Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0177300 | RHN81543.1 | 98.095 | 105 | 2 | 0 | 1 | 105 | 16 | 120 | 1.57e-57 | 183 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0177300 | A0A396JZE0 | 98.095 | 105 | 2 | 0 | 1 | 105 | 16 | 120 | 7.49e-58 | 183 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0037200 | Msa0177300 | 0.928301 | 3.505522e-92 | -8.615850e-47 |
| Msa0092190 | Msa0177300 | 0.875619 | 2.670900e-68 | -8.615850e-47 |
| Msa0177300 | Msa0177340 | 0.988083 | 1.201613e-172 | -8.615850e-47 |
| Msa0177300 | Msa0256330 | 0.819878 | 9.215631e-53 | -8.615850e-47 |
| Msa0177300 | Msa0295330 | 0.821661 | 3.585743e-53 | -8.615850e-47 |
| Msa0177300 | Msa0310860 | 0.800735 | 1.253851e-48 | -8.615850e-47 |
| Msa0177300 | Msa0479090 | 0.814742 | 1.319698e-51 | -8.615850e-47 |
| Msa0177300 | Msa0553220 | -0.808922 | 2.441133e-50 | -8.615850e-47 |
| Msa0177300 | Msa0614990 | 0.808122 | 3.616978e-50 | -8.615850e-47 |
| Msa0177300 | Msa0683140 | 0.803834 | 2.885763e-49 | -8.615850e-47 |
| Msa0177300 | Msa0683600 | 0.800698 | 1.275552e-48 | -8.615850e-47 |
| Msa0177300 | Msa0793380 | 0.806055 | 9.904420e-50 | -8.615850e-47 |
| Msa0177300 | Msa0870150 | 0.813769 | 2.164661e-51 | -8.615850e-47 |
| Msa0177300 | Msa0942550 | -0.800371 | 1.487009e-48 | -8.615850e-47 |
| Msa0177300 | Msa1174870 | 0.800175 | 1.630229e-48 | -8.615850e-47 |
| Msa0177300 | Msa1234730 | 0.807384 | 5.189593e-50 | -8.615850e-47 |
| Msa0177300 | Msa1315110 | 0.810232 | 1.276665e-50 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0177300 | MtrunA17_Chr1g0200311 | 98.095 | 105 | 2 | 0 | 1 | 105 | 16 | 120 | 1.44e-61 | 183 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0177300 | AT5G61660.1 | 60.714 | 56 | 21 | 1 | 1 | 56 | 13 | 67 | 2.71e-13 | 61.6 |
Find 59 sgRNAs with CRISPR-Local
Find 73 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTCGGGCCACGGTCCAAAT+TGG | 0.259697 | 1_4:-64205295 | Msa0177300:CDS |
| TCTGGCTTTGGTAGAGGTTA+TGG | 0.264164 | 1_4:-64205200 | Msa0177300:CDS |
| AGTGGATGGGGTTACGGTTC+AGG | 0.271763 | 1_4:-64205239 | Msa0177300:CDS |
| AGAGGTTATGGCTATGGTTT+TGG | 0.272187 | 1_4:-64205188 | Msa0177300:CDS |
| GGTTCAGGACATTCTCCTTC+TGG | 0.275589 | 1_4:-64205218 | Msa0177300:CDS |
| TGGGGTTACGGTTCAGGTTC+AGG | 0.287425 | 1_4:-64205233 | Msa0177300:CDS |
| CTCCGAAGGTGACCGATTAT+TGG | 0.290144 | 1_4:+64205046 | None:intergenic |
| TCTGGATCCGGGTCTGGTTA+TGG | 0.298117 | 1_4:-64205152 | Msa0177300:CDS |
| ACCGGGTCTGGGTCTGGATC+CGG | 0.302126 | 1_4:-64205164 | Msa0177300:CDS |
| GCCACTGCTGGCTGCGGCCA+TGG | 0.313937 | 1_4:+64205367 | None:intergenic |
| CCCCAGCTATAGTCCCAATT+TGG | 0.314443 | 1_4:+64205281 | None:intergenic |
| TTTGGAACCGGGTCTGGGTC+TGG | 0.316778 | 1_4:-64205170 | Msa0177300:CDS |
| TCCGACAGGTGCAAGTGGTT+CGG | 0.329780 | 1_4:-64205312 | Msa0177300:CDS |
| GGACATTCTCCTTCTGGCTT+TGG | 0.332030 | 1_4:-64205212 | Msa0177300:CDS |
| CCGACAGGTGCAAGTGGTTC+GGG | 0.360896 | 1_4:-64205311 | Msa0177300:CDS |
| TCGGTCACCTTCGGAGTCTA+AGG | 0.368892 | 1_4:-64205039 | Msa0177300:CDS |
| GTCTGCACCAGGAAGTGGAT+GGG | 0.371552 | 1_4:-64205252 | Msa0177300:CDS |
| TCCGGGTCTGGTTATGGATA+TGG | 0.372940 | 1_4:-64205146 | Msa0177300:intron |
| CCGTAACCCCATCCACTTCC+TGG | 0.374994 | 1_4:+64205245 | None:intergenic |
| GGTCTGCACCAGGAAGTGGA+TGG | 0.384555 | 1_4:-64205253 | Msa0177300:CDS |
| CCGGGTCTGGGTCTGGATCC+GGG | 0.384946 | 1_4:-64205163 | Msa0177300:CDS |
| TCTGGCAATTCAGGCGGTGG+AGG | 0.390126 | 1_4:-64205086 | Msa0177300:intron |
| TGGGACTATAGCTGGGGATG+GGG | 0.391784 | 1_4:-64205275 | Msa0177300:CDS |
| TAGCTTTCTTCCGCCACTGC+TGG | 0.402255 | 1_4:+64205355 | None:intergenic |
| TCTGGGTCTGGATCCGGGTC+TGG | 0.404022 | 1_4:-64205158 | Msa0177300:CDS |
| TTCGGGCCACGGTCCAAATT+GGG | 0.409857 | 1_4:-64205294 | Msa0177300:CDS |
| TCTCCTTCTGGCTTTGGTAG+AGG | 0.416778 | 1_4:-64205206 | Msa0177300:CDS |
| CCAGGAAGTGGATGGGGTTA+CGG | 0.422757 | 1_4:-64205245 | Msa0177300:CDS |
| TTTGGTAGAGGTTATGGCTA+TGG | 0.433764 | 1_4:-64205194 | Msa0177300:CDS |
| GTCCAAATTGGGACTATAGC+TGG | 0.434287 | 1_4:-64205283 | Msa0177300:CDS |
| GGGACTATAGCTGGGGATGG+GGG | 0.436504 | 1_4:-64205274 | Msa0177300:CDS |
| GGCGGTGGAGGGCATGGTGG+TGG | 0.444613 | 1_4:-64205074 | Msa0177300:CDS |
| AATTCAGGCGGTGGAGGGCA+TGG | 0.452407 | 1_4:-64205080 | Msa0177300:intron |
| TTTAATTACTCATGGTTGGT+TGG | 0.458788 | 1_4:+64205010 | None:intergenic |
| TCTTCCGCCACTGCTGGCTG+CGG | 0.464894 | 1_4:+64205361 | None:intergenic |
| GGTGCAAGTGGTTCGGGCCA+CGG | 0.474288 | 1_4:-64205305 | Msa0177300:CDS |
| TCCAAATTGGGACTATAGCT+GGG | 0.483029 | 1_4:-64205282 | Msa0177300:CDS |
| AACCAATAATCGGTCACCTT+CGG | 0.485230 | 1_4:-64205048 | Msa0177300:CDS |
| TTAATTTAATTACTCATGGT+TGG | 0.488357 | 1_4:+64205006 | None:intergenic |
| TTGGGACTATAGCTGGGGAT+GGG | 0.492750 | 1_4:-64205276 | Msa0177300:CDS |
| CTGGCAATTCAGGCGGTGGA+GGG | 0.495997 | 1_4:-64205085 | Msa0177300:intron |
| TCCATGGCCGCAGCCAGCAG+TGG | 0.511233 | 1_4:-64205368 | Msa0177300:CDS |
| ATGGCCGCAGCCAGCAGTGG+CGG | 0.520646 | 1_4:-64205365 | Msa0177300:CDS |
| GCAAGCGGTGGTTCTCCGAC+AGG | 0.530173 | 1_4:-64205326 | Msa0177300:CDS |
| GTGGTGGTAGAACCAATAAT+CGG | 0.540663 | 1_4:-64205058 | Msa0177300:CDS |
| TCTGCACCAGGAAGTGGATG+GGG | 0.554469 | 1_4:-64205251 | Msa0177300:CDS |
| CGGTCACCTTCGGAGTCTAA+GGG | 0.558343 | 1_4:-64205038 | Msa0177300:CDS |
| CCCGGATCCAGACCCAGACC+CGG | 0.567752 | 1_4:+64205163 | None:intergenic |
| ATTGGGACTATAGCTGGGGA+TGG | 0.573906 | 1_4:-64205277 | Msa0177300:CDS |
| CCCGAACCACTTGCACCTGT+CGG | 0.592937 | 1_4:+64205311 | None:intergenic |
| TCAGGCGGTGGAGGGCATGG+TGG | 0.594015 | 1_4:-64205077 | Msa0177300:intron |
| AAGCTAGACACGGCAAGCGG+TGG | 0.607144 | 1_4:-64205338 | Msa0177300:CDS |
| GGTTCTCCGACAGGTGCAAG+TGG | 0.627044 | 1_4:-64205317 | Msa0177300:CDS |
| ACCATATCCATAACCAGACC+CGG | 0.634754 | 1_4:+64205145 | None:intergenic |
| CCAAATTGGGACTATAGCTG+GGG | 0.653928 | 1_4:-64205281 | Msa0177300:CDS |
| TAACCTCTACCAAAGCCAGA+AGG | 0.659441 | 1_4:+64205203 | None:intergenic |
| TATAGTCCCAATTTGGACCG+TGG | 0.667912 | 1_4:+64205288 | None:intergenic |
| AGAAAGCTAGACACGGCAAG+CGG | 0.701647 | 1_4:-64205341 | Msa0177300:CDS |
| TGGCGGAAGAAAGCTAGACA+CGG | 0.719665 | 1_4:-64205348 | Msa0177300:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TCCAAATTGGGACTATAGCT+GGG | - | chr1_4:64205102-64205121 | Msa0177300:intron | 40.0% | |
| TTTGGTAGAGGTTATGGCTA+TGG | - | chr1_4:64205190-64205209 | Msa0177300:CDS | 40.0% | |
| ! | AGAGGTTATGGCTATGGTTT+TGG | - | chr1_4:64205196-64205215 | Msa0177300:CDS | 40.0% |
| !!! | TATGGCTATGGTTTTGGAAC+CGG | - | chr1_4:64205202-64205221 | Msa0177300:CDS | 40.0% |
| TCTGGTTATGGATATGGTAG+TGG | - | chr1_4:64205244-64205263 | Msa0177300:CDS | 40.0% | |
| GTGGTGGTAGAACCAATAAT+CGG | - | chr1_4:64205326-64205345 | Msa0177300:CDS | 40.0% | |
| AACCAATAATCGGTCACCTT+CGG | - | chr1_4:64205336-64205355 | Msa0177300:CDS | 40.0% | |
| TATAGTCCCAATTTGGACCG+TGG | + | chr1_4:64205099-64205118 | None:intergenic | 45.0% | |
| GTCCAAATTGGGACTATAGC+TGG | - | chr1_4:64205101-64205120 | Msa0177300:intron | 45.0% | |
| CCAAATTGGGACTATAGCTG+GGG | - | chr1_4:64205103-64205122 | Msa0177300:intron | 45.0% | |
| TAACCTCTACCAAAGCCAGA+AGG | + | chr1_4:64205184-64205203 | None:intergenic | 45.0% | |
| !! | TCTGGCTTTGGTAGAGGTTA+TGG | - | chr1_4:64205184-64205203 | Msa0177300:CDS | 45.0% |
| !!! | ATGGCTATGGTTTTGGAACC+GGG | - | chr1_4:64205203-64205222 | Msa0177300:CDS | 45.0% |
| ACCATATCCATAACCAGACC+CGG | + | chr1_4:64205242-64205261 | None:intergenic | 45.0% | |
| !! | GGTTATGGATATGGTAGTGG+TGG | - | chr1_4:64205247-64205266 | Msa0177300:CDS | 45.0% |
| ! | GTTTTACCCTTAGACTCCGA+AGG | + | chr1_4:64205355-64205374 | None:intergenic | 45.0% |
| TGGCGGAAGAAAGCTAGACA+CGG | - | chr1_4:64205036-64205055 | Msa0177300:CDS | 50.0% | |
| AGAAAGCTAGACACGGCAAG+CGG | - | chr1_4:64205043-64205062 | Msa0177300:CDS | 50.0% | |
| CCCCAGCTATAGTCCCAATT+TGG | + | chr1_4:64205106-64205125 | None:intergenic | 50.0% | |
| ATTGGGACTATAGCTGGGGA+TGG | - | chr1_4:64205107-64205126 | Msa0177300:intron | 50.0% | |
| TTGGGACTATAGCTGGGGAT+GGG | - | chr1_4:64205108-64205127 | Msa0177300:intron | 50.0% | |
| GGTTCAGGACATTCTCCTTC+TGG | - | chr1_4:64205166-64205185 | Msa0177300:CDS | 50.0% | |
| !! | GGACATTCTCCTTCTGGCTT+TGG | - | chr1_4:64205172-64205191 | Msa0177300:CDS | 50.0% |
| !! | TCTCCTTCTGGCTTTGGTAG+AGG | - | chr1_4:64205178-64205197 | Msa0177300:CDS | 50.0% |
| !!! | TATGGTTTTGGAACCGGGTC+TGG | - | chr1_4:64205208-64205227 | Msa0177300:CDS | 50.0% |
| !!! | ATGGTTTTGGAACCGGGTCT+GGG | - | chr1_4:64205209-64205228 | Msa0177300:CDS | 50.0% |
| TCCGGGTCTGGTTATGGATA+TGG | - | chr1_4:64205238-64205257 | Msa0177300:CDS | 50.0% | |
| !! | TATGGTAGTGGTGGTGCTCA+TGG | - | chr1_4:64205256-64205275 | Msa0177300:CDS | 50.0% |
| !! | CATGGTGGTGGTTATGGAAG+TGG | - | chr1_4:64205274-64205293 | Msa0177300:CDS | 50.0% |
| GGTGGTTATGGAAGTGGTTC+TGG | - | chr1_4:64205280-64205299 | Msa0177300:CDS | 50.0% | |
| !! | GGAAGTGGTTCTGGCAATTC+AGG | - | chr1_4:64205289-64205308 | Msa0177300:CDS | 50.0% |
| !! | AGTGGTTCTGGCAATTCAGG+CGG | - | chr1_4:64205292-64205311 | Msa0177300:CDS | 50.0% |
| CTCCGAAGGTGACCGATTAT+TGG | + | chr1_4:64205341-64205360 | None:intergenic | 50.0% | |
| TAGCTTTCTTCCGCCACTGC+TGG | + | chr1_4:64205032-64205051 | None:intergenic | 55.0% | |
| TCCGACAGGTGCAAGTGGTT+CGG | - | chr1_4:64205072-64205091 | Msa0177300:CDS | 55.0% | |
| TTCGGGCCACGGTCCAAATT+GGG | - | chr1_4:64205090-64205109 | Msa0177300:intron | 55.0% | |
| TGGGACTATAGCTGGGGATG+GGG | - | chr1_4:64205109-64205128 | Msa0177300:intron | 55.0% | |
| GTCTGCACCAGGAAGTGGAT+GGG | - | chr1_4:64205132-64205151 | Msa0177300:intron | 55.0% | |
| TCTGCACCAGGAAGTGGATG+GGG | - | chr1_4:64205133-64205152 | Msa0177300:intron | 55.0% | |
| CCAGGAAGTGGATGGGGTTA+CGG | - | chr1_4:64205139-64205158 | Msa0177300:intron | 55.0% | |
| AGTGGATGGGGTTACGGTTC+AGG | - | chr1_4:64205145-64205164 | Msa0177300:intron | 55.0% | |
| ! | TGGGGTTACGGTTCAGGTTC+AGG | - | chr1_4:64205151-64205170 | Msa0177300:CDS | 55.0% |
| TCTGGATCCGGGTCTGGTTA+TGG | - | chr1_4:64205232-64205251 | Msa0177300:CDS | 55.0% | |
| !! | GGTGCTCATGGTGGTGGTTA+TGG | - | chr1_4:64205268-64205287 | Msa0177300:CDS | 55.0% |
| TCGGTCACCTTCGGAGTCTA+AGG | - | chr1_4:64205345-64205364 | Msa0177300:CDS | 55.0% | |
| CGGTCACCTTCGGAGTCTAA+GGG | - | chr1_4:64205346-64205365 | Msa0177300:CDS | 55.0% | |
| AAGCTAGACACGGCAAGCGG+TGG | - | chr1_4:64205046-64205065 | Msa0177300:CDS | 60.0% | |
| GGTTCTCCGACAGGTGCAAG+TGG | - | chr1_4:64205067-64205086 | Msa0177300:CDS | 60.0% | |
| CCCGAACCACTTGCACCTGT+CGG | + | chr1_4:64205076-64205095 | None:intergenic | 60.0% | |
| CCGACAGGTGCAAGTGGTTC+GGG | - | chr1_4:64205073-64205092 | Msa0177300:CDS | 60.0% | |
| GTTCGGGCCACGGTCCAAAT+TGG | - | chr1_4:64205089-64205108 | Msa0177300:intron | 60.0% | |
| GGGACTATAGCTGGGGATGG+GGG | - | chr1_4:64205110-64205129 | Msa0177300:intron | 60.0% | |
| GGTCTGCACCAGGAAGTGGA+TGG | - | chr1_4:64205131-64205150 | Msa0177300:intron | 60.0% | |
| CCGTAACCCCATCCACTTCC+TGG | + | chr1_4:64205142-64205161 | None:intergenic | 60.0% | |
| ! | TTTGGAACCGGGTCTGGGTC+TGG | - | chr1_4:64205214-64205233 | Msa0177300:CDS | 60.0% |
| ! | GGTAGTGGTGGTGCTCATGG+TGG | - | chr1_4:64205259-64205278 | Msa0177300:CDS | 60.0% |
| ! | AGTGGTGGTGCTCATGGTGG+TGG | - | chr1_4:64205262-64205281 | Msa0177300:CDS | 60.0% |
| ! | GGTTCTGGCAATTCAGGCGG+TGG | - | chr1_4:64205295-64205314 | Msa0177300:CDS | 60.0% |
| TCTGGCAATTCAGGCGGTGG+AGG | - | chr1_4:64205298-64205317 | Msa0177300:CDS | 60.0% | |
| CTGGCAATTCAGGCGGTGGA+GGG | - | chr1_4:64205299-64205318 | Msa0177300:CDS | 60.0% | |
| AATTCAGGCGGTGGAGGGCA+TGG | - | chr1_4:64205304-64205323 | Msa0177300:CDS | 60.0% | |
| ! | TCTTCCGCCACTGCTGGCTG+CGG | + | chr1_4:64205026-64205045 | None:intergenic | 65.0% |
| GCAAGCGGTGGTTCTCCGAC+AGG | - | chr1_4:64205058-64205077 | Msa0177300:CDS | 65.0% | |
| ! | GGTGCAAGTGGTTCGGGCCA+CGG | - | chr1_4:64205079-64205098 | Msa0177300:intron | 65.0% |
| TGGGGGTCTGCACCAGGAAG+TGG | - | chr1_4:64205127-64205146 | Msa0177300:intron | 65.0% | |
| ACCGGGTCTGGGTCTGGATC+CGG | - | chr1_4:64205220-64205239 | Msa0177300:CDS | 65.0% | |
| TCTGGGTCTGGATCCGGGTC+TGG | - | chr1_4:64205226-64205245 | Msa0177300:CDS | 65.0% | |
| ATGGCCGCAGCCAGCAGTGG+CGG | - | chr1_4:64205019-64205038 | Msa0177300:CDS | 70.0% | |
| TGGGGATGGGGGTCTGCACC+AGG | - | chr1_4:64205121-64205140 | Msa0177300:intron | 70.0% | |
| CCCGGATCCAGACCCAGACC+CGG | + | chr1_4:64205224-64205243 | None:intergenic | 70.0% | |
| CCGGGTCTGGGTCTGGATCC+GGG | - | chr1_4:64205221-64205240 | Msa0177300:CDS | 70.0% | |
| ! | TCAGGCGGTGGAGGGCATGG+TGG | - | chr1_4:64205307-64205326 | Msa0177300:CDS | 70.0% |
| ! | GGCGGTGGAGGGCATGGTGG+TGG | - | chr1_4:64205310-64205329 | Msa0177300:CDS | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 64205019 | 64205387 | 64205019 | ID=Msa0177300;Name=Msa0177300 |
| chr1_4 | mRNA | 64205019 | 64205387 | 64205019 | ID=Msa0177300-mRNA-1;Parent=Msa0177300;Name=Msa0177300-mRNA-1;_AED=0.29;_eAED=0.29;_QI=0|0|0|1|0|0|2|0|105 |
| chr1_4 | exon | 64205147 | 64205387 | 64205147 | ID=Msa0177300-mRNA-1:exon:20891;Parent=Msa0177300-mRNA-1 |
| chr1_4 | exon | 64205019 | 64205095 | 64205019 | ID=Msa0177300-mRNA-1:exon:20890;Parent=Msa0177300-mRNA-1 |
| chr1_4 | CDS | 64205147 | 64205387 | 64205147 | ID=Msa0177300-mRNA-1:cds;Parent=Msa0177300-mRNA-1 |
| chr1_4 | CDS | 64205019 | 64205095 | 64205019 | ID=Msa0177300-mRNA-1:cds;Parent=Msa0177300-mRNA-1 |
| Gene Sequence |
| Protein sequence |
