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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0627150 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0627150 | 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0627150 | Msa0627160 | 0.896403 | 3.815347e-76 | -8.615850e-47 |
| Msa0627150 | Msa0627170 | 0.909279 | 6.789619e-82 | -8.615850e-47 |
| Msa0627150 | Msa0627180 | 0.905552 | 3.805300e-80 | -8.615850e-47 |
| Msa0627150 | Msa0627190 | 0.893373 | 6.677900e-75 | -8.615850e-47 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0627150 | MtrunA17_Chr4g0003291 | 67.273 | 220 | 29 | 4 | 1 | 182 | 1 | 215 | 6.42e-82 | 246 |
| Msa0627150 | MtrunA17_Chr4g0063941 | 62.136 | 103 | 35 | 3 | 2 | 102 | 37 | 137 | 1.56e-31 | 116 |
| Msa0627150 | MtrunA17_Chr6g0476191 | 50.980 | 102 | 42 | 3 | 2 | 96 | 36 | 136 | 4.97e-25 | 95.5 |
| Msa0627150 | MtrunA17_Chr6g0476211 | 48.571 | 105 | 46 | 3 | 2 | 99 | 36 | 139 | 1.32e-24 | 93.2 |
| Msa0627150 | MtrunA17_Chr6g0476221 | 50.980 | 102 | 42 | 3 | 2 | 96 | 36 | 136 | 1.47e-24 | 94.4 |
| Msa0627150 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0627150 | AT1G15340.1 | 61.111 | 90 | 32 | 3 | 3 | 91 | 22 | 109 | 2.96e-28 | 108 |
| Msa0627150 | AT3G15790.1 | 56.667 | 90 | 37 | 2 | 3 | 91 | 22 | 110 | 7.36e-26 | 100 |
| Msa0627150 | AT3G15790.3 | 56.667 | 90 | 37 | 2 | 3 | 91 | 22 | 110 | 7.36e-26 | 100 |
| Msa0627150 | 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:+7208685 | None:intergenic |
| AAAACGATCTCAGGCTTTCT+TGG | 0.259149 | 4_3:+7208737 | None:intergenic |
| TTCCTCAGCATTGGCATCAC+TGG | 0.334487 | 4_3:+7208415 | None:intergenic |
| CTGACATATCAGAGTTTGAT+TGG | 0.338629 | 4_3:-7208640 | Msa0627150:CDS |
| AAGTACCTGAATCAACATTC+TGG | 0.339044 | 4_3:-7208668 | Msa0627150:CDS |
| GATTCCCAGAATGTTGATTC+AGG | 0.339175 | 4_3:+7208663 | None:intergenic |
| CAAGGCGATCAACAAGGATT+AGG | 0.339385 | 4_3:-7208601 | Msa0627150:CDS |
| TGCGGGTAGTGGGGTTGTTT+TGG | 0.343609 | 4_3:+7208571 | None:intergenic |
| GGCTCAGCTTGTGCGGGTAG+TGG | 0.359634 | 4_3:+7208560 | None:intergenic |
| TCAGAGTTTGATTGGGGAAC+CGG | 0.377737 | 4_3:-7208632 | Msa0627150:CDS |
| GCTCAGCTTGTGCGGGTAGT+GGG | 0.392438 | 4_3:+7208561 | None:intergenic |
| TGTCGCTGAAGTTCCGCAAT+TGG | 0.398489 | 4_3:-7208182 | Msa0627150:CDS |
| AAGGCGATCAACAAGGATTA+GGG | 0.431961 | 4_3:-7208600 | Msa0627150:CDS |
| TTTAGATGAGGCCAAGGAAA+AGG | 0.437553 | 4_3:-7208468 | Msa0627150:CDS |
| TGACATATCAGAGTTTGATT+GGG | 0.437668 | 4_3:-7208639 | Msa0627150:CDS |
| CTAATCCTTGTTGATCGCCT+TGG | 0.440946 | 4_3:+7208602 | None:intergenic |
| AAACGTAGTCGGAAATCATC+TGG | 0.461272 | 4_3:-7208530 | Msa0627150:CDS |
| GAACCTATCTCTTCTCCAGT+TGG | 0.465821 | 4_3:+7208707 | None:intergenic |
| TTGCTTAATTTCCTCAGCAT+TGG | 0.472724 | 4_3:+7208406 | None:intergenic |
| CAATCAAACTCTGATATGTC+AGG | 0.483410 | 4_3:+7208641 | None:intergenic |
| ACGTTGATGGCAGAACCAAC+AGG | 0.490032 | 4_3:-7208139 | Msa0627150:CDS |
| TCCTCAGCATTGGCATCACT+GGG | 0.492506 | 4_3:+7208416 | None:intergenic |
| TTCGAAGGCTCAGCTTGTGC+GGG | 0.494527 | 4_3:+7208554 | None:intergenic |
| AGTACCTGAATCAACATTCT+GGG | 0.500963 | 4_3:-7208667 | Msa0627150:CDS |
| CTTCGAAGGCTCAGCTTGTG+CGG | 0.503235 | 4_3:+7208553 | None:intergenic |
| GGAGCAATGAAAACGATCTC+AGG | 0.509160 | 4_3:+7208728 | None:intergenic |
| TCAAGTGGAAGACACGTTGA+TGG | 0.510828 | 4_3:-7208152 | Msa0627150:CDS |
| AGACACTTCTATGACTGAAC+TGG | 0.511273 | 4_3:-7208239 | Msa0627150:CDS |
| GAAATCATCTGGTTCAAAGA+AGG | 0.513211 | 4_3:-7208519 | Msa0627150:CDS |
| TTAGATGAGGCCAAGGAAAA+GGG | 0.513798 | 4_3:-7208467 | Msa0627150:CDS |
| GCTCCAACTGGAGAAGAGAT+AGG | 0.514124 | 4_3:-7208710 | Msa0627150:CDS |
| TTCCGACTACGTTTCTTCGA+AGG | 0.515566 | 4_3:+7208539 | None:intergenic |
| CAGTTCTTCACTAAGAAGAA+AGG | 0.540054 | 4_3:-7208764 | Msa0627150:CDS |
| TGATCGCCTTGGCATCTCGC+CGG | 0.540439 | 4_3:+7208613 | None:intergenic |
| GGGGAACCGGCGAGATGCCA+AGG | 0.542959 | 4_3:-7208619 | Msa0627150:CDS |
| CTCAGCTTGTGCGGGTAGTG+GGG | 0.553139 | 4_3:+7208562 | None:intergenic |
| ATCAACGTGTCTTCCACTTG+AGG | 0.566400 | 4_3:+7208154 | None:intergenic |
| ATCTCCTTTAGATGAGGCCA+AGG | 0.569072 | 4_3:-7208474 | Msa0627150:CDS |
| GCATCTGGAAAAGGCTCAAG+TGG | 0.573495 | 4_3:-7208263 | Msa0627150:intron |
| GACATATCAGAGTTTGATTG+GGG | 0.603872 | 4_3:-7208638 | Msa0627150:CDS |
| GGAAATTAAGCAAAGTAATG+CGG | 0.612687 | 4_3:-7208396 | Msa0627150:CDS |
| AACTGAATCTCCTTTAGATG+AGG | 0.620219 | 4_3:-7208480 | Msa0627150:CDS |
| GCAATTGGAAAATCCTCAAG+TGG | 0.631644 | 4_3:-7208167 | Msa0627150:CDS |
| ATTAAGCAAAGTAATGCGGA+AGG | 0.636526 | 4_3:-7208392 | Msa0627150:CDS |
| AGATGCCAAGGCGATCAACA+AGG | 0.640387 | 4_3:-7208607 | Msa0627150:CDS |
| CGTTGATGGCAGAACCAACA+GGG | 0.660262 | 4_3:-7208138 | Msa0627150:CDS |
| AGCCTTCGAAGAAACGTAGT+CGG | 0.661202 | 4_3:-7208541 | Msa0627150:CDS |
| TAGGTTCCAAAAGACAATTG+AGG | 0.662321 | 4_3:-7208691 | Msa0627150:CDS |
| TGGTTCAAAGAAGGATGACA+AGG | 0.662397 | 4_3:-7208510 | Msa0627150:CDS |
| TCCCAGTGATGCCAATGCTG+AGG | 0.700115 | 4_3:-7208417 | Msa0627150:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGACATATCAGAGTTTGATT+GGG | - | chr4_3:7208257-7208276 | Msa0627150:intron | 30.0% | |
| GGAAATTAAGCAAAGTAATG+CGG | - | chr4_3:7208500-7208519 | Msa0627150:CDS | 30.0% | |
| CAGTTCTTCACTAAGAAGAA+AGG | - | chr4_3:7208132-7208151 | Msa0627150:CDS | 35.0% | |
| TAGGTTCCAAAAGACAATTG+AGG | - | chr4_3:7208205-7208224 | Msa0627150:CDS | 35.0% | |
| ! | GTACTTCCTCAATTGTCTTT+TGG | + | chr4_3:7208214-7208233 | None:intergenic | 35.0% |
| AAGTACCTGAATCAACATTC+TGG | - | chr4_3:7208228-7208247 | Msa0627150:CDS | 35.0% | |
| AGTACCTGAATCAACATTCT+GGG | - | chr4_3:7208229-7208248 | Msa0627150:CDS | 35.0% | |
| CAATCAAACTCTGATATGTC+AGG | + | chr4_3:7208258-7208277 | None:intergenic | 35.0% | |
| CTGACATATCAGAGTTTGAT+TGG | - | chr4_3:7208256-7208275 | Msa0627150:intron | 35.0% | |
| GACATATCAGAGTTTGATTG+GGG | - | chr4_3:7208258-7208277 | Msa0627150:intron | 35.0% | |
| ! | GAAATCATCTGGTTCAAAGA+AGG | - | chr4_3:7208377-7208396 | Msa0627150:intron | 35.0% |
| AACTGAATCTCCTTTAGATG+AGG | - | chr4_3:7208416-7208435 | Msa0627150:CDS | 35.0% | |
| TTGCTTAATTTCCTCAGCAT+TGG | + | chr4_3:7208493-7208512 | None:intergenic | 35.0% | |
| ATTAAGCAAAGTAATGCGGA+AGG | - | chr4_3:7208504-7208523 | Msa0627150:CDS | 35.0% | |
| TGCACAAAAATTCGTATTGC+CGG | + | chr4_3:7208582-7208601 | None:intergenic | 35.0% | |
| ! | ACTTGAGGATTTTCCAATTG+CGG | + | chr4_3:7208730-7208749 | None:intergenic | 35.0% |
| AAAACGATCTCAGGCTTTCT+TGG | + | chr4_3:7208162-7208181 | None:intergenic | 40.0% | |
| ! | ATCGTTTTCATTGCTCCAAC+TGG | - | chr4_3:7208174-7208193 | Msa0627150:CDS | 40.0% |
| !! | GATTCCCAGAATGTTGATTC+AGG | + | chr4_3:7208236-7208255 | None:intergenic | 40.0% |
| AAGGCGATCAACAAGGATTA+GGG | - | chr4_3:7208296-7208315 | Msa0627150:intron | 40.0% | |
| AAACGTAGTCGGAAATCATC+TGG | - | chr4_3:7208366-7208385 | Msa0627150:intron | 40.0% | |
| TGGTTCAAAGAAGGATGACA+AGG | - | chr4_3:7208386-7208405 | Msa0627150:CDS | 40.0% | |
| ! | TTTTCCTTGGCCTCATCTAA+AGG | + | chr4_3:7208429-7208448 | None:intergenic | 40.0% |
| TTTAGATGAGGCCAAGGAAA+AGG | - | chr4_3:7208428-7208447 | Msa0627150:CDS | 40.0% | |
| TTAGATGAGGCCAAGGAAAA+GGG | - | chr4_3:7208429-7208448 | Msa0627150:CDS | 40.0% | |
| ! | AGAAGAGTTACCCTTTTCCT+TGG | + | chr4_3:7208442-7208461 | None:intergenic | 40.0% |
| GAAAAAACCGCATCTGGAAA+AGG | - | chr4_3:7208624-7208643 | Msa0627150:CDS | 40.0% | |
| AGACACTTCTATGACTGAAC+TGG | - | chr4_3:7208657-7208676 | Msa0627150:CDS | 40.0% | |
| GCAATTGGAAAATCCTCAAG+TGG | - | chr4_3:7208729-7208748 | Msa0627150:CDS | 40.0% | |
| GGAGCAATGAAAACGATCTC+AGG | + | chr4_3:7208171-7208190 | None:intergenic | 45.0% | |
| GAACCTATCTCTTCTCCAGT+TGG | + | chr4_3:7208192-7208211 | None:intergenic | 45.0% | |
| TCAGAGTTTGATTGGGGAAC+CGG | - | chr4_3:7208264-7208283 | Msa0627150:intron | 45.0% | |
| CTAATCCTTGTTGATCGCCT+TGG | + | chr4_3:7208297-7208316 | None:intergenic | 45.0% | |
| CAAGGCGATCAACAAGGATT+AGG | - | chr4_3:7208295-7208314 | Msa0627150:intron | 45.0% | |
| AGCCTTCGAAGAAACGTAGT+CGG | - | chr4_3:7208355-7208374 | Msa0627150:intron | 45.0% | |
| TTCCGACTACGTTTCTTCGA+AGG | + | chr4_3:7208360-7208379 | None:intergenic | 45.0% | |
| ATCTCCTTTAGATGAGGCCA+AGG | - | chr4_3:7208422-7208441 | Msa0627150:CDS | 45.0% | |
| ATCGACGTGTCTTCGACTTA+AGG | + | chr4_3:7208552-7208571 | None:intergenic | 45.0% | |
| TTAAGTCGAAGACACGTCGA+TGG | - | chr4_3:7208551-7208570 | Msa0627150:CDS | 45.0% | |
| !!! | TCCAGATGCGGTTTTTTCAG+TGG | + | chr4_3:7208622-7208641 | None:intergenic | 45.0% |
| ! | ACTTGAGCCTTTTCCAGATG+CGG | + | chr4_3:7208634-7208653 | None:intergenic | 45.0% |
| ATCAACGTGTCTTCCACTTG+AGG | + | chr4_3:7208745-7208764 | None:intergenic | 45.0% | |
| TCAAGTGGAAGACACGTTGA+TGG | - | chr4_3:7208744-7208763 | Msa0627150:CDS | 45.0% | |
| GCTCCAACTGGAGAAGAGAT+AGG | - | chr4_3:7208186-7208205 | Msa0627150:CDS | 50.0% | |
| AGATGCCAAGGCGATCAACA+AGG | - | chr4_3:7208289-7208308 | Msa0627150:intron | 50.0% | |
| !! | TCCTCAGCATTGGCATCACT+GGG | + | chr4_3:7208483-7208502 | None:intergenic | 50.0% |
| !! | TTCCTCAGCATTGGCATCAC+TGG | + | chr4_3:7208484-7208503 | None:intergenic | 50.0% |
| GCCACTGAAAAAACCGCATC+TGG | - | chr4_3:7208618-7208637 | Msa0627150:CDS | 50.0% | |
| GCATCTGGAAAAGGCTCAAG+TGG | - | chr4_3:7208633-7208652 | Msa0627150:CDS | 50.0% | |
| TGTCGCTGAAGTTCCGCAAT+TGG | - | chr4_3:7208714-7208733 | Msa0627150:CDS | 50.0% | |
| !! | ACGTTGATGGCAGAACCAAC+AGG | - | chr4_3:7208757-7208776 | Msa0627150:CDS | 50.0% |
| !! | CGTTGATGGCAGAACCAACA+GGG | - | chr4_3:7208758-7208777 | Msa0627150:CDS | 50.0% |
| !!! | TGCGGGTAGTGGGGTTGTTT+TGG | + | chr4_3:7208328-7208347 | None:intergenic | 55.0% |
| TTCGAAGGCTCAGCTTGTGC+GGG | + | chr4_3:7208345-7208364 | None:intergenic | 55.0% | |
| CTTCGAAGGCTCAGCTTGTG+CGG | + | chr4_3:7208346-7208365 | None:intergenic | 55.0% | |
| TCCCAGTGATGCCAATGCTG+AGG | - | chr4_3:7208479-7208498 | Msa0627150:CDS | 55.0% | |
| AGACACGTCGATGGCAGAAC+CGG | - | chr4_3:7208560-7208579 | Msa0627150:CDS | 55.0% | |
| TGATCGCCTTGGCATCTCGC+CGG | + | chr4_3:7208286-7208305 | None:intergenic | 60.0% | |
| CTCAGCTTGTGCGGGTAGTG+GGG | + | chr4_3:7208337-7208356 | None:intergenic | 60.0% | |
| GCTCAGCTTGTGCGGGTAGT+GGG | + | chr4_3:7208338-7208357 | None:intergenic | 60.0% | |
| GGCTCAGCTTGTGCGGGTAG+TGG | + | chr4_3:7208339-7208358 | None:intergenic | 65.0% | |
| GGGGAACCGGCGAGATGCCA+AGG | - | chr4_3:7208277-7208296 | Msa0627150:intron | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 7208129 | 7208789 | 7208129 | ID=Msa0627150;Name=Msa0627150 |
| chr4_3 | mRNA | 7208129 | 7208789 | 7208129 | ID=Msa0627150-mRNA-1;Parent=Msa0627150;Name=Msa0627150-mRNA-1;_AED=0.47;_eAED=0.47;_QI=0|0|0|1|1|1|2|0|182 |
| chr4_3 | exon | 7208385 | 7208789 | 7208385 | ID=Msa0627150-mRNA-1:exon:2135;Parent=Msa0627150-mRNA-1 |
| chr4_3 | exon | 7208129 | 7208272 | 7208129 | ID=Msa0627150-mRNA-1:exon:2134;Parent=Msa0627150-mRNA-1 |
| chr4_3 | CDS | 7208385 | 7208789 | 7208385 | ID=Msa0627150-mRNA-1:cds;Parent=Msa0627150-mRNA-1 |
| chr4_3 | CDS | 7208129 | 7208272 | 7208129 | ID=Msa0627150-mRNA-1:cds;Parent=Msa0627150-mRNA-1 |
| Gene Sequence |
| Protein sequence |
