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.gene90002.t1 | KEH41673.1 | 89.8 | 244 | 17 | 1 | 1 | 244 | 1 | 236 | 1.70E-122 | 448.7 |
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.gene90002.t1 | A0A072VJQ5 | 89.8 | 244 | 17 | 1 | 1 | 244 | 1 | 236 | 1.2e-122 | 448.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene90002.t1 | TF | NAC |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene90002.t1 | MTR_1g053575 | 89.754 | 244 | 17 | 1 | 1 | 244 | 1 | 236 | 4.29e-160 | 446 |
| MS.gene90002.t1 | MTR_1g045470 | 62.451 | 253 | 69 | 8 | 1 | 243 | 1 | 237 | 1.47e-92 | 275 |
| MS.gene90002.t1 | MTR_7g116460 | 60.000 | 205 | 55 | 5 | 1 | 183 | 1 | 200 | 1.89e-77 | 233 |
| MS.gene90002.t1 | MTR_1g019820 | 38.514 | 148 | 67 | 4 | 102 | 240 | 5 | 137 | 2.51e-22 | 91.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 42 sgRNAs with CRISPR-Local
Find 61 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAAAGAATCCTTGGGATATT+TGG | 0.040443 | 1.4:+40244893 | MS.gene90002:CDS |
| CCACCATTTGATTCGTTTCT+TGG | 0.076491 | 1.4:-40245547 | None:intergenic |
| TTCAAGAATGGTGATGTAAT+TGG | 0.213249 | 1.4:-40244851 | None:intergenic |
| AAATATCCCAAGGATTCTTT+AGG | 0.262491 | 1.4:-40244891 | None:intergenic |
| CCAAGAGAGACAACCATTCT+TGG | 0.271875 | 1.4:+40245643 | MS.gene90002:CDS |
| AGTGGTAGATTTCTTCTCTA+AGG | 0.296212 | 1.4:-40244977 | None:intergenic |
| TCAAAAGTAGTTCGTTCTAT+TGG | 0.321604 | 1.4:+40245003 | MS.gene90002:CDS |
| AAAGAATCCTTGGGATATTT+GGG | 0.338135 | 1.4:+40244894 | MS.gene90002:CDS |
| TGGGATATTTGGGAAGAGTT+TGG | 0.341365 | 1.4:+40244904 | MS.gene90002:CDS |
| ATTCTTGAATACGATTTGTT+TGG | 0.353129 | 1.4:+40244865 | MS.gene90002:CDS |
| GTAGTTCGTTCTATTGGAAT+TGG | 0.365191 | 1.4:+40245009 | MS.gene90002:CDS |
| ATCTTTGATAAGAAATCCTT+TGG | 0.365896 | 1.4:+40245179 | MS.gene90002:CDS |
| TCTCAATTCTTCTTCAAGTA+AGG | 0.366602 | 1.4:+40244756 | MS.gene90002:CDS |
| AATTGGGAAGAGATTTGTTA+TGG | 0.367059 | 1.4:-40244834 | None:intergenic |
| AATATCCCAAGGATTCTTTA+GGG | 0.371252 | 1.4:-40244890 | None:intergenic |
| TGGACACAATGGCACAAATA+TGG | 0.371907 | 1.4:+40245567 | MS.gene90002:CDS |
| TGTAGGACTTACAAATTTGT+TGG | 0.396611 | 1.4:-40245677 | None:intergenic |
| TCAAGAATGGTGATGTAATT+GGG | 0.404508 | 1.4:-40244850 | None:intergenic |
| CCAAGAATGGTTGTCTCTCT+TGG | 0.410667 | 1.4:-40245643 | None:intergenic |
| TTAAGGTAGTGAAGAAATAT+AGG | 0.411633 | 1.4:-40244954 | None:intergenic |
| GAAAGAAAGACCATTGTTCC+TGG | 0.417462 | 1.4:+40245344 | MS.gene90002:CDS |
| TTGGTACCCTAAAGAATCCT+TGG | 0.424102 | 1.4:+40244884 | MS.gene90002:CDS |
| AATCAAGTAACTTACAGATA+TGG | 0.426262 | 1.4:-40245381 | None:intergenic |
| AGATTTCTTCTCTAAGGTTA+AGG | 0.432842 | 1.4:-40244971 | None:intergenic |
| TGGTACCCTAAAGAATCCTT+GGG | 0.489046 | 1.4:+40244885 | MS.gene90002:CDS |
| GAACCAAGAAACGAATCAAA+TGG | 0.503929 | 1.4:+40245544 | MS.gene90002:CDS |
| GTTCTATTGGAATTGGTGCA+TGG | 0.508402 | 1.4:+40245016 | MS.gene90002:CDS |
| AAACAAATCGTATTCAAGAA+TGG | 0.519788 | 1.4:-40244863 | None:intergenic |
| GGCTGCTTCGAGTCCAAGAA+TGG | 0.535306 | 1.4:-40245656 | None:intergenic |
| TTCTTATCAAAGATTTGTCA+AGG | 0.536486 | 1.4:-40245170 | None:intergenic |
| ATGGTGGTTTCTGCACGTCC+AGG | 0.545124 | 1.4:-40245362 | None:intergenic |
| TTCTATTGGAATTGGTGCAT+GGG | 0.546914 | 1.4:+40245017 | MS.gene90002:CDS |
| GCAAGATCCATGCACCATCA+TGG | 0.566204 | 1.4:-40245137 | None:intergenic |
| AACTCTTCCCAAATATCCCA+AGG | 0.585203 | 1.4:-40244901 | None:intergenic |
| CAAGTAACTTACAGATATGG+TGG | 0.592493 | 1.4:-40245378 | None:intergenic |
| TTCTGCACGTCCAGGAACAA+TGG | 0.595867 | 1.4:-40245354 | None:intergenic |
| GAATCAAATGGTGGACACAA+TGG | 0.599759 | 1.4:+40245556 | MS.gene90002:CDS |
| ATTGGAATTGGTGCATGGGA+AGG | 0.630255 | 1.4:+40245021 | MS.gene90002:CDS |
| GCACTTACCATGATGGTGCA+TGG | 0.633065 | 1.4:+40245130 | MS.gene90002:CDS |
| AATAGTGGCACTTACCATGA+TGG | 0.645072 | 1.4:+40245123 | MS.gene90002:CDS |
| TGGGAAGGTGAAGAAGACAC+TGG | 0.669846 | 1.4:+40245036 | MS.gene90002:CDS |
| CCAAGAAACGAATCAAATGG+TGG | 0.672770 | 1.4:+40245547 | MS.gene90002:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TACAAAATCAAATTATAAAT+AGG | - | chr1.4:40245253-40245272 | None:intergenic | 10.0% |
| !!! | TTGTATCTTTTTTCTTTTTT+AGG | + | chr1.4:40245268-40245287 | MS.gene90002:intron | 15.0% |
| !! | AAAAAGATGTGAGAAATATT+TGG | + | chr1.4:40245620-40245639 | MS.gene90002:CDS | 20.0% |
| !! | AGAAAAACAACAATAAATGT+AGG | - | chr1.4:40245697-40245716 | None:intergenic | 20.0% |
| !! | ATGTTAAATAGAAAAACAAC+CGG | - | chr1.4:40245454-40245473 | None:intergenic | 20.0% |
| !! | CTTGATTCAAGATTTAATAA+TGG | + | chr1.4:40245414-40245433 | MS.gene90002:intron | 20.0% |
| ! | AAACAAATCGTATTCAAGAA+TGG | - | chr1.4:40244866-40244885 | None:intergenic | 25.0% |
| ! | AATCAAGTAACTTACAGATA+TGG | - | chr1.4:40245384-40245403 | None:intergenic | 25.0% |
| ! | ATCTTTGATAAGAAATCCTT+TGG | + | chr1.4:40245179-40245198 | MS.gene90002:CDS | 25.0% |
| ! | TTAAGGTAGTGAAGAAATAT+AGG | - | chr1.4:40244957-40244976 | None:intergenic | 25.0% |
| ! | TTCTTATCAAAGATTTGTCA+AGG | - | chr1.4:40245173-40245192 | None:intergenic | 25.0% |
| !! | ATTCTTGAATACGATTTGTT+TGG | + | chr1.4:40244865-40244884 | MS.gene90002:CDS | 25.0% |
| !! | CATTCTTGATTTGATATGTA+GGG | + | chr1.4:40245484-40245503 | MS.gene90002:intron | 25.0% |
| !! | TCTGCATAGAACATAATTTT+TGG | - | chr1.4:40245294-40245313 | None:intergenic | 25.0% |
| !! | TGTTATGGATTTTATTGTAG+AGG | - | chr1.4:40244822-40244841 | None:intergenic | 25.0% |
| AAAAACAAGAACCAAATCCT+TGG | + | chr1.4:40245075-40245094 | MS.gene90002:CDS | 30.0% | |
| AAAGAATCCTTGGGATATTT+GGG | + | chr1.4:40244894-40244913 | MS.gene90002:CDS | 30.0% | |
| AAATATCCCAAGGATTCTTT+AGG | - | chr1.4:40244894-40244913 | None:intergenic | 30.0% | |
| AATATCCCAAGGATTCTTTA+GGG | - | chr1.4:40244893-40244912 | None:intergenic | 30.0% | |
| AATGGATACATTTCAAGATC+CGG | + | chr1.4:40245432-40245451 | MS.gene90002:intron | 30.0% | |
| TAAAGAATCCTTGGGATATT+TGG | + | chr1.4:40244893-40244912 | MS.gene90002:CDS | 30.0% | |
| TCAAAAGTAGTTCGTTCTAT+TGG | + | chr1.4:40245003-40245022 | MS.gene90002:CDS | 30.0% | |
| TCTCAATTCTTCTTCAAGTA+AGG | + | chr1.4:40244756-40244775 | MS.gene90002:CDS | 30.0% | |
| TGTAGGACTTACAAATTTGT+TGG | - | chr1.4:40245680-40245699 | None:intergenic | 30.0% | |
| TGTATCATATTGCTTACCAA+AGG | - | chr1.4:40245198-40245217 | None:intergenic | 30.0% | |
| ! | GCATTCTTGATTTGATATGT+AGG | + | chr1.4:40245483-40245502 | MS.gene90002:intron | 30.0% |
| ! | GGATTTTATTGTAGAGGAAT+CGG | - | chr1.4:40244816-40244835 | None:intergenic | 30.0% |
| ! | TCAAGAATGGTGATGTAATT+GGG | - | chr1.4:40244853-40244872 | None:intergenic | 30.0% |
| ! | TTCAAGAATGGTGATGTAAT+TGG | - | chr1.4:40244854-40244873 | None:intergenic | 30.0% |
| !! | AATTGGGAAGAGATTTGTTA+TGG | - | chr1.4:40244837-40244856 | None:intergenic | 30.0% |
| !! | AGATTTCTTCTCTAAGGTTA+AGG | - | chr1.4:40244974-40244993 | None:intergenic | 30.0% |
| !! | TGTTTTCGATTTGAGAATAG+TGG | + | chr1.4:40245108-40245127 | MS.gene90002:CDS | 30.0% |
| !!! | ATTTTTTCACACCAAGGATT+TGG | - | chr1.4:40245089-40245108 | None:intergenic | 30.0% |
| !!! | GAAAACATTTTTTCACACCA+AGG | - | chr1.4:40245095-40245114 | None:intergenic | 30.0% |
| AGTGGTAGATTTCTTCTCTA+AGG | - | chr1.4:40244980-40244999 | None:intergenic | 35.0% | |
| CAAGTAACTTACAGATATGG+TGG | - | chr1.4:40245381-40245400 | None:intergenic | 35.0% | |
| GAACCAAGAAACGAATCAAA+TGG | + | chr1.4:40245544-40245563 | MS.gene90002:CDS | 35.0% | |
| GTAGTTCGTTCTATTGGAAT+TGG | + | chr1.4:40245009-40245028 | MS.gene90002:CDS | 35.0% | |
| TTCTATTGGAATTGGTGCAT+GGG | + | chr1.4:40245017-40245036 | MS.gene90002:CDS | 35.0% | |
| ! | TTTTTCACAATATGAGCGAG+AGG | - | chr1.4:40244932-40244951 | None:intergenic | 35.0% |
| AACTCTTCCCAAATATCCCA+AGG | - | chr1.4:40244904-40244923 | None:intergenic | 40.0% | |
| AATAGTGGCACTTACCATGA+TGG | + | chr1.4:40245123-40245142 | MS.gene90002:CDS | 40.0% | |
| CCAAGAAACGAATCAAATGG+TGG | + | chr1.4:40245547-40245566 | MS.gene90002:CDS | 40.0% | |
| GAAAGAAAGACCATTGTTCC+TGG | + | chr1.4:40245344-40245363 | MS.gene90002:CDS | 40.0% | |
| GTTCTATTGGAATTGGTGCA+TGG | + | chr1.4:40245016-40245035 | MS.gene90002:CDS | 40.0% | |
| TGGACACAATGGCACAAATA+TGG | + | chr1.4:40245567-40245586 | MS.gene90002:CDS | 40.0% | |
| TGGGATATTTGGGAAGAGTT+TGG | + | chr1.4:40244904-40244923 | MS.gene90002:CDS | 40.0% | |
| TGGTACCCTAAAGAATCCTT+GGG | + | chr1.4:40244885-40244904 | MS.gene90002:CDS | 40.0% | |
| TTGGTACCCTAAAGAATCCT+TGG | + | chr1.4:40244884-40244903 | MS.gene90002:CDS | 40.0% | |
| ! | CCACCATTTGATTCGTTTCT+TGG | - | chr1.4:40245550-40245569 | None:intergenic | 40.0% |
| !! | ACGAACTACTTTTGAGCTAG+TGG | - | chr1.4:40244998-40245017 | None:intergenic | 40.0% |
| !! | GAATCAAATGGTGGACACAA+TGG | + | chr1.4:40245556-40245575 | MS.gene90002:CDS | 40.0% |
| ATTGGAATTGGTGCATGGGA+AGG | + | chr1.4:40245021-40245040 | MS.gene90002:CDS | 45.0% | |
| CCAAGAATGGTTGTCTCTCT+TGG | - | chr1.4:40245646-40245665 | None:intergenic | 45.0% | |
| CCAAGAGAGACAACCATTCT+TGG | + | chr1.4:40245643-40245662 | MS.gene90002:CDS | 45.0% | |
| GCAAGATCCATGCACCATCA+TGG | - | chr1.4:40245140-40245159 | None:intergenic | 50.0% | |
| TGGGAAGGTGAAGAAGACAC+TGG | + | chr1.4:40245036-40245055 | MS.gene90002:CDS | 50.0% | |
| TTCTGCACGTCCAGGAACAA+TGG | - | chr1.4:40245357-40245376 | None:intergenic | 50.0% | |
| ! | GCACTTACCATGATGGTGCA+TGG | + | chr1.4:40245130-40245149 | MS.gene90002:CDS | 50.0% |
| ATGGTGGTTTCTGCACGTCC+AGG | - | chr1.4:40245365-40245384 | None:intergenic | 55.0% | |
| GGCTGCTTCGAGTCCAAGAA+TGG | - | chr1.4:40245659-40245678 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 40244751 | 40245735 | 40244751 | ID=MS.gene90002 |
| chr1.4 | mRNA | 40244751 | 40245735 | 40244751 | ID=MS.gene90002.t1;Parent=MS.gene90002 |
| chr1.4 | exon | 40244751 | 40245200 | 40244751 | ID=MS.gene90002.t1.exon1;Parent=MS.gene90002.t1 |
| chr1.4 | CDS | 40244751 | 40245200 | 40244751 | ID=cds.MS.gene90002.t1;Parent=MS.gene90002.t1 |
| chr1.4 | exon | 40245290 | 40245388 | 40245290 | ID=MS.gene90002.t1.exon2;Parent=MS.gene90002.t1 |
| chr1.4 | CDS | 40245290 | 40245388 | 40245290 | ID=cds.MS.gene90002.t1;Parent=MS.gene90002.t1 |
| chr1.4 | exon | 40245505 | 40245687 | 40245505 | ID=MS.gene90002.t1.exon3;Parent=MS.gene90002.t1 |
| chr1.4 | CDS | 40245505 | 40245687 | 40245505 | ID=cds.MS.gene90002.t1;Parent=MS.gene90002.t1 |
| chr1.4 | exon | 40245727 | 40245735 | 40245727 | ID=MS.gene90002.t1.exon4;Parent=MS.gene90002.t1 |
| chr1.4 | CDS | 40245727 | 40245735 | 40245727 | ID=cds.MS.gene90002.t1;Parent=MS.gene90002.t1 |
| Gene Sequence |
| Protein sequence |
