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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0496670 | XP_003612033.1 | 61.404 | 171 | 14 | 3 | 1 | 119 | 1 | 171 | 4.74e-54 | 184 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0496670 | sp|Q8GVE5|TLP2_ARATH | 43.902 | 164 | 47 | 3 | 1 | 119 | 1 | 164 | 7.17e-36 | 129 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0496670 | G7KEX1 | 61.404 | 171 | 14 | 3 | 1 | 119 | 1 | 171 | 2.26e-54 | 184 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0496670 | TF | TUB |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0496670 | MtrunA17_Chr5g0404321 | 61.404 | 171 | 14 | 3 | 1 | 119 | 1 | 171 | 4.36e-58 | 184 |
| Msa0496670 | MtrunA17_Chr8g0373001 | 46.746 | 169 | 40 | 3 | 1 | 119 | 1 | 169 | 3.44e-42 | 143 |
| Msa0496670 | MtrunA17_Chr8g0373361 | 42.405 | 158 | 46 | 3 | 1 | 113 | 11 | 168 | 2.52e-33 | 119 |
| Msa0496670 | MtrunA17_Chr1g0155301 | 38.889 | 180 | 42 | 4 | 1 | 112 | 1 | 180 | 2.80e-30 | 111 |
| Msa0496670 | MtrunA17_Chr8g0373341 | 45.775 | 142 | 46 | 3 | 1 | 113 | 1 | 140 | 3.86e-27 | 102 |
| Msa0496670 | MtrunA17_Chr8g0373331 | 38.889 | 144 | 39 | 3 | 1 | 95 | 1 | 144 | 3.47e-22 | 89.0 |
| Msa0496670 | MtrunA17_Chr2g0278511 | 34.524 | 168 | 52 | 5 | 1 | 113 | 1 | 165 | 3.68e-21 | 87.0 |
| Msa0496670 | MtrunA17_Chr1g0156151 | 35.088 | 171 | 59 | 6 | 1 | 119 | 1 | 171 | 9.92e-21 | 83.2 |
| Msa0496670 | MtrunA17_Chr1g0201891 | 35.329 | 167 | 51 | 6 | 1 | 113 | 1 | 164 | 4.07e-19 | 81.3 |
| Msa0496670 | MtrunA17_Chr3g0091401 | 85.366 | 41 | 6 | 0 | 67 | 107 | 30 | 70 | 1.83e-18 | 74.3 |
| Msa0496670 | MtrunA17_Chr2g0286441 | 33.835 | 133 | 63 | 3 | 4 | 112 | 17 | 148 | 4.44e-18 | 78.2 |
| Msa0496670 | MtrunA17_Chr2g0315641 | 33.607 | 122 | 57 | 2 | 14 | 111 | 29 | 150 | 2.37e-16 | 73.2 |
| Msa0496670 | MtrunA17_Chr1g0196071 | 33.636 | 110 | 49 | 2 | 27 | 112 | 50 | 159 | 1.30e-15 | 71.2 |
| Msa0496670 | MtrunA17_Chr2g0315651 | 31.405 | 121 | 59 | 2 | 15 | 111 | 25 | 145 | 2.65e-15 | 70.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0496670 | AT2G18280.2 | 43.902 | 164 | 47 | 3 | 1 | 119 | 1 | 164 | 7.29e-37 | 129 |
| Msa0496670 | AT2G18280.1 | 43.902 | 164 | 47 | 3 | 1 | 119 | 1 | 164 | 7.29e-37 | 129 |
| Msa0496670 | AT1G47270.3 | 41.525 | 118 | 44 | 3 | 27 | 119 | 44 | 161 | 5.35e-24 | 94.7 |
| Msa0496670 | AT1G47270.2 | 41.525 | 118 | 44 | 3 | 27 | 119 | 68 | 185 | 5.97e-24 | 95.1 |
| Msa0496670 | AT1G47270.1 | 41.525 | 118 | 44 | 3 | 27 | 119 | 69 | 186 | 6.20e-24 | 94.7 |
| Msa0496670 | AT1G76900.2 | 35.673 | 171 | 49 | 6 | 1 | 113 | 1 | 168 | 3.11e-20 | 84.7 |
| Msa0496670 | AT1G76900.1 | 35.673 | 171 | 49 | 6 | 1 | 113 | 1 | 168 | 3.11e-20 | 84.7 |
| Msa0496670 | AT1G76900.3 | 35.673 | 171 | 49 | 6 | 1 | 113 | 1 | 168 | 3.11e-20 | 84.7 |
| Msa0496670 | AT1G25280.1 | 37.984 | 129 | 55 | 3 | 5 | 108 | 37 | 165 | 5.75e-20 | 84.0 |
| Msa0496670 | AT1G43640.1 | 32.174 | 115 | 53 | 3 | 23 | 112 | 51 | 165 | 2.86e-16 | 73.6 |
| Msa0496670 | AT3G06380.1 | 32.867 | 143 | 65 | 4 | 1 | 112 | 1 | 143 | 4.97e-16 | 72.8 |
| Msa0496670 | AT2G47900.3 | 35.714 | 112 | 46 | 3 | 27 | 112 | 52 | 163 | 6.07e-16 | 72.8 |
| Msa0496670 | AT2G47900.2 | 36.036 | 111 | 46 | 3 | 27 | 112 | 52 | 162 | 9.24e-16 | 72.0 |
| Msa0496670 | AT2G47900.1 | 36.036 | 111 | 46 | 3 | 27 | 112 | 52 | 162 | 9.24e-16 | 72.0 |
| Msa0496670 | AT1G53320.1 | 36.607 | 112 | 47 | 2 | 27 | 114 | 44 | 155 | 1.08e-15 | 72.0 |
| Msa0496670 | AT5G18680.1 | 37.168 | 113 | 46 | 3 | 26 | 113 | 38 | 150 | 3.82e-13 | 64.7 |
| Msa0496670 | AT1G43640.2 | 32.323 | 99 | 42 | 3 | 39 | 112 | 1 | 99 | 1.18e-11 | 60.5 |
Find 30 sgRNAs with CRISPR-Local
Find 46 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTGCGTATCTATTGTATTA+TGG | 0.232029 | 3_4:-28113634 | Msa0496670:CDS |
| TAGAAGAGACTGAGACTTCT+TGG | 0.372030 | 3_4:-28113816 | Msa0496670:CDS |
| CTCCGATACAATGCTTCATC+AGG | 0.436765 | 3_4:-28113672 | Msa0496670:CDS |
| GTGCTCCTGTGTGTGAATCA+TGG | 0.450066 | 3_4:-28113786 | Msa0496670:CDS |
| ACCAATTTAGCAGGGACAAT+GGG | 0.465957 | 3_4:-28113881 | Msa0496670:intron |
| AACTCAAGGAGATGAGGGAT+GGG | 0.484739 | 3_4:-28114001 | Msa0496670:CDS |
| GAACTCAAGGAGATGAGGGA+TGG | 0.505860 | 3_4:-28114002 | Msa0496670:CDS |
| TGTTGTTGAGAAGCATAGTA+CGG | 0.514474 | 3_4:-28114025 | Msa0496670:CDS |
| GTATTATGGACTGGTGCCAT+TGG | 0.546205 | 3_4:-28113620 | Msa0496670:CDS |
| AAGCATAGTACGGGAACTCA+AGG | 0.555180 | 3_4:-28114015 | Msa0496670:CDS |
| AAGGAGATGAGGGATGGGAT+TGG | 0.557067 | 3_4:-28113996 | Msa0496670:CDS |
| TGCTACTTGATATAATTCGA+AGG | 0.558581 | 3_4:-28113840 | Msa0496670:CDS |
| AACCAATTTAGCAGGGACAA+TGG | 0.568016 | 3_4:-28113882 | Msa0496670:intron |
| CGATACAATGCTTCATCAGG+AGG | 0.568935 | 3_4:-28113669 | Msa0496670:CDS |
| GTATCTATTGTATTATGGAC+TGG | 0.570769 | 3_4:-28113629 | Msa0496670:CDS |
| GCTACTTGATATAATTCGAA+GGG | 0.575810 | 3_4:-28113839 | Msa0496670:CDS |
| AGTTCAAATGAAACAATAGC+CGG | 0.577688 | 3_4:+28113546 | None:intergenic |
| GTTGTTGAGAAGCATAGTAC+GGG | 0.578798 | 3_4:-28114024 | Msa0496670:CDS |
| TACGGGAACTCAAGGAGATG+AGG | 0.591073 | 3_4:-28114007 | Msa0496670:CDS |
| CTCCTGATGAAGCATTGTAT+CGG | 0.592254 | 3_4:+28113670 | None:intergenic |
| CTGAACAATCTCTTGTGTAA+CGG | 0.594307 | 3_4:+28113759 | None:intergenic |
| ACGGGAACTCAAGGAGATGA+GGG | 0.594362 | 3_4:-28114006 | Msa0496670:CDS |
| TCACACACAGGAGCACAAGA+AGG | 0.618611 | 3_4:+28113793 | None:intergenic |
| TCCTGTGTGTGAATCATGGA+GGG | 0.620710 | 3_4:-28113782 | Msa0496670:CDS |
| CATTGTATCGGAGAATCACA+AGG | 0.642254 | 3_4:+28113682 | None:intergenic |
| GCCCTCCATGATTCACACAC+AGG | 0.647670 | 3_4:+28113781 | None:intergenic |
| ATTGGTAATACGTCGAGGAG+AGG | 0.649495 | 3_4:-28113978 | Msa0496670:CDS |
| CTCCTGTGTGTGAATCATGG+AGG | 0.651561 | 3_4:-28113783 | Msa0496670:CDS |
| GATACAATGCTTCATCAGGA+GGG | 0.667883 | 3_4:-28113668 | Msa0496670:CDS |
| ATGGGATTGGTAATACGTCG+AGG | 0.700501 | 3_4:-28113983 | Msa0496670:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TGCTACTTGATATAATTCGA+AGG | - | chr3_4:28113735-28113754 | Msa0496670:intron | 30.0% |
| GCTACTTGATATAATTCGAA+GGG | - | chr3_4:28113736-28113755 | Msa0496670:intron | 30.0% | |
| TCTGCGTATCTATTGTATTA+TGG | - | chr3_4:28113941-28113960 | Msa0496670:intron | 30.0% | |
| GTATCTATTGTATTATGGAC+TGG | - | chr3_4:28113946-28113965 | Msa0496670:intron | 30.0% | |
| ! | TTATCAGTCTCATTTTCCAA+TGG | + | chr3_4:28113974-28113993 | None:intergenic | 30.0% |
| TATTAGCTGCCAAAAAGATA+AGG | - | chr3_4:28113999-28114018 | Msa0496670:CDS | 30.0% | |
| ! | TGTTGTTGAGAAGCATAGTA+CGG | - | chr3_4:28113550-28113569 | Msa0496670:CDS | 35.0% |
| ATCACTTGAACCAATTTAGC+AGG | - | chr3_4:28113685-28113704 | Msa0496670:CDS | 35.0% | |
| TCACTTGAACCAATTTAGCA+GGG | - | chr3_4:28113686-28113705 | Msa0496670:CDS | 35.0% | |
| CTGAACAATCTCTTGTGTAA+CGG | + | chr3_4:28113819-28113838 | None:intergenic | 35.0% | |
| TCCTATTTCGTTAAATCAGC+TGG | - | chr3_4:28113868-28113887 | Msa0496670:CDS | 35.0% | |
| CCTATTTCGTTAAATCAGCT+GGG | - | chr3_4:28113869-28113888 | Msa0496670:CDS | 35.0% | |
| AAAAAGATAAGGAAGACTGC+CGG | - | chr3_4:28114010-28114029 | Msa0496670:CDS | 35.0% | |
| ! | GTTGTTGAGAAGCATAGTAC+GGG | - | chr3_4:28113551-28113570 | Msa0496670:CDS | 40.0% |
| AACCAATTTAGCAGGGACAA+TGG | - | chr3_4:28113693-28113712 | Msa0496670:intron | 40.0% | |
| ACCAATTTAGCAGGGACAAT+GGG | - | chr3_4:28113694-28113713 | Msa0496670:intron | 40.0% | |
| TAGAAGAGACTGAGACTTCT+TGG | - | chr3_4:28113759-28113778 | Msa0496670:intron | 40.0% | |
| ! | CCCAGCTGATTTAACGAAAT+AGG | + | chr3_4:28113872-28113891 | None:intergenic | 40.0% |
| CATTGTATCGGAGAATCACA+AGG | + | chr3_4:28113896-28113915 | None:intergenic | 40.0% | |
| !! | CTCCTGATGAAGCATTGTAT+CGG | + | chr3_4:28113908-28113927 | None:intergenic | 40.0% |
| GATACAATGCTTCATCAGGA+GGG | - | chr3_4:28113907-28113926 | Msa0496670:intron | 40.0% | |
| ! | GGCAGTCTTCCTTATCTTTT+TGG | + | chr3_4:28114011-28114030 | None:intergenic | 40.0% |
| AAGCATAGTACGGGAACTCA+AGG | - | chr3_4:28113560-28113579 | Msa0496670:CDS | 45.0% | |
| AACTCAAGGAGATGAGGGAT+GGG | - | chr3_4:28113574-28113593 | Msa0496670:CDS | 45.0% | |
| ! | ATGGGATTGGTAATACGTCG+AGG | - | chr3_4:28113592-28113611 | Msa0496670:CDS | 45.0% |
| ! | ATTGGTAATACGTCGAGGAG+AGG | - | chr3_4:28113597-28113616 | Msa0496670:CDS | 45.0% |
| ACCCATTGTCCCTGCTAAAT+TGG | + | chr3_4:28113698-28113717 | None:intergenic | 45.0% | |
| TCCTGTGTGTGAATCATGGA+GGG | - | chr3_4:28113793-28113812 | Msa0496670:CDS | 45.0% | |
| GTCAACCTTCCACACTATTC+GGG | + | chr3_4:28113845-28113864 | None:intergenic | 45.0% | |
| CGTCAACCTTCCACACTATT+CGG | + | chr3_4:28113846-28113865 | None:intergenic | 45.0% | |
| CTCCGATACAATGCTTCATC+AGG | - | chr3_4:28113903-28113922 | Msa0496670:intron | 45.0% | |
| CGATACAATGCTTCATCAGG+AGG | - | chr3_4:28113906-28113925 | Msa0496670:intron | 45.0% | |
| !! | GTATTATGGACTGGTGCCAT+TGG | - | chr3_4:28113955-28113974 | Msa0496670:intron | 45.0% |
| TACGGGAACTCAAGGAGATG+AGG | - | chr3_4:28113568-28113587 | Msa0496670:CDS | 50.0% | |
| ACGGGAACTCAAGGAGATGA+GGG | - | chr3_4:28113569-28113588 | Msa0496670:CDS | 50.0% | |
| GAACTCAAGGAGATGAGGGA+TGG | - | chr3_4:28113573-28113592 | Msa0496670:CDS | 50.0% | |
| AAGGAGATGAGGGATGGGAT+TGG | - | chr3_4:28113579-28113598 | Msa0496670:CDS | 50.0% | |
| TAATACGTCGAGGAGAGGTG+TGG | - | chr3_4:28113602-28113621 | Msa0496670:CDS | 50.0% | |
| ! | AATACGTCGAGGAGAGGTGT+GGG | - | chr3_4:28113603-28113622 | Msa0496670:CDS | 50.0% |
| ! | TCACACACAGGAGCACAAGA+AGG | + | chr3_4:28113785-28113804 | None:intergenic | 50.0% |
| GTGCTCCTGTGTGTGAATCA+TGG | - | chr3_4:28113789-28113808 | Msa0496670:CDS | 50.0% | |
| CTCCTGTGTGTGAATCATGG+AGG | - | chr3_4:28113792-28113811 | Msa0496670:CDS | 50.0% | |
| GTTCAGACTCCCGAATAGTG+TGG | - | chr3_4:28113833-28113852 | Msa0496670:CDS | 50.0% | |
| AGACTCCCGAATAGTGTGGA+AGG | - | chr3_4:28113837-28113856 | Msa0496670:CDS | 50.0% | |
| GCCCTCCATGATTCACACAC+AGG | + | chr3_4:28113797-28113816 | None:intergenic | 55.0% | |
| ! | CGAGGAGAGGTGTGGGTAGT+AGG | - | chr3_4:28113610-28113629 | Msa0496670:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 28113549 | 28114048 | 28113549 | ID=Msa0496670;Name=Msa0496670 |
| chr3_4 | mRNA | 28113549 | 28114048 | 28113549 | ID=Msa0496670-mRNA-1;Parent=Msa0496670;Name=Msa0496670-mRNA-1;_AED=0.18;_eAED=0.18;_QI=0|0|0|1|0.5|0.33|3|0|119 |
| chr3_4 | exon | 28113977 | 28114048 | 28113977 | ID=Msa0496670-mRNA-1:exon:6549;Parent=Msa0496670-mRNA-1 |
| chr3_4 | exon | 28113765 | 28113890 | 28113765 | ID=Msa0496670-mRNA-1:exon:6548;Parent=Msa0496670-mRNA-1 |
| chr3_4 | exon | 28113549 | 28113710 | 28113549 | ID=Msa0496670-mRNA-1:exon:6547;Parent=Msa0496670-mRNA-1 |
| chr3_4 | CDS | 28113977 | 28114048 | 28113977 | ID=Msa0496670-mRNA-1:cds;Parent=Msa0496670-mRNA-1 |
| chr3_4 | CDS | 28113765 | 28113890 | 28113765 | ID=Msa0496670-mRNA-1:cds;Parent=Msa0496670-mRNA-1 |
| chr3_4 | CDS | 28113549 | 28113710 | 28113549 | ID=Msa0496670-mRNA-1:cds;Parent=Msa0496670-mRNA-1 |
| Gene Sequence |
| Protein sequence |
