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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0530470 | AES86577.1 | 75.581 | 172 | 28 | 4 | 1 | 167 | 1 | 163 | 5.21e-69 | 224 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0530470 | sp|Q9XI36|MBD10_ARATH | 61.111 | 90 | 32 | 3 | 3 | 91 | 22 | 109 | 4.36e-27 | 108 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0530470 | G7JGY4 | 75.581 | 172 | 28 | 4 | 1 | 167 | 1 | 163 | 2.49e-69 | 224 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0530470 | Msa0627150 | 0.812462 | 4.187622e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0530470 | MtrunA17_Chr4g0003291 | 75.581 | 172 | 28 | 4 | 1 | 167 | 1 | 163 | 4.80e-73 | 224 |
| Msa0530470 | MtrunA17_Chr4g0063941 | 62.136 | 103 | 35 | 3 | 2 | 102 | 37 | 137 | 4.09e-31 | 115 |
| Msa0530470 | MtrunA17_Chr6g0476191 | 50.000 | 102 | 43 | 3 | 2 | 96 | 36 | 136 | 1.67e-24 | 94.0 |
| Msa0530470 | MtrunA17_Chr4g0063971 | 64.384 | 73 | 24 | 2 | 2 | 74 | 37 | 107 | 4.83e-24 | 96.3 |
| Msa0530470 | MtrunA17_Chr6g0476221 | 50.000 | 102 | 43 | 3 | 2 | 96 | 36 | 136 | 5.43e-24 | 92.8 |
| Msa0530470 | MtrunA17_Chr6g0476211 | 48.571 | 105 | 46 | 3 | 2 | 99 | 36 | 139 | 6.17e-24 | 91.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0530470 | AT1G15340.1 | 61.111 | 90 | 32 | 3 | 3 | 91 | 22 | 109 | 4.43e-28 | 108 |
| Msa0530470 | AT3G15790.1 | 56.667 | 90 | 37 | 2 | 3 | 91 | 22 | 110 | 1.65e-25 | 99.0 |
| Msa0530470 | AT3G15790.3 | 56.667 | 90 | 37 | 2 | 3 | 91 | 22 | 110 | 1.65e-25 | 99.0 |
| Msa0530470 | AT3G15790.2 | 56.667 | 90 | 37 | 2 | 3 | 91 | 22 | 110 | 1.65e-25 | 99.0 |
Find 46 sgRNAs with CRISPR-Local
Find 54 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTACTTCCTCAATTGTCTTT+TGG | 0.222954 | 4_1:+4534443 | None:intergenic |
| AAAACGATCTCAGGCTTTCT+TGG | 0.259149 | 4_1:+4534495 | None:intergenic |
| TTCCTCAGCATTGGCATCAC+TGG | 0.334487 | 4_1:+4534173 | None:intergenic |
| CTGACATATCAGAGTTTGAT+TGG | 0.338629 | 4_1:-4534398 | Msa0530470:CDS |
| AAGTACCTGAATCAACATTC+TGG | 0.339044 | 4_1:-4534426 | Msa0530470:CDS |
| GATTCCCAGAATGTTGATTC+AGG | 0.339175 | 4_1:+4534421 | None:intergenic |
| CAAGGCGATCAACAAGGATT+AGG | 0.339385 | 4_1:-4534359 | Msa0530470:CDS |
| TGCGGGTAGTGGGGTTGTTT+TGG | 0.343609 | 4_1:+4534329 | None:intergenic |
| GGCTCAGCTTGTGCGGGTAG+TGG | 0.359634 | 4_1:+4534318 | None:intergenic |
| TCAGAGTTTGATTGGGGAAC+CGG | 0.377737 | 4_1:-4534390 | Msa0530470:CDS |
| GCTCAGCTTGTGCGGGTAGT+GGG | 0.392438 | 4_1:+4534319 | None:intergenic |
| AAGGCGATCAACAAGGATTA+GGG | 0.431961 | 4_1:-4534358 | Msa0530470:CDS |
| TTTAGATGAGGCCAAGGAAA+AGG | 0.437553 | 4_1:-4534226 | Msa0530470:CDS |
| TGACATATCAGAGTTTGATT+GGG | 0.437668 | 4_1:-4534397 | Msa0530470:CDS |
| CTAATCCTTGTTGATCGCCT+TGG | 0.440946 | 4_1:+4534360 | None:intergenic |
| AGACACGTCGATGGCAGAAC+CGG | 0.449827 | 4_1:-4534094 | Msa0530470:CDS |
| AAACGTAGTCGGAAATCATC+TGG | 0.461272 | 4_1:-4534288 | Msa0530470:CDS |
| GAACCTATCTCTTCTCCAGT+TGG | 0.465821 | 4_1:+4534465 | None:intergenic |
| TTGCTTAATTTCCTCAGCAT+TGG | 0.472724 | 4_1:+4534164 | None:intergenic |
| CAATCAAACTCTGATATGTC+AGG | 0.483410 | 4_1:+4534399 | None:intergenic |
| TCCTCAGCATTGGCATCACT+GGG | 0.492506 | 4_1:+4534174 | None:intergenic |
| TTCGAAGGCTCAGCTTGTGC+GGG | 0.494527 | 4_1:+4534312 | None:intergenic |
| AGTACCTGAATCAACATTCT+GGG | 0.500963 | 4_1:-4534425 | Msa0530470:CDS |
| CTTCGAAGGCTCAGCTTGTG+CGG | 0.503235 | 4_1:+4534311 | None:intergenic |
| GGAGCAATGAAAACGATCTC+AGG | 0.509160 | 4_1:+4534486 | None:intergenic |
| GAAATCATCTGGTTCAAAGA+AGG | 0.513211 | 4_1:-4534277 | Msa0530470:CDS |
| TTAGATGAGGCCAAGGAAAA+GGG | 0.513798 | 4_1:-4534225 | Msa0530470:CDS |
| GCTCCAACTGGAGAAGAGAT+AGG | 0.514124 | 4_1:-4534468 | Msa0530470:CDS |
| TTCCGACTACGTTTCTTCGA+AGG | 0.515566 | 4_1:+4534297 | None:intergenic |
| CAGTTCTTCACTAAGAAGAA+AGG | 0.540054 | 4_1:-4534522 | Msa0530470:CDS |
| TGATCGCCTTGGCATCTCGC+CGG | 0.540439 | 4_1:+4534371 | None:intergenic |
| GGGGAACCGGCGAGATGCCA+AGG | 0.542959 | 4_1:-4534377 | Msa0530470:CDS |
| GGAAATTAAGCAAAGTAATG+TGG | 0.547050 | 4_1:-4534154 | Msa0530470:CDS |
| CTCAGCTTGTGCGGGTAGTG+GGG | 0.553139 | 4_1:+4534320 | None:intergenic |
| ATCGACGTGTCTTCGACTTG+AGG | 0.556659 | 4_1:+4534105 | None:intergenic |
| ATCTCCTTTAGATGAGGCCA+AGG | 0.569072 | 4_1:-4534232 | Msa0530470:CDS |
| GCATCTGGAAAAGGCTCAAG+TGG | 0.573495 | 4_1:-4534021 | Msa0530470:CDS |
| ATTAAGCAAAGTAATGTGGA+AGG | 0.597226 | 4_1:-4534150 | Msa0530470:CDS |
| GACATATCAGAGTTTGATTG+GGG | 0.603872 | 4_1:-4534396 | Msa0530470:CDS |
| AACTGAATCTCCTTTAGATG+AGG | 0.620219 | 4_1:-4534238 | Msa0530470:CDS |
| AGATGCCAAGGCGATCAACA+AGG | 0.640387 | 4_1:-4534365 | Msa0530470:CDS |
| TCAAGTCGAAGACACGTCGA+TGG | 0.650558 | 4_1:-4534103 | Msa0530470:CDS |
| AGCCTTCGAAGAAACGTAGT+CGG | 0.661202 | 4_1:-4534299 | Msa0530470:CDS |
| TAGGTTCCAAAAGACAATTG+AGG | 0.662321 | 4_1:-4534449 | Msa0530470:CDS |
| TGGTTCAAAGAAGGATGACA+AGG | 0.662397 | 4_1:-4534268 | Msa0530470:CDS |
| TCCCAGTGATGCCAATGCTG+AGG | 0.700115 | 4_1:-4534175 | Msa0530470:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGACATATCAGAGTTTGATT+GGG | - | chr4_1:4534130-4534149 | Msa0530470:CDS | 30.0% | |
| GGAAATTAAGCAAAGTAATG+TGG | - | chr4_1:4534373-4534392 | Msa0530470:CDS | 30.0% | |
| ATTAAGCAAAGTAATGTGGA+AGG | - | chr4_1:4534377-4534396 | Msa0530470:CDS | 30.0% | |
| CAGTTCTTCACTAAGAAGAA+AGG | - | chr4_1:4534005-4534024 | Msa0530470:CDS | 35.0% | |
| TAGGTTCCAAAAGACAATTG+AGG | - | chr4_1:4534078-4534097 | Msa0530470:CDS | 35.0% | |
| ! | GTACTTCCTCAATTGTCTTT+TGG | + | chr4_1:4534087-4534106 | None:intergenic | 35.0% |
| AAGTACCTGAATCAACATTC+TGG | - | chr4_1:4534101-4534120 | Msa0530470:CDS | 35.0% | |
| AGTACCTGAATCAACATTCT+GGG | - | chr4_1:4534102-4534121 | Msa0530470:CDS | 35.0% | |
| CAATCAAACTCTGATATGTC+AGG | + | chr4_1:4534131-4534150 | None:intergenic | 35.0% | |
| CTGACATATCAGAGTTTGAT+TGG | - | chr4_1:4534129-4534148 | Msa0530470:CDS | 35.0% | |
| GACATATCAGAGTTTGATTG+GGG | - | chr4_1:4534131-4534150 | Msa0530470:CDS | 35.0% | |
| ! | GAAATCATCTGGTTCAAAGA+AGG | - | chr4_1:4534250-4534269 | Msa0530470:CDS | 35.0% |
| AACTGAATCTCCTTTAGATG+AGG | - | chr4_1:4534289-4534308 | Msa0530470:CDS | 35.0% | |
| TTGCTTAATTTCCTCAGCAT+TGG | + | chr4_1:4534366-4534385 | None:intergenic | 35.0% | |
| TGCACAAAAATTCGTATTGC+CGG | + | chr4_1:4534455-4534474 | None:intergenic | 35.0% | |
| AAAACGATCTCAGGCTTTCT+TGG | + | chr4_1:4534035-4534054 | None:intergenic | 40.0% | |
| ! | ATCGTTTTCATTGCTCCAAC+TGG | - | chr4_1:4534047-4534066 | Msa0530470:CDS | 40.0% |
| !! | GATTCCCAGAATGTTGATTC+AGG | + | chr4_1:4534109-4534128 | None:intergenic | 40.0% |
| AAGGCGATCAACAAGGATTA+GGG | - | chr4_1:4534169-4534188 | Msa0530470:CDS | 40.0% | |
| AAACGTAGTCGGAAATCATC+TGG | - | chr4_1:4534239-4534258 | Msa0530470:CDS | 40.0% | |
| TGGTTCAAAGAAGGATGACA+AGG | - | chr4_1:4534259-4534278 | Msa0530470:CDS | 40.0% | |
| ! | TTTTCCTTGGCCTCATCTAA+AGG | + | chr4_1:4534302-4534321 | None:intergenic | 40.0% |
| TTTAGATGAGGCCAAGGAAA+AGG | - | chr4_1:4534301-4534320 | Msa0530470:CDS | 40.0% | |
| TTAGATGAGGCCAAGGAAAA+GGG | - | chr4_1:4534302-4534321 | Msa0530470:CDS | 40.0% | |
| ! | AGAAGAGTTACCCTTTTCCT+TGG | + | chr4_1:4534315-4534334 | None:intergenic | 40.0% |
| GAAAAAACCGCATCTGGAAA+AGG | - | chr4_1:4534497-4534516 | Msa0530470:CDS | 40.0% | |
| GGAGCAATGAAAACGATCTC+AGG | + | chr4_1:4534044-4534063 | None:intergenic | 45.0% | |
| GAACCTATCTCTTCTCCAGT+TGG | + | chr4_1:4534065-4534084 | None:intergenic | 45.0% | |
| TCAGAGTTTGATTGGGGAAC+CGG | - | chr4_1:4534137-4534156 | Msa0530470:CDS | 45.0% | |
| CTAATCCTTGTTGATCGCCT+TGG | + | chr4_1:4534170-4534189 | None:intergenic | 45.0% | |
| CAAGGCGATCAACAAGGATT+AGG | - | chr4_1:4534168-4534187 | Msa0530470:CDS | 45.0% | |
| AGCCTTCGAAGAAACGTAGT+CGG | - | chr4_1:4534228-4534247 | Msa0530470:CDS | 45.0% | |
| TTCCGACTACGTTTCTTCGA+AGG | + | chr4_1:4534233-4534252 | None:intergenic | 45.0% | |
| ATCTCCTTTAGATGAGGCCA+AGG | - | chr4_1:4534295-4534314 | Msa0530470:CDS | 45.0% | |
| !!! | TCCAGATGCGGTTTTTTCAG+CGG | + | chr4_1:4534495-4534514 | None:intergenic | 45.0% |
| ! | ACTTGAGCCTTTTCCAGATG+CGG | + | chr4_1:4534507-4534526 | None:intergenic | 45.0% |
| GCTCCAACTGGAGAAGAGAT+AGG | - | chr4_1:4534059-4534078 | Msa0530470:CDS | 50.0% | |
| AGATGCCAAGGCGATCAACA+AGG | - | chr4_1:4534162-4534181 | Msa0530470:CDS | 50.0% | |
| !! | TCCTCAGCATTGGCATCACT+GGG | + | chr4_1:4534356-4534375 | None:intergenic | 50.0% |
| !! | TTCCTCAGCATTGGCATCAC+TGG | + | chr4_1:4534357-4534376 | None:intergenic | 50.0% |
| ! | ATCGACGTGTCTTCGACTTG+AGG | + | chr4_1:4534425-4534444 | None:intergenic | 50.0% |
| TCAAGTCGAAGACACGTCGA+TGG | - | chr4_1:4534424-4534443 | Msa0530470:CDS | 50.0% | |
| GCATCTGGAAAAGGCTCAAG+TGG | - | chr4_1:4534506-4534525 | Msa0530470:CDS | 50.0% | |
| !!! | TGCGGGTAGTGGGGTTGTTT+TGG | + | chr4_1:4534201-4534220 | None:intergenic | 55.0% |
| TTCGAAGGCTCAGCTTGTGC+GGG | + | chr4_1:4534218-4534237 | None:intergenic | 55.0% | |
| CTTCGAAGGCTCAGCTTGTG+CGG | + | chr4_1:4534219-4534238 | None:intergenic | 55.0% | |
| TCCCAGTGATGCCAATGCTG+AGG | - | chr4_1:4534352-4534371 | Msa0530470:CDS | 55.0% | |
| AGACACGTCGATGGCAGAAC+CGG | - | chr4_1:4534433-4534452 | Msa0530470:CDS | 55.0% | |
| GCCGCTGAAAAAACCGCATC+TGG | - | chr4_1:4534491-4534510 | Msa0530470:CDS | 55.0% | |
| TGATCGCCTTGGCATCTCGC+CGG | + | chr4_1:4534159-4534178 | None:intergenic | 60.0% | |
| CTCAGCTTGTGCGGGTAGTG+GGG | + | chr4_1:4534210-4534229 | None:intergenic | 60.0% | |
| GCTCAGCTTGTGCGGGTAGT+GGG | + | chr4_1:4534211-4534230 | None:intergenic | 60.0% | |
| GGCTCAGCTTGTGCGGGTAG+TGG | + | chr4_1:4534212-4534231 | None:intergenic | 65.0% | |
| GGGGAACCGGCGAGATGCCA+AGG | - | chr4_1:4534150-4534169 | Msa0530470:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 4534002 | 4534547 | 4534002 | ID=Msa0530470;Name=Msa0530470 |
| chr4_1 | mRNA | 4534002 | 4534547 | 4534002 | ID=Msa0530470-mRNA-1;Parent=Msa0530470;Name=Msa0530470-mRNA-1;_AED=0.43;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|181 |
| chr4_1 | exon | 4534002 | 4534547 | 4534002 | ID=Msa0530470-mRNA-1:exon:1384;Parent=Msa0530470-mRNA-1 |
| chr4_1 | CDS | 4534002 | 4534547 | 4534002 | ID=Msa0530470-mRNA-1:cds;Parent=Msa0530470-mRNA-1 |
| Gene Sequence |
| Protein sequence |
