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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0969440 | XP_003615261.2 | 98.261 | 115 | 2 | 0 | 1 | 115 | 539 | 653 | 6.06e-72 | 243 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0969440 | G7KBI4 | 98.261 | 115 | 2 | 0 | 1 | 115 | 539 | 653 | 2.90e-72 | 243 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0969440 | Msa0969670 | 0.804917 | 1.716328e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0969440 | MtrunA17_Chr5g0427251 | 98.261 | 115 | 2 | 0 | 1 | 115 | 539 | 653 | 5.58e-76 | 243 |
| Msa0969440 | MtrunA17_Chr5g0448351 | 49.565 | 115 | 57 | 1 | 1 | 115 | 503 | 616 | 1.20e-33 | 122 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0969440 | AT4G24610.1 | 70.175 | 114 | 34 | 0 | 2 | 115 | 461 | 574 | 1.39e-52 | 177 |
| Msa0969440 | AT4G24610.2 | 70.175 | 114 | 34 | 0 | 2 | 115 | 465 | 578 | 1.41e-52 | 177 |
| Msa0969440 | AT4G24610.3 | 70.175 | 114 | 34 | 0 | 2 | 115 | 465 | 578 | 1.44e-52 | 177 |
| Msa0969440 | AT4G24610.4 | 70.175 | 114 | 34 | 0 | 2 | 115 | 461 | 574 | 1.48e-52 | 177 |
| Msa0969440 | AT5G65440.1 | 59.130 | 115 | 45 | 1 | 1 | 115 | 366 | 478 | 2.11e-43 | 150 |
| Msa0969440 | AT5G65440.8 | 59.130 | 115 | 45 | 1 | 1 | 115 | 366 | 478 | 2.11e-43 | 150 |
| Msa0969440 | AT5G65440.9 | 59.130 | 115 | 45 | 1 | 1 | 115 | 366 | 478 | 2.11e-43 | 150 |
| Msa0969440 | AT5G65440.2 | 59.130 | 115 | 45 | 1 | 1 | 115 | 366 | 478 | 2.63e-43 | 150 |
| Msa0969440 | AT5G65440.6 | 59.130 | 115 | 45 | 1 | 1 | 115 | 407 | 519 | 2.67e-43 | 150 |
| Msa0969440 | AT5G65440.4 | 59.130 | 115 | 45 | 1 | 1 | 115 | 407 | 519 | 2.67e-43 | 150 |
| Msa0969440 | AT5G65440.7 | 59.130 | 115 | 45 | 1 | 1 | 115 | 407 | 519 | 2.67e-43 | 150 |
| Msa0969440 | AT5G65440.5 | 59.130 | 115 | 45 | 1 | 1 | 115 | 407 | 519 | 2.77e-43 | 150 |
| Msa0969440 | AT5G65440.3 | 46.309 | 149 | 44 | 2 | 1 | 115 | 407 | 553 | 7.87e-38 | 135 |
| Msa0969440 | AT5G48310.2 | 48.696 | 115 | 58 | 1 | 1 | 115 | 440 | 553 | 2.82e-33 | 122 |
| Msa0969440 | AT5G48310.1 | 48.696 | 115 | 58 | 1 | 1 | 115 | 467 | 580 | 2.86e-33 | 122 |
Find 30 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACAGAGTTTGCTTCATATTA+TGG | 0.166810 | 6_4:+926424 | Msa0969440:CDS |
| GATTCCAAGGGAAAGCATTT+TGG | 0.208871 | 6_4:+925927 | Msa0969440:CDS |
| TCCATGGACCATGTAATTCT+AGG | 0.298952 | 6_4:-926390 | None:intergenic |
| AGAAGTTGCAATGAAAGTTC+AGG | 0.359320 | 6_4:+926351 | Msa0969440:CDS |
| GGCTGCTATAGCTGATAATT+CGG | 0.409953 | 6_4:+925968 | Msa0969440:CDS |
| AATTACATGGTCCATGGAAA+TGG | 0.428646 | 6_4:+926395 | Msa0969440:CDS |
| GAGCCAGACCATGAGCTTGT+TGG | 0.456837 | 6_4:+926115 | Msa0969440:CDS |
| AATAAATTAAATATTTCAGC+AGG | 0.469554 | 6_4:-926499 | None:intergenic |
| AGATGACAATAGTCATCTTA+AGG | 0.472987 | 6_4:+926174 | Msa0969440:CDS |
| GAAGTTGCAATGAAAGTTCA+GGG | 0.494648 | 6_4:+926352 | Msa0969440:CDS |
| ACGCCCAAAATGCTTTCCCT+TGG | 0.498791 | 6_4:-925931 | None:intergenic |
| TTGCCAACAAGCTCATGGTC+TGG | 0.507971 | 6_4:-926118 | None:intergenic |
| TATTGAAGTTCAAGATTCCA+AGG | 0.517716 | 6_4:+925914 | None:intergenic |
| ACCTAGAATTACATGGTCCA+TGG | 0.537176 | 6_4:+926389 | Msa0969440:CDS |
| AAGTTCAGGGCTTTCAGCAA+AGG | 0.539878 | 6_4:+926365 | Msa0969440:CDS |
| ATGACTATTGTCATCTGCAC+TGG | 0.548196 | 6_4:-926167 | None:intergenic |
| AAACTTTGTCTAAATTATTG+TGG | 0.552225 | 6_4:+926522 | Msa0969440:three_prime_UTR |
| GTATCTTGCCAACAAGCTCA+TGG | 0.570307 | 6_4:-926123 | None:intergenic |
| CAAAGGAACCTAGAATTACA+TGG | 0.575331 | 6_4:+926382 | Msa0969440:CDS |
| TATCAGCTATAGCAGCCACT+TGG | 0.577953 | 6_4:-925962 | None:intergenic |
| TCTGTCAAGAGCCATTTCCA+TGG | 0.578372 | 6_4:-926406 | None:intergenic |
| TCATTGCAACTTCTAGAACC+AGG | 0.599580 | 6_4:-926342 | None:intergenic |
| ATTGAAGTTCAAGATTCCAA+GGG | 0.630054 | 6_4:+925915 | None:intergenic |
| CTGAGATATATACGAAGCTG+AGG | 0.640658 | 6_4:+926452 | Msa0969440:CDS |
| CAAGCTCATGGTCTGGCTCG+CGG | 0.647022 | 6_4:-926111 | None:intergenic |
| AGTCTGACAAAGTACGCTGG+TGG | 0.654966 | 6_4:+926080 | Msa0969440:intron |
| TGGGCGTGTTCTTGTCCAAG+TGG | 0.675367 | 6_4:+925947 | Msa0969440:CDS |
| GGAGACAGTTGTATATGACC+TGG | 0.679123 | 6_4:+926324 | Msa0969440:CDS |
| AACAGTCTGACAAAGTACGC+TGG | 0.679236 | 6_4:+926077 | Msa0969440:intron |
| GTTGCAGTGTGGTTCTGTAG+CGG | 0.681208 | 6_4:+926303 | Msa0969440:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATAAATTAAATATTTCAGC+AGG | - | chr6_4:926502-926521 | None:intergenic | 15.0% |
| !!! | ATGTATTATACATTTGCTAT+AGG | + | chr6_4:926225-926244 | Msa0969440:intron | 20.0% |
| !! | AGACAGTAAAATGATATATT+AGG | - | chr6_4:926278-926297 | None:intergenic | 20.0% |
| !! | AAACTTTGTCTAAATTATTG+TGG | + | chr6_4:926522-926541 | Msa0969440:three_prime_UTR | 20.0% |
| !! | ATATCATTTTACTGTCTTTG+TGG | + | chr6_4:926281-926300 | Msa0969440:intron | 25.0% |
| AGATGACAATAGTCATCTTA+AGG | + | chr6_4:926174-926193 | Msa0969440:CDS | 30.0% | |
| ! | ACAGAGTTTGCTTCATATTA+TGG | + | chr6_4:926424-926443 | Msa0969440:CDS | 30.0% |
| !!! | ATTCCAAGGGAAAGCATTTT+GGG | + | chr6_4:925928-925947 | Msa0969440:CDS | 35.0% |
| TTAATGATCACCACTCAAAC+AGG | - | chr6_4:926033-926052 | None:intergenic | 35.0% | |
| ! | GTACTTTGTCAGACTGTTTT+CGG | - | chr6_4:926075-926094 | None:intergenic | 35.0% |
| AGAAGTTGCAATGAAAGTTC+AGG | + | chr6_4:926351-926370 | Msa0969440:CDS | 35.0% | |
| GAAGTTGCAATGAAAGTTCA+GGG | + | chr6_4:926352-926371 | Msa0969440:CDS | 35.0% | |
| CAAAGGAACCTAGAATTACA+TGG | + | chr6_4:926382-926401 | Msa0969440:CDS | 35.0% | |
| AATTACATGGTCCATGGAAA+TGG | + | chr6_4:926395-926414 | Msa0969440:CDS | 35.0% | |
| !!! | GATTCCAAGGGAAAGCATTT+TGG | + | chr6_4:925927-925946 | Msa0969440:CDS | 40.0% |
| GGCTGCTATAGCTGATAATT+CGG | + | chr6_4:925968-925987 | Msa0969440:CDS | 40.0% | |
| GTTATTAGTGCCTGTTTGAG+TGG | + | chr6_4:926020-926039 | Msa0969440:intron | 40.0% | |
| ATGACTATTGTCATCTGCAC+TGG | - | chr6_4:926170-926189 | None:intergenic | 40.0% | |
| !! | TCATTGCAACTTCTAGAACC+AGG | - | chr6_4:926345-926364 | None:intergenic | 40.0% |
| ACCTAGAATTACATGGTCCA+TGG | + | chr6_4:926389-926408 | Msa0969440:CDS | 40.0% | |
| TCCATGGACCATGTAATTCT+AGG | - | chr6_4:926393-926412 | None:intergenic | 40.0% | |
| CTGAGATATATACGAAGCTG+AGG | + | chr6_4:926452-926471 | Msa0969440:CDS | 40.0% | |
| TATCAGCTATAGCAGCCACT+TGG | - | chr6_4:925965-925984 | None:intergenic | 45.0% | |
| AACAGTCTGACAAAGTACGC+TGG | + | chr6_4:926077-926096 | Msa0969440:intron | 45.0% | |
| GTATCTTGCCAACAAGCTCA+TGG | - | chr6_4:926126-926145 | None:intergenic | 45.0% | |
| GGAGACAGTTGTATATGACC+TGG | + | chr6_4:926324-926343 | Msa0969440:CDS | 45.0% | |
| AAGTTCAGGGCTTTCAGCAA+AGG | + | chr6_4:926365-926384 | Msa0969440:CDS | 45.0% | |
| TCTGTCAAGAGCCATTTCCA+TGG | - | chr6_4:926409-926428 | None:intergenic | 45.0% | |
| ACGCCCAAAATGCTTTCCCT+TGG | - | chr6_4:925934-925953 | None:intergenic | 50.0% | |
| AGTCTGACAAAGTACGCTGG+TGG | + | chr6_4:926080-926099 | Msa0969440:intron | 50.0% | |
| TTGCCAACAAGCTCATGGTC+TGG | - | chr6_4:926121-926140 | None:intergenic | 50.0% | |
| CTGTCTTTGTGGTTGCAGTG+TGG | + | chr6_4:926292-926311 | Msa0969440:intron | 50.0% | |
| ! | GTTGCAGTGTGGTTCTGTAG+CGG | + | chr6_4:926303-926322 | Msa0969440:intron | 50.0% |
| TGGGCGTGTTCTTGTCCAAG+TGG | + | chr6_4:925947-925966 | Msa0969440:CDS | 55.0% | |
| GAGCCAGACCATGAGCTTGT+TGG | + | chr6_4:926115-926134 | Msa0969440:CDS | 55.0% | |
| ! | CAAGCTCATGGTCTGGCTCG+CGG | - | chr6_4:926114-926133 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_4 | gene | 925924 | 926574 | 925924 | ID=Msa0969440;Name=Msa0969440 |
| chr6_4 | mRNA | 925924 | 926574 | 925924 | ID=Msa0969440-mRNA-1;Parent=Msa0969440;Name=Msa0969440-mRNA-1;_AED=0.12;_eAED=0.12;_QI=0|0.5|0.33|0.66|1|0.66|3|97|115 |
| chr6_4 | exon | 925924 | 925989 | 925924 | ID=Msa0969440-mRNA-1:exon:451;Parent=Msa0969440-mRNA-1 |
| chr6_4 | exon | 926082 | 926195 | 926082 | ID=Msa0969440-mRNA-1:exon:452;Parent=Msa0969440-mRNA-1 |
| chr6_4 | exon | 926310 | 926574 | 926310 | ID=Msa0969440-mRNA-1:exon:453;Parent=Msa0969440-mRNA-1 |
| chr6_4 | CDS | 925924 | 925989 | 925924 | ID=Msa0969440-mRNA-1:cds;Parent=Msa0969440-mRNA-1 |
| chr6_4 | CDS | 926082 | 926195 | 926082 | ID=Msa0969440-mRNA-1:cds;Parent=Msa0969440-mRNA-1 |
| chr6_4 | CDS | 926310 | 926477 | 926310 | ID=Msa0969440-mRNA-1:cds;Parent=Msa0969440-mRNA-1 |
| chr6_4 | three_prime_UTR | 926478 | 926574 | 926478 | ID=Msa0969440-mRNA-1:three_prime_utr;Parent=Msa0969440-mRNA-1 |
| Gene Sequence |
| Protein sequence |
