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.gene49109.t1 | XP_003592267.1 | 100 | 111 | 0 | 0 | 1 | 111 | 1 | 111 | 9.20E-52 | 212.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49109.t1 | Q9LZ57 | 83.0 | 106 | 17 | 1 | 7 | 111 | 3 | 108 | 3.1e-40 | 165.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49109.t1 | G7IAL7 | 100.0 | 111 | 0 | 0 | 1 | 111 | 1 | 111 | 6.6e-52 | 212.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050134 | MS.gene49109 | 0.800667 | 1.29E-48 | -1.69E-46 |
| MS.gene050791 | MS.gene49109 | 0.839447 | 1.58E-57 | -1.69E-46 |
| MS.gene052412 | MS.gene49109 | 0.80924 | 2.09E-50 | -1.69E-46 |
| MS.gene056917 | MS.gene49109 | 0.805711 | 1.17E-49 | -1.69E-46 |
| MS.gene057272 | MS.gene49109 | 0.809784 | 1.59E-50 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene87309 | MS.gene49109 | PPI |
| MS.gene49109 | MS.gene98171 | PPI |
| MS.gene49109 | MS.gene95828 | PPI |
| MS.gene061166 | MS.gene49109 | PPI |
| MS.gene79721 | MS.gene49109 | PPI |
| MS.gene83961 | MS.gene49109 | PPI |
| MS.gene49109 | MS.gene83961 | PPI |
| MS.gene49109 | MS.gene81493 | PPI |
| MS.gene92142 | MS.gene49109 | PPI |
| MS.gene49109 | MS.gene34149 | PPI |
| MS.gene006276 | MS.gene49109 | PPI |
| MS.gene49109 | MS.gene59609 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49109.t1 | MTR_1g100960 | 100.000 | 111 | 0 | 0 | 1 | 111 | 1 | 111 | 7.15e-75 | 217 |
| MS.gene49109.t1 | MTR_6g053730 | 96.396 | 111 | 4 | 0 | 1 | 111 | 1 | 111 | 3.38e-72 | 210 |
| MS.gene49109.t1 | MTR_1g100960 | 100.000 | 101 | 0 | 0 | 1 | 101 | 1 | 101 | 6.71e-68 | 199 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene49109.t1 | AT3G53740 | 80.180 | 111 | 22 | 0 | 1 | 111 | 1 | 111 | 1.86e-58 | 176 |
| MS.gene49109.t1 | AT3G53740 | 80.180 | 111 | 22 | 0 | 1 | 111 | 1 | 111 | 1.86e-58 | 176 |
| MS.gene49109.t1 | AT3G53740 | 80.180 | 111 | 22 | 0 | 1 | 111 | 1 | 111 | 1.86e-58 | 176 |
| MS.gene49109.t1 | AT2G37600 | 82.692 | 104 | 18 | 0 | 8 | 111 | 8 | 111 | 2.05e-56 | 171 |
| MS.gene49109.t1 | AT2G37600 | 82.692 | 104 | 18 | 0 | 8 | 111 | 8 | 111 | 2.05e-56 | 171 |
| MS.gene49109.t1 | AT5G02450 | 83.019 | 106 | 17 | 1 | 7 | 111 | 3 | 108 | 8.05e-56 | 169 |
| MS.gene49109.t1 | AT3G53740 | 72.072 | 111 | 22 | 1 | 1 | 111 | 1 | 102 | 3.04e-49 | 152 |
Find 37 sgRNAs with CRISPR-Local
Find 71 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACCAGTACTTGGTTGTTT+AGG | 0.306770 | 1.3:-69105214 | None:intergenic |
| CTTCTTCTTTGCACGTTTGT+GGG | 0.313110 | 1.3:-69106093 | None:intergenic |
| AGCAGGAGATAAGAAGAAAT+AGG | 0.324207 | 1.3:+69106282 | MS.gene49109:CDS |
| TCTTCTTCTTTGCACGTTTG+TGG | 0.365751 | 1.3:-69106094 | None:intergenic |
| GCAGGAGATAAGAAGAAATA+GGG | 0.386238 | 1.3:+69106283 | MS.gene49109:CDS |
| AAAAGACAAGAGGGCACTTA+AGG | 0.398330 | 1.3:+69106049 | MS.gene49109:CDS |
| TCCACGTCCTTCAGCTCGCA+AGG | 0.427898 | 1.3:+69105285 | MS.gene49109:CDS |
| TGCAGGGCTGGTGGTGGAGC+AGG | 0.430321 | 1.3:+69106265 | MS.gene49109:intron |
| CATCGTCACAAAGAAGGAAT+TGG | 0.434230 | 1.3:+69105261 | MS.gene49109:CDS |
| CCAAGTACTGGTTTGTTCGT+TGG | 0.458873 | 1.3:+69105223 | MS.gene49109:CDS |
| AAGGTTGCAAAGAGAAAGCT+TGG | 0.461674 | 1.3:+69106068 | MS.gene49109:CDS |
| CCAACGAACAAACCAGTACT+TGG | 0.464574 | 1.3:-69105223 | None:intergenic |
| AACCTCATTAGAGAGGTTGC+TGG | 0.487721 | 1.3:+69105981 | MS.gene49109:CDS |
| ATCACTGAGTTGCTCAAGGT+TGG | 0.503868 | 1.3:+69106026 | MS.gene49109:CDS |
| TCAATGTGCAGGGCTGGTGG+TGG | 0.508415 | 1.3:+69106259 | MS.gene49109:intron |
| AGGAGATGTCTAATGTCCTC+AGG | 0.510350 | 1.3:+69106120 | MS.gene49109:CDS |
| ACCTCATTAGAGAGGTTGCT+GGG | 0.511316 | 1.3:+69105982 | MS.gene49109:CDS |
| CCCTTGCGAGCTGAAGGACG+TGG | 0.511446 | 1.3:-69105286 | None:intergenic |
| CCACGTCCTTCAGCTCGCAA+GGG | 0.521414 | 1.3:+69105286 | MS.gene49109:CDS |
| AGGCCACATCGTCACAAAGA+AGG | 0.551215 | 1.3:+69105255 | MS.gene49109:CDS |
| GCTCCTAAACAACCAAGTAC+TGG | 0.551611 | 1.3:+69105211 | MS.gene49109:CDS |
| CACGTCCTTCAGCTCGCAAG+GGG | 0.561496 | 1.3:+69105287 | MS.gene49109:CDS |
| ATTCCTTCTTTGTGACGATG+TGG | 0.577252 | 1.3:-69105258 | None:intergenic |
| TTGTTCGTTGGATTGAACAA+AGG | 0.583526 | 1.3:+69105235 | MS.gene49109:CDS |
| TCAGTGATACGCTTCTCGTA+AGG | 0.584616 | 1.3:-69106011 | None:intergenic |
| ACCCAGCAACCTCTCTAATG+AGG | 0.601885 | 1.3:-69105983 | None:intergenic |
| TGTGAGGAACCTCATTAGAG+AGG | 0.602916 | 1.3:+69105974 | MS.gene49109:CDS |
| TCGTTCAGAAAACAAGCAAG+AGG | 0.606732 | 1.3:+69105943 | MS.gene49109:intron |
| ACGTGCAAAGAAGAAGAGAG+AGG | 0.618868 | 1.3:+69106100 | MS.gene49109:CDS |
| GCAAGAGGGTGCACTTTGTG+AGG | 0.622900 | 1.3:+69105958 | MS.gene49109:CDS |
| CTAATGTCCTCAGGAAGATG+AGG | 0.627117 | 1.3:+69106129 | MS.gene49109:CDS |
| CAAGGTTGGAAAAGACAAGA+GGG | 0.628294 | 1.3:+69106040 | MS.gene49109:CDS |
| GCGTATCACTGAGTTGCTCA+AGG | 0.629950 | 1.3:+69106022 | MS.gene49109:CDS |
| CGTTCAGAAAACAAGCAAGA+GGG | 0.632672 | 1.3:+69105944 | MS.gene49109:intron |
| TCAAGGTTGGAAAAGACAAG+AGG | 0.663036 | 1.3:+69106039 | MS.gene49109:CDS |
| GAACAAACCTCATCTTCCTG+AGG | 0.694769 | 1.3:-69106136 | None:intergenic |
| ACGTCCTTCAGCTCGCAAGG+GGG | 0.706112 | 1.3:+69105288 | MS.gene49109:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GAATTTATGAATTAACATAA+AGG | + | chr1.3:69105703-69105722 | MS.gene49109:intron | 15.0% |
| !!! | ATTTTATGTTAGATTTAACT+TGG | + | chr1.3:69105470-69105489 | MS.gene49109:intron | 15.0% |
| !! | AACGAATAAAAACAATCTTT+AGG | - | chr1.3:69105928-69105947 | None:intergenic | 20.0% |
| !! | ACGAATAAAAACAATCTTTA+GGG | - | chr1.3:69105927-69105946 | None:intergenic | 20.0% |
| !! | AGAGTGAAAAAAAAAAAAGA+GGG | - | chr1.3:69105329-69105348 | None:intergenic | 20.0% |
| !! | TTATGAGGATAATATTTATG+AGG | + | chr1.3:69105661-69105680 | MS.gene49109:intron | 20.0% |
| !!! | TTTGTTATTATTGTTATGCT+TGG | + | chr1.3:69106166-69106185 | MS.gene49109:intron | 20.0% |
| ! | AATAGAAGGAGAAATAATGT+TGG | + | chr1.3:69105809-69105828 | MS.gene49109:intron | 25.0% |
| ! | ATACAATCACTTCATTGAAA+TGG | - | chr1.3:69105386-69105405 | None:intergenic | 25.0% |
| ! | ATAGAAGGAGAAATAATGTT+GGG | + | chr1.3:69105810-69105829 | MS.gene49109:intron | 25.0% |
| ! | ATTAATTCATAAGCTTGTCA+AGG | + | chr1.3:69105619-69105638 | MS.gene49109:intron | 25.0% |
| ! | CAGAGTGAAAAAAAAAAAAG+AGG | - | chr1.3:69105330-69105349 | None:intergenic | 25.0% |
| ! | CATTATTTCATTCATTCCTA+TGG | - | chr1.3:69105858-69105877 | None:intergenic | 25.0% |
| ! | CGAATAAAAACAATCTTTAG+GGG | - | chr1.3:69105926-69105945 | None:intergenic | 25.0% |
| ! | TTATTGTTATGCTTGGTATT+TGG | + | chr1.3:69106173-69106192 | MS.gene49109:intron | 25.0% |
| !! | AACTTGGAATTATTAGCTTA+AGG | + | chr1.3:69105486-69105505 | MS.gene49109:intron | 25.0% |
| !! | TTAGATATTTTCAATGTGCA+GGG | + | chr1.3:69106249-69106268 | MS.gene49109:intron | 25.0% |
| !! | TTTAGATATTTTCAATGTGC+AGG | + | chr1.3:69106248-69106267 | MS.gene49109:intron | 25.0% |
| AATAACAAGAACATGTTTCC+GGG | - | chr1.3:69106216-69106235 | None:intergenic | 30.0% | |
| CAATAACAAGAACATGTTTC+CGG | - | chr1.3:69106217-69106236 | None:intergenic | 30.0% | |
| CTGTGAGATATATGAATAGA+AGG | + | chr1.3:69105795-69105814 | MS.gene49109:intron | 30.0% | |
| GTAAGAAAAAACTGCTTATG+AGG | + | chr1.3:69105646-69105665 | MS.gene49109:intron | 30.0% | |
| GTTATTATGATAAGCATTCC+CGG | + | chr1.3:69106195-69106214 | MS.gene49109:intron | 30.0% | |
| TATTTCATTCATTCCTATGG+TGG | - | chr1.3:69105855-69105874 | None:intergenic | 30.0% | |
| ! | AGACTGATTTAAGATCAGTT+TGG | - | chr1.3:69105777-69105796 | None:intergenic | 30.0% |
| ! | GATTTAAGATCAGTTTGGAT+TGG | - | chr1.3:69105772-69105791 | None:intergenic | 30.0% |
| ! | TTTTTGCATTCTGTTCATCT+TGG | + | chr1.3:69105894-69105913 | MS.gene49109:intron | 30.0% |
| !! | TTTTAAGGATCTGTTTGGAT+TGG | + | chr1.3:69105550-69105569 | MS.gene49109:intron | 30.0% |
| !!! | CTTTGTTTTAAGGATCTGTT+TGG | + | chr1.3:69105545-69105564 | MS.gene49109:intron | 30.0% |
| !!! | TATGCTCGTACTTTGTTTTA+AGG | + | chr1.3:69105535-69105554 | MS.gene49109:intron | 30.0% |
| AAACCAGTACTTGGTTGTTT+AGG | - | chr1.3:69105217-69105236 | None:intergenic | 35.0% | |
| ATACACTATCTATCCACCAT+AGG | + | chr1.3:69105839-69105858 | MS.gene49109:intron | 35.0% | |
| TTGTTCGTTGGATTGAACAA+AGG | + | chr1.3:69105235-69105254 | MS.gene49109:CDS | 35.0% | |
| ! | CGGAAACATGTTCTTGTTAT+TGG | + | chr1.3:69106215-69106234 | MS.gene49109:intron | 35.0% |
| AAGGTTGCAAAGAGAAAGCT+TGG | + | chr1.3:69106068-69106087 | MS.gene49109:CDS | 40.0% | |
| ATTCCTTCTTTGTGACGATG+TGG | - | chr1.3:69105261-69105280 | None:intergenic | 40.0% | |
| CAAGGTTGGAAAAGACAAGA+GGG | + | chr1.3:69106040-69106059 | MS.gene49109:CDS | 40.0% | |
| CATCGTCACAAAGAAGGAAT+TGG | + | chr1.3:69105261-69105280 | MS.gene49109:CDS | 40.0% | |
| CATTCTGTTCATCTTGGATG+TGG | + | chr1.3:69105900-69105919 | MS.gene49109:intron | 40.0% | |
| CGTTCAGAAAACAAGCAAGA+GGG | + | chr1.3:69105944-69105963 | MS.gene49109:intron | 40.0% | |
| CTTCTTCTTTGCACGTTTGT+GGG | - | chr1.3:69106096-69106115 | None:intergenic | 40.0% | |
| TCAAGGTTGGAAAAGACAAG+AGG | + | chr1.3:69106039-69106058 | MS.gene49109:CDS | 40.0% | |
| TCGTTCAGAAAACAAGCAAG+AGG | + | chr1.3:69105943-69105962 | MS.gene49109:intron | 40.0% | |
| TCTTCTTCTTTGCACGTTTG+TGG | - | chr1.3:69106097-69106116 | None:intergenic | 40.0% | |
| ! | ATATTTTCAATGTGCAGGGC+TGG | + | chr1.3:69106253-69106272 | MS.gene49109:intron | 40.0% |
| !! | AAAAGACAAGAGGGCACTTA+AGG | + | chr1.3:69106049-69106068 | MS.gene49109:CDS | 40.0% |
| AACCTCATTAGAGAGGTTGC+TGG | + | chr1.3:69105981-69106000 | MS.gene49109:CDS | 45.0% | |
| ACCTCATTAGAGAGGTTGCT+GGG | + | chr1.3:69105982-69106001 | MS.gene49109:CDS | 45.0% | |
| ACGTGCAAAGAAGAAGAGAG+AGG | + | chr1.3:69106100-69106119 | MS.gene49109:CDS | 45.0% | |
| AGGAGATGTCTAATGTCCTC+AGG | + | chr1.3:69106120-69106139 | MS.gene49109:CDS | 45.0% | |
| ATCACTGAGTTGCTCAAGGT+TGG | + | chr1.3:69106026-69106045 | MS.gene49109:CDS | 45.0% | |
| CCAACGAACAAACCAGTACT+TGG | - | chr1.3:69105226-69105245 | None:intergenic | 45.0% | |
| CTAATGTCCTCAGGAAGATG+AGG | + | chr1.3:69106129-69106148 | MS.gene49109:CDS | 45.0% | |
| GAACAAACCTCATCTTCCTG+AGG | - | chr1.3:69106139-69106158 | None:intergenic | 45.0% | |
| GCTCCTAAACAACCAAGTAC+TGG | + | chr1.3:69105211-69105230 | MS.gene49109:CDS | 45.0% | |
| TCAGTGATACGCTTCTCGTA+AGG | - | chr1.3:69106014-69106033 | None:intergenic | 45.0% | |
| TGTGAGGAACCTCATTAGAG+AGG | + | chr1.3:69105974-69105993 | MS.gene49109:CDS | 45.0% | |
| !! | CCAAGTACTGGTTTGTTCGT+TGG | + | chr1.3:69105223-69105242 | MS.gene49109:CDS | 45.0% |
| ACCCAGCAACCTCTCTAATG+AGG | - | chr1.3:69105986-69106005 | None:intergenic | 50.0% | |
| AGGCCACATCGTCACAAAGA+AGG | + | chr1.3:69105255-69105274 | MS.gene49109:CDS | 50.0% | |
| GCGTATCACTGAGTTGCTCA+AGG | + | chr1.3:69106022-69106041 | MS.gene49109:CDS | 50.0% | |
| ! | TTTTCAATGTGCAGGGCTGG+TGG | + | chr1.3:69106256-69106275 | MS.gene49109:intron | 50.0% |
| ! | GCAAGAGGGTGCACTTTGTG+AGG | + | chr1.3:69105958-69105977 | MS.gene49109:CDS | 55.0% |
| ACGTCCTTCAGCTCGCAAGG+GGG | + | chr1.3:69105288-69105307 | MS.gene49109:CDS | 60.0% | |
| CACGTCCTTCAGCTCGCAAG+GGG | + | chr1.3:69105287-69105306 | MS.gene49109:CDS | 60.0% | |
| CCACGTCCTTCAGCTCGCAA+GGG | + | chr1.3:69105286-69105305 | MS.gene49109:CDS | 60.0% | |
| TCCACGTCCTTCAGCTCGCA+AGG | + | chr1.3:69105285-69105304 | MS.gene49109:CDS | 60.0% | |
| ! | TCAATGTGCAGGGCTGGTGG+TGG | + | chr1.3:69106259-69106278 | MS.gene49109:intron | 60.0% |
| CCCTTGCGAGCTGAAGGACG+TGG | - | chr1.3:69105289-69105308 | None:intergenic | 65.0% | |
| CTGACCCCCTTGCGAGCTGA+AGG | - | chr1.3:69105295-69105314 | None:intergenic | 65.0% | |
| !! | TGCAGGGCTGGTGGTGGAGC+AGG | + | chr1.3:69106265-69106284 | MS.gene49109:intron | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.3 | gene | 69105208 | 69106303 | 69105208 | ID=MS.gene49109 |
| chr1.3 | mRNA | 69105208 | 69106303 | 69105208 | ID=MS.gene49109.t1;Parent=MS.gene49109 |
| chr1.3 | exon | 69105208 | 69105309 | 69105208 | ID=MS.gene49109.t1.exon1;Parent=MS.gene49109.t1 |
| chr1.3 | CDS | 69105208 | 69105309 | 69105208 | ID=cds.MS.gene49109.t1;Parent=MS.gene49109.t1 |
| chr1.3 | exon | 69105951 | 69106150 | 69105951 | ID=MS.gene49109.t1.exon2;Parent=MS.gene49109.t1 |
| chr1.3 | CDS | 69105951 | 69106150 | 69105951 | ID=cds.MS.gene49109.t1;Parent=MS.gene49109.t1 |
| chr1.3 | exon | 69106270 | 69106303 | 69106270 | ID=MS.gene49109.t1.exon3;Parent=MS.gene49109.t1 |
| chr1.3 | CDS | 69106270 | 69106303 | 69106270 | ID=cds.MS.gene49109.t1;Parent=MS.gene49109.t1 |
| Gene Sequence |
| Protein sequence |
