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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0548020 | AES88834.2 | 76.768 | 99 | 13 | 3 | 1 | 98 | 1 | 90 | 2.52e-30 | 114 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0548020 | G7JTR5 | 76.768 | 99 | 13 | 3 | 1 | 98 | 1 | 90 | 1.20e-30 | 114 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0548020 | Msa0603000 | 0.885316 | 9.029156e-72 | -8.615850e-47 |
| Msa0548020 | Msa0603020 | 0.911890 | 3.642336e-83 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0548020 | MtrunA17_Chr4g0031021 | 76.768 | 99 | 13 | 3 | 1 | 98 | 1 | 90 | 2.32e-34 | 114 |
| Msa0548020 | MtrunA17_Chr4g0031011 | 51.546 | 97 | 40 | 2 | 1 | 94 | 1 | 93 | 3.29e-14 | 63.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 25 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATGGTCTGGGTGAGAAGTT+TGG | 0.374289 | 4_1:+41751098 | Msa0548020:CDS |
| AAGGCAATGTCATGTGAGTA+TGG | 0.402722 | 4_1:-41751037 | None:intergenic |
| CAACACTAAGGTCATGGCTT+TGG | 0.441416 | 4_1:-41750934 | None:intergenic |
| ATGATGTAAACGACGTTGCT+AGG | 0.472531 | 4_1:+41751180 | Msa0548020:CDS |
| CACTACGGTGCTTTCTGAAG+AGG | 0.485776 | 4_1:+41750983 | Msa0548020:CDS |
| TCCACCGGTAGACGCATGCT+AGG | 0.507807 | 4_1:+41751059 | Msa0548020:CDS |
| GAACCCTAGCATGCGTCTAC+CGG | 0.513042 | 4_1:-41751063 | None:intergenic |
| CATTCAATCATTGTTATCAT+CGG | 0.520776 | 4_1:-41751210 | None:intergenic |
| TCTACAGTTGCATCAAACTT+CGG | 0.536605 | 4_1:-41751122 | None:intergenic |
| TGGGTAGGAGAGTAAGTGGT+GGG | 0.540063 | 4_1:-41751017 | None:intergenic |
| TGATGTAAACGACGTTGCTA+GGG | 0.561947 | 4_1:+41751181 | Msa0548020:CDS |
| CACATGACATTGCCTTCCAC+CGG | 0.580768 | 4_1:+41751044 | Msa0548020:CDS |
| CCCTAGCATGCGTCTACCGG+TGG | 0.591972 | 4_1:-41751060 | None:intergenic |
| GAGGAGCAACACTAAGGTCA+TGG | 0.596052 | 4_1:-41750940 | None:intergenic |
| TAGGAGGAGGAGCAACACTA+AGG | 0.598370 | 4_1:-41750946 | None:intergenic |
| CCACCGGTAGACGCATGCTA+GGG | 0.606573 | 4_1:+41751060 | Msa0548020:CDS |
| TAGTGAAAAGAGACAAAACT+AGG | 0.608337 | 4_1:-41750965 | None:intergenic |
| AGTATGGGTAGGAGAGTAAG+TGG | 0.611157 | 4_1:-41751021 | None:intergenic |
| AGCATGCGTCTACCGGTGGA+AGG | 0.612142 | 4_1:-41751056 | None:intergenic |
| AAAGAGACAAAACTAGGAGG+AGG | 0.615522 | 4_1:-41750959 | None:intergenic |
| AATGTCATGTGAGTATGGGT+AGG | 0.634885 | 4_1:-41751032 | None:intergenic |
| ATGGGTAGGAGAGTAAGTGG+TGG | 0.647747 | 4_1:-41751018 | None:intergenic |
| AGGCAATGTCATGTGAGTAT+GGG | 0.653460 | 4_1:-41751036 | None:intergenic |
| GATGCAACTGTAGAAAAGCA+TGG | 0.685732 | 4_1:+41751131 | Msa0548020:CDS |
| TGAAAAGAGACAAAACTAGG+AGG | 0.694756 | 4_1:-41750962 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TAGTGAAAAGAGACAAAACT+AGG | - | chr4_1:41750968-41750987 | None:intergenic | 30.0% | |
| !! | AGTTTTGTCTCTTTTCACTA+CGG | + | chr4_1:41750968-41750987 | Msa0548020:CDS | 30.0% |
| TGAAAAGAGACAAAACTAGG+AGG | - | chr4_1:41750965-41750984 | None:intergenic | 35.0% | |
| TCTACAGTTGCATCAAACTT+CGG | - | chr4_1:41751125-41751144 | None:intergenic | 35.0% | |
| AAAGAGACAAAACTAGGAGG+AGG | - | chr4_1:41750962-41750981 | None:intergenic | 40.0% | |
| AATGTCATGTGAGTATGGGT+AGG | - | chr4_1:41751035-41751054 | None:intergenic | 40.0% | |
| AGGCAATGTCATGTGAGTAT+GGG | - | chr4_1:41751039-41751058 | None:intergenic | 40.0% | |
| AAGGCAATGTCATGTGAGTA+TGG | - | chr4_1:41751040-41751059 | None:intergenic | 40.0% | |
| GATGCAACTGTAGAAAAGCA+TGG | + | chr4_1:41751131-41751150 | Msa0548020:CDS | 40.0% | |
| ATGATGTAAACGACGTTGCT+AGG | + | chr4_1:41751180-41751199 | Msa0548020:CDS | 40.0% | |
| TGATGTAAACGACGTTGCTA+GGG | + | chr4_1:41751181-41751200 | Msa0548020:CDS | 40.0% | |
| CAACACTAAGGTCATGGCTT+TGG | - | chr4_1:41750937-41750956 | None:intergenic | 45.0% | |
| AGTATGGGTAGGAGAGTAAG+TGG | - | chr4_1:41751024-41751043 | None:intergenic | 45.0% | |
| !!! | GCCAGCTTTTTCAATGGTCT+GGG | + | chr4_1:41751086-41751105 | Msa0548020:CDS | 45.0% |
| ACCCAGACCATTGAAAAAGC+TGG | - | chr4_1:41751090-41751109 | None:intergenic | 45.0% | |
| AATGGTCTGGGTGAGAAGTT+TGG | + | chr4_1:41751098-41751117 | Msa0548020:CDS | 45.0% | |
| GAGGAGCAACACTAAGGTCA+TGG | - | chr4_1:41750943-41750962 | None:intergenic | 50.0% | |
| TAGGAGGAGGAGCAACACTA+AGG | - | chr4_1:41750949-41750968 | None:intergenic | 50.0% | |
| ! | CACTACGGTGCTTTCTGAAG+AGG | + | chr4_1:41750983-41751002 | Msa0548020:CDS | 50.0% |
| TGGGTAGGAGAGTAAGTGGT+GGG | - | chr4_1:41751020-41751039 | None:intergenic | 50.0% | |
| ATGGGTAGGAGAGTAAGTGG+TGG | - | chr4_1:41751021-41751040 | None:intergenic | 50.0% | |
| CACATGACATTGCCTTCCAC+CGG | + | chr4_1:41751044-41751063 | Msa0548020:CDS | 50.0% | |
| !!! | GGGTTCGCCAGCTTTTTCAA+TGG | + | chr4_1:41751080-41751099 | Msa0548020:CDS | 50.0% |
| !!! | CGCCAGCTTTTTCAATGGTC+TGG | + | chr4_1:41751085-41751104 | Msa0548020:CDS | 50.0% |
| GAACCCTAGCATGCGTCTAC+CGG | - | chr4_1:41751066-41751085 | None:intergenic | 55.0% | |
| AGCATGCGTCTACCGGTGGA+AGG | - | chr4_1:41751059-41751078 | None:intergenic | 60.0% | |
| TCCACCGGTAGACGCATGCT+AGG | + | chr4_1:41751059-41751078 | Msa0548020:CDS | 60.0% | |
| CCACCGGTAGACGCATGCTA+GGG | + | chr4_1:41751060-41751079 | Msa0548020:CDS | 60.0% | |
| CCCTAGCATGCGTCTACCGG+TGG | - | chr4_1:41751063-41751082 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 41750930 | 41751229 | 41750930 | ID=Msa0548020;Name=Msa0548020 |
| chr4_1 | mRNA | 41750930 | 41751229 | 41750930 | ID=Msa0548020-mRNA-1;Parent=Msa0548020;Name=Msa0548020-mRNA-1;_AED=0.38;_eAED=0.43;_QI=0|-1|0|1|-1|1|1|0|99 |
| chr4_1 | exon | 41750930 | 41751229 | 41750930 | ID=Msa0548020-mRNA-1:exon:10716;Parent=Msa0548020-mRNA-1 |
| chr4_1 | CDS | 41750930 | 41751229 | 41750930 | ID=Msa0548020-mRNA-1:cds;Parent=Msa0548020-mRNA-1 |
| Gene Sequence |
| Protein sequence |
