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.gene78728.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.gene78728.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.gene78728.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.gene053920 | MS.gene78728 | 0.973731 | 6.28E-137 | -1.69E-46 |
| MS.gene057717 | MS.gene78728 | 0.842412 | 2.63E-58 | -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.gene78728.t1 | MTR_0097s0070 | 96.226 | 106 | 4 | 0 | 1 | 106 | 96 | 201 | 4.18e-72 | 213 |
| MS.gene78728.t1 | MTR_8g089300 | 74.747 | 99 | 25 | 0 | 1 | 99 | 95 | 193 | 7.30e-43 | 139 |
| MS.gene78728.t1 | MTR_7g108130 | 40.260 | 77 | 46 | 0 | 18 | 94 | 109 | 185 | 8.49e-14 | 64.3 |
| MS.gene78728.t1 | MTR_4g118810 | 45.614 | 57 | 31 | 0 | 20 | 76 | 121 | 177 | 4.31e-12 | 59.7 |
| MS.gene78728.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.gene78728.t1 | AT5G44550 | 54.545 | 99 | 45 | 0 | 1 | 99 | 87 | 185 | 1.61e-31 | 110 |
| MS.gene78728.t1 | AT4G20390 | 52.632 | 95 | 45 | 0 | 1 | 95 | 87 | 181 | 2.34e-21 | 84.0 |
| MS.gene78728.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 | 5.4:-42323831 | MS.gene78728:CDS |
| AAGTCCTTTGTAATCATATT+GGG | 0.274380 | 5.4:+42324131 | None:intergenic |
| GAAGTCCTTTGTAATCATAT+TGG | 0.328703 | 5.4:+42324130 | None:intergenic |
| AGCCAATGAAAGAAGCAATA+AGG | 0.340360 | 5.4:+42323829 | None:intergenic |
| TTTGAAAGCTATTGCAATAG+AGG | 0.418883 | 5.4:-42323861 | MS.gene78728:CDS |
| ATGTCAGCATTGGGAAGAAA+TGG | 0.423404 | 5.4:-42323921 | MS.gene78728:CDS |
| GCCAATGAAAGAAGCAATAA+GGG | 0.431019 | 5.4:+42323830 | None:intergenic |
| TAACTTGGTGATGATTGTAT+TGG | 0.435126 | 5.4:-42324166 | None:intergenic |
| ATGATTGTATTGGATATGTT+AGG | 0.463140 | 5.4:-42324156 | MS.gene78728:CDS |
| GGAGCATGGTTAATGCGATT+AGG | 0.484616 | 5.4:+42323756 | None:intergenic |
| AGCAACATTCATGTCAGCAT+TGG | 0.488005 | 5.4:-42323931 | MS.gene78728:CDS |
| ACTATGGCTCTGGCATCAGC+TGG | 0.494373 | 5.4:-42323963 | MS.gene78728:CDS |
| GCGATTAGGCTTGAGAAGCT+TGG | 0.494528 | 5.4:+42323770 | None:intergenic |
| GCAACATTCATGTCAGCATT+GGG | 0.495269 | 5.4:-42323930 | MS.gene78728:CDS |
| GGTGAAGTTAACTATGGCTC+TGG | 0.500555 | 5.4:-42323973 | MS.gene78728:intron |
| ATGTTAATCATATCAAGGAC+TGG | 0.510976 | 5.4:+42323734 | None:intergenic |
| TGGTAATTCACATGCAAGAT+GGG | 0.512674 | 5.4:-42323901 | MS.gene78728:CDS |
| ATGGTAATTCACATGCAAGA+TGG | 0.522902 | 5.4:-42323902 | MS.gene78728:CDS |
| GCTCTGGCATCAGCTGGAGA+TGG | 0.540036 | 5.4:-42323957 | MS.gene78728:CDS |
| CATATCAAGGACTGGGAGCA+TGG | 0.559515 | 5.4:+42323742 | None:intergenic |
| TGTTAATCATATCAAGGACT+GGG | 0.560345 | 5.4:+42323735 | None:intergenic |
| AGGCTTGAGAAGCTTGGCAA+TGG | 0.561801 | 5.4:+42323776 | None:intergenic |
| CTAAAATTGCAATAAATGCA+AGG | 0.578209 | 5.4:+42324106 | None:intergenic |
| AGCTATTGCAATAGAGGTGG+TGG | 0.598102 | 5.4:-42323855 | MS.gene78728:CDS |
| GAAAGCTATTGCAATAGAGG+TGG | 0.619990 | 5.4:-42323858 | MS.gene78728:CDS |
| TCACAGTGATAATCAAGAGA+AGG | 0.626568 | 5.4:+42323802 | None:intergenic |
| AGTCCTTTGTAATCATATTG+GGG | 0.628572 | 5.4:+42324132 | None:intergenic |
| GGACCCCAATATGATTACAA+AGG | 0.686673 | 5.4:-42324135 | MS.gene78728:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AGTTTTTTAATTTTTTTCTT+AGG | - | chr5.4:42323860-42323879 | MS.gene78728:CDS | 10.0% |
| !!! | ATTTATTGCAATTTTAGACA+TGG | - | chr5.4:42323802-42323821 | MS.gene78728:CDS | 20.0% |
| ! | AAGTCCTTTGTAATCATATT+GGG | + | chr5.4:42323774-42323793 | None:intergenic | 25.0% |
| ! | ATGATTGTATTGGATATGTT+AGG | - | chr5.4:42323746-42323765 | MS.gene78728:CDS | 25.0% |
| ! | CTAAAATTGCAATAAATGCA+AGG | + | chr5.4:42323799-42323818 | None:intergenic | 25.0% |
| AGTCCTTTGTAATCATATTG+GGG | + | chr5.4:42323773-42323792 | None:intergenic | 30.0% | |
| GAAGTCCTTTGTAATCATAT+TGG | + | chr5.4:42323775-42323794 | None:intergenic | 30.0% | |
| TTTGAAAGCTATTGCAATAG+AGG | - | chr5.4:42324041-42324060 | MS.gene78728:intron | 30.0% | |
| !!! | TTTTTGGGTGAAGTTAACTA+TGG | - | chr5.4:42323923-42323942 | MS.gene78728:CDS | 30.0% |
| AGCCAATGAAAGAAGCAATA+AGG | + | chr5.4:42324076-42324095 | None:intergenic | 35.0% | |
| ATGGTAATTCACATGCAAGA+TGG | - | chr5.4:42324000-42324019 | MS.gene78728:intron | 35.0% | |
| GCCAATGAAAGAAGCAATAA+GGG | + | chr5.4:42324075-42324094 | None:intergenic | 35.0% | |
| TCACAGTGATAATCAAGAGA+AGG | + | chr5.4:42324103-42324122 | None:intergenic | 35.0% | |
| TGGTAATTCACATGCAAGAT+GGG | - | chr5.4:42324001-42324020 | MS.gene78728:intron | 35.0% | |
| AGCAACATTCATGTCAGCAT+TGG | - | chr5.4:42323971-42323990 | MS.gene78728:intron | 40.0% | |
| GAAAGCTATTGCAATAGAGG+TGG | - | chr5.4:42324044-42324063 | MS.gene78728:intron | 40.0% | |
| GCAACATTCATGTCAGCATT+GGG | - | chr5.4:42323972-42323991 | MS.gene78728:intron | 40.0% | |
| GCCCTTATTGCTTCTTTCAT+TGG | - | chr5.4:42324071-42324090 | MS.gene78728:intron | 40.0% | |
| GGACCCCAATATGATTACAA+AGG | - | chr5.4:42323767-42323786 | MS.gene78728:CDS | 40.0% | |
| ! | ATGTCAGCATTGGGAAGAAA+TGG | - | chr5.4:42323981-42324000 | MS.gene78728:intron | 40.0% |
| AGCTATTGCAATAGAGGTGG+TGG | - | chr5.4:42324047-42324066 | MS.gene78728:intron | 45.0% | |
| GGAGCATGGTTAATGCGATT+AGG | + | chr5.4:42324149-42324168 | None:intergenic | 45.0% | |
| GGTGAAGTTAACTATGGCTC+TGG | - | chr5.4:42323929-42323948 | MS.gene78728:CDS | 45.0% | |
| !!! | TTGATAAATAATATTTTTTT+GGG | - | chr5.4:42323908-42323927 | MS.gene78728:CDS | 5.0% |
| !!! | TTTGATAAATAATATTTTTT+TGG | - | chr5.4:42323907-42323926 | MS.gene78728:CDS | 5.0% |
| AGGCTTGAGAAGCTTGGCAA+TGG | + | chr5.4:42324129-42324148 | None:intergenic | 50.0% | |
| GCGATTAGGCTTGAGAAGCT+TGG | + | chr5.4:42324135-42324154 | None:intergenic | 50.0% | |
| !! | ACTATGGCTCTGGCATCAGC+TGG | - | chr5.4:42323939-42323958 | MS.gene78728:CDS | 55.0% |
| GCTCTGGCATCAGCTGGAGA+TGG | - | chr5.4:42323945-42323964 | MS.gene78728:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.4 | gene | 42323746 | 42324178 | 42323746 | ID=MS.gene78728 |
| chr5.4 | mRNA | 42323746 | 42324178 | 42323746 | ID=MS.gene78728.t1;Parent=MS.gene78728 |
| chr5.4 | exon | 42324101 | 42324178 | 42324101 | ID=MS.gene78728.t1.exon1;Parent=MS.gene78728.t1 |
| chr5.4 | CDS | 42324101 | 42324178 | 42324101 | ID=cds.MS.gene78728.t1;Parent=MS.gene78728.t1 |
| chr5.4 | exon | 42323746 | 42323988 | 42323746 | ID=MS.gene78728.t1.exon2;Parent=MS.gene78728.t1 |
| chr5.4 | CDS | 42323746 | 42323988 | 42323746 | ID=cds.MS.gene78728.t1;Parent=MS.gene78728.t1 |
| Gene Sequence |
| Protein sequence |
