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.gene38690.t1 | XP_024635370.1 | 78.6 | 271 | 51 | 2 | 1 | 265 | 1 | 270 | 1.30E-101 | 379.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38690.t1 | Q96289 | 28.0 | 143 | 86 | 3 | 187 | 329 | 79 | 204 | 6.9e-06 | 53.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38690.t1 | A0A2K3MFF0 | 39.0 | 251 | 100 | 6 | 141 | 342 | 81 | 327 | 3.5e-27 | 132.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene38690.t1 | TF | C2H2 |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 54 sgRNAs with CRISPR-Local
Find 85 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTATGTCTTCACAAGCTTT+AGG | 0.218586 | 3.3:-84547928 | MS.gene38690:CDS |
| ATTTCTTGTTGATGCTTTGT+AGG | 0.248605 | 3.3:+84547871 | None:intergenic |
| GATAATTCATCATTTCTTAA+AGG | 0.258078 | 3.3:+84549581 | None:intergenic |
| CTTTCAAGCTTCTTCCTTGA+TGG | 0.269680 | 3.3:+84547681 | None:intergenic |
| ACATTCGACTTGTCTACTAT+TGG | 0.276222 | 3.3:+84547733 | None:intergenic |
| TTATGTCTTCACAAGCTTTA+GGG | 0.298843 | 3.3:-84547927 | MS.gene38690:CDS |
| TTATCATCAAATGGGTCATT+AGG | 0.302998 | 3.3:-84549563 | MS.gene38690:CDS |
| CTCACCGATGATTCGATTTA+CGG | 0.303465 | 3.3:-84548195 | MS.gene38690:CDS |
| GTTCTAATGTTGCATCTAAC+TGG | 0.314264 | 3.3:-84549481 | MS.gene38690:CDS |
| AAACAAGTTCACTATCAAAT+TGG | 0.323662 | 3.3:-84549620 | MS.gene38690:CDS |
| CATTCGACTTGTCTACTATT+GGG | 0.338002 | 3.3:+84547734 | None:intergenic |
| AACGAAGAGATTGAAATTAG+AGG | 0.372610 | 3.3:-84548381 | MS.gene38690:CDS |
| ATCCTTAGGAGGACACAAAA+AGG | 0.374040 | 3.3:-84548088 | MS.gene38690:CDS |
| AATGATGAATTATCATCAAA+TGG | 0.381464 | 3.3:-84549572 | MS.gene38690:CDS |
| CGAATTATCGGTGAGATTGA+TGG | 0.404763 | 3.3:+84548029 | None:intergenic |
| CATAGTAATCATCATGCATA+TGG | 0.409756 | 3.3:-84549452 | MS.gene38690:CDS |
| CGACCCACGAATCGAATTAT+CGG | 0.427366 | 3.3:+84548017 | None:intergenic |
| AACAATACTACTAATATTGT+TGG | 0.430734 | 3.3:-84549506 | MS.gene38690:CDS |
| GGGGAGATACGTCTTCATTA+TGG | 0.444725 | 3.3:-84548347 | MS.gene38690:CDS |
| TCACCGATGATTCGATTTAC+GGG | 0.450292 | 3.3:-84548194 | MS.gene38690:CDS |
| GACGCAAGAAAATGTATTTG+AGG | 0.462564 | 3.3:+84547966 | None:intergenic |
| GAAATAGAAGCACATGATAG+AGG | 0.472787 | 3.3:+84548300 | None:intergenic |
| CTTATGATTAAATTAGAAGA+TGG | 0.493774 | 3.3:-84547799 | MS.gene38690:CDS |
| ATGATGAATTATCATCAAAT+GGG | 0.500216 | 3.3:-84549571 | MS.gene38690:CDS |
| TCGCTTATCATCACTTGTTG+AGG | 0.515757 | 3.3:+84549536 | None:intergenic |
| ATTAAATTAGAAGATGGTGT+TGG | 0.519206 | 3.3:-84547793 | MS.gene38690:CDS |
| CGATAATTCGATTCGTGGGT+CGG | 0.519440 | 3.3:-84548016 | MS.gene38690:CDS |
| TACTCTTCACGATCCTTAGG+AGG | 0.520807 | 3.3:-84548099 | MS.gene38690:CDS |
| TAATTTAATCATAAGACCCT+CGG | 0.531157 | 3.3:+84547807 | None:intergenic |
| AATACTACTAATATTGTTGG+TGG | 0.531727 | 3.3:-84549503 | MS.gene38690:CDS |
| GTGAAGAGTAAAACTCTCTC+CGG | 0.531973 | 3.3:+84548112 | None:intergenic |
| AAATACCTTGATGTTTCTGC+CGG | 0.533044 | 3.3:+84549391 | None:intergenic |
| CTCACCGATAATTCGATTCG+TGG | 0.537516 | 3.3:-84548021 | MS.gene38690:CDS |
| TCGGTGAGATTAACGAAAAG+AGG | 0.543222 | 3.3:+84548210 | None:intergenic |
| AGAAACAACTCTCTCGAGAC+CGG | 0.557922 | 3.3:-84549410 | MS.gene38690:CDS |
| AATTAGAGGATCAAATGCAA+GGG | 0.558949 | 3.3:-84548367 | MS.gene38690:CDS |
| TCGGTGAGATTGATGGAAAG+AGG | 0.566132 | 3.3:+84548036 | None:intergenic |
| CGAGACCGGCAGAAACATCA+AGG | 0.569455 | 3.3:-84549396 | MS.gene38690:intron |
| TGATCATCATCTTACCATCA+AGG | 0.576493 | 3.3:-84547695 | MS.gene38690:CDS |
| TATGTCTTCACAAGCTTTAG+GGG | 0.577249 | 3.3:-84547926 | MS.gene38690:CDS |
| TCGAATGTGGTTGGCAGACG+TGG | 0.583035 | 3.3:-84547718 | MS.gene38690:CDS |
| GTAGACAAGTCGAATGTGGT+TGG | 0.590394 | 3.3:-84547727 | MS.gene38690:CDS |
| AAATTAGAGGATCAAATGCA+AGG | 0.596143 | 3.3:-84548368 | MS.gene38690:CDS |
| CGACCCGTAAATCGAATCAT+CGG | 0.620370 | 3.3:+84548191 | None:intergenic |
| TCACCGATAATTCGATTCGT+GGG | 0.623824 | 3.3:-84548020 | MS.gene38690:CDS |
| ATGTCTTCACAAGCTTTAGG+GGG | 0.627825 | 3.3:-84547925 | MS.gene38690:CDS |
| CTTGCATGTAAAAGTCTCTG+AGG | 0.631561 | 3.3:+84548140 | None:intergenic |
| GCATCAACAAGAAATACAAG+AGG | 0.635941 | 3.3:-84547863 | MS.gene38690:CDS |
| ATTGATCGATTGAAGACCGA+GGG | 0.641525 | 3.3:-84547823 | MS.gene38690:CDS |
| AATAGTAGACAAGTCGAATG+TGG | 0.644495 | 3.3:-84547731 | MS.gene38690:CDS |
| ATTAGAGGATCAAATGCAAG+GGG | 0.648497 | 3.3:-84548366 | MS.gene38690:CDS |
| TATTTGTGTAGAAAACACGT+TGG | 0.679210 | 3.3:-84548404 | MS.gene38690:intron |
| ATTATGGTCTAATGTTCGCG+AGG | 0.681107 | 3.3:-84548331 | MS.gene38690:CDS |
| TATTGATCGATTGAAGACCG+AGG | 0.703035 | 3.3:-84547824 | MS.gene38690:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTTTAAATAAAAAAAAA+AGG | + | chr3.3:84548023-84548042 | None:intergenic | 0.0% |
| !!! | TTTTTTTTTATTTAAAAAAA+AGG | - | chr3.3:84548023-84548042 | MS.gene38690:CDS | 0.0% |
| !! | ATTGCTATAAAAGATATATA+CGG | - | chr3.3:84548305-84548324 | MS.gene38690:CDS | 15.0% |
| !!! | AAATCATTAAAAAAAAGTGT+AGG | + | chr3.3:84548899-84548918 | None:intergenic | 15.0% |
| !!! | AATGGAAAACTTAATTTTTT+CGG | + | chr3.3:84548769-84548788 | None:intergenic | 15.0% |
| !! | AACAATACTACTAATATTGT+TGG | - | chr3.3:84547849-84547868 | MS.gene38690:CDS | 20.0% |
| !! | AATGATGAATTATCATCAAA+TGG | - | chr3.3:84547783-84547802 | MS.gene38690:CDS | 20.0% |
| !! | ATGATGAATTATCATCAAAT+GGG | - | chr3.3:84547784-84547803 | MS.gene38690:CDS | 20.0% |
| !! | CTTATGATTAAATTAGAAGA+TGG | - | chr3.3:84549556-84549575 | MS.gene38690:CDS | 20.0% |
| !! | GATAATTCATCATTTCTTAA+AGG | + | chr3.3:84547777-84547796 | None:intergenic | 20.0% |
| !!! | ACAATTACATTTTGTATGTT+TGG | + | chr3.3:84548574-84548593 | None:intergenic | 20.0% |
| !!! | CGTGTTATTTACAATTTTAA+CGG | - | chr3.3:84547990-84548009 | MS.gene38690:CDS | 20.0% |
| ! | AAACAAGTTCACTATCAAAT+TGG | - | chr3.3:84547735-84547754 | MS.gene38690:CDS | 25.0% |
| ! | AATACTACTAATATTGTTGG+TGG | - | chr3.3:84547852-84547871 | MS.gene38690:CDS | 25.0% |
| ! | ACTTATTGAACTATGTTCAT+AGG | - | chr3.3:84548251-84548270 | MS.gene38690:CDS | 25.0% |
| ! | ATTAAATTAGAAGATGGTGT+TGG | - | chr3.3:84549562-84549581 | MS.gene38690:CDS | 25.0% |
| ! | CATTAGTAATAACCTATGAT+CGG | + | chr3.3:84548144-84548163 | None:intergenic | 25.0% |
| ! | CTTATTGAACTATGTTCATA+GGG | - | chr3.3:84548252-84548271 | MS.gene38690:CDS | 25.0% |
| ! | TAATTTAATCATAAGACCCT+CGG | + | chr3.3:84549551-84549570 | None:intergenic | 25.0% |
| ! | TTCAAAAATATATTGTCACC+CGG | + | chr3.3:84548688-84548707 | None:intergenic | 25.0% |
| !!! | ATTTTTTCGGTCAAGATAAA+CGG | + | chr3.3:84548756-84548775 | None:intergenic | 25.0% |
| AAATTAGAGGATCAAATGCA+AGG | - | chr3.3:84548987-84549006 | MS.gene38690:intron | 30.0% | |
| AACAATAATCATAACGACGA+AGG | + | chr3.3:84548804-84548823 | None:intergenic | 30.0% | |
| AACGAAGAGATTGAAATTAG+AGG | - | chr3.3:84548974-84548993 | MS.gene38690:intron | 30.0% | |
| AAGCAACATAAGCAGTTAAA+TGG | + | chr3.3:84548722-84548741 | None:intergenic | 30.0% | |
| AATGTCAAGTTAAGCAATAG+AGG | + | chr3.3:84548660-84548679 | None:intergenic | 30.0% | |
| AATTAGAGGATCAAATGCAA+GGG | - | chr3.3:84548988-84549007 | MS.gene38690:intron | 30.0% | |
| ACAATAATCATAACGACGAA+GGG | + | chr3.3:84548803-84548822 | None:intergenic | 30.0% | |
| ATTTCTTGTTGATGCTTTGT+AGG | + | chr3.3:84549487-84549506 | None:intergenic | 30.0% | |
| CATAGTAATCATCATGCATA+TGG | - | chr3.3:84547903-84547922 | MS.gene38690:CDS | 30.0% | |
| TATTTGTGTAGAAAACACGT+TGG | - | chr3.3:84548951-84548970 | MS.gene38690:intron | 30.0% | |
| TTATCATCAAATGGGTCATT+AGG | - | chr3.3:84547792-84547811 | MS.gene38690:CDS | 30.0% | |
| TTATGTCTTCACAAGCTTTA+GGG | - | chr3.3:84549428-84549447 | MS.gene38690:CDS | 30.0% | |
| TTTATGTCTTCACAAGCTTT+AGG | - | chr3.3:84549427-84549446 | MS.gene38690:CDS | 30.0% | |
| !! | ATCGATTTGTCACGTTTAAA+CGG | + | chr3.3:84548056-84548075 | None:intergenic | 30.0% |
| AATAGTAGACAAGTCGAATG+TGG | - | chr3.3:84549624-84549643 | MS.gene38690:CDS | 35.0% | |
| AGTGACTTGAGAACAAACAT+TGG | - | chr3.3:84548601-84548620 | MS.gene38690:intron | 35.0% | |
| ATTAGAGGATCAAATGCAAG+GGG | - | chr3.3:84548989-84549008 | MS.gene38690:intron | 35.0% | |
| GACGCAAGAAAATGTATTTG+AGG | + | chr3.3:84549392-84549411 | None:intergenic | 35.0% | |
| GCATCAACAAGAAATACAAG+AGG | - | chr3.3:84549492-84549511 | MS.gene38690:CDS | 35.0% | |
| GGACACAAAAAGGTTCATAA+AGG | - | chr3.3:84549277-84549296 | MS.gene38690:intron | 35.0% | |
| GGACACAAAAAGGTTCATAA+GGG | - | chr3.3:84549277-84549296 | MS.gene38690:intron | 35.0% | |
| GTTCTAATGTTGCATCTAAC+TGG | - | chr3.3:84547874-84547893 | MS.gene38690:CDS | 35.0% | |
| TGATCATCATCTTACCATCA+AGG | - | chr3.3:84549660-84549679 | MS.gene38690:CDS | 35.0% | |
| ! | AAATACCTTGATGTTTCTGC+CGG | + | chr3.3:84547967-84547986 | None:intergenic | 35.0% |
| ! | ACATTCGACTTGTCTACTAT+TGG | + | chr3.3:84549625-84549644 | None:intergenic | 35.0% |
| ! | CATTCGACTTGTCTACTATT+GGG | + | chr3.3:84549624-84549643 | None:intergenic | 35.0% |
| ! | CTTAACTTGACATTGAAGTC+CGG | - | chr3.3:84548666-84548685 | MS.gene38690:intron | 35.0% |
| ! | CTTTTACATGCAAGATTTGC+CGG | - | chr3.3:84549224-84549243 | MS.gene38690:intron | 35.0% |
| ! | CTTTTTCTTTAGCCGATCAT+AGG | - | chr3.3:84548129-84548148 | MS.gene38690:CDS | 35.0% |
| ! | GAAATAGAAGCACATGATAG+AGG | + | chr3.3:84549058-84549077 | None:intergenic | 35.0% |
| ! | TATGTCTTCACAAGCTTTAG+GGG | - | chr3.3:84549429-84549448 | MS.gene38690:CDS | 35.0% |
| ! | TTAACTTGACATTGAAGTCC+GGG | - | chr3.3:84548667-84548686 | MS.gene38690:intron | 35.0% |
| ! | TTTTACTCTTCACGATCCTT+AGG | - | chr3.3:84549253-84549272 | MS.gene38690:intron | 35.0% |
| ATCCTTAGGAGGACACAAAA+AGG | - | chr3.3:84549267-84549286 | MS.gene38690:intron | 40.0% | |
| ATTATGGTCTAATGTTCGCG+AGG | - | chr3.3:84549024-84549043 | MS.gene38690:intron | 40.0% | |
| ATTGATCGATTGAAGACCGA+GGG | - | chr3.3:84549532-84549551 | MS.gene38690:CDS | 40.0% | |
| CGAATTATCGGTGAGATTGA+TGG | + | chr3.3:84549329-84549348 | None:intergenic | 40.0% | |
| CTCACCGATGATTCGATTTA+CGG | - | chr3.3:84549160-84549179 | MS.gene38690:intron | 40.0% | |
| CTTGCATGTAAAAGTCTCTG+AGG | + | chr3.3:84549218-84549237 | None:intergenic | 40.0% | |
| GGGACACAAAAAGGTTCATA+AGG | - | chr3.3:84549450-84549469 | MS.gene38690:CDS | 40.0% | |
| GTGAAGAGTAAAACTCTCTC+CGG | + | chr3.3:84549246-84549265 | None:intergenic | 40.0% | |
| TATTGATCGATTGAAGACCG+AGG | - | chr3.3:84549531-84549550 | MS.gene38690:CDS | 40.0% | |
| TCACCGATGATTCGATTTAC+GGG | - | chr3.3:84549161-84549180 | MS.gene38690:intron | 40.0% | |
| TCGGTGAGATTAACGAAAAG+AGG | + | chr3.3:84549148-84549167 | None:intergenic | 40.0% | |
| TGCGTACAAGAAAGAGTGAA+TGG | + | chr3.3:84548438-84548457 | None:intergenic | 40.0% | |
| ! | AACCTTTTTGTGTCCTCCTA+AGG | + | chr3.3:84549272-84549291 | None:intergenic | 40.0% |
| ! | CGAAGGGAGTATGTGATAAA+TGG | + | chr3.3:84548787-84548806 | None:intergenic | 40.0% |
| ! | TCACCGATAATTCGATTCGT+GGG | - | chr3.3:84549335-84549354 | MS.gene38690:intron | 40.0% |
| ! | TCGCTTATCATCACTTGTTG+AGG | + | chr3.3:84547822-84547841 | None:intergenic | 40.0% |
| !! | ATGTCTTCACAAGCTTTAGG+GGG | - | chr3.3:84549430-84549449 | MS.gene38690:CDS | 40.0% |
| AGAAACAACTCTCTCGAGAC+CGG | - | chr3.3:84547945-84547964 | MS.gene38690:CDS | 45.0% | |
| CGACCCACGAATCGAATTAT+CGG | + | chr3.3:84549341-84549360 | None:intergenic | 45.0% | |
| CGACCCGTAAATCGAATCAT+CGG | + | chr3.3:84549167-84549186 | None:intergenic | 45.0% | |
| GGGGAGATACGTCTTCATTA+TGG | - | chr3.3:84549008-84549027 | MS.gene38690:intron | 45.0% | |
| GTAGACAAGTCGAATGTGGT+TGG | - | chr3.3:84549628-84549647 | MS.gene38690:CDS | 45.0% | |
| TACTCTTCACGATCCTTAGG+AGG | - | chr3.3:84549256-84549275 | MS.gene38690:intron | 45.0% | |
| TCGGTGAGATTGATGGAAAG+AGG | + | chr3.3:84549322-84549341 | None:intergenic | 45.0% | |
| ! | CGATAATTCGATTCGTGGGT+CGG | - | chr3.3:84549339-84549358 | MS.gene38690:intron | 45.0% |
| ! | CTCACCGATAATTCGATTCG+TGG | - | chr3.3:84549334-84549353 | MS.gene38690:intron | 45.0% |
| !! | AGCTTTAGGGGGACACAAAA+AGG | - | chr3.3:84549441-84549460 | MS.gene38690:CDS | 45.0% |
| !!! | ATAAATTTTTAAAATTTGAA+AGG | + | chr3.3:84548508-84548527 | None:intergenic | 5.0% |
| !!! | ATGTTTTATTTTAATTTTTT+TGG | - | chr3.3:84548205-84548224 | MS.gene38690:CDS | 5.0% |
| CGAGACCGGCAGAAACATCA+AGG | - | chr3.3:84547959-84547978 | MS.gene38690:CDS | 55.0% | |
| TCGAATGTGGTTGGCAGACG+TGG | - | chr3.3:84549637-84549656 | MS.gene38690:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 84547684 | 84549693 | 84547684 | ID=MS.gene38690 |
| chr3.3 | mRNA | 84547684 | 84549693 | 84547684 | ID=MS.gene38690.t1;Parent=MS.gene38690 |
| chr3.3 | exon | 84549397 | 84549693 | 84549397 | ID=MS.gene38690.t1.exon1;Parent=MS.gene38690.t1 |
| chr3.3 | CDS | 84549397 | 84549693 | 84549397 | ID=cds.MS.gene38690.t1;Parent=MS.gene38690.t1 |
| chr3.3 | exon | 84547684 | 84548415 | 84547684 | ID=MS.gene38690.t1.exon2;Parent=MS.gene38690.t1 |
| chr3.3 | CDS | 84547684 | 84548415 | 84547684 | ID=cds.MS.gene38690.t1;Parent=MS.gene38690.t1 |
| Gene Sequence |
| Protein sequence |
