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 |
|---|
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1314140 | G7LJ04 | 64.706 | 68 | 22 | 1 | 122 | 189 | 206 | 271 | 4.62e-17 | 89.0 |
| Msa1314140 | G7LJ04 | 95.238 | 189 | 6 | 1 | 1 | 189 | 1 | 186 | 2.85e-124 | 375 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0608060 | Msa1314140 | 0.810599 | 1.063764e-50 | -8.615850e-47 |
| Msa0627580 | Msa1314140 | 0.807249 | 5.542177e-50 | -8.615850e-47 |
| Msa0690930 | Msa1314140 | 0.809030 | 2.313762e-50 | -8.615850e-47 |
| Msa0719740 | Msa1314140 | 0.801859 | 7.378854e-49 | -8.615850e-47 |
| Msa0802750 | Msa1314140 | 0.808146 | 3.574415e-50 | -8.615850e-47 |
| Msa0176980 | Msa1314140 | 0.809516 | 1.820542e-50 | -8.615850e-47 |
| Msa0207690 | Msa1314140 | 0.800731 | 1.256161e-48 | -8.615850e-47 |
| Msa1026770 | Msa1314140 | 0.811543 | 6.643267e-51 | -8.615850e-47 |
| Msa1026800 | Msa1314140 | 0.816642 | 4.978162e-52 | -8.615850e-47 |
| Msa0287660 | Msa1314140 | 0.800393 | 1.472284e-48 | -8.615850e-47 |
| Msa0553950 | Msa1314140 | 0.851192 | 1.041670e-60 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1314140 | MtrunA17_Chr8g0343091 | 95.238 | 189 | 6 | 1 | 1 | 189 | 1 | 186 | 5.50e-128 | 375 |
| Msa1314140 | MtrunA17_Chr8g0343091 | 64.706 | 68 | 22 | 1 | 122 | 189 | 206 | 271 | 8.89e-21 | 89.0 |
| Msa1314140 | MtrunA17_Chr2g0329841 | 49.215 | 191 | 71 | 9 | 1 | 178 | 1 | 178 | 5.33e-48 | 162 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1314140 | AT1G72790.1 | 36.649 | 191 | 95 | 6 | 3 | 174 | 2 | 185 | 2.39e-26 | 105 |
Find 57 sgRNAs with CRISPR-Local
Find 60 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TATCACCAATGTCACCATTT+TGG | 0.242331 | 8_4:-12676797 | Msa1314140:CDS |
| AACGGTGGCGTTTCGGTGTC+AGG | 0.289649 | 8_4:+12676456 | None:intergenic |
| ACACCGAAACGCCACCGTTT+TGG | 0.346871 | 8_4:-12676452 | Msa1314140:CDS |
| AAAATCCATCGGTGTTTAAT+CGG | 0.354028 | 8_4:-12676419 | Msa1314140:CDS |
| CACCTCCGGTCGCCGGAGAT+CGG | 0.376978 | 8_4:+12676374 | None:intergenic |
| CACAAGATGTTAAACACTCT+TGG | 0.377468 | 8_4:-12676611 | Msa1314140:CDS |
| GTTCTCTTCGCTGTCGTTTG+TGG | 0.383268 | 8_4:-12676567 | Msa1314140:CDS |
| ATACCAAAACGGTGGCGTTT+CGG | 0.393982 | 8_4:+12676449 | None:intergenic |
| TGAAATGAAAGAGTATATAG+TGG | 0.399982 | 8_4:+12676653 | None:intergenic |
| CCACGATGAGTAAGAAGATT+AGG | 0.403440 | 8_4:+12676679 | None:intergenic |
| ATGTCTTCTTCTTGTTCCAT+TGG | 0.407601 | 8_4:+12676819 | None:intergenic |
| CACAAGTATCATCGTAAAAC+CGG | 0.417390 | 8_4:+12676322 | None:intergenic |
| GAGACGGTGGTGGTTGGTGG+TGG | 0.420974 | 8_4:+12676764 | None:intergenic |
| CGATCTCCGGCGACCGGAGG+TGG | 0.428577 | 8_4:-12676373 | Msa1314140:CDS |
| ACCTCCGGTCGCCGGAGATC+GGG | 0.432859 | 8_4:+12676375 | None:intergenic |
| CAGCGAAGAGAACTAGTATA+AGG | 0.447056 | 8_4:+12676577 | None:intergenic |
| ACAAGATGTTAAACACTCTT+GGG | 0.456069 | 8_4:-12676610 | Msa1314140:CDS |
| GCGGAGACGGTGGTGGTTGG+TGG | 0.463259 | 8_4:+12676761 | None:intergenic |
| TTGCTGACGGCGGCGATGAT+CGG | 0.464438 | 8_4:-12676347 | Msa1314140:CDS |
| TTGTTATGAGGATGAGGAAG+AGG | 0.469629 | 8_4:+12676703 | None:intergenic |
| TCATCATCACTTTCAAATCT+CGG | 0.473923 | 8_4:+12676279 | None:intergenic |
| AGAAGATTAGGATTGTTATG+AGG | 0.478777 | 8_4:+12676691 | None:intergenic |
| TTAGGATTGTTATGAGGATG+AGG | 0.479729 | 8_4:+12676697 | None:intergenic |
| CAAGAGTGTTTAACATCTTG+TGG | 0.484674 | 8_4:+12676612 | None:intergenic |
| TGGCGTTTCGGTGTCAGGGT+TGG | 0.493189 | 8_4:+12676461 | None:intergenic |
| GCGGCGGAGACGGTGGTGGT+TGG | 0.500320 | 8_4:+12676758 | None:intergenic |
| TGATGATGAATTGCATTACT+AGG | 0.500582 | 8_4:-12676265 | None:intergenic |
| TCTCCGGCGACCGGAGGTGG+TGG | 0.503177 | 8_4:-12676370 | Msa1314140:CDS |
| CCGTCAGCAACCACCACCTC+CGG | 0.503530 | 8_4:+12676360 | None:intergenic |
| GAAATGAAAGAGTATATAGT+GGG | 0.522955 | 8_4:+12676654 | None:intergenic |
| CAACCACCACCTCCGGTCGC+CGG | 0.535417 | 8_4:+12676367 | None:intergenic |
| GTGAGTATGTGCGGCGGAGA+CGG | 0.535644 | 8_4:+12676748 | None:intergenic |
| AGAGGGTGGTGGTTGTTGTG+AGG | 0.540215 | 8_4:+12676721 | None:intergenic |
| CCGGAGGTGGTGGTTGCTGA+CGG | 0.551481 | 8_4:-12676360 | Msa1314140:CDS |
| GAGGATGAGGAAGAGGGTGG+TGG | 0.557023 | 8_4:+12676710 | None:intergenic |
| TCCCGATCTCCGGCGACCGG+AGG | 0.557915 | 8_4:-12676376 | Msa1314140:CDS |
| GGGTGGTGGTTGTTGTGAGG+AGG | 0.559012 | 8_4:+12676724 | None:intergenic |
| GTATCCCGATCTCCGGCGAC+CGG | 0.559926 | 8_4:-12676379 | Msa1314140:CDS |
| ACGGTGGCGTTTCGGTGTCA+GGG | 0.565810 | 8_4:+12676457 | None:intergenic |
| GTGTTTAATCGGTTGAGAAG+TGG | 0.567332 | 8_4:-12676408 | Msa1314140:CDS |
| TGTTATGAGGATGAGGAAGA+GGG | 0.571056 | 8_4:+12676704 | None:intergenic |
| GGAAGCCAAAATGGTGACAT+TGG | 0.573606 | 8_4:+12676792 | None:intergenic |
| GTGGATCGTATCCCGATCTC+CGG | 0.573761 | 8_4:-12676386 | Msa1314140:CDS |
| CTCAACCGATTAAACACCGA+TGG | 0.577997 | 8_4:+12676414 | None:intergenic |
| ACGGCGGCGATGATCGGTAC+CGG | 0.578565 | 8_4:-12676341 | Msa1314140:CDS |
| ATGTGCGGCGGAGACGGTGG+TGG | 0.582235 | 8_4:+12676754 | None:intergenic |
| TTTAATCGGTTGAGAAGTGG+TGG | 0.586752 | 8_4:-12676405 | Msa1314140:CDS |
| AGTATGTGCGGCGGAGACGG+TGG | 0.603800 | 8_4:+12676751 | None:intergenic |
| GTATGGTAATGAAAATCCAT+CGG | 0.618390 | 8_4:-12676430 | Msa1314140:CDS |
| CCTAATCTTCTTACTCATCG+TGG | 0.642113 | 8_4:-12676679 | Msa1314140:CDS |
| TCATTACCATACCAAAACGG+TGG | 0.656040 | 8_4:+12676441 | None:intergenic |
| TGAGGAGGAGTGAGTATGTG+CGG | 0.669381 | 8_4:+12676739 | None:intergenic |
| TATGAGGATGAGGAAGAGGG+TGG | 0.675540 | 8_4:+12676707 | None:intergenic |
| GGAGGAGTGAGTATGTGCGG+CGG | 0.703095 | 8_4:+12676742 | None:intergenic |
| GAGGTGGTGGTTGCTGACGG+CGG | 0.720551 | 8_4:-12676357 | Msa1314140:CDS |
| AAATGAAAGAGTATATAGTG+GGG | 0.724153 | 8_4:+12676655 | None:intergenic |
| TTATAACTATCAAAACGACG+CGG | 0.838052 | 8_4:+12676504 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATGAAAGAGTATATAGTG+GGG | + | chr8_4:12676430-12676449 | None:intergenic | 25.0% |
| !! | GAAATGAAAGAGTATATAGT+GGG | + | chr8_4:12676431-12676450 | None:intergenic | 25.0% |
| !! | TGAAATGAAAGAGTATATAG+TGG | + | chr8_4:12676432-12676451 | None:intergenic | 25.0% |
| !! | TTTTCATTACCATACCAAAA+CGG | + | chr8_4:12676647-12676666 | None:intergenic | 25.0% |
| !! | CTTGTGTTAATTTTCGTTAT+CGG | - | chr8_4:12676777-12676796 | Msa1314140:CDS | 25.0% |
| AGAAGATTAGGATTGTTATG+AGG | + | chr8_4:12676394-12676413 | None:intergenic | 30.0% | |
| ACAAGATGTTAAACACTCTT+GGG | - | chr8_4:12676472-12676491 | Msa1314140:CDS | 30.0% | |
| TTATAACTATCAAAACGACG+CGG | + | chr8_4:12676581-12676600 | None:intergenic | 30.0% | |
| ! | GTATGGTAATGAAAATCCAT+CGG | - | chr8_4:12676652-12676671 | Msa1314140:CDS | 30.0% |
| ! | AAAATCCATCGGTGTTTAAT+CGG | - | chr8_4:12676663-12676682 | Msa1314140:CDS | 30.0% |
| TCATCATCACTTTCAAATCT+CGG | + | chr8_4:12676806-12676825 | None:intergenic | 30.0% | |
| ! | TATCACCAATGTCACCATTT+TGG | - | chr8_4:12676285-12676304 | Msa1314140:CDS | 35.0% |
| TTAGGATTGTTATGAGGATG+AGG | + | chr8_4:12676388-12676407 | None:intergenic | 35.0% | |
| !! | CAAGAGTGTTTAACATCTTG+TGG | + | chr8_4:12676473-12676492 | None:intergenic | 35.0% |
| CACAAGATGTTAAACACTCT+TGG | - | chr8_4:12676471-12676490 | Msa1314140:CDS | 35.0% | |
| CACAAGTATCATCGTAAAAC+CGG | + | chr8_4:12676763-12676782 | None:intergenic | 35.0% | |
| !! | GTGGTTTTTGGAAGCCAAAA+TGG | + | chr8_4:12676302-12676321 | None:intergenic | 40.0% |
| TGTTATGAGGATGAGGAAGA+GGG | + | chr8_4:12676381-12676400 | None:intergenic | 40.0% | |
| TTGTTATGAGGATGAGGAAG+AGG | + | chr8_4:12676382-12676401 | None:intergenic | 40.0% | |
| CCACGATGAGTAAGAAGATT+AGG | + | chr8_4:12676406-12676425 | None:intergenic | 40.0% | |
| CCTAATCTTCTTACTCATCG+TGG | - | chr8_4:12676403-12676422 | Msa1314140:CDS | 40.0% | |
| CAGCGAAGAGAACTAGTATA+AGG | + | chr8_4:12676508-12676527 | None:intergenic | 40.0% | |
| TCATTACCATACCAAAACGG+TGG | + | chr8_4:12676644-12676663 | None:intergenic | 40.0% | |
| GTGTTTAATCGGTTGAGAAG+TGG | - | chr8_4:12676674-12676693 | Msa1314140:CDS | 40.0% | |
| TTTAATCGGTTGAGAAGTGG+TGG | - | chr8_4:12676677-12676696 | Msa1314140:CDS | 40.0% | |
| GGAAGCCAAAATGGTGACAT+TGG | + | chr8_4:12676293-12676312 | None:intergenic | 45.0% | |
| ATACCAAAACGGTGGCGTTT+CGG | + | chr8_4:12676636-12676655 | None:intergenic | 45.0% | |
| CTCAACCGATTAAACACCGA+TGG | + | chr8_4:12676671-12676690 | None:intergenic | 45.0% | |
| !!! | TGGTGGTTGGTGGTGGTTTT+TGG | + | chr8_4:12676314-12676333 | None:intergenic | 50.0% |
| TGAGGAGGAGTGAGTATGTG+CGG | + | chr8_4:12676346-12676365 | None:intergenic | 50.0% | |
| TATGAGGATGAGGAAGAGGG+TGG | + | chr8_4:12676378-12676397 | None:intergenic | 50.0% | |
| ! | GTTCTCTTCGCTGTCGTTTG+TGG | - | chr8_4:12676515-12676534 | Msa1314140:CDS | 50.0% |
| !! | GAAACGCCACCGTTTTGGTA+TGG | - | chr8_4:12676635-12676654 | Msa1314140:CDS | 50.0% |
| ! | AGAGGGTGGTGGTTGTTGTG+AGG | + | chr8_4:12676364-12676383 | None:intergenic | 55.0% |
| ! | ACACCGAAACGCCACCGTTT+TGG | - | chr8_4:12676630-12676649 | Msa1314140:CDS | 55.0% |
| GTGGATCGTATCCCGATCTC+CGG | - | chr8_4:12676696-12676715 | Msa1314140:CDS | 55.0% | |
| GTGAGTATGTGCGGCGGAGA+CGG | + | chr8_4:12676337-12676356 | None:intergenic | 60.0% | |
| GGAGGAGTGAGTATGTGCGG+CGG | + | chr8_4:12676343-12676362 | None:intergenic | 60.0% | |
| ! | GGGTGGTGGTTGTTGTGAGG+AGG | + | chr8_4:12676361-12676380 | None:intergenic | 60.0% |
| GAGGATGAGGAAGAGGGTGG+TGG | + | chr8_4:12676375-12676394 | None:intergenic | 60.0% | |
| !! | TGGCGTTTCGGTGTCAGGGT+TGG | + | chr8_4:12676624-12676643 | None:intergenic | 60.0% |
| !! | ACGGTGGCGTTTCGGTGTCA+GGG | + | chr8_4:12676628-12676647 | None:intergenic | 60.0% |
| !! | AACGGTGGCGTTTCGGTGTC+AGG | + | chr8_4:12676629-12676648 | None:intergenic | 60.0% |
| TTGCTGACGGCGGCGATGAT+CGG | - | chr8_4:12676735-12676754 | Msa1314140:CDS | 60.0% | |
| !! | GAGACGGTGGTGGTTGGTGG+TGG | + | chr8_4:12676321-12676340 | None:intergenic | 65.0% |
| AGTATGTGCGGCGGAGACGG+TGG | + | chr8_4:12676334-12676353 | None:intergenic | 65.0% | |
| GTATCCCGATCTCCGGCGAC+CGG | - | chr8_4:12676703-12676722 | Msa1314140:CDS | 65.0% | |
| CCGTCAGCAACCACCACCTC+CGG | + | chr8_4:12676725-12676744 | None:intergenic | 65.0% | |
| ! | CCGGAGGTGGTGGTTGCTGA+CGG | - | chr8_4:12676722-12676741 | Msa1314140:CDS | 65.0% |
| ! | GAGGTGGTGGTTGCTGACGG+CGG | - | chr8_4:12676725-12676744 | Msa1314140:CDS | 65.0% |
| ACGGCGGCGATGATCGGTAC+CGG | - | chr8_4:12676741-12676760 | Msa1314140:CDS | 65.0% | |
| ! | GCGGAGACGGTGGTGGTTGG+TGG | + | chr8_4:12676324-12676343 | None:intergenic | 70.0% |
| ATGTGCGGCGGAGACGGTGG+TGG | + | chr8_4:12676331-12676350 | None:intergenic | 70.0% | |
| ACCTCCGGTCGCCGGAGATC+GGG | + | chr8_4:12676710-12676729 | None:intergenic | 70.0% | |
| CACCTCCGGTCGCCGGAGAT+CGG | + | chr8_4:12676711-12676730 | None:intergenic | 70.0% | |
| CAACCACCACCTCCGGTCGC+CGG | + | chr8_4:12676718-12676737 | None:intergenic | 70.0% | |
| ! | GCGGCGGAGACGGTGGTGGT+TGG | + | chr8_4:12676327-12676346 | None:intergenic | 75.0% |
| TCCCGATCTCCGGCGACCGG+AGG | - | chr8_4:12676706-12676725 | Msa1314140:CDS | 75.0% | |
| CGATCTCCGGCGACCGGAGG+TGG | - | chr8_4:12676709-12676728 | Msa1314140:CDS | 75.0% | |
| TCTCCGGCGACCGGAGGTGG+TGG | - | chr8_4:12676712-12676731 | Msa1314140:CDS | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_4 | gene | 12676266 | 12676838 | 12676266 | ID=Msa1314140;Name=Msa1314140 |
| chr8_4 | mRNA | 12676266 | 12676838 | 12676266 | ID=Msa1314140-mRNA-1;Parent=Msa1314140;Name=Msa1314140-mRNA-1;_AED=0.40;_eAED=0.40;_QI=0|-1|0|1|-1|1|1|0|190 |
| chr8_4 | exon | 12676266 | 12676838 | 12676266 | ID=Msa1314140-mRNA-1:exon:4763;Parent=Msa1314140-mRNA-1 |
| chr8_4 | CDS | 12676266 | 12676838 | 12676266 | ID=Msa1314140-mRNA-1:cds;Parent=Msa1314140-mRNA-1 |
| Gene Sequence |
| Protein sequence |
