | 25.0% |
| ! | TAATAGCACATTACATAGAA+CGG | + | chr1.4:57352109-57352128 | None:intergenic | 25.0% |
| ! | TATGGCACAAATATTTATTG+TGG | + | chr1.4:57352725-57352744 | None:intergenic | 25.0% |
| ! | TCACTAAAGCATAAAAATAG+GGG | + | chr1.4:57352387-57352406 | None:intergenic | 25.0% |
| ! | TTATTTAATAATCCTGACAG+CGG | - | chr1.4:57352349-57352368 | MS.gene39878:intron | 25.0% |
| !! | ACTTTTCATCAAATTTACAC+AGG | - | chr1.4:57353316-57353335 | MS.gene39878:intron | 25.0% |
| !! | TTTTTACAATTATGACAACG+AGG | - | chr1.4:57353277-57353296 | MS.gene39878:intron | 25.0% |
| !!! | TTTCATTTTTTATGCCAGAT+CGG | + | chr1.4:57352939-57352958 | None:intergenic | 25.0% |
| AAAGAATAATAAGGACAAGG+TGG | - | chr1.4:57352823-57352842 | MS.gene39878:intron | 30.0% | |
| AGCTCTTGTACTTTATTGAA+GGG | + | chr1.4:57352789-57352808 | None:intergenic | 30.0% | |
| CACATCACATCAGTTATATT+AGG | + | chr1.4:57353039-57353058 | None:intergenic | 30.0% | |
| GCTGTCAGGATTATTAAATA+AGG | + | chr1.4:57352350-57352369 | None:intergenic | 30.0% | |
| GGAAAAGAATAATAAGGACA+AGG | - | chr1.4:57352820-57352839 | MS.gene39878:intron | 30.0% | |
| TAAGAATTAAAACATGGCCA+AGG | + | chr1.4:57352139-57352158 | None:intergenic | 30.0% | |
| TCAATAAGCAATTGCAACAA+TGG | + | chr1.4:57353391-57353410 | None:intergenic | 30.0% | |
| TCGTTCGGAAAAGAATAATA+AGG | - | chr1.4:57352814-57352833 | MS.gene39878:intron | 30.0% | |
| ! | ATATAACGAATTTGGAGTTG+AGG | - | chr1.4:57352446-57352465 | MS.gene39878:CDS | 30.0% |
| ! | TATAACGAATTTGGAGTTGA+GGG | - | chr1.4:57352447-57352466 | MS.gene39878:CDS | 30.0% |
| ! | TTATTATTCTTTTCCGAACG+AGG | + | chr1.4:57352815-57352834 | None:intergenic | 30.0% |
| !! | CTATTGTTGAATTTTTGAGC+TGG | - | chr1.4:57352049-57352068 | MS.gene39878:CDS | 30.0% |
| !!! | GAGCTTTGTTGTTTTTCATT+GGG | - | chr1.4:57353443-57353462 | MS.gene39878:intron | 30.0% |
| AAAAACATGATCTGTCCTTC+AGG | - | chr1.4:57352660-57352679 | MS.gene39878:intron | 35.0% | |
| AATGGACATGTAATATCCAC+TGG | + | chr1.4:57352876-57352895 | None:intergenic | 35.0% | |
| ATTATGCTAAATTGCCGATC+TGG | - | chr1.4:57352922-57352941 | MS.gene39878:intron | 35.0% | |
| CAGCTCTTGTACTTTATTGA+AGG | + | chr1.4:57352790-57352809 | None:intergenic | 35.0% | |
| CTGAGCAAATGAGATGAATA+TGG | + | chr1.4:57353179-57353198 | None:intergenic | 35.0% | |
| GAAAATAATGAGCAAATGGG+AGG | + | chr1.4:57353003-57353022 | None:intergenic | 35.0% | |
| TAGCATTGCACTTTATAAGC+TGG | - | chr1.4:57352267-57352286 | MS.gene39878:CDS | 35.0% | |
| TCAGTTATATTAGGGAACAC+TGG | + | chr1.4:57353030-57353049 | None:intergenic | 35.0% | |
| TTCATATTCGGAAGCTCTTT+CGG | - | chr1.4:57353116-57353135 | MS.gene39878:intron | 35.0% | |
| ! | ACTTTTGCAGACACAGATAA+TGG | + | chr1.4:57352238-57352257 | None:intergenic | 35.0% |
| ! | ATAACGAATTTGGAGTTGAG+GGG | - | chr1.4:57352448-57352467 | MS.gene39878:CDS | 35.0% |
| ! | TGGTTTGTCAGATTCTCTAT+TGG | - | chr1.4:57353150-57353169 | MS.gene39878:intron | 35.0% |
| ! | TGTGCTATTATACATTGCCT+TGG | - | chr1.4:57352119-57352138 | MS.gene39878:intron | 35.0% |
| !! | TGTTGAATTTTTGAGCTGGA+AGG | - | chr1.4:57352053-57352072 | MS.gene39878:CDS | 35.0% |
| !!! | GGAGCTTTGTTGTTTTTCAT+TGG | - | chr1.4:57353442-57353461 | MS.gene39878:intron | 35.0% |
| !!! | TTTGTTTTTGGAGCCTTCTT+TGG | + | chr1.4:57353496-57353515 | None:intergenic | 35.0% |
| AAAAAGAGCCATGTTCTGCA+AGG | + | chr1.4:57353422-57353441 | None:intergenic | 40.0% | |
| ACTAATCCAGTGTTACCTGA+AGG | + | chr1.4:57352678-57352697 | None:intergenic | 40.0% | |
| ATATCACTCCTTGCAGAACA+TGG | - | chr1.4:57353411-57353430 | MS.gene39878:intron | 40.0% | |
| ATATGAAAAGAACCCCTCCA+AGG | + | chr1.4:57353103-57353122 | None:intergenic | 40.0% | |
| CACATTACATAGAACGGATG+AGG | + | chr1.4:57352103-57352122 | None:intergenic | 40.0% | |
| CATCGAATCCATTCTCAAGT+TGG | - | chr1.4:57352516-57352535 | MS.gene39878:intron | 40.0% | |
| GAGAGACTAACATCAATCTC+TGG | + | chr1.4:57352552-57352571 | None:intergenic | 40.0% | |
| GGAAGGCTTATGTCATTATG+TGG | - | chr1.4:57352070-57352089 | MS.gene39878:CDS | 40.0% | |
| GTTGAAAGCCAACTTGAGAA+TGG | + | chr1.4:57352527-57352546 | None:intergenic | 40.0% | |
| TCCTAGAAGACAACCAAAGA+AGG | - | chr1.4:57353480-57353499 | MS.gene39878:intron | 40.0% | |
| TGTAATATCCACTGGCATAC+CGG | + | chr1.4:57352868-57352887 | None:intergenic | 40.0% | |
| TGTGCAAAGGAATCAAGCTT+TGG | + | chr1.4:57352498-57352517 | None:intergenic | 40.0% | |
| ! | AGAATGGATTCGATGTGCAA+AGG | + | chr1.4:57352511-57352530 | None:intergenic | 40.0% |
| ! | CTTTGGTTGTCTTCTAGGAA+TGG | + | chr1.4:57353479-57353498 | None:intergenic | 40.0% |
| ! | GGAGGGGTTCTTTTCATATT+CGG | - | chr1.4:57353104-57353123 | MS.gene39878:intron | 40.0% |
| ! | TAACGAATTTGGAGTTGAGG+GGG | - | chr1.4:57352449-57352468 | MS.gene39878:CDS | 40.0% |
| ! | TTGCAGAACATGGCTCTTTT+TGG | - | chr1.4:57353421-57353440 | MS.gene39878:intron | 40.0% |
| ATCTGTCCTTCAGGTAACAC+TGG | - | chr1.4:57352669-57352688 | MS.gene39878:intron | 45.0% | |
| GCCTTCTTTGGTTGTCTTCT+AGG | + | chr1.4:57353484-57353503 | None:intergenic | 45.0% | |
| ! | AACGAATTTGGAGTTGAGGG+GGG | - | chr1.4:57352450-57352469 | MS.gene39878:CDS | 45.0% |
| ATGAAGAGAGAACCGCTGTC+AGG | + | chr1.4:57352364-57352383 | None:intergenic | 50.0% | |
| CAATTGCAACAATGGCGCAC+AGG | + | chr1.4:57353383-57353402 | None:intergenic | 50.0% | |
| TACAAGAGCTGTGCCTCGTT+CGG | - | chr1.4:57352799-57352818 | MS.gene39878:intron | 50.0% | |
| TACTGGGGCTATTGCTCTGA+AGG | - | chr1.4:57353076-57353095 | MS.gene39878:CDS | 50.0% | |
| TGAAAAGACCGGTATGCCAG+TGG | - | chr1.4:57352857-57352876 | MS.gene39878:intron | 50.0% | |
| ! | ACTGGGGCTATTGCTCTGAA+GGG | - | chr1.4:57353077-57353096 | MS.gene39878:CDS | 50.0% |
| ! | GGTTTCAGTGCTGTTGCAGA+AGG | + | chr1.4:57352477-57352496 | None:intergenic | 50.0% |
| CTCTTTCGGAGCTTTGCTGC+TGG | - | chr1.4:57353130-57353149 | MS.gene39878:intron | 55.0% | |
| !! | ATTGCTCTGAAGGGCCTTGG+AGG | - | chr1.4:57353086-57353105 | MS.gene39878:intron | 55.0% |
| !! | GCTATTGCTCTGAAGGGCCT+TGG | - | chr1.4:57353083-57353102 | MS.gene39878:CDS | 55.0% |
| !! | TTGCTCTGAAGGGCCTTGGA+GGG | - | chr1.4:57353087-57353106 | MS.gene39878:intron | 55.0% |
| !! | TGCTCTGAAGGGCCTTGGAG+GGG | - | chr1.4:57353088-57353107 | MS.gene39878:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 57352024 | 57353525 | 57352024 | ID=MS.gene39878 |
| chr1.4 | mRNA | 57352024 | 57353525 | 57352024 | ID=MS.gene39878.t1;Parent=MS.gene39878 |
| chr1.4 | exon | 57353521 | 57353525 | 57353521 | ID=MS.gene39878.t1.exon1;Parent=MS.gene39878.t1 |
| chr1.4 | CDS | 57353521 | 57353525 | 57353521 | ID=cds.MS.gene39878.t1;Parent=MS.gene39878.t1 |
| chr1.4 | exon | 57352989 | 57353103 | 57352989 | ID=MS.gene39878.t1.exon2;Parent=MS.gene39878.t1 |
| chr1.4 | CDS | 57352989 | 57353103 | 57352989 | ID=cds.MS.gene39878.t1;Parent=MS.gene39878.t1 |
| chr1.4 | exon | 57352398 | 57352487 | 57352398 | ID=MS.gene39878.t1.exon3;Parent=MS.gene39878.t1 |
| chr1.4 | CDS | 57352398 | 57352487 | 57352398 | ID=cds.MS.gene39878.t1;Parent=MS.gene39878.t1 |
| chr1.4 | exon | 57352212 | 57352310 | 57352212 | ID=MS.gene39878.t1.exon4;Parent=MS.gene39878.t1 |
| chr1.4 | CDS | 57352212 | 57352310 | 57352212 | ID=cds.MS.gene39878.t1;Parent=MS.gene39878.t1 |
| chr1.4 | exon | 57352024 | 57352122 | 57352024 | ID=MS.gene39878.t1.exon5;Parent=MS.gene39878.t1 |
| chr1.4 | CDS | 57352024 | 57352122 | 57352024 | ID=cds.MS.gene39878.t1;Parent=MS.gene39878.t1 |
| Gene Sequence |
| Protein sequence |
