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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0627170 | AES86577.1 | 67.273 | 220 | 29 | 4 | 1 | 182 | 1 | 215 | 6.98e-78 | 246 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0627170 | sp|Q9XI36|MBD10_ARATH | 61.111 | 90 | 32 | 3 | 3 | 91 | 22 | 109 | 2.92e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0627170 | G7JGY4 | 67.273 | 220 | 29 | 4 | 1 | 182 | 1 | 215 | 3.34e-78 | 246 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0627150 | Msa0627170 | 0.909279 | 6.789619e-82 | -8.615850e-47 |
| Msa0627160 | Msa0627170 | 0.955779 | 1.377760e-113 | -8.615850e-47 |
| Msa0627170 | Msa0627180 | 0.971015 | 1.674207e-132 | -8.615850e-47 |
| Msa0627170 | Msa0627190 | 0.982545 | 2.282876e-155 | -8.615850e-47 |
| Msa0627170 | Msa0627200 | 0.802463 | 5.544012e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0627170 | MtrunA17_Chr4g0003291 | 67.273 | 220 | 29 | 4 | 1 | 182 | 1 | 215 | 6.42e-82 | 246 |
| Msa0627170 | MtrunA17_Chr4g0063941 | 62.136 | 103 | 35 | 3 | 2 | 102 | 37 | 137 | 1.56e-31 | 116 |
| Msa0627170 | MtrunA17_Chr6g0476191 | 50.980 | 102 | 42 | 3 | 2 | 96 | 36 | 136 | 4.97e-25 | 95.5 |
| Msa0627170 | MtrunA17_Chr6g0476211 | 48.571 | 105 | 46 | 3 | 2 | 99 | 36 | 139 | 1.32e-24 | 93.2 |
| Msa0627170 | MtrunA17_Chr6g0476221 | 50.980 | 102 | 42 | 3 | 2 | 96 | 36 | 136 | 1.47e-24 | 94.4 |
| Msa0627170 | MtrunA17_Chr4g0063971 | 64.384 | 73 | 24 | 2 | 2 | 74 | 37 | 107 | 1.64e-24 | 97.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0627170 | AT1G15340.1 | 61.111 | 90 | 32 | 3 | 3 | 91 | 22 | 109 | 2.96e-28 | 108 |
| Msa0627170 | AT3G15790.1 | 56.667 | 90 | 37 | 2 | 3 | 91 | 22 | 110 | 7.36e-26 | 100 |
| Msa0627170 | AT3G15790.3 | 56.667 | 90 | 37 | 2 | 3 | 91 | 22 | 110 | 7.36e-26 | 100 |
| Msa0627170 | AT3G15790.2 | 56.667 | 90 | 37 | 2 | 3 | 91 | 22 | 110 | 7.36e-26 | 100 |
Find 50 sgRNAs with CRISPR-Local
Find 62 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTACTTCCTCAATTGTCTTT+TGG | 0.222954 | 4_3:+7213487 | None:intergenic |
| AAAACGATCTCAGGCTTTCT+TGG | 0.259149 | 4_3:+7213539 | None:intergenic |
| TTCCTCAGCATTGGCATCAC+TGG | 0.334487 | 4_3:+7213217 | None:intergenic |
| CTGACATATCAGAGTTTGAT+TGG | 0.338629 | 4_3:-7213442 | Msa0627170:CDS |
| AAGTACCTGAATCAACATTC+TGG | 0.339044 | 4_3:-7213470 | Msa0627170:CDS |
| GATTCCCAGAATGTTGATTC+AGG | 0.339175 | 4_3:+7213465 | None:intergenic |
| CAAGGCGATCAACAAGGATT+AGG | 0.339385 | 4_3:-7213403 | Msa0627170:CDS |
| TGCGGGTAGTGGGGTTGTTT+TGG | 0.343609 | 4_3:+7213373 | None:intergenic |
| GGCTCAGCTTGTGCGGGTAG+TGG | 0.359634 | 4_3:+7213362 | None:intergenic |
| TCAGAGTTTGATTGGGGAAC+CGG | 0.377737 | 4_3:-7213434 | Msa0627170:CDS |
| GCTCAGCTTGTGCGGGTAGT+GGG | 0.392438 | 4_3:+7213363 | None:intergenic |
| TGTCGCTGAAGTTCCGCAAT+TGG | 0.398489 | 4_3:-7212984 | Msa0627170:CDS |
| AAGGCGATCAACAAGGATTA+GGG | 0.431961 | 4_3:-7213402 | Msa0627170:CDS |
| TTTAGATGAGGCCAAGGAAA+AGG | 0.437553 | 4_3:-7213270 | Msa0627170:CDS |
| TGACATATCAGAGTTTGATT+GGG | 0.437668 | 4_3:-7213441 | Msa0627170:CDS |
| CTAATCCTTGTTGATCGCCT+TGG | 0.440946 | 4_3:+7213404 | None:intergenic |
| AAACGTAGTCGGAAATCATC+TGG | 0.461272 | 4_3:-7213332 | Msa0627170:CDS |
| GAACCTATCTCTTCTCCAGT+TGG | 0.465821 | 4_3:+7213509 | None:intergenic |
| TTGCTTAATTTCCTCAGCAT+TGG | 0.472724 | 4_3:+7213208 | None:intergenic |
| CAATCAAACTCTGATATGTC+AGG | 0.483410 | 4_3:+7213443 | None:intergenic |
| ACGTTGATGGCAGAACCAAC+AGG | 0.490032 | 4_3:-7212941 | Msa0627170:CDS |
| TCCTCAGCATTGGCATCACT+GGG | 0.492506 | 4_3:+7213218 | None:intergenic |
| TTCGAAGGCTCAGCTTGTGC+GGG | 0.494527 | 4_3:+7213356 | None:intergenic |
| AGTACCTGAATCAACATTCT+GGG | 0.500963 | 4_3:-7213469 | Msa0627170:CDS |
| CTTCGAAGGCTCAGCTTGTG+CGG | 0.503235 | 4_3:+7213355 | None:intergenic |
| GGAGCAATGAAAACGATCTC+AGG | 0.509160 | 4_3:+7213530 | None:intergenic |
| TCAAGTGGAAGACACGTTGA+TGG | 0.510828 | 4_3:-7212954 | Msa0627170:CDS |
| AGACACTTCTATGACTGAAC+TGG | 0.511273 | 4_3:-7213041 | Msa0627170:CDS |
| GAAATCATCTGGTTCAAAGA+AGG | 0.513211 | 4_3:-7213321 | Msa0627170:CDS |
| TTAGATGAGGCCAAGGAAAA+GGG | 0.513798 | 4_3:-7213269 | Msa0627170:CDS |
| GCTCCAACTGGAGAAGAGAT+AGG | 0.514124 | 4_3:-7213512 | Msa0627170:CDS |
| TTCCGACTACGTTTCTTCGA+AGG | 0.515566 | 4_3:+7213341 | None:intergenic |
| CAGTTCTTCACTAAGAAGAA+AGG | 0.540054 | 4_3:-7213566 | Msa0627170:CDS |
| TGATCGCCTTGGCATCTCGC+CGG | 0.540439 | 4_3:+7213415 | None:intergenic |
| GGGGAACCGGCGAGATGCCA+AGG | 0.542959 | 4_3:-7213421 | Msa0627170:CDS |
| CTCAGCTTGTGCGGGTAGTG+GGG | 0.553139 | 4_3:+7213364 | None:intergenic |
| ATCAACGTGTCTTCCACTTG+AGG | 0.566400 | 4_3:+7212956 | None:intergenic |
| ATCTCCTTTAGATGAGGCCA+AGG | 0.569072 | 4_3:-7213276 | Msa0627170:CDS |
| GCATCTGGAAAAGGCTCAAG+TGG | 0.573495 | 4_3:-7213065 | Msa0627170:intron |
| GACATATCAGAGTTTGATTG+GGG | 0.603872 | 4_3:-7213440 | Msa0627170:CDS |
| GGAAATTAAGCAAAGTAATG+CGG | 0.612687 | 4_3:-7213198 | Msa0627170:CDS |
| AACTGAATCTCCTTTAGATG+AGG | 0.620219 | 4_3:-7213282 | Msa0627170:CDS |
| GCAATTGGAAAATCCTCAAG+TGG | 0.631644 | 4_3:-7212969 | Msa0627170:CDS |
| ATTAAGCAAAGTAATGCGGA+AGG | 0.636526 | 4_3:-7213194 | Msa0627170:CDS |
| AGATGCCAAGGCGATCAACA+AGG | 0.640387 | 4_3:-7213409 | Msa0627170:CDS |
| CGTTGATGGCAGAACCAACA+GGG | 0.660262 | 4_3:-7212940 | Msa0627170:CDS |
| AGCCTTCGAAGAAACGTAGT+CGG | 0.661202 | 4_3:-7213343 | Msa0627170:CDS |
| TAGGTTCCAAAAGACAATTG+AGG | 0.662321 | 4_3:-7213493 | Msa0627170:CDS |
| TGGTTCAAAGAAGGATGACA+AGG | 0.662397 | 4_3:-7213312 | Msa0627170:CDS |
| TCCCAGTGATGCCAATGCTG+AGG | 0.700115 | 4_3:-7213219 | Msa0627170:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGACATATCAGAGTTTGATT+GGG | - | chr4_3:7213059-7213078 | Msa0627170:intron | 30.0% | |
| GGAAATTAAGCAAAGTAATG+CGG | - | chr4_3:7213302-7213321 | Msa0627170:CDS | 30.0% | |
| CAGTTCTTCACTAAGAAGAA+AGG | - | chr4_3:7212934-7212953 | Msa0627170:CDS | 35.0% | |
| TAGGTTCCAAAAGACAATTG+AGG | - | chr4_3:7213007-7213026 | Msa0627170:CDS | 35.0% | |
| ! | GTACTTCCTCAATTGTCTTT+TGG | + | chr4_3:7213016-7213035 | None:intergenic | 35.0% |
| AAGTACCTGAATCAACATTC+TGG | - | chr4_3:7213030-7213049 | Msa0627170:CDS | 35.0% | |
| AGTACCTGAATCAACATTCT+GGG | - | chr4_3:7213031-7213050 | Msa0627170:CDS | 35.0% | |
| CAATCAAACTCTGATATGTC+AGG | + | chr4_3:7213060-7213079 | None:intergenic | 35.0% | |
| CTGACATATCAGAGTTTGAT+TGG | - | chr4_3:7213058-7213077 | Msa0627170:intron | 35.0% | |
| GACATATCAGAGTTTGATTG+GGG | - | chr4_3:7213060-7213079 | Msa0627170:intron | 35.0% | |
| ! | GAAATCATCTGGTTCAAAGA+AGG | - | chr4_3:7213179-7213198 | Msa0627170:intron | 35.0% |
| AACTGAATCTCCTTTAGATG+AGG | - | chr4_3:7213218-7213237 | Msa0627170:CDS | 35.0% | |
| TTGCTTAATTTCCTCAGCAT+TGG | + | chr4_3:7213295-7213314 | None:intergenic | 35.0% | |
| ATTAAGCAAAGTAATGCGGA+AGG | - | chr4_3:7213306-7213325 | Msa0627170:CDS | 35.0% | |
| TGCACAAAAATTCGTATTGC+CGG | + | chr4_3:7213384-7213403 | None:intergenic | 35.0% | |
| ! | ACTTGAGGATTTTCCAATTG+CGG | + | chr4_3:7213532-7213551 | None:intergenic | 35.0% |
| AAAACGATCTCAGGCTTTCT+TGG | + | chr4_3:7212964-7212983 | None:intergenic | 40.0% | |
| ! | ATCGTTTTCATTGCTCCAAC+TGG | - | chr4_3:7212976-7212995 | Msa0627170:CDS | 40.0% |
| !! | GATTCCCAGAATGTTGATTC+AGG | + | chr4_3:7213038-7213057 | None:intergenic | 40.0% |
| AAGGCGATCAACAAGGATTA+GGG | - | chr4_3:7213098-7213117 | Msa0627170:intron | 40.0% | |
| AAACGTAGTCGGAAATCATC+TGG | - | chr4_3:7213168-7213187 | Msa0627170:intron | 40.0% | |
| TGGTTCAAAGAAGGATGACA+AGG | - | chr4_3:7213188-7213207 | Msa0627170:CDS | 40.0% | |
| ! | TTTTCCTTGGCCTCATCTAA+AGG | + | chr4_3:7213231-7213250 | None:intergenic | 40.0% |
| TTTAGATGAGGCCAAGGAAA+AGG | - | chr4_3:7213230-7213249 | Msa0627170:CDS | 40.0% | |
| TTAGATGAGGCCAAGGAAAA+GGG | - | chr4_3:7213231-7213250 | Msa0627170:CDS | 40.0% | |
| ! | AGAAGAGTTACCCTTTTCCT+TGG | + | chr4_3:7213244-7213263 | None:intergenic | 40.0% |
| GAAAAAACCGCATCTGGAAA+AGG | - | chr4_3:7213426-7213445 | Msa0627170:CDS | 40.0% | |
| AGACACTTCTATGACTGAAC+TGG | - | chr4_3:7213459-7213478 | Msa0627170:CDS | 40.0% | |
| GCAATTGGAAAATCCTCAAG+TGG | - | chr4_3:7213531-7213550 | Msa0627170:CDS | 40.0% | |
| GGAGCAATGAAAACGATCTC+AGG | + | chr4_3:7212973-7212992 | None:intergenic | 45.0% | |
| GAACCTATCTCTTCTCCAGT+TGG | + | chr4_3:7212994-7213013 | None:intergenic | 45.0% | |
| TCAGAGTTTGATTGGGGAAC+CGG | - | chr4_3:7213066-7213085 | Msa0627170:intron | 45.0% | |
| CTAATCCTTGTTGATCGCCT+TGG | + | chr4_3:7213099-7213118 | None:intergenic | 45.0% | |
| CAAGGCGATCAACAAGGATT+AGG | - | chr4_3:7213097-7213116 | Msa0627170:intron | 45.0% | |
| AGCCTTCGAAGAAACGTAGT+CGG | - | chr4_3:7213157-7213176 | Msa0627170:intron | 45.0% | |
| TTCCGACTACGTTTCTTCGA+AGG | + | chr4_3:7213162-7213181 | None:intergenic | 45.0% | |
| ATCTCCTTTAGATGAGGCCA+AGG | - | chr4_3:7213224-7213243 | Msa0627170:CDS | 45.0% | |
| ATCGACGTGTCTTCGACTTA+AGG | + | chr4_3:7213354-7213373 | None:intergenic | 45.0% | |
| TTAAGTCGAAGACACGTCGA+TGG | - | chr4_3:7213353-7213372 | Msa0627170:CDS | 45.0% | |
| !!! | TCCAGATGCGGTTTTTTCAG+CGG | + | chr4_3:7213424-7213443 | None:intergenic | 45.0% |
| ! | ACTTGAGCCTTTTCCAGATG+CGG | + | chr4_3:7213436-7213455 | None:intergenic | 45.0% |
| ATCAACGTGTCTTCCACTTG+AGG | + | chr4_3:7213547-7213566 | None:intergenic | 45.0% | |
| TCAAGTGGAAGACACGTTGA+TGG | - | chr4_3:7213546-7213565 | Msa0627170:CDS | 45.0% | |
| GCTCCAACTGGAGAAGAGAT+AGG | - | chr4_3:7212988-7213007 | Msa0627170:CDS | 50.0% | |
| AGATGCCAAGGCGATCAACA+AGG | - | chr4_3:7213091-7213110 | Msa0627170:intron | 50.0% | |
| !! | TCCTCAGCATTGGCATCACT+GGG | + | chr4_3:7213285-7213304 | None:intergenic | 50.0% |
| !! | TTCCTCAGCATTGGCATCAC+TGG | + | chr4_3:7213286-7213305 | None:intergenic | 50.0% |
| GCATCTGGAAAAGGCTCAAG+TGG | - | chr4_3:7213435-7213454 | Msa0627170:CDS | 50.0% | |
| TGTCGCTGAAGTTCCGCAAT+TGG | - | chr4_3:7213516-7213535 | Msa0627170:CDS | 50.0% | |
| !! | ACGTTGATGGCAGAACCAAC+AGG | - | chr4_3:7213559-7213578 | Msa0627170:CDS | 50.0% |
| !! | CGTTGATGGCAGAACCAACA+GGG | - | chr4_3:7213560-7213579 | Msa0627170:CDS | 50.0% |
| !!! | TGCGGGTAGTGGGGTTGTTT+TGG | + | chr4_3:7213130-7213149 | None:intergenic | 55.0% |
| TTCGAAGGCTCAGCTTGTGC+GGG | + | chr4_3:7213147-7213166 | None:intergenic | 55.0% | |
| CTTCGAAGGCTCAGCTTGTG+CGG | + | chr4_3:7213148-7213167 | None:intergenic | 55.0% | |
| TCCCAGTGATGCCAATGCTG+AGG | - | chr4_3:7213281-7213300 | Msa0627170:CDS | 55.0% | |
| AGACACGTCGATGGCAGAAC+CGG | - | chr4_3:7213362-7213381 | Msa0627170:CDS | 55.0% | |
| GCCGCTGAAAAAACCGCATC+TGG | - | chr4_3:7213420-7213439 | Msa0627170:CDS | 55.0% | |
| TGATCGCCTTGGCATCTCGC+CGG | + | chr4_3:7213088-7213107 | None:intergenic | 60.0% | |
| CTCAGCTTGTGCGGGTAGTG+GGG | + | chr4_3:7213139-7213158 | None:intergenic | 60.0% | |
| GCTCAGCTTGTGCGGGTAGT+GGG | + | chr4_3:7213140-7213159 | None:intergenic | 60.0% | |
| GGCTCAGCTTGTGCGGGTAG+TGG | + | chr4_3:7213141-7213160 | None:intergenic | 65.0% | |
| GGGGAACCGGCGAGATGCCA+AGG | - | chr4_3:7213079-7213098 | Msa0627170:intron | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 7212931 | 7213591 | 7212931 | ID=Msa0627170;Name=Msa0627170 |
| chr4_3 | mRNA | 7212931 | 7213591 | 7212931 | ID=Msa0627170-mRNA-1;Parent=Msa0627170;Name=Msa0627170-mRNA-1;_AED=0.47;_eAED=0.47;_QI=0|0|0|1|1|1|2|0|182 |
| chr4_3 | exon | 7213187 | 7213591 | 7213187 | ID=Msa0627170-mRNA-1:exon:2139;Parent=Msa0627170-mRNA-1 |
| chr4_3 | exon | 7212931 | 7213074 | 7212931 | ID=Msa0627170-mRNA-1:exon:2138;Parent=Msa0627170-mRNA-1 |
| chr4_3 | CDS | 7213187 | 7213591 | 7213187 | ID=Msa0627170-mRNA-1:cds;Parent=Msa0627170-mRNA-1 |
| chr4_3 | CDS | 7212931 | 7213074 | 7212931 | ID=Msa0627170-mRNA-1:cds;Parent=Msa0627170-mRNA-1 |
| Gene Sequence |
| Protein sequence |
