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.gene83466.t1 | AFK37900.1 | 47.3 | 296 | 109 | 2 | 1 | 255 | 1 | 290 | 7.00E-47 | 197.6 |
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.gene83466.t1 | I3SCA8 | 47.3 | 296 | 109 | 2 | 1 | 255 | 1 | 290 | 5.1e-47 | 197.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051648 | MS.gene83466 | 0.828173 | 1.04E-54 | -1.69E-46 |
| MS.gene053536 | MS.gene83466 | 0.806395 | 8.40E-50 | -1.69E-46 |
| MS.gene053538 | MS.gene83466 | 0.807362 | 5.25E-50 | -1.69E-46 |
| MS.gene055537 | MS.gene83466 | 0.817257 | 3.62E-52 | -1.69E-46 |
| MS.gene055764 | MS.gene83466 | 0.802049 | 6.75E-49 | -1.69E-46 |
| MS.gene058210 | MS.gene83466 | 0.810448 | 1.15E-50 | -1.69E-46 |
| MS.gene058668 | MS.gene83466 | 0.826502 | 2.62E-54 | -1.69E-46 |
| MS.gene059424 | MS.gene83466 | 0.818152 | 2.27E-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.gene83466.t1 | MTR_5g026390 | 77.104 | 297 | 19 | 4 | 1 | 255 | 1 | 290 | 7.44e-129 | 367 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene83466.t1 | AT1G31460 | 38.562 | 153 | 69 | 7 | 1 | 139 | 4 | 145 | 2.88e-14 | 71.2 |
Find 54 sgRNAs with CRISPR-Local
Find 93 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATCATCGCCTCCTCGAAAA+TGG | 0.218615 | 5.4:+17340164 | MS.gene83466:CDS |
| TGAAAAGGTAGCATGTTTAG+AGG | 0.255002 | 5.4:-17339852 | None:intergenic |
| GGACGAGCTTAGTGATGATT+AGG | 0.308055 | 5.4:+17340447 | MS.gene83466:CDS |
| TTTCGAGGAGGCGATGATTC+CGG | 0.323754 | 5.4:-17340160 | None:intergenic |
| TTTGGAGTGGTAAGGTGGTG+GGG | 0.326438 | 5.4:-17339753 | None:intergenic |
| TATTTGGAGTGGTAAGGTGG+TGG | 0.326600 | 5.4:-17339755 | None:intergenic |
| TTGGAGTGGTAAGGTGGTGG+GGG | 0.337023 | 5.4:-17339752 | None:intergenic |
| CTAAGCTCGTCCTCAATATC+AGG | 0.356685 | 5.4:-17340436 | None:intergenic |
| TTTGTGGAAATGTTGTCTTT+AGG | 0.360558 | 5.4:-17339920 | None:intergenic |
| TTGAAGCGTGATTCGAGGTT+AGG | 0.375418 | 5.4:-17339698 | None:intergenic |
| TGGAGTGGTAAGGTGGTGGG+GGG | 0.377561 | 5.4:-17339751 | None:intergenic |
| ATCATCGCCTCCTCGAAAAT+GGG | 0.379526 | 5.4:+17340165 | MS.gene83466:CDS |
| AAAATCCACTTTCTGATTCT+GGG | 0.385594 | 5.4:+17339942 | MS.gene83466:CDS |
| ATTTGGAGTGGTAAGGTGGT+GGG | 0.393506 | 5.4:-17339754 | None:intergenic |
| GGAGTGGTAAGGTGGTGGGG+GGG | 0.401846 | 5.4:-17339750 | None:intergenic |
| AAAATACAAATTCTGATTCT+GGG | 0.424332 | 5.4:+17339816 | MS.gene83466:CDS |
| TTCCCTATGTGAAGAATTTG+AGG | 0.426008 | 5.4:-17339978 | None:intergenic |
| AAATTCTTCACATAGGGAAA+AGG | 0.447774 | 5.4:+17339982 | MS.gene83466:CDS |
| TCCCTCAAATTCTTCACATA+GGG | 0.464671 | 5.4:+17339976 | MS.gene83466:CDS |
| AATTCTTCACATAGGGAAAA+GGG | 0.468732 | 5.4:+17339983 | MS.gene83466:CDS |
| GGCGGAGAAGATTGTTGAAT+GGG | 0.468917 | 5.4:+17340384 | MS.gene83466:CDS |
| GACGAGCTTAGTGATGATTA+GGG | 0.473620 | 5.4:+17340448 | MS.gene83466:CDS |
| TCCCTATGTGAAGAATTTGA+GGG | 0.495437 | 5.4:-17339977 | None:intergenic |
| GGTGAATGATGAACAGTTGA+TGG | 0.501018 | 5.4:-17339660 | None:intergenic |
| GAAGTCTATGTCTCTGAGTC+CGG | 0.504502 | 5.4:+17340141 | MS.gene83466:CDS |
| ATGGGATATTTGGAGTGGTA+AGG | 0.504594 | 5.4:-17339761 | None:intergenic |
| GCTTGTTGAAGCGTGATTCG+AGG | 0.505928 | 5.4:-17339703 | None:intergenic |
| TGGCAGAGATTTGTTGAAGG+AGG | 0.513521 | 5.4:-17339640 | None:intergenic |
| TGTTGAACTAGGGTTTGAAA+AGG | 0.513817 | 5.4:-17339867 | None:intergenic |
| GACATAGACTTCTTCACCTT+AGG | 0.515125 | 5.4:-17340130 | None:intergenic |
| GATGAATGTTCCTGATATTG+AGG | 0.516908 | 5.4:+17340426 | MS.gene83466:CDS |
| GAAAAGGTAGCATGTTTAGA+GGG | 0.522103 | 5.4:-17339851 | None:intergenic |
| GAAGTTTGTCGAGCAAGAAA+CGG | 0.524209 | 5.4:+17340308 | MS.gene83466:CDS |
| TGCAAATGAAGAAAGAAGAA+AGG | 0.524351 | 5.4:+17340101 | MS.gene83466:CDS |
| GGATATTTGGAGTGGTAAGG+TGG | 0.528987 | 5.4:-17339758 | None:intergenic |
| TTCATTTGCAATGAAGAGAG+TGG | 0.533283 | 5.4:-17340088 | None:intergenic |
| TGATGGCAGAGATTTGTTGA+AGG | 0.534171 | 5.4:-17339643 | None:intergenic |
| CTCCCTCAAATTCTTCACAT+AGG | 0.534422 | 5.4:+17339975 | MS.gene83466:CDS |
| AGGCGGAGAAGATTGTTGAA+TGG | 0.538533 | 5.4:+17340383 | MS.gene83466:CDS |
| AGAAGAAAGGAAGTGTCCTA+AGG | 0.543296 | 5.4:+17340114 | MS.gene83466:CDS |
| GAATGGGCTAAACATGTGTC+TGG | 0.544551 | 5.4:+17340400 | MS.gene83466:CDS |
| CATTGAAGGAAGAAGAGAAG+AGG | 0.546490 | 5.4:+17340350 | MS.gene83466:CDS |
| GTTAGGAGGAAGATCTGAAT+GGG | 0.551748 | 5.4:-17339681 | None:intergenic |
| GGTTAGGAGGAAGATCTGAA+TGG | 0.554431 | 5.4:-17339682 | None:intergenic |
| ACAGACCCAGAATCAGAAAG+TGG | 0.558108 | 5.4:-17339947 | None:intergenic |
| AAGCGTGATTCGAGGTTAGG+AGG | 0.558779 | 5.4:-17339695 | None:intergenic |
| GTGGAAATGTTGTCTTTAGG+AGG | 0.563050 | 5.4:-17339917 | None:intergenic |
| GGGCTAAACATGTGTCTGGT+AGG | 0.587780 | 5.4:+17340404 | MS.gene83466:CDS |
| AAAAGATGGGATATTTGGAG+TGG | 0.610640 | 5.4:-17339766 | None:intergenic |
| CAACAATCTTCTCCGCCTCG+CGG | 0.619089 | 5.4:-17340378 | None:intergenic |
| TCATCGCCTCCTCGAAAATG+GGG | 0.626601 | 5.4:+17340166 | MS.gene83466:CDS |
| GAAGAGGATTAACCGCGAGG+CGG | 0.647845 | 5.4:+17340366 | MS.gene83466:CDS |
| AGAGAGTGGACTTTCTTCAG+AGG | 0.656050 | 5.4:-17340074 | None:intergenic |
| AGAGAAGAGGATTAACCGCG+AGG | 0.711963 | 5.4:+17340363 | MS.gene83466:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAATCCAAAAACAAAAAA+TGG | + | chr5.4:17340022-17340041 | MS.gene83466:intron | 15.0% |
| !! | AAAATCCAAAAACAAAAAAT+GGG | + | chr5.4:17340023-17340042 | MS.gene83466:intron | 15.0% |
| !!! | AATCAGAATTTGTATTTTTT+GGG | - | chr5.4:17339814-17339833 | None:intergenic | 15.0% |
| !! | AAAAATACAAATTCTGATTC+TGG | + | chr5.4:17339815-17339834 | MS.gene83466:CDS | 20.0% |
| !! | AAAATACAAATTCTGATTCT+GGG | + | chr5.4:17339816-17339835 | MS.gene83466:CDS | 20.0% |
| !!! | ATCAGAATTTGTATTTTTTG+GGG | - | chr5.4:17339813-17339832 | None:intergenic | 20.0% |
| !!! | GAATCAGAATTTGTATTTTT+TGG | - | chr5.4:17339815-17339834 | None:intergenic | 20.0% |
| !!! | GTTTTTGGATTTTTTTGTTT+TGG | - | chr5.4:17340016-17340035 | None:intergenic | 20.0% |
| !!! | AAAGACCCATTTTTTGTTTT+TGG | - | chr5.4:17340031-17340050 | None:intergenic | 25.0% |
| !!! | TATGATTGAAAAAGCATTGA+AGG | + | chr5.4:17340336-17340355 | MS.gene83466:CDS | 25.0% |
| !!! | TCAGAATTTGTATTTTTTGG+GGG | - | chr5.4:17339812-17339831 | None:intergenic | 25.0% |
| !!! | TGAACAGTTGAGATTTTTTT+GGG | - | chr5.4:17339897-17339916 | None:intergenic | 25.0% |
| AAAAATCCACTTTCTGATTC+TGG | + | chr5.4:17339941-17339960 | MS.gene83466:CDS | 30.0% | |
| AAAATCCACTTTCTGATTCT+GGG | + | chr5.4:17339942-17339961 | MS.gene83466:CDS | 30.0% | |
| AAATTCTTCACATAGGGAAA+AGG | + | chr5.4:17339982-17340001 | MS.gene83466:CDS | 30.0% | |
| AATTCTTCACATAGGGAAAA+GGG | + | chr5.4:17339983-17340002 | MS.gene83466:CDS | 30.0% | |
| GGTTAAAAAGATGGGATATT+TGG | - | chr5.4:17339774-17339793 | None:intergenic | 30.0% | |
| TGCAAATGAAGAAAGAAGAA+AGG | + | chr5.4:17340101-17340120 | MS.gene83466:CDS | 30.0% | |
| TTTGTGGAAATGTTGTCTTT+AGG | - | chr5.4:17339923-17339942 | None:intergenic | 30.0% | |
| !! | TTTGGGTTTTTGTTGAACTA+GGG | - | chr5.4:17339880-17339899 | None:intergenic | 30.0% |
| !!! | ATCAGAAAGTGGATTTTTTG+TGG | - | chr5.4:17339939-17339958 | None:intergenic | 30.0% |
| !!! | CAGAATTTGTATTTTTTGGG+GGG | - | chr5.4:17339811-17339830 | None:intergenic | 30.0% |
| !!! | GTGAACAGTTGAGATTTTTT+TGG | - | chr5.4:17339898-17339917 | None:intergenic | 30.0% |
| !!! | TTTTGGGTTTTTGTTGAACT+AGG | - | chr5.4:17339881-17339900 | None:intergenic | 30.0% |
| AAAAGATGGGATATTTGGAG+TGG | - | chr5.4:17339769-17339788 | None:intergenic | 35.0% | |
| AGAACAAGAAGAAGAAAAGC+AGG | + | chr5.4:17340218-17340237 | MS.gene83466:intron | 35.0% | |
| GAAAAGGTAGCATGTTTAGA+GGG | - | chr5.4:17339854-17339873 | None:intergenic | 35.0% | |
| GAACAAGAAGAAGAAAAGCA+GGG | + | chr5.4:17340219-17340238 | MS.gene83466:intron | 35.0% | |
| GAACTTGGGGTTAAAAAGAT+GGG | - | chr5.4:17339782-17339801 | None:intergenic | 35.0% | |
| GATGAATGTTCCTGATATTG+AGG | + | chr5.4:17340426-17340445 | MS.gene83466:CDS | 35.0% | |
| TCCCTATGTGAAGAATTTGA+GGG | - | chr5.4:17339980-17339999 | None:intergenic | 35.0% | |
| TCCCTCAAATTCTTCACATA+GGG | + | chr5.4:17339976-17339995 | MS.gene83466:CDS | 35.0% | |
| TGAAAAGGTAGCATGTTTAG+AGG | - | chr5.4:17339855-17339874 | None:intergenic | 35.0% | |
| TGAACTTGGGGTTAAAAAGA+TGG | - | chr5.4:17339783-17339802 | None:intergenic | 35.0% | |
| TGTTGAACTAGGGTTTGAAA+AGG | - | chr5.4:17339870-17339889 | None:intergenic | 35.0% | |
| TTCATTTGCAATGAAGAGAG+TGG | - | chr5.4:17340091-17340110 | None:intergenic | 35.0% | |
| TTCCCTATGTGAAGAATTTG+AGG | - | chr5.4:17339981-17340000 | None:intergenic | 35.0% | |
| TTCTTGTTCTGTTCCTTCTT+AGG | - | chr5.4:17340208-17340227 | None:intergenic | 35.0% | |
| ! | ACAAGTGATGAGTTTTTGTC+TGG | + | chr5.4:17340280-17340299 | MS.gene83466:CDS | 35.0% |
| ! | GATGAGTTTTTGTCTGGTAT+TGG | + | chr5.4:17340286-17340305 | MS.gene83466:CDS | 35.0% |
| !!! | TTTTTGGTGTTCTCCTAAGA+AGG | + | chr5.4:17340192-17340211 | MS.gene83466:intron | 35.0% |
| CATTGAAGGAAGAAGAGAAG+AGG | + | chr5.4:17340350-17340369 | MS.gene83466:CDS | 40.0% | |
| CTCCCTCAAATTCTTCACAT+AGG | + | chr5.4:17339975-17339994 | MS.gene83466:CDS | 40.0% | |
| GAAGTTTGTCGAGCAAGAAA+CGG | + | chr5.4:17340308-17340327 | MS.gene83466:CDS | 40.0% | |
| GACATAGACTTCTTCACCTT+AGG | - | chr5.4:17340133-17340152 | None:intergenic | 40.0% | |
| GAGGTATGAGAAGAATCTGA+AGG | - | chr5.4:17340058-17340077 | None:intergenic | 40.0% | |
| GGTGAATGATGAACAGTTGA+TGG | - | chr5.4:17339663-17339682 | None:intergenic | 40.0% | |
| GTGGAAATGTTGTCTTTAGG+AGG | - | chr5.4:17339920-17339939 | None:intergenic | 40.0% | |
| GTTAGGAGGAAGATCTGAAT+GGG | - | chr5.4:17339684-17339703 | None:intergenic | 40.0% | |
| ! | ATGGGATATTTGGAGTGGTA+AGG | - | chr5.4:17339764-17339783 | None:intergenic | 40.0% |
| ! | CAAAAACAACCCCATTTTCG+AGG | - | chr5.4:17340178-17340197 | None:intergenic | 40.0% |
| !! | AAGGAGAATGATGGTGTTGT+TGG | + | chr5.4:17340244-17340263 | MS.gene83466:intron | 40.0% |
| !! | AGAAGAAAGGAAGTGTCCTA+AGG | + | chr5.4:17340114-17340133 | MS.gene83466:CDS | 40.0% |
| !! | AGGAGAATGATGGTGTTGTT+GGG | + | chr5.4:17340245-17340264 | MS.gene83466:intron | 40.0% |
| !! | CTCGAAAATGGGGTTGTTTT+TGG | + | chr5.4:17340176-17340195 | MS.gene83466:intron | 40.0% |
| !! | TGATGGCAGAGATTTGTTGA+AGG | - | chr5.4:17339646-17339665 | None:intergenic | 40.0% |
| AATCATCGCCTCCTCGAAAA+TGG | + | chr5.4:17340164-17340183 | MS.gene83466:CDS | 45.0% | |
| ACAGACCCAGAATCAGAAAG+TGG | - | chr5.4:17339950-17339969 | None:intergenic | 45.0% | |
| AGGCGGAGAAGATTGTTGAA+TGG | + | chr5.4:17340383-17340402 | MS.gene83466:CDS | 45.0% | |
| ATCATCGCCTCCTCGAAAAT+GGG | + | chr5.4:17340165-17340184 | MS.gene83466:CDS | 45.0% | |
| CTAAGCTCGTCCTCAATATC+AGG | - | chr5.4:17340439-17340458 | None:intergenic | 45.0% | |
| GAAGAAGAAAAGCAGGGACA+AGG | + | chr5.4:17340225-17340244 | MS.gene83466:intron | 45.0% | |
| GAAGTCTATGTCTCTGAGTC+CGG | + | chr5.4:17340141-17340160 | MS.gene83466:CDS | 45.0% | |
| GGCGGAGAAGATTGTTGAAT+GGG | + | chr5.4:17340384-17340403 | MS.gene83466:CDS | 45.0% | |
| GGTTAGGAGGAAGATCTGAA+TGG | - | chr5.4:17339685-17339704 | None:intergenic | 45.0% | |
| TTGAAGCGTGATTCGAGGTT+AGG | - | chr5.4:17339701-17339720 | None:intergenic | 45.0% | |
| TTGGGGGGTTTGATGAACTT+GGG | - | chr5.4:17339796-17339815 | None:intergenic | 45.0% | |
| TTTGGGGGGTTTGATGAACT+TGG | - | chr5.4:17339797-17339816 | None:intergenic | 45.0% | |
| ! | AGAGAGTGGACTTTCTTCAG+AGG | - | chr5.4:17340077-17340096 | None:intergenic | 45.0% |
| ! | ATTTGGAGTGGTAAGGTGGT+GGG | - | chr5.4:17339757-17339776 | None:intergenic | 45.0% |
| ! | GGATATTTGGAGTGGTAAGG+TGG | - | chr5.4:17339761-17339780 | None:intergenic | 45.0% |
| ! | TATTTGGAGTGGTAAGGTGG+TGG | - | chr5.4:17339758-17339777 | None:intergenic | 45.0% |
| !! | AAACAACCCCATTTTCGAGG+AGG | - | chr5.4:17340175-17340194 | None:intergenic | 45.0% |
| !! | AGAATGATGGTGTTGTTGGG+TGG | + | chr5.4:17340248-17340267 | MS.gene83466:intron | 45.0% |
| !! | GAATGATGGTGTTGTTGGGT+GGG | + | chr5.4:17340249-17340268 | MS.gene83466:intron | 45.0% |
| !! | GAATGGGCTAAACATGTGTC+TGG | + | chr5.4:17340400-17340419 | MS.gene83466:CDS | 45.0% |
| !! | TGGCAGAGATTTGTTGAAGG+AGG | - | chr5.4:17339643-17339662 | None:intergenic | 45.0% |
| AAGCGTGATTCGAGGTTAGG+AGG | - | chr5.4:17339698-17339717 | None:intergenic | 50.0% | |
| AGAGAAGAGGATTAACCGCG+AGG | + | chr5.4:17340363-17340382 | MS.gene83466:CDS | 50.0% | |
| AGCAGGGACAAGGAGAATGA+TGG | + | chr5.4:17340235-17340254 | MS.gene83466:intron | 50.0% | |
| GGGCTAAACATGTGTCTGGT+AGG | + | chr5.4:17340404-17340423 | MS.gene83466:CDS | 50.0% | |
| TCATCGCCTCCTCGAAAATG+GGG | + | chr5.4:17340166-17340185 | MS.gene83466:CDS | 50.0% | |
| TGGGGGGTTTGATGAACTTG+GGG | - | chr5.4:17339795-17339814 | None:intergenic | 50.0% | |
| TTTCGAGGAGGCGATGATTC+CGG | - | chr5.4:17340163-17340182 | None:intergenic | 50.0% | |
| ! | GCTTGTTGAAGCGTGATTCG+AGG | - | chr5.4:17339706-17339725 | None:intergenic | 50.0% |
| ! | TTTGGAGTGGTAAGGTGGTG+GGG | - | chr5.4:17339756-17339775 | None:intergenic | 50.0% |
| CAACAATCTTCTCCGCCTCG+CGG | - | chr5.4:17340381-17340400 | None:intergenic | 55.0% | |
| GAAGAGGATTAACCGCGAGG+CGG | + | chr5.4:17340366-17340385 | MS.gene83466:CDS | 55.0% | |
| ! | TTGGAGTGGTAAGGTGGTGG+GGG | - | chr5.4:17339755-17339774 | None:intergenic | 55.0% |
| ! | GTGGGGGGGTGTGATTAGCA+GGG | - | chr5.4:17339739-17339758 | None:intergenic | 60.0% |
| !! | TGGAGTGGTAAGGTGGTGGG+GGG | - | chr5.4:17339754-17339773 | None:intergenic | 60.0% |
| ! | GGTGGGGGGGTGTGATTAGC+AGG | - | chr5.4:17339740-17339759 | None:intergenic | 65.0% |
| !! | GGAGTGGTAAGGTGGTGGGG+GGG | - | chr5.4:17339753-17339772 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.4 | gene | 17339557 | 17340468 | 17339557 | ID=MS.gene83466 |
| chr5.4 | mRNA | 17339557 | 17340468 | 17339557 | ID=MS.gene83466.t1;Parent=MS.gene83466 |
| chr5.4 | exon | 17339557 | 17340004 | 17339557 | ID=MS.gene83466.t1.exon1;Parent=MS.gene83466.t1 |
| chr5.4 | CDS | 17339557 | 17340004 | 17339557 | ID=cds.MS.gene83466.t1;Parent=MS.gene83466.t1 |
| chr5.4 | exon | 17340062 | 17340187 | 17340062 | ID=MS.gene83466.t1.exon2;Parent=MS.gene83466.t1 |
| chr5.4 | CDS | 17340062 | 17340187 | 17340062 | ID=cds.MS.gene83466.t1;Parent=MS.gene83466.t1 |
| chr5.4 | exon | 17340275 | 17340468 | 17340275 | ID=MS.gene83466.t1.exon3;Parent=MS.gene83466.t1 |
| chr5.4 | CDS | 17340275 | 17340468 | 17340275 | ID=cds.MS.gene83466.t1;Parent=MS.gene83466.t1 |
| Gene Sequence |
| Protein sequence |
