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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0627160 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0627160 | 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 |
| Msa0627160 | Msa0627170 | 0.955779 | 1.377760e-113 | -8.615850e-47 |
| Msa0627160 | Msa0627180 | 0.951174 | 3.558025e-109 | -8.615850e-47 |
| Msa0627160 | Msa0627190 | 0.965216 | 2.562409e-124 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0627160 | MtrunA17_Chr4g0003291 | 67.273 | 220 | 29 | 4 | 1 | 182 | 1 | 215 | 6.42e-82 | 246 |
| Msa0627160 | MtrunA17_Chr4g0063941 | 62.136 | 103 | 35 | 3 | 2 | 102 | 37 | 137 | 1.56e-31 | 116 |
| Msa0627160 | MtrunA17_Chr6g0476191 | 50.980 | 102 | 42 | 3 | 2 | 96 | 36 | 136 | 4.97e-25 | 95.5 |
| Msa0627160 | MtrunA17_Chr6g0476211 | 48.571 | 105 | 46 | 3 | 2 | 99 | 36 | 139 | 1.32e-24 | 93.2 |
| Msa0627160 | MtrunA17_Chr6g0476221 | 50.980 | 102 | 42 | 3 | 2 | 96 | 36 | 136 | 1.47e-24 | 94.4 |
| Msa0627160 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0627160 | AT1G15340.1 | 61.111 | 90 | 32 | 3 | 3 | 91 | 22 | 109 | 2.96e-28 | 108 |
| Msa0627160 | AT3G15790.1 | 56.667 | 90 | 37 | 2 | 3 | 91 | 22 | 110 | 7.36e-26 | 100 |
| Msa0627160 | AT3G15790.3 | 56.667 | 90 | 37 | 2 | 3 | 91 | 22 | 110 | 7.36e-26 | 100 |
| Msa0627160 | AT3G15790.2 | 56.667 | 90 | 37 | 2 | 3 | 91 | 22 | 110 | 7.36e-26 | 100 |
Find 50 sgRNAs with CRISPR-Local
Find 61 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTACTTCCTCAATTGTCTTT+TGG | 0.222954 | 4_3:+7211086 | None:intergenic |
| AAAACGATCTCAGGCTTTCT+TGG | 0.259149 | 4_3:+7211138 | None:intergenic |
| TTCCTCAGCATTGGCATCAC+TGG | 0.334487 | 4_3:+7210816 | None:intergenic |
| CTGACATATCAGAGTTTGAT+TGG | 0.338629 | 4_3:-7211041 | Msa0627160:CDS |
| AAGTACCTGAATCAACATTC+TGG | 0.339044 | 4_3:-7211069 | Msa0627160:CDS |
| GATTCCCAGAATGTTGATTC+AGG | 0.339175 | 4_3:+7211064 | None:intergenic |
| CAAGGCGATCAACAAGGATT+AGG | 0.339385 | 4_3:-7211002 | Msa0627160:CDS |
| TGCGGGTAGTGGGGTTGTTT+TGG | 0.343609 | 4_3:+7210972 | None:intergenic |
| GGCTCAGCTTGTGCGGGTAG+TGG | 0.359634 | 4_3:+7210961 | None:intergenic |
| TCAGAGTTTGATTGGGGAAC+CGG | 0.377737 | 4_3:-7211033 | Msa0627160:CDS |
| GCTCAGCTTGTGCGGGTAGT+GGG | 0.392438 | 4_3:+7210962 | None:intergenic |
| TGTCGCTGAAGTTCCGCAAT+TGG | 0.398489 | 4_3:-7210583 | Msa0627160:CDS |
| AAGGCGATCAACAAGGATTA+GGG | 0.431961 | 4_3:-7211001 | Msa0627160:CDS |
| TTTAGATGAGGCCAAGGAAA+AGG | 0.437553 | 4_3:-7210869 | Msa0627160:CDS |
| TGACATATCAGAGTTTGATT+GGG | 0.437668 | 4_3:-7211040 | Msa0627160:CDS |
| CTAATCCTTGTTGATCGCCT+TGG | 0.440946 | 4_3:+7211003 | None:intergenic |
| AAACGTAGTCGGAAATCATC+TGG | 0.461272 | 4_3:-7210931 | Msa0627160:CDS |
| GAACCTATCTCTTCTCCAGT+TGG | 0.465821 | 4_3:+7211108 | None:intergenic |
| TTGCTTAATTTCCTCAGCAT+TGG | 0.472724 | 4_3:+7210807 | None:intergenic |
| CAATCAAACTCTGATATGTC+AGG | 0.483410 | 4_3:+7211042 | None:intergenic |
| ACGTTGATGGCAGAACCAAC+AGG | 0.490032 | 4_3:-7210540 | Msa0627160:CDS |
| TCCTCAGCATTGGCATCACT+GGG | 0.492506 | 4_3:+7210817 | None:intergenic |
| TTCGAAGGCTCAGCTTGTGC+GGG | 0.494527 | 4_3:+7210955 | None:intergenic |
| AGTACCTGAATCAACATTCT+GGG | 0.500963 | 4_3:-7211068 | Msa0627160:CDS |
| CTTCGAAGGCTCAGCTTGTG+CGG | 0.503235 | 4_3:+7210954 | None:intergenic |
| GGAGCAATGAAAACGATCTC+AGG | 0.509160 | 4_3:+7211129 | None:intergenic |
| TCAAGTGGAAGACACGTTGA+TGG | 0.510828 | 4_3:-7210553 | Msa0627160:CDS |
| AGACACTTCTATGACTGAAC+TGG | 0.511273 | 4_3:-7210640 | Msa0627160:CDS |
| GAAATCATCTGGTTCAAAGA+AGG | 0.513211 | 4_3:-7210920 | Msa0627160:CDS |
| TTAGATGAGGCCAAGGAAAA+GGG | 0.513798 | 4_3:-7210868 | Msa0627160:CDS |
| GCTCCAACTGGAGAAGAGAT+AGG | 0.514124 | 4_3:-7211111 | Msa0627160:CDS |
| TTCCGACTACGTTTCTTCGA+AGG | 0.515566 | 4_3:+7210940 | None:intergenic |
| CAGTTCTTCACTAAGAAGAA+AGG | 0.540054 | 4_3:-7211165 | Msa0627160:CDS |
| TGATCGCCTTGGCATCTCGC+CGG | 0.540439 | 4_3:+7211014 | None:intergenic |
| GGGGAACCGGCGAGATGCCA+AGG | 0.542959 | 4_3:-7211020 | Msa0627160:CDS |
| CTCAGCTTGTGCGGGTAGTG+GGG | 0.553139 | 4_3:+7210963 | None:intergenic |
| ATCAACGTGTCTTCCACTTG+AGG | 0.566400 | 4_3:+7210555 | None:intergenic |
| ATCTCCTTTAGATGAGGCCA+AGG | 0.569072 | 4_3:-7210875 | Msa0627160:CDS |
| GCATCTGGAAAAGGCTCAAG+TGG | 0.573495 | 4_3:-7210664 | Msa0627160:intron |
| GACATATCAGAGTTTGATTG+GGG | 0.603872 | 4_3:-7211039 | Msa0627160:CDS |
| GGAAATTAAGCAAAGTAATG+CGG | 0.612687 | 4_3:-7210797 | Msa0627160:CDS |
| AACTGAATCTCCTTTAGATG+AGG | 0.620219 | 4_3:-7210881 | Msa0627160:CDS |
| GCAATTGGAAAATCCTCAAG+TGG | 0.631644 | 4_3:-7210568 | Msa0627160:CDS |
| ATTAAGCAAAGTAATGCGGA+AGG | 0.636526 | 4_3:-7210793 | Msa0627160:CDS |
| AGATGCCAAGGCGATCAACA+AGG | 0.640387 | 4_3:-7211008 | Msa0627160:CDS |
| CGTTGATGGCAGAACCAACA+GGG | 0.660262 | 4_3:-7210539 | Msa0627160:CDS |
| AGCCTTCGAAGAAACGTAGT+CGG | 0.661202 | 4_3:-7210942 | Msa0627160:CDS |
| TAGGTTCCAAAAGACAATTG+AGG | 0.662321 | 4_3:-7211092 | Msa0627160:CDS |
| TGGTTCAAAGAAGGATGACA+AGG | 0.662397 | 4_3:-7210911 | Msa0627160:CDS |
| TCCCAGTGATGCCAATGCTG+AGG | 0.700115 | 4_3:-7210818 | Msa0627160:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGACATATCAGAGTTTGATT+GGG | - | chr4_3:7210658-7210677 | Msa0627160:intron | 30.0% | |
| GGAAATTAAGCAAAGTAATG+CGG | - | chr4_3:7210901-7210920 | Msa0627160:CDS | 30.0% | |
| TGCACAAAAATTCGTATTGT+CGG | + | chr4_3:7210983-7211002 | None:intergenic | 30.0% | |
| CAGTTCTTCACTAAGAAGAA+AGG | - | chr4_3:7210533-7210552 | Msa0627160:CDS | 35.0% | |
| TAGGTTCCAAAAGACAATTG+AGG | - | chr4_3:7210606-7210625 | Msa0627160:CDS | 35.0% | |
| ! | GTACTTCCTCAATTGTCTTT+TGG | + | chr4_3:7210615-7210634 | None:intergenic | 35.0% |
| AAGTACCTGAATCAACATTC+TGG | - | chr4_3:7210629-7210648 | Msa0627160:CDS | 35.0% | |
| AGTACCTGAATCAACATTCT+GGG | - | chr4_3:7210630-7210649 | Msa0627160:CDS | 35.0% | |
| CAATCAAACTCTGATATGTC+AGG | + | chr4_3:7210659-7210678 | None:intergenic | 35.0% | |
| CTGACATATCAGAGTTTGAT+TGG | - | chr4_3:7210657-7210676 | Msa0627160:intron | 35.0% | |
| GACATATCAGAGTTTGATTG+GGG | - | chr4_3:7210659-7210678 | Msa0627160:intron | 35.0% | |
| ! | GAAATCATCTGGTTCAAAGA+AGG | - | chr4_3:7210778-7210797 | Msa0627160:intron | 35.0% |
| AACTGAATCTCCTTTAGATG+AGG | - | chr4_3:7210817-7210836 | Msa0627160:CDS | 35.0% | |
| TTGCTTAATTTCCTCAGCAT+TGG | + | chr4_3:7210894-7210913 | None:intergenic | 35.0% | |
| ATTAAGCAAAGTAATGCGGA+AGG | - | chr4_3:7210905-7210924 | Msa0627160:CDS | 35.0% | |
| ! | ACTTGAGGATTTTCCAATTG+CGG | + | chr4_3:7211131-7211150 | None:intergenic | 35.0% |
| AAAACGATCTCAGGCTTTCT+TGG | + | chr4_3:7210563-7210582 | None:intergenic | 40.0% | |
| ! | ATCGTTTTCATTGCTCCAAC+TGG | - | chr4_3:7210575-7210594 | Msa0627160:CDS | 40.0% |
| !! | GATTCCCAGAATGTTGATTC+AGG | + | chr4_3:7210637-7210656 | None:intergenic | 40.0% |
| AAGGCGATCAACAAGGATTA+GGG | - | chr4_3:7210697-7210716 | Msa0627160:intron | 40.0% | |
| AAACGTAGTCGGAAATCATC+TGG | - | chr4_3:7210767-7210786 | Msa0627160:intron | 40.0% | |
| TGGTTCAAAGAAGGATGACA+AGG | - | chr4_3:7210787-7210806 | Msa0627160:CDS | 40.0% | |
| ! | TTTTCCTTGGCCTCATCTAA+AGG | + | chr4_3:7210830-7210849 | None:intergenic | 40.0% |
| TTTAGATGAGGCCAAGGAAA+AGG | - | chr4_3:7210829-7210848 | Msa0627160:CDS | 40.0% | |
| TTAGATGAGGCCAAGGAAAA+GGG | - | chr4_3:7210830-7210849 | Msa0627160:CDS | 40.0% | |
| ! | AGAAGAGTTACCCTTTTCCT+TGG | + | chr4_3:7210843-7210862 | None:intergenic | 40.0% |
| GAAAAAACCGCATCTGGAAA+AGG | - | chr4_3:7211025-7211044 | Msa0627160:CDS | 40.0% | |
| AGACACTTCTATGACTGAAC+TGG | - | chr4_3:7211058-7211077 | Msa0627160:CDS | 40.0% | |
| GCAATTGGAAAATCCTCAAG+TGG | - | chr4_3:7211130-7211149 | Msa0627160:CDS | 40.0% | |
| GGAGCAATGAAAACGATCTC+AGG | + | chr4_3:7210572-7210591 | None:intergenic | 45.0% | |
| GAACCTATCTCTTCTCCAGT+TGG | + | chr4_3:7210593-7210612 | None:intergenic | 45.0% | |
| TCAGAGTTTGATTGGGGAAC+CGG | - | chr4_3:7210665-7210684 | Msa0627160:intron | 45.0% | |
| CTAATCCTTGTTGATCGCCT+TGG | + | chr4_3:7210698-7210717 | None:intergenic | 45.0% | |
| CAAGGCGATCAACAAGGATT+AGG | - | chr4_3:7210696-7210715 | Msa0627160:intron | 45.0% | |
| AGCCTTCGAAGAAACGTAGT+CGG | - | chr4_3:7210756-7210775 | Msa0627160:intron | 45.0% | |
| TTCCGACTACGTTTCTTCGA+AGG | + | chr4_3:7210761-7210780 | None:intergenic | 45.0% | |
| ATCTCCTTTAGATGAGGCCA+AGG | - | chr4_3:7210823-7210842 | Msa0627160:CDS | 45.0% | |
| ATCGACGTGTCTTCGACTTA+AGG | + | chr4_3:7210953-7210972 | None:intergenic | 45.0% | |
| TTAAGTCGAAGACACGTCGA+TGG | - | chr4_3:7210952-7210971 | Msa0627160:CDS | 45.0% | |
| !!! | TCCAGATGCGGTTTTTTCAG+CGG | + | chr4_3:7211023-7211042 | None:intergenic | 45.0% |
| ! | ACTTGAGCCTTTTCCAGATG+CGG | + | chr4_3:7211035-7211054 | None:intergenic | 45.0% |
| ATCAACGTGTCTTCCACTTG+AGG | + | chr4_3:7211146-7211165 | None:intergenic | 45.0% | |
| TCAAGTGGAAGACACGTTGA+TGG | - | chr4_3:7211145-7211164 | Msa0627160:CDS | 45.0% | |
| GCTCCAACTGGAGAAGAGAT+AGG | - | chr4_3:7210587-7210606 | Msa0627160:CDS | 50.0% | |
| AGATGCCAAGGCGATCAACA+AGG | - | chr4_3:7210690-7210709 | Msa0627160:intron | 50.0% | |
| !! | TCCTCAGCATTGGCATCACT+GGG | + | chr4_3:7210884-7210903 | None:intergenic | 50.0% |
| !! | TTCCTCAGCATTGGCATCAC+TGG | + | chr4_3:7210885-7210904 | None:intergenic | 50.0% |
| GCATCTGGAAAAGGCTCAAG+TGG | - | chr4_3:7211034-7211053 | Msa0627160:CDS | 50.0% | |
| TGTCGCTGAAGTTCCGCAAT+TGG | - | chr4_3:7211115-7211134 | Msa0627160:CDS | 50.0% | |
| !! | ACGTTGATGGCAGAACCAAC+AGG | - | chr4_3:7211158-7211177 | Msa0627160:CDS | 50.0% |
| !! | CGTTGATGGCAGAACCAACA+GGG | - | chr4_3:7211159-7211178 | Msa0627160:CDS | 50.0% |
| !!! | TGCGGGTAGTGGGGTTGTTT+TGG | + | chr4_3:7210729-7210748 | None:intergenic | 55.0% |
| TTCGAAGGCTCAGCTTGTGC+GGG | + | chr4_3:7210746-7210765 | None:intergenic | 55.0% | |
| CTTCGAAGGCTCAGCTTGTG+CGG | + | chr4_3:7210747-7210766 | None:intergenic | 55.0% | |
| TCCCAGTGATGCCAATGCTG+AGG | - | chr4_3:7210880-7210899 | Msa0627160:CDS | 55.0% | |
| GCCGCTGAAAAAACCGCATC+TGG | - | chr4_3:7211019-7211038 | Msa0627160:CDS | 55.0% | |
| TGATCGCCTTGGCATCTCGC+CGG | + | chr4_3:7210687-7210706 | None:intergenic | 60.0% | |
| CTCAGCTTGTGCGGGTAGTG+GGG | + | chr4_3:7210738-7210757 | None:intergenic | 60.0% | |
| GCTCAGCTTGTGCGGGTAGT+GGG | + | chr4_3:7210739-7210758 | None:intergenic | 60.0% | |
| GGCTCAGCTTGTGCGGGTAG+TGG | + | chr4_3:7210740-7210759 | None:intergenic | 65.0% | |
| GGGGAACCGGCGAGATGCCA+AGG | - | chr4_3:7210678-7210697 | Msa0627160:intron | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 7210530 | 7211190 | 7210530 | ID=Msa0627160;Name=Msa0627160 |
| chr4_3 | mRNA | 7210530 | 7211190 | 7210530 | ID=Msa0627160-mRNA-1;Parent=Msa0627160;Name=Msa0627160-mRNA-1;_AED=0.47;_eAED=0.47;_QI=0|0|0|1|1|1|2|0|182 |
| chr4_3 | exon | 7210786 | 7211190 | 7210786 | ID=Msa0627160-mRNA-1:exon:2137;Parent=Msa0627160-mRNA-1 |
| chr4_3 | exon | 7210530 | 7210673 | 7210530 | ID=Msa0627160-mRNA-1:exon:2136;Parent=Msa0627160-mRNA-1 |
| chr4_3 | CDS | 7210786 | 7211190 | 7210786 | ID=Msa0627160-mRNA-1:cds;Parent=Msa0627160-mRNA-1 |
| chr4_3 | CDS | 7210530 | 7210673 | 7210530 | ID=Msa0627160-mRNA-1:cds;Parent=Msa0627160-mRNA-1 |
| Gene Sequence |
| Protein sequence |
