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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1133450 | RDX80436.1 | 57.746 | 71 | 28 | 1 | 8 | 76 | 42 | 112 | 4.24e-15 | 81.3 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1133450 | sp|O48686|SNL3_ARATH | 51.389 | 72 | 33 | 1 | 8 | 77 | 13 | 84 | 3.25e-15 | 73.2 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1133450 | A0A371FQ70 | 57.746 | 71 | 28 | 1 | 8 | 76 | 42 | 112 | 2.02e-15 | 81.3 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1133450 | TR | Others |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1133450 | MtrunA17_Chr5g0415031 | 47.619 | 84 | 35 | 2 | 4 | 78 | 31 | 114 | 1.59e-16 | 73.9 |
| Msa1133450 | MtrunA17_Chr1g0206771 | 50.769 | 65 | 32 | 0 | 10 | 74 | 98 | 162 | 8.26e-15 | 66.6 |
| Msa1133450 | MtrunA17_Chr1g0206771 | 47.541 | 61 | 32 | 0 | 10 | 70 | 19 | 79 | 6.83e-11 | 56.2 |
| Msa1133450 | MtrunA17_Chr8g0364231 | 49.315 | 73 | 35 | 1 | 8 | 78 | 41 | 113 | 1.58e-14 | 68.2 |
| Msa1133450 | MtrunA17_Chr1g0206781 | 51.351 | 74 | 32 | 2 | 10 | 81 | 12 | 83 | 3.45e-14 | 63.5 |
| Msa1133450 | MtrunA17_Chr4g0075971 | 52.941 | 68 | 32 | 0 | 9 | 76 | 174 | 241 | 9.46e-14 | 65.9 |
| Msa1133450 | MtrunA17_Chr6g0452001 | 46.053 | 76 | 39 | 1 | 8 | 81 | 62 | 137 | 1.02e-13 | 65.9 |
| Msa1133450 | MtrunA17_Chr4g0075861 | 52.941 | 68 | 32 | 0 | 9 | 76 | 174 | 241 | 1.05e-13 | 65.5 |
| Msa1133450 | MtrunA17_Chr3g0077861 | 55.000 | 60 | 27 | 0 | 23 | 82 | 107 | 166 | 1.12e-12 | 60.8 |
| Msa1133450 | MtrunA17_Chr8g0364021 | 44.444 | 72 | 38 | 1 | 7 | 76 | 42 | 113 | 1.13e-12 | 61.6 |
| Msa1133450 | MtrunA17_Chr3g0077941 | 53.571 | 56 | 26 | 0 | 26 | 81 | 118 | 173 | 1.53e-12 | 60.5 |
| Msa1133450 | MtrunA17_Chr1g0205861 | 44.928 | 69 | 38 | 0 | 10 | 78 | 19 | 87 | 2.50e-12 | 58.5 |
| Msa1133450 | MtrunA17_Chr1g0209201 | 47.541 | 61 | 31 | 1 | 15 | 75 | 24 | 83 | 3.21e-12 | 58.9 |
| Msa1133450 | MtrunA17_Chr3g0077911 | 55.224 | 67 | 27 | 2 | 9 | 72 | 90 | 156 | 3.52e-12 | 59.3 |
| Msa1133450 | MtrunA17_Chr3g0077811 | 51.786 | 56 | 27 | 0 | 21 | 76 | 28 | 83 | 3.76e-12 | 58.2 |
| Msa1133450 | MtrunA17_Chr6g0452021 | 43.662 | 71 | 38 | 1 | 9 | 77 | 43 | 113 | 8.95e-12 | 60.1 |
| Msa1133450 | MtrunA17_Chr1g0205811 | 48.571 | 70 | 34 | 1 | 9 | 76 | 14 | 83 | 1.28e-11 | 57.0 |
| Msa1133450 | MtrunA17_Chr1g0205821 | 50.704 | 71 | 33 | 1 | 8 | 76 | 12 | 82 | 1.50e-11 | 57.8 |
| Msa1133450 | MtrunA17_Chr3g0077891 | 44.737 | 76 | 39 | 2 | 9 | 81 | 99 | 174 | 1.60e-11 | 57.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1133450 | AT1G24190.3 | 51.389 | 72 | 33 | 1 | 8 | 77 | 13 | 84 | 2.83e-16 | 73.6 |
| Msa1133450 | AT1G24190.2 | 51.389 | 72 | 33 | 1 | 8 | 77 | 13 | 84 | 3.20e-16 | 73.2 |
| Msa1133450 | AT1G24190.1 | 51.389 | 72 | 33 | 1 | 8 | 77 | 13 | 84 | 3.30e-16 | 73.2 |
| Msa1133450 | AT1G70060.2 | 50.000 | 76 | 36 | 1 | 8 | 81 | 13 | 88 | 1.16e-14 | 68.9 |
| Msa1133450 | AT1G70060.1 | 50.000 | 76 | 36 | 1 | 8 | 81 | 13 | 88 | 1.16e-14 | 68.9 |
| Msa1133450 | AT5G15020.2 | 48.611 | 72 | 35 | 1 | 8 | 77 | 51 | 122 | 4.34e-14 | 67.4 |
| Msa1133450 | AT5G15020.1 | 48.611 | 72 | 35 | 1 | 8 | 77 | 51 | 122 | 4.39e-14 | 67.4 |
| Msa1133450 | AT3G01320.1 | 49.296 | 71 | 34 | 1 | 8 | 76 | 56 | 126 | 4.56e-14 | 67.0 |
| Msa1133450 | AT3G01320.2 | 49.296 | 71 | 34 | 1 | 8 | 76 | 56 | 126 | 4.69e-14 | 67.0 |
| Msa1133450 | AT1G59890.4 | 47.887 | 71 | 35 | 1 | 9 | 77 | 45 | 115 | 6.55e-13 | 63.9 |
| Msa1133450 | AT1G59890.2 | 47.887 | 71 | 35 | 1 | 9 | 77 | 45 | 115 | 6.95e-13 | 63.9 |
| Msa1133450 | AT1G59890.1 | 47.887 | 71 | 35 | 1 | 9 | 77 | 45 | 115 | 7.01e-13 | 63.9 |
| Msa1133450 | AT1G59890.3 | 47.887 | 71 | 35 | 1 | 9 | 77 | 45 | 115 | 7.08e-13 | 63.9 |
| Msa1133450 | AT1G10450.3 | 47.143 | 70 | 35 | 1 | 9 | 76 | 84 | 153 | 6.19e-12 | 61.2 |
| Msa1133450 | AT1G10450.2 | 47.143 | 70 | 35 | 1 | 9 | 76 | 33 | 102 | 7.50e-12 | 60.8 |
| Msa1133450 | AT1G10450.1 | 47.143 | 70 | 35 | 1 | 9 | 76 | 33 | 102 | 7.50e-12 | 60.8 |
| Msa1133450 | AT4G12020.11 | 46.774 | 62 | 32 | 1 | 15 | 76 | 316 | 376 | 3.61e-11 | 58.9 |
| Msa1133450 | AT4G12020.6 | 46.774 | 62 | 32 | 1 | 15 | 76 | 316 | 376 | 3.65e-11 | 58.9 |
| Msa1133450 | AT4G12020.8 | 46.774 | 62 | 32 | 1 | 15 | 76 | 316 | 376 | 3.65e-11 | 58.9 |
| Msa1133450 | AT4G12020.7 | 46.774 | 62 | 32 | 1 | 15 | 76 | 316 | 376 | 3.65e-11 | 58.9 |
| Msa1133450 | AT4G12020.1 | 46.774 | 62 | 32 | 1 | 15 | 76 | 316 | 376 | 3.66e-11 | 58.9 |
| Msa1133450 | AT4G12020.9 | 46.774 | 62 | 32 | 1 | 15 | 76 | 316 | 376 | 3.66e-11 | 58.9 |
| Msa1133450 | AT4G12020.5 | 46.774 | 62 | 32 | 1 | 15 | 76 | 249 | 309 | 3.66e-11 | 58.9 |
| Msa1133450 | AT4G12020.10 | 46.774 | 62 | 32 | 1 | 15 | 76 | 316 | 376 | 3.66e-11 | 58.9 |
| Msa1133450 | AT4G12020.3 | 46.774 | 62 | 32 | 1 | 15 | 76 | 316 | 376 | 3.66e-11 | 58.9 |
| Msa1133450 | AT4G12020.4 | 46.774 | 62 | 32 | 1 | 15 | 76 | 316 | 376 | 3.66e-11 | 58.9 |
| Msa1133450 | AT4G12020.2 | 46.774 | 62 | 32 | 1 | 15 | 76 | 316 | 376 | 3.66e-11 | 58.9 |
Find 29 sgRNAs with CRISPR-Local
Find 41 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGGGCATACTGATTTAATTT+TGG | 0.112441 | 7_3:+86965114 | Msa1133450:CDS |
| AGAGTCAAGCAGCTGCTTAA+AGG | 0.323406 | 7_3:+86965094 | Msa1133450:CDS |
| CTTCTTCCCTTTCCTCCTTA+CGG | 0.387810 | 7_3:+86964796 | Msa1133450:five_prime_UTR |
| AGTTTGATTTGATGTTCCTT+TGG | 0.399942 | 7_3:-86965154 | None:intergenic |
| GAGTCAAGCAGCTGCTTAAA+GGG | 0.418662 | 7_3:+86965095 | Msa1133450:CDS |
| TGATTTGATGTTCCTTTGGC+AGG | 0.443659 | 7_3:-86965150 | None:intergenic |
| TTGGCAGCGATTGTACAAGC+TGG | 0.463810 | 7_3:+86964980 | Msa1133450:CDS |
| AAGCTGGGTTTCAAGATAAG+AGG | 0.471098 | 7_3:+86964996 | Msa1133450:CDS |
| AAGTCAAGACGACGCCGGCT+AGG | 0.475973 | 7_3:-86965311 | None:intergenic |
| CAGTTCGCCGTAAGGAGGAA+AGG | 0.493921 | 7_3:-86964803 | None:intergenic |
| GAGCATACTATTGGAGGGGC+AGG | 0.506739 | 7_3:-86964836 | None:intergenic |
| TGGCAGCGATTGTACAAGCT+GGG | 0.511829 | 7_3:+86964981 | Msa1133450:CDS |
| AGCTGGGTTTCAAGATAAGA+GGG | 0.518029 | 7_3:+86964997 | Msa1133450:CDS |
| GTCTATGTTAAAACCCTAGC+CGG | 0.540910 | 7_3:+86965297 | Msa1133450:CDS |
| AAAACTCCTAAAAGATGTCA+AGG | 0.541090 | 7_3:+86965039 | Msa1133450:CDS |
| AGTCAAGACGACGCCGGCTA+GGG | 0.544271 | 7_3:-86965310 | None:intergenic |
| TTGATGTTCCTTTGGCAGGA+AGG | 0.546048 | 7_3:-86965146 | None:intergenic |
| AGTTCGCCGTAAGGAGGAAA+GGG | 0.547415 | 7_3:-86964802 | None:intergenic |
| GATGAGGAGCATACTATTGG+AGG | 0.549807 | 7_3:-86964842 | None:intergenic |
| CAAATCAAACTTGAGACCAC+TGG | 0.570634 | 7_3:+86965166 | Msa1133450:CDS |
| TATTTGCACAGTTCGCCGTA+AGG | 0.571687 | 7_3:-86964811 | None:intergenic |
| AATTTATACAAGACGTTCTG+CGG | 0.581560 | 7_3:+86965069 | Msa1133450:CDS |
| ATGAGGAGCATACTATTGGA+GGG | 0.590734 | 7_3:-86964841 | None:intergenic |
| TTGCACAGTTCGCCGTAAGG+AGG | 0.591199 | 7_3:-86964808 | None:intergenic |
| ATTCAACACCTTCCTGCCAA+AGG | 0.618562 | 7_3:+86965138 | Msa1133450:CDS |
| TGAGGAGCATACTATTGGAG+GGG | 0.644201 | 7_3:-86964840 | None:intergenic |
| AACAAAAGTCAAGACGACGC+CGG | 0.681265 | 7_3:-86965316 | None:intergenic |
| GCTGGGTTTCAAGATAAGAG+GGG | 0.722942 | 7_3:+86964998 | Msa1133450:CDS |
| TCGCTGCCAACGCATCATCG+CGG | 0.747815 | 7_3:-86964967 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTAATTTTGTGAATAAAGA+TGG | + | chr7_3:86964931-86964950 | Msa1133450:intron | 15.0% |
| !! | GCTATATATATATAATTCTA+TGG | + | chr7_3:86965261-86965280 | Msa1133450:intron | 15.0% |
| ! | AAAATCAATAATTCGAGTGA+AGG | - | chr7_3:86964867-86964886 | None:intergenic | 25.0% |
| ! | AATGATAAATTACTAACCAG+TGG | - | chr7_3:86965185-86965204 | None:intergenic | 25.0% |
| AAAACTCCTAAAAGATGTCA+AGG | + | chr7_3:86965039-86965058 | Msa1133450:CDS | 30.0% | |
| ! | TTTGATCCTTGACATCTTTT+AGG | - | chr7_3:86965048-86965067 | None:intergenic | 30.0% |
| AATTTATACAAGACGTTCTG+CGG | + | chr7_3:86965069-86965088 | Msa1133450:CDS | 30.0% | |
| !!! | AGGGCATACTGATTTAATTT+TGG | + | chr7_3:86965114-86965133 | Msa1133450:CDS | 30.0% |
| !!! | GGGCATACTGATTTAATTTT+GGG | + | chr7_3:86965115-86965134 | Msa1133450:CDS | 30.0% |
| !! | AGTTTGATTTGATGTTCCTT+TGG | - | chr7_3:86965157-86965176 | None:intergenic | 30.0% |
| AATAATTCGAGTGAAGGATG+AGG | - | chr7_3:86964861-86964880 | None:intergenic | 35.0% | |
| ! | ATGAGGAGCATACTATTGGA+GGG | - | chr7_3:86964844-86964863 | None:intergenic | 40.0% |
| ! | AAGGATGAGGAGCATACTAT+TGG | - | chr7_3:86964848-86964867 | None:intergenic | 40.0% |
| AAGCTGGGTTTCAAGATAAG+AGG | + | chr7_3:86964996-86965015 | Msa1133450:CDS | 40.0% | |
| AGCTGGGTTTCAAGATAAGA+GGG | + | chr7_3:86964997-86965016 | Msa1133450:CDS | 40.0% | |
| TGATTTGATGTTCCTTTGGC+AGG | - | chr7_3:86965153-86965172 | None:intergenic | 40.0% | |
| CAAATCAAACTTGAGACCAC+TGG | + | chr7_3:86965166-86965185 | Msa1133450:CDS | 40.0% | |
| GTCTATGTTAAAACCCTAGC+CGG | + | chr7_3:86965297-86965316 | Msa1133450:CDS | 40.0% | |
| CTTCTTCCCTTTCCTCCTTA+CGG | + | chr7_3:86964796-86964815 | Msa1133450:five_prime_UTR | 45.0% | |
| TATTTGCACAGTTCGCCGTA+AGG | - | chr7_3:86964814-86964833 | None:intergenic | 45.0% | |
| ! | TGAGGAGCATACTATTGGAG+GGG | - | chr7_3:86964843-86964862 | None:intergenic | 45.0% |
| ! | GATGAGGAGCATACTATTGG+AGG | - | chr7_3:86964845-86964864 | None:intergenic | 45.0% |
| !!! | ACGCATCATCGCGGTTTTTT+GGG | - | chr7_3:86964961-86964980 | None:intergenic | 45.0% |
| !!! | AACGCATCATCGCGGTTTTT+TGG | - | chr7_3:86964962-86964981 | None:intergenic | 45.0% |
| AAAAAACCGCGATGATGCGT+TGG | + | chr7_3:86964961-86964980 | Msa1133450:CDS | 45.0% | |
| GCTGGGTTTCAAGATAAGAG+GGG | + | chr7_3:86964998-86965017 | Msa1133450:CDS | 45.0% | |
| AGAGTCAAGCAGCTGCTTAA+AGG | + | chr7_3:86965094-86965113 | Msa1133450:CDS | 45.0% | |
| GAGTCAAGCAGCTGCTTAAA+GGG | + | chr7_3:86965095-86965114 | Msa1133450:CDS | 45.0% | |
| ATTCAACACCTTCCTGCCAA+AGG | + | chr7_3:86965138-86965157 | Msa1133450:CDS | 45.0% | |
| TTGATGTTCCTTTGGCAGGA+AGG | - | chr7_3:86965149-86965168 | None:intergenic | 45.0% | |
| AACAAAAGTCAAGACGACGC+CGG | - | chr7_3:86965319-86965338 | None:intergenic | 45.0% | |
| AGTTCGCCGTAAGGAGGAAA+GGG | - | chr7_3:86964805-86964824 | None:intergenic | 50.0% | |
| TTGGCAGCGATTGTACAAGC+TGG | + | chr7_3:86964980-86964999 | Msa1133450:CDS | 50.0% | |
| TGGCAGCGATTGTACAAGCT+GGG | + | chr7_3:86964981-86965000 | Msa1133450:CDS | 50.0% | |
| ! | GGCGTCGTCTTGACTTTTGT+TGG | + | chr7_3:86965318-86965337 | Msa1133450:CDS | 50.0% |
| CAGTTCGCCGTAAGGAGGAA+AGG | - | chr7_3:86964806-86964825 | None:intergenic | 55.0% | |
| TTGCACAGTTCGCCGTAAGG+AGG | - | chr7_3:86964811-86964830 | None:intergenic | 55.0% | |
| GAGCATACTATTGGAGGGGC+AGG | - | chr7_3:86964839-86964858 | None:intergenic | 55.0% | |
| TCGCTGCCAACGCATCATCG+CGG | - | chr7_3:86964970-86964989 | None:intergenic | 60.0% | |
| ! | AGTCAAGACGACGCCGGCTA+GGG | - | chr7_3:86965313-86965332 | None:intergenic | 60.0% |
| ! | AAGTCAAGACGACGCCGGCT+AGG | - | chr7_3:86965314-86965333 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 86964769 | 86965386 | 86964769 | ID=Msa1133450;Name=Msa1133450 |
| chr7_3 | mRNA | 86964769 | 86965386 | 86964769 | ID=Msa1133450-mRNA-1;Parent=Msa1133450;Name=Msa1133450-mRNA-1;_AED=0.43;_eAED=0.43;_QI=82|0.5|0.66|1|0.5|0.66|3|0|110 |
| chr7_3 | exon | 86964769 | 86964850 | 86964769 | ID=Msa1133450-mRNA-1:exon:26131;Parent=Msa1133450-mRNA-1 |
| chr7_3 | exon | 86964950 | 86965187 | 86964950 | ID=Msa1133450-mRNA-1:exon:26132;Parent=Msa1133450-mRNA-1 |
| chr7_3 | exon | 86965292 | 86965386 | 86965292 | ID=Msa1133450-mRNA-1:exon:26133;Parent=Msa1133450-mRNA-1 |
| chr7_3 | five_prime_UTR | 86964769 | 86964850 | 86964769 | ID=Msa1133450-mRNA-1:five_prime_utr;Parent=Msa1133450-mRNA-1 |
| chr7_3 | CDS | 86964950 | 86965187 | 86964950 | ID=Msa1133450-mRNA-1:cds;Parent=Msa1133450-mRNA-1 |
| chr7_3 | CDS | 86965292 | 86965386 | 86965292 | ID=Msa1133450-mRNA-1:cds;Parent=Msa1133450-mRNA-1 |
| Gene Sequence |
| Protein sequence |
