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.gene83862.t1 | XP_013451516.1 | 77.9 | 95 | 3 | 1 | 17 | 93 | 530 | 624 | 5.90E-28 | 133.3 |
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.gene83862.t1 | A0A072U701 | 77.9 | 95 | 3 | 1 | 17 | 93 | 530 | 624 | 4.3e-28 | 133.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene052863 | MS.gene83862 | 0.808618 | 2.84E-50 | -1.69E-46 |
| MS.gene053008 | MS.gene83862 | 0.804548 | 2.05E-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.gene83862.t1 | MTR_6g027510 | 80.374 | 107 | 3 | 1 | 5 | 93 | 461 | 567 | 1.19e-48 | 162 |
| MS.gene83862.t1 | MTR_6g027510 | 80.374 | 107 | 3 | 1 | 5 | 93 | 518 | 624 | 2.06e-48 | 162 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 128 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGAACCAGTCAACGAATTTC+CGG | 0.273578 | 6.1:+9591616 | MS.gene83862:CDS |
| CTTCATCATGAAATGCATTA+AGG | 0.300408 | 6.1:+9589718 | None:intergenic |
| TGAAACAAAGGAGGATGAAT+TGG | 0.333186 | 6.1:+9591595 | MS.gene83862:CDS |
| CGTACTTTCTTGTTATTCTC+TGG | 0.340846 | 6.1:-9591569 | None:intergenic |
| TTGCATATTTGCAGGAAAAG+AGG | 0.464764 | 6.1:+9590476 | MS.gene83862:intron |
| TCAGCCGGAAATTCGTTGAC+TGG | 0.493352 | 6.1:-9591620 | None:intergenic |
| GAGGAAACAACGAGCTGAAG+AGG | 0.520287 | 6.1:+9590495 | MS.gene83862:CDS |
| AGCTGAAGAGGAAAGAAGGT+TGG | 0.521935 | 6.1:+9590507 | MS.gene83862:CDS |
| GCTGAAGAGGAAAGAAGGTT+GGG | 0.523634 | 6.1:+9590508 | MS.gene83862:CDS |
| GCATACATATCTTCATCAGC+CGG | 0.546898 | 6.1:-9591635 | None:intergenic |
| GCCTCTACAGCAGATTGAGC+AGG | 0.553208 | 6.1:-9590532 | None:intergenic |
| TCCTGCTCAATCTGCTGTAG+AGG | 0.553426 | 6.1:+9590531 | MS.gene83862:CDS |
| AACGAGCTGAAGAGGAAAGA+AGG | 0.557519 | 6.1:+9590503 | MS.gene83862:CDS |
| ACATATGACTACGAGGAAGC+CGG | 0.595992 | 6.1:+9591698 | MS.gene83862:CDS |
| GAAAGTACGATTTGAAACAA+AGG | 0.613182 | 6.1:+9591583 | MS.gene83862:CDS |
| CAGCCGAATGTTGAAAACAA+AGG | 0.633769 | 6.1:+9590558 | MS.gene83862:CDS |
| AGTACGATTTGAAACAAAGG+AGG | 0.665275 | 6.1:+9591586 | MS.gene83862:CDS |
| TATGACTACGAGGAAGCCGG+TGG | 0.707167 | 6.1:+9591701 | MS.gene83862:CDS |
| CTATGAGACATATGACTACG+AGG | 0.726665 | 6.1:+9591691 | MS.gene83862:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTCATATACATAATTAATT+GGG | - | chr6.1:9591443-9591462 | None:intergenic | 10.0% |
| !!! | TTTTCATATACATAATTAAT+TGG | - | chr6.1:9591444-9591463 | None:intergenic | 10.0% |
| !! | GTAATTATGTAATTTAGAAA+AGG | - | chr6.1:9591283-9591302 | None:intergenic | 15.0% |
| !! | TCCTACAAATAAAAAATTTA+GGG | - | chr6.1:9590669-9590688 | None:intergenic | 15.0% |
| !! | TTCCTACAAATAAAAAATTT+AGG | - | chr6.1:9590670-9590689 | None:intergenic | 15.0% |
| !! | TTTAATTGATCGATAAAATT+GGG | + | chr6.1:9591181-9591200 | MS.gene83862:intron | 15.0% |
| !!! | TATTTATTTACTTGATAGTT+TGG | + | chr6.1:9591346-9591365 | MS.gene83862:intron | 15.0% |
| !! | AAGCAACAAAAAAAAAGATA+AGG | - | chr6.1:9590915-9590934 | None:intergenic | 20.0% |
| !! | AATTTCCAAATAATCTAGTA+CGG | + | chr6.1:9590260-9590279 | MS.gene83862:intron | 20.0% |
| !! | AGCAACAAAAAAAAAGATAA+GGG | - | chr6.1:9590914-9590933 | None:intergenic | 20.0% |
| !! | ATAACTACTAAATGTGTATT+AGG | + | chr6.1:9590223-9590242 | MS.gene83862:intron | 20.0% |
| !! | ATTACATATATTCACTCTTT+AGG | + | chr6.1:9591205-9591224 | MS.gene83862:intron | 20.0% |
| !! | GTTTAATTGATCGATAAAAT+TGG | + | chr6.1:9591180-9591199 | MS.gene83862:intron | 20.0% |
| !! | TAACTACTAAATGTGTATTA+GGG | + | chr6.1:9590224-9590243 | MS.gene83862:intron | 20.0% |
| !! | TCTATCAGTTATAAAAGAAA+AGG | - | chr6.1:9591024-9591043 | None:intergenic | 20.0% |
| !! | TTACATATATTCACTCTTTA+GGG | + | chr6.1:9591206-9591225 | MS.gene83862:intron | 20.0% |
| !!! | AAAGAATTTTTCTATACTCT+TGG | - | chr6.1:9589832-9589851 | None:intergenic | 20.0% |
| !!! | AAATAAAAAATTTAGGGCTT+GGG | - | chr6.1:9590663-9590682 | None:intergenic | 20.0% |
| !!! | AGTAAATATGATTTGTTCAT+TGG | + | chr6.1:9590751-9590770 | MS.gene83862:intron | 20.0% |
| !!! | ATACATTTTCAGAAAATTCT+AGG | - | chr6.1:9590781-9590800 | None:intergenic | 20.0% |
| !!! | GTAAATATGATTTGTTCATT+GGG | + | chr6.1:9590752-9590771 | MS.gene83862:intron | 20.0% |
| !!! | TTAGATCACAAAGTATTTAT+AGG | - | chr6.1:9590318-9590337 | None:intergenic | 20.0% |
| ! | AACTACTAAATGTGTATTAG+GGG | + | chr6.1:9590225-9590244 | MS.gene83862:intron | 25.0% |
| ! | ACTAATGAAAAGTCTATGTT+GGG | + | chr6.1:9591245-9591264 | MS.gene83862:intron | 25.0% |
| ! | ACTACTTGATGTGTATTTAT+AGG | - | chr6.1:9590126-9590145 | None:intergenic | 25.0% |
| ! | ATTTCCAAATAATCTAGTAC+GGG | + | chr6.1:9590261-9590280 | MS.gene83862:intron | 25.0% |
| ! | GGATAAATTATTCGATAAAC+CGG | + | chr6.1:9590879-9590898 | MS.gene83862:intron | 25.0% |
| ! | TACATATATTCACTCTTTAG+GGG | + | chr6.1:9591207-9591226 | MS.gene83862:intron | 25.0% |
| ! | TCATATTTACTGCTCAAATT+TGG | - | chr6.1:9590742-9590761 | None:intergenic | 25.0% |
| ! | TTAATTGGGTCATGTATATA+CGG | - | chr6.1:9591429-9591448 | None:intergenic | 25.0% |
| ! | TTACTTGTCAAACATAAGTT+GGG | + | chr6.1:9590166-9590185 | MS.gene83862:intron | 25.0% |
| ! | TTCAAATGCTTCTTATAAAC+AGG | + | chr6.1:9591541-9591560 | MS.gene83862:intron | 25.0% |
| ! | TTTACTTGTCAAACATAAGT+TGG | + | chr6.1:9590165-9590184 | MS.gene83862:intron | 25.0% |
| !! | AATTTTTCTATACTCTTGGT+AGG | - | chr6.1:9589828-9589847 | None:intergenic | 25.0% |
| !! | CAAATAAAAAATTTAGGGCT+TGG | - | chr6.1:9590664-9590683 | None:intergenic | 25.0% |
| !!! | AAATGGTATTTTAGACACAA+CGG | - | chr6.1:9591404-9591423 | None:intergenic | 25.0% |
| !!! | ACAAAAAAAAAAGTACCAGA+AGG | - | chr6.1:9589888-9589907 | None:intergenic | 25.0% |
| !!! | AGGTTTTAGAGATATTAGAA+GGG | - | chr6.1:9590106-9590125 | None:intergenic | 25.0% |
| !!! | ATACCTTTGTTTTCAACATT+CGG | - | chr6.1:9590564-9590583 | None:intergenic | 25.0% |
| !!! | GCCCTAAATTTTTTATTTGT+AGG | + | chr6.1:9590665-9590684 | MS.gene83862:intron | 25.0% |
| !!! | TAGGTTTTAGAGATATTAGA+AGG | - | chr6.1:9590107-9590126 | None:intergenic | 25.0% |
| !!! | TTCTGGTACTTTTTTTTTTG+TGG | + | chr6.1:9589887-9589906 | MS.gene83862:intron | 25.0% |
| ACTACTAAATGTGTATTAGG+GGG | + | chr6.1:9590226-9590245 | MS.gene83862:intron | 30.0% | |
| ATCTAACAACTTTGCTAAAG+TGG | + | chr6.1:9590332-9590351 | MS.gene83862:intron | 30.0% | |
| GAAATGCTATTATTCGAACT+TGG | + | chr6.1:9590995-9591014 | MS.gene83862:intron | 30.0% | |
| GACAATGCATAATATATGCA+AGG | - | chr6.1:9589938-9589957 | None:intergenic | 30.0% | |
| GACTAATGAAAAGTCTATGT+TGG | + | chr6.1:9591244-9591263 | MS.gene83862:intron | 30.0% | |
| GGTATTTATTATGAAAACGC+AGG | + | chr6.1:9590579-9590598 | MS.gene83862:intron | 30.0% | |
| GTCATGTATATACGGAAAAA+TGG | - | chr6.1:9591421-9591440 | None:intergenic | 30.0% | |
| TCAATATCCATAAAAACCAC+CGG | - | chr6.1:9591720-9591739 | None:intergenic | 30.0% | |
| TTTCCAAATAATCTAGTACG+GGG | + | chr6.1:9590262-9590281 | MS.gene83862:intron | 30.0% | |
| ! | CATATTTCATTTTGCATGTG+CGG | + | chr6.1:9590707-9590726 | MS.gene83862:intron | 30.0% |
| ! | GAAAGTACGATTTGAAACAA+AGG | + | chr6.1:9591583-9591602 | MS.gene83862:CDS | 30.0% |
| ! | TGTTTTGTAAACTTTTCACC+AGG | - | chr6.1:9590440-9590459 | None:intergenic | 30.0% |
| !! | CTTTGAAACTCTTCTAAATC+AGG | + | chr6.1:9589848-9589867 | MS.gene83862:intron | 30.0% |
| !! | TATGTCTCATAGTCATTTTC+TGG | - | chr6.1:9591683-9591702 | None:intergenic | 30.0% |
| !! | TTGTTACTTTGCATATTTGC+AGG | + | chr6.1:9590468-9590487 | MS.gene83862:intron | 30.0% |
| !!! | GGTTTTAGAGATATTAGAAG+GGG | - | chr6.1:9590105-9590124 | None:intergenic | 30.0% |
| !!! | TGGTACTTTTTTTTTTGTGG+CGG | + | chr6.1:9589890-9589909 | MS.gene83862:intron | 30.0% |
| AAACTCTTCTAAATCAGGAG+TGG | + | chr6.1:9589853-9589872 | MS.gene83862:intron | 35.0% | |
| AAAGAAGCTGCTTGTAGAAA+TGG | - | chr6.1:9591152-9591171 | None:intergenic | 35.0% | |
| AAGATAAGGGAGAGAATTAC+CGG | - | chr6.1:9590901-9590920 | None:intergenic | 35.0% | |
| AATCCCCGTACTAGATTATT+TGG | - | chr6.1:9590268-9590287 | None:intergenic | 35.0% | |
| ATACAGCTGTGGAAATTAGA+AGG | - | chr6.1:9591055-9591074 | None:intergenic | 35.0% | |
| ATGTTTGTTTCCACGTTTGA+GGG | - | chr6.1:9590056-9590075 | None:intergenic | 35.0% | |
| CAAAAGAAATGATACAGCTG+TGG | - | chr6.1:9591066-9591085 | None:intergenic | 35.0% | |
| CATAATATATGCAAGGTCTG+GGG | - | chr6.1:9589931-9589950 | None:intergenic | 35.0% | |
| GACAAGTAAAAACGTACATC+TGG | - | chr6.1:9590155-9590174 | None:intergenic | 35.0% | |
| GCATAATATATGCAAGGTCT+GGG | - | chr6.1:9589932-9589951 | None:intergenic | 35.0% | |
| TCAGCAAAGTTGTACTATGA+AGG | - | chr6.1:9590410-9590429 | None:intergenic | 35.0% | |
| TGAAACAAAGGAGGATGAAT+TGG | + | chr6.1:9591595-9591614 | MS.gene83862:CDS | 35.0% | |
| TGCATAATATATGCAAGGTC+TGG | - | chr6.1:9589933-9589952 | None:intergenic | 35.0% | |
| TGCTGAAAAGAACATACATC+AGG | + | chr6.1:9590197-9590216 | MS.gene83862:intron | 35.0% | |
| TTGCATATTTGCAGGAAAAG+AGG | + | chr6.1:9590476-9590495 | MS.gene83862:intron | 35.0% | |
| ! | AGTACGATTTGAAACAAAGG+AGG | + | chr6.1:9591586-9591605 | MS.gene83862:CDS | 35.0% |
| !! | CGTACTTTCTTGTTATTCTC+TGG | - | chr6.1:9591572-9591591 | None:intergenic | 35.0% |
| !! | GTACTGACTCAATAGTTTGA+AGG | + | chr6.1:9589997-9590016 | MS.gene83862:intron | 35.0% |
| AACTTTGCTGAACTATGACC+TGG | + | chr6.1:9590419-9590438 | MS.gene83862:intron | 40.0% | |
| ACTATTGAGTCAGTACCAGA+AGG | - | chr6.1:9589993-9590012 | None:intergenic | 40.0% | |
| ACTCAGCTCCAAAGTCAATT+TGG | + | chr6.1:9590849-9590868 | MS.gene83862:intron | 40.0% | |
| CAAAGTCAATTTGGATCGCT+TGG | + | chr6.1:9590858-9590877 | MS.gene83862:intron | 40.0% | |
| CAGCCGAATGTTGAAAACAA+AGG | + | chr6.1:9590558-9590577 | MS.gene83862:CDS | 40.0% | |
| CATGTTTGTTTCCACGTTTG+AGG | - | chr6.1:9590057-9590076 | None:intergenic | 40.0% | |
| CTATGAGACATATGACTACG+AGG | + | chr6.1:9591691-9591710 | MS.gene83862:CDS | 40.0% | |
| CTTGGTAGGAGAATTCAGAA+GGG | - | chr6.1:9589814-9589833 | None:intergenic | 40.0% | |
| GCATACATATCTTCATCAGC+CGG | - | chr6.1:9591638-9591657 | None:intergenic | 40.0% | |
| GTCACCCAACATCAAAGAAT+CGG | + | chr6.1:9589754-9589773 | MS.gene83862:intron | 40.0% | |
| TCTTGGTAGGAGAATTCAGA+AGG | - | chr6.1:9589815-9589834 | None:intergenic | 40.0% | |
| TGGTGTCTCAATAGCTAAAG+TGG | + | chr6.1:9590352-9590371 | MS.gene83862:intron | 40.0% | |
| ! | CAAGCGATCCAAATTGACTT+TGG | - | chr6.1:9590860-9590879 | None:intergenic | 40.0% |
| ! | CTTGTCAAACATAAGTTGGG+AGG | + | chr6.1:9590169-9590188 | MS.gene83862:intron | 40.0% |
| ! | TATGATGCCTGCTCTTTTGT+AGG | + | chr6.1:9590633-9590652 | MS.gene83862:intron | 40.0% |
| ! | TTTTGCATGTGCGGTTAAGT+TGG | + | chr6.1:9590716-9590735 | MS.gene83862:intron | 40.0% |
| !! | CTTGCCGATTCTTTGATGTT+GGG | - | chr6.1:9589761-9589780 | None:intergenic | 40.0% |
| !! | TCTTGCCGATTCTTTGATGT+TGG | - | chr6.1:9589762-9589781 | None:intergenic | 40.0% |
| !!! | CTTTGTTTTCAACATTCGGC+TGG | - | chr6.1:9590560-9590579 | None:intergenic | 40.0% |
| !!! | TGCTTTTTTGCAACCTTGCA+TGG | + | chr6.1:9591126-9591145 | MS.gene83862:intron | 40.0% |
| !!! | TTTTTTTTTGTGGCGGTGAC+CGG | + | chr6.1:9589897-9589916 | MS.gene83862:intron | 40.0% |
| AACGAGCTGAAGAGGAAAGA+AGG | + | chr6.1:9590503-9590522 | MS.gene83862:CDS | 45.0% | |
| ACATATGACTACGAGGAAGC+CGG | + | chr6.1:9591698-9591717 | MS.gene83862:CDS | 45.0% | |
| AGCTGAAGAGGAAAGAAGGT+TGG | + | chr6.1:9590507-9590526 | MS.gene83862:CDS | 45.0% | |
| CTTGTAGAAATGGCCATGCA+AGG | - | chr6.1:9591142-9591161 | None:intergenic | 45.0% | |
| GAGTGGAAATCTAGTCCTTC+TGG | + | chr6.1:9589870-9589889 | MS.gene83862:intron | 45.0% | |
| GCTGAAGAGGAAAGAAGGTT+GGG | + | chr6.1:9590508-9590527 | MS.gene83862:CDS | 45.0% | |
| GGAACCAGTCAACGAATTTC+CGG | + | chr6.1:9591616-9591635 | MS.gene83862:CDS | 45.0% | |
| GGGATTCATTGTCTGGCAAA+TGG | + | chr6.1:9590282-9590301 | MS.gene83862:intron | 45.0% | |
| TAGTACGGGGATTCATTGTC+TGG | + | chr6.1:9590275-9590294 | MS.gene83862:intron | 45.0% | |
| TCAAAGAATCGGCAAGATGC+TGG | + | chr6.1:9589765-9589784 | MS.gene83862:intron | 45.0% | |
| TTTGTTTCCACGTTTGAGGG+AGG | - | chr6.1:9590053-9590072 | None:intergenic | 45.0% | |
| ! | CAAGATGCTGGTGATGTCAA+TGG | + | chr6.1:9589777-9589796 | MS.gene83862:intron | 45.0% |
| ! | GGGTTTTCCTACAAAAGAGC+AGG | - | chr6.1:9590643-9590662 | None:intergenic | 45.0% |
| ! | TGAGCTTAGCTCAGTTGGTA+GGG | - | chr6.1:9589960-9589979 | None:intergenic | 45.0% |
| !!! | TTTTTTTTGTGGCGGTGACC+GGG | + | chr6.1:9589898-9589917 | MS.gene83862:intron | 45.0% |
| CCAACTGAGCTAAGCTCACA+AGG | + | chr6.1:9589962-9589981 | MS.gene83862:intron | 50.0% | |
| CCTTGTGAGCTTAGCTCAGT+TGG | - | chr6.1:9589965-9589984 | None:intergenic | 50.0% | |
| GAGGAAACAACGAGCTGAAG+AGG | + | chr6.1:9590495-9590514 | MS.gene83862:CDS | 50.0% | |
| GTGAGCTTAGCTCAGTTGGT+AGG | - | chr6.1:9589961-9589980 | None:intergenic | 50.0% | |
| TCAGCCGGAAATTCGTTGAC+TGG | - | chr6.1:9591623-9591642 | None:intergenic | 50.0% | |
| TCCTGCTCAATCTGCTGTAG+AGG | + | chr6.1:9590531-9590550 | MS.gene83862:CDS | 50.0% | |
| ! | GAGGAAGCCGGTGGTTTTTA+TGG | + | chr6.1:9591710-9591729 | MS.gene83862:CDS | 50.0% |
| !!! | TTTTTTTGTGGCGGTGACCG+GGG | + | chr6.1:9589899-9589918 | MS.gene83862:intron | 50.0% |
| GCCTCTACAGCAGATTGAGC+AGG | - | chr6.1:9590535-9590554 | None:intergenic | 55.0% | |
| GCTCACAAGGACAGTCCTTC+TGG | + | chr6.1:9589975-9589994 | MS.gene83862:intron | 55.0% | |
| GTTTCCACGTTTGAGGGAGG+TGG | - | chr6.1:9590050-9590069 | None:intergenic | 55.0% | |
| TATGACTACGAGGAAGCCGG+TGG | + | chr6.1:9591701-9591720 | MS.gene83862:CDS | 55.0% | |
| TGAGGGAGGTGGACGTTCAA+AGG | - | chr6.1:9590039-9590058 | None:intergenic | 55.0% | |
| ! | AAGGTCTGGGGTTCAAACCC+CGG | - | chr6.1:9589919-9589938 | None:intergenic | 55.0% |
| ACGTCCACCTCCCTCAAACG+TGG | + | chr6.1:9590043-9590062 | MS.gene83862:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.1 | gene | 9589725 | 9591739 | 9589725 | ID=MS.gene83862 |
| chr6.1 | mRNA | 9589725 | 9591739 | 9589725 | ID=MS.gene83862.t1;Parent=MS.gene83862 |
| chr6.1 | exon | 9589725 | 9589739 | 9589725 | ID=MS.gene83862.t1.exon1;Parent=MS.gene83862.t1 |
| chr6.1 | CDS | 9589725 | 9589739 | 9589725 | ID=cds.MS.gene83862.t1;Parent=MS.gene83862.t1 |
| chr6.1 | exon | 9590490 | 9590579 | 9590490 | ID=MS.gene83862.t1.exon2;Parent=MS.gene83862.t1 |
| chr6.1 | CDS | 9590490 | 9590579 | 9590490 | ID=cds.MS.gene83862.t1;Parent=MS.gene83862.t1 |
| chr6.1 | exon | 9591563 | 9591739 | 9591563 | ID=MS.gene83862.t1.exon3;Parent=MS.gene83862.t1 |
| chr6.1 | CDS | 9591563 | 9591739 | 9591563 | ID=cds.MS.gene83862.t1;Parent=MS.gene83862.t1 |
| Gene Sequence |
| Protein sequence |
