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.gene80144.t1 | XP_013442744.1 | 96.2 | 106 | 4 | 0 | 1 | 106 | 96 | 201 | 4.10E-49 | 203.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene80144.t1 | C6TG62 | 78.0 | 100 | 22 | 0 | 1 | 100 | 95 | 194 | 4.3e-39 | 161.8 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene80144.t1 | A0A072TGS8 | 96.2 | 106 | 4 | 0 | 1 | 106 | 96 | 201 | 2.9e-49 | 203.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050082 | MS.gene80144 | 0.800475 | 1.42E-48 | -1.69E-46 |
| MS.gene050444 | MS.gene80144 | -0.808336 | 3.26E-50 | -1.69E-46 |
| MS.gene053920 | MS.gene80144 | 0.950771 | 8.26E-109 | -1.69E-46 |
| MS.gene057717 | MS.gene80144 | 0.820203 | 7.76E-53 | -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.gene80144.t1 | MTR_0097s0070 | 96.226 | 106 | 4 | 0 | 1 | 106 | 96 | 201 | 4.18e-72 | 213 |
| MS.gene80144.t1 | MTR_8g089300 | 74.747 | 99 | 25 | 0 | 1 | 99 | 95 | 193 | 7.30e-43 | 139 |
| MS.gene80144.t1 | MTR_7g108130 | 40.260 | 77 | 46 | 0 | 18 | 94 | 109 | 185 | 8.49e-14 | 64.3 |
| MS.gene80144.t1 | MTR_4g118810 | 45.614 | 57 | 31 | 0 | 20 | 76 | 121 | 177 | 4.31e-12 | 59.7 |
| MS.gene80144.t1 | MTR_0004s0210 | 39.189 | 74 | 45 | 0 | 24 | 97 | 84 | 157 | 5.19e-12 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene80144.t1 | AT5G44550 | 54.545 | 99 | 45 | 0 | 1 | 99 | 87 | 185 | 1.61e-31 | 110 |
| MS.gene80144.t1 | AT4G20390 | 52.632 | 95 | 45 | 0 | 1 | 95 | 87 | 181 | 2.34e-21 | 84.0 |
| MS.gene80144.t1 | AT1G14160 | 41.176 | 68 | 40 | 0 | 23 | 90 | 135 | 202 | 1.17e-12 | 61.6 |
Find 28 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCCCTTATTGCTTCTTTCAT+TGG | 0.228754 | 5.1:-42189024 | MS.gene80144:CDS |
| AAGTCCTTTGTAATCATATT+GGG | 0.274380 | 5.1:+42189325 | None:intergenic |
| GAAGTCCTTTGTAATCATAT+TGG | 0.328703 | 5.1:+42189324 | None:intergenic |
| AGCCAATGAAAGAAGCAATA+AGG | 0.340360 | 5.1:+42189022 | None:intergenic |
| TTTGAAAGCTATTGCAATAG+AGG | 0.418883 | 5.1:-42189054 | MS.gene80144:CDS |
| ATGTCAGCATTGGGAAGAAA+TGG | 0.423404 | 5.1:-42189114 | MS.gene80144:CDS |
| GCCAATGAAAGAAGCAATAA+GGG | 0.431019 | 5.1:+42189023 | None:intergenic |
| TAACTTGGTGATGATTGTAT+TGG | 0.435126 | 5.1:-42189360 | None:intergenic |
| ATGATTGTATTGGATATGTT+AGG | 0.463140 | 5.1:-42189350 | MS.gene80144:CDS |
| GGAGCATGGTTAATGCGATT+AGG | 0.484616 | 5.1:+42188949 | None:intergenic |
| AGCAACATTCATGTCAGCAT+TGG | 0.488005 | 5.1:-42189124 | MS.gene80144:CDS |
| ACTATGGCTCTGGCATCAGC+TGG | 0.494373 | 5.1:-42189156 | MS.gene80144:CDS |
| GCGATTAGGCTTGAGAAGCT+TGG | 0.494528 | 5.1:+42188963 | None:intergenic |
| GCAACATTCATGTCAGCATT+GGG | 0.495269 | 5.1:-42189123 | MS.gene80144:CDS |
| GGTGAAGTTAACTATGGCTC+TGG | 0.500555 | 5.1:-42189166 | MS.gene80144:intron |
| ATGTTAATCATATCAAGGAC+TGG | 0.510976 | 5.1:+42188927 | None:intergenic |
| TGGTAATTCACATGCAAGAT+GGG | 0.512674 | 5.1:-42189094 | MS.gene80144:CDS |
| ATGGTAATTCACATGCAAGA+TGG | 0.522902 | 5.1:-42189095 | MS.gene80144:CDS |
| GCTCTGGCATCAGCTGGAGA+TGG | 0.540036 | 5.1:-42189150 | MS.gene80144:CDS |
| CATATCAAGGACTGGGAGCA+TGG | 0.559515 | 5.1:+42188935 | None:intergenic |
| TGTTAATCATATCAAGGACT+GGG | 0.560345 | 5.1:+42188928 | None:intergenic |
| AGGCTTGAGAAGCTTGGCAA+TGG | 0.561801 | 5.1:+42188969 | None:intergenic |
| CTAAAATTGCAATAAATGCA+AGG | 0.578209 | 5.1:+42189300 | None:intergenic |
| AGCTATTGCAATAGAGGTGG+TGG | 0.598102 | 5.1:-42189048 | MS.gene80144:CDS |
| GAAAGCTATTGCAATAGAGG+TGG | 0.619990 | 5.1:-42189051 | MS.gene80144:CDS |
| TCACAGTGATAATCAAGAGA+AGG | 0.626568 | 5.1:+42188995 | None:intergenic |
| AGTCCTTTGTAATCATATTG+GGG | 0.628572 | 5.1:+42189326 | None:intergenic |
| GGACCCCAATATGATTACAA+AGG | 0.686673 | 5.1:-42189329 | MS.gene80144:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AGTTTTTTAATTTTTTTCTT+AGG | - | chr5.1:42189054-42189073 | MS.gene80144:CDS | 10.0% |
| !!! | ATTTATTGCAATTTTAGACA+TGG | - | chr5.1:42188995-42189014 | MS.gene80144:CDS | 20.0% |
| ! | AAGTCCTTTGTAATCATATT+GGG | + | chr5.1:42188967-42188986 | None:intergenic | 25.0% |
| ! | ATGATTGTATTGGATATGTT+AGG | - | chr5.1:42188939-42188958 | MS.gene80144:CDS | 25.0% |
| ! | CTAAAATTGCAATAAATGCA+AGG | + | chr5.1:42188992-42189011 | None:intergenic | 25.0% |
| AGTCCTTTGTAATCATATTG+GGG | + | chr5.1:42188966-42188985 | None:intergenic | 30.0% | |
| GAAGTCCTTTGTAATCATAT+TGG | + | chr5.1:42188968-42188987 | None:intergenic | 30.0% | |
| TTTGAAAGCTATTGCAATAG+AGG | - | chr5.1:42189235-42189254 | MS.gene80144:intron | 30.0% | |
| !!! | TTTTTGGGTGAAGTTAACTA+TGG | - | chr5.1:42189117-42189136 | MS.gene80144:CDS | 30.0% |
| AGCCAATGAAAGAAGCAATA+AGG | + | chr5.1:42189270-42189289 | None:intergenic | 35.0% | |
| ATGGTAATTCACATGCAAGA+TGG | - | chr5.1:42189194-42189213 | MS.gene80144:intron | 35.0% | |
| GCCAATGAAAGAAGCAATAA+GGG | + | chr5.1:42189269-42189288 | None:intergenic | 35.0% | |
| TCACAGTGATAATCAAGAGA+AGG | + | chr5.1:42189297-42189316 | None:intergenic | 35.0% | |
| TGGTAATTCACATGCAAGAT+GGG | - | chr5.1:42189195-42189214 | MS.gene80144:intron | 35.0% | |
| AGCAACATTCATGTCAGCAT+TGG | - | chr5.1:42189165-42189184 | MS.gene80144:intron | 40.0% | |
| GAAAGCTATTGCAATAGAGG+TGG | - | chr5.1:42189238-42189257 | MS.gene80144:intron | 40.0% | |
| GCAACATTCATGTCAGCATT+GGG | - | chr5.1:42189166-42189185 | MS.gene80144:intron | 40.0% | |
| GCCCTTATTGCTTCTTTCAT+TGG | - | chr5.1:42189265-42189284 | MS.gene80144:intron | 40.0% | |
| GGACCCCAATATGATTACAA+AGG | - | chr5.1:42188960-42188979 | MS.gene80144:CDS | 40.0% | |
| ! | ATGTCAGCATTGGGAAGAAA+TGG | - | chr5.1:42189175-42189194 | MS.gene80144:intron | 40.0% |
| AGCTATTGCAATAGAGGTGG+TGG | - | chr5.1:42189241-42189260 | MS.gene80144:intron | 45.0% | |
| GGAGCATGGTTAATGCGATT+AGG | + | chr5.1:42189343-42189362 | None:intergenic | 45.0% | |
| GGTGAAGTTAACTATGGCTC+TGG | - | chr5.1:42189123-42189142 | MS.gene80144:CDS | 45.0% | |
| !!! | TTGATAAATAATATTTTTTT+GGG | - | chr5.1:42189102-42189121 | MS.gene80144:CDS | 5.0% |
| !!! | TTTGATAAATAATATTTTTT+TGG | - | chr5.1:42189101-42189120 | MS.gene80144:CDS | 5.0% |
| AGGCTTGAGAAGCTTGGCAA+TGG | + | chr5.1:42189323-42189342 | None:intergenic | 50.0% | |
| GCGATTAGGCTTGAGAAGCT+TGG | + | chr5.1:42189329-42189348 | None:intergenic | 50.0% | |
| !! | ACTATGGCTCTGGCATCAGC+TGG | - | chr5.1:42189133-42189152 | MS.gene80144:CDS | 55.0% |
| GCTCTGGCATCAGCTGGAGA+TGG | - | chr5.1:42189139-42189158 | MS.gene80144:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.1 | gene | 42188939 | 42189372 | 42188939 | ID=MS.gene80144 |
| chr5.1 | mRNA | 42188939 | 42189372 | 42188939 | ID=MS.gene80144.t1;Parent=MS.gene80144 |
| chr5.1 | exon | 42189295 | 42189372 | 42189295 | ID=MS.gene80144.t1.exon1;Parent=MS.gene80144.t1 |
| chr5.1 | CDS | 42189295 | 42189372 | 42189295 | ID=cds.MS.gene80144.t1;Parent=MS.gene80144.t1 |
| chr5.1 | exon | 42188939 | 42189181 | 42188939 | ID=MS.gene80144.t1.exon2;Parent=MS.gene80144.t1 |
| chr5.1 | CDS | 42188939 | 42189181 | 42188939 | ID=cds.MS.gene80144.t1;Parent=MS.gene80144.t1 |
| Gene Sequence |
| Protein sequence |
