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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0257840 | KEH38903.1 | 79.528 | 127 | 23 | 1 | 7 | 130 | 7 | 133 | 3.45e-65 | 207 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0257840 | sp|Q1G3Q4|RITF1_ARATH | 34.783 | 115 | 64 | 3 | 16 | 128 | 17 | 122 | 1.74e-11 | 62.8 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0257840 | A0A072VBY3 | 79.528 | 127 | 23 | 1 | 7 | 130 | 7 | 133 | 1.65e-65 | 207 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0257840 | TF | PLATZ |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0257840 | MtrunA17_Chr2g0320521 | 79.528 | 127 | 23 | 1 | 7 | 130 | 9 | 135 | 3.42e-69 | 207 |
| Msa0257840 | MtrunA17_Chr4g0020811 | 62.992 | 127 | 44 | 1 | 7 | 130 | 9 | 135 | 9.87e-49 | 153 |
| Msa0257840 | MtrunA17_Chr2g0308401 | 62.205 | 127 | 45 | 1 | 7 | 130 | 7 | 133 | 3.52e-48 | 152 |
| Msa0257840 | MtrunA17_Chr2g0320561 | 54.839 | 124 | 53 | 1 | 10 | 130 | 10 | 133 | 1.70e-43 | 142 |
| Msa0257840 | MtrunA17_Chr2g0320551 | 54.032 | 124 | 54 | 1 | 10 | 130 | 10 | 133 | 9.41e-43 | 138 |
| Msa0257840 | MtrunA17_Chr1g0179781 | 45.600 | 125 | 57 | 2 | 9 | 130 | 11 | 127 | 1.09e-28 | 103 |
| Msa0257840 | MtrunA17_Chr7g0265291 | 43.411 | 129 | 59 | 4 | 7 | 130 | 10 | 129 | 3.83e-25 | 94.7 |
| Msa0257840 | MtrunA17_Chr5g0411151 | 39.200 | 125 | 64 | 3 | 9 | 130 | 39 | 154 | 4.45e-24 | 92.8 |
| Msa0257840 | MtrunA17_Chr4g0040071 | 39.496 | 119 | 62 | 2 | 14 | 130 | 24 | 134 | 1.27e-23 | 91.3 |
| Msa0257840 | MtrunA17_Chr5g0395181 | 39.831 | 118 | 59 | 3 | 16 | 130 | 32 | 140 | 5.61e-23 | 89.4 |
| Msa0257840 | MtrunA17_Chr8g0366581 | 38.136 | 118 | 61 | 3 | 16 | 130 | 44 | 152 | 2.05e-21 | 85.9 |
| Msa0257840 | MtrunA17_Chr7g0230511 | 33.333 | 120 | 68 | 3 | 16 | 133 | 20 | 129 | 6.35e-15 | 68.9 |
| Msa0257840 | MtrunA17_Chr2g0297251 | 35.156 | 128 | 71 | 4 | 5 | 130 | 38 | 155 | 2.99e-14 | 67.0 |
| Msa0257840 | MtrunA17_Chr4g0065041 | 35.652 | 115 | 63 | 4 | 16 | 128 | 19 | 124 | 2.09e-11 | 59.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0257840 | AT1G32700.1 | 42.373 | 118 | 56 | 4 | 16 | 130 | 23 | 131 | 4.19e-24 | 92.8 |
| Msa0257840 | AT4G17900.2 | 45.133 | 113 | 50 | 3 | 16 | 125 | 31 | 134 | 8.22e-24 | 92.0 |
| Msa0257840 | AT4G17900.1 | 45.133 | 113 | 50 | 3 | 16 | 125 | 45 | 148 | 8.34e-24 | 92.4 |
| Msa0257840 | AT1G43000.2 | 39.669 | 121 | 61 | 3 | 16 | 133 | 27 | 138 | 2.79e-21 | 85.5 |
| Msa0257840 | AT1G43000.1 | 39.669 | 121 | 61 | 3 | 16 | 133 | 20 | 131 | 3.08e-21 | 85.5 |
| Msa0257840 | AT2G27930.3 | 38.843 | 121 | 70 | 2 | 14 | 130 | 13 | 133 | 3.45e-21 | 84.0 |
| Msa0257840 | AT2G27930.2 | 38.843 | 121 | 70 | 2 | 14 | 130 | 13 | 133 | 3.45e-21 | 84.0 |
| Msa0257840 | AT2G27930.1 | 38.931 | 131 | 75 | 3 | 7 | 133 | 7 | 136 | 5.06e-21 | 84.0 |
| Msa0257840 | AT2G27930.4 | 38.931 | 131 | 75 | 3 | 7 | 133 | 7 | 136 | 5.06e-21 | 84.0 |
| Msa0257840 | AT1G21000.2 | 38.095 | 126 | 64 | 4 | 10 | 130 | 16 | 132 | 3.68e-20 | 83.2 |
| Msa0257840 | AT1G21000.1 | 38.095 | 126 | 64 | 4 | 10 | 130 | 19 | 135 | 4.08e-20 | 82.8 |
| Msa0257840 | AT1G32700.2 | 43.564 | 101 | 45 | 4 | 33 | 130 | 1 | 92 | 7.87e-20 | 80.5 |
| Msa0257840 | AT1G76590.1 | 37.600 | 125 | 66 | 3 | 10 | 130 | 21 | 137 | 9.40e-20 | 82.0 |
| Msa0257840 | AT5G46710.2 | 35.714 | 126 | 71 | 2 | 2 | 125 | 25 | 142 | 1.40e-17 | 74.7 |
| Msa0257840 | AT5G46710.3 | 38.393 | 112 | 59 | 2 | 16 | 125 | 23 | 126 | 2.49e-17 | 75.1 |
| Msa0257840 | AT5G46710.1 | 38.393 | 112 | 59 | 2 | 16 | 125 | 39 | 142 | 4.40e-17 | 74.7 |
| Msa0257840 | AT3G60670.1 | 35.115 | 131 | 73 | 4 | 5 | 133 | 8 | 128 | 1.99e-13 | 65.1 |
| Msa0257840 | AT2G12646.1 | 34.783 | 115 | 64 | 3 | 16 | 128 | 17 | 122 | 1.77e-12 | 62.8 |
| Msa0257840 | AT2G12646.2 | 34.783 | 115 | 64 | 3 | 16 | 128 | 17 | 122 | 1.77e-12 | 62.8 |
| Msa0257840 | AT2G12646.3 | 37.391 | 115 | 61 | 4 | 16 | 128 | 14 | 119 | 1.82e-12 | 62.8 |
| Msa0257840 | AT1G31040.1 | 34.375 | 128 | 71 | 5 | 5 | 130 | 20 | 136 | 1.06e-11 | 60.5 |
Find 13 sgRNAs with CRISPR-Local
Find 25 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TATCTCATTGATTGGGAATA+AGG | 0.167816 | 2_2:-53803959 | None:intergenic |
| GATTGATATTTACAAGTATT+TGG | 0.197324 | 2_2:+53803874 | Msa0257840:CDS |
| TTTATGCAATATCTGCAAAA+TGG | 0.262466 | 2_2:-53803612 | None:intergenic |
| AGATACAAGATTGGTATAAT+TGG | 0.287922 | 2_2:+53803977 | Msa0257840:CDS |
| AACAATATGTAAAAGTAATA+AGG | 0.299722 | 2_2:-53804049 | None:intergenic |
| CAATCTTGTATCTCATTGAT+TGG | 0.323377 | 2_2:-53803967 | None:intergenic |
| TACAAGTATTTGGACATTCT+AGG | 0.354638 | 2_2:+53803884 | Msa0257840:CDS |
| AATCTTGTATCTCATTGATT+GGG | 0.448397 | 2_2:-53803966 | None:intergenic |
| ATATGTCAAAGAAATCTTGT+TGG | 0.492779 | 2_2:+53804025 | Msa0257840:CDS |
| CGTCTTAAAGACGTCAGTAT+CGG | 0.524753 | 2_2:-53803852 | None:intergenic |
| CAATCAATGAGATACAAGAT+TGG | 0.552028 | 2_2:+53803968 | Msa0257840:CDS |
| CGACTGTATTCATAAACAAG+AGG | 0.573759 | 2_2:+53803936 | Msa0257840:CDS |
| AGGATATGATGGTTATGCCC+TGG | 0.608474 | 2_2:+53803485 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTATTTGATTTTTTTTACTT+TGG | + | chr2_2:53803776-53803795 | Msa0257840:intron | 10.0% |
| !!! | TATTTGATTTTTTTTACTTT+GGG | + | chr2_2:53803777-53803796 | Msa0257840:intron | 10.0% |
| !! | AACAATATGTAAAAGTAATA+AGG | - | chr2_2:53804052-53804071 | None:intergenic | 15.0% |
| !! | GATTGATATTTACAAGTATT+TGG | + | chr2_2:53803874-53803893 | Msa0257840:CDS | 20.0% |
| !!! | TTCTTTGACATATTTTACAA+AGG | - | chr2_2:53804018-53804037 | None:intergenic | 20.0% |
| ! | TTTATGCAATATCTGCAAAA+TGG | - | chr2_2:53803615-53803634 | None:intergenic | 25.0% |
| ! | ATTTGTAGTTGCAAATATCA+AGG | - | chr2_2:53803816-53803835 | None:intergenic | 25.0% |
| !! | AATCTTGTATCTCATTGATT+GGG | - | chr2_2:53803969-53803988 | None:intergenic | 25.0% |
| ! | AGATACAAGATTGGTATAAT+TGG | + | chr2_2:53803977-53803996 | Msa0257840:CDS | 25.0% |
| ! | ATATGTCAAAGAAATCTTGT+TGG | + | chr2_2:53804025-53804044 | Msa0257840:CDS | 25.0% |
| !!! | GCTCATATTTTGACTCATTT+GGG | - | chr2_2:53803560-53803579 | None:intergenic | 30.0% |
| GATATTTGCAACTACAAATC+AGG | + | chr2_2:53803817-53803836 | Msa0257840:intron | 30.0% | |
| TACAAGTATTTGGACATTCT+AGG | + | chr2_2:53803884-53803903 | Msa0257840:CDS | 30.0% | |
| ! | TATCTCATTGATTGGGAATA+AGG | - | chr2_2:53803962-53803981 | None:intergenic | 30.0% |
| CAATCTTGTATCTCATTGAT+TGG | - | chr2_2:53803970-53803989 | None:intergenic | 30.0% | |
| CAATCAATGAGATACAAGAT+TGG | + | chr2_2:53803968-53803987 | Msa0257840:CDS | 30.0% | |
| !! | TGGAAGCAATTTTTCAACCA+GGG | - | chr2_2:53803505-53803524 | None:intergenic | 35.0% |
| !! | TTGGAAGCAATTTTTCAACC+AGG | - | chr2_2:53803506-53803525 | None:intergenic | 35.0% |
| TCAGTGAAAAATGCAGTGAT+TGG | - | chr2_2:53803525-53803544 | None:intergenic | 35.0% | |
| !!! | CGCTCATATTTTGACTCATT+TGG | - | chr2_2:53803561-53803580 | None:intergenic | 35.0% |
| ! | TGACTGTTGTTTAAAGCGAT+AGG | + | chr2_2:53803667-53803686 | Msa0257840:intron | 35.0% |
| CGACTGTATTCATAAACAAG+AGG | + | chr2_2:53803936-53803955 | Msa0257840:CDS | 35.0% | |
| ! | CGCTTTAAACAACAGTCACT+TGG | - | chr2_2:53803665-53803684 | None:intergenic | 40.0% |
| TTGCAACTACAAATCAGGTG+AGG | + | chr2_2:53803822-53803841 | Msa0257840:intron | 40.0% | |
| CGTCTTAAAGACGTCAGTAT+CGG | - | chr2_2:53803855-53803874 | None:intergenic | 40.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 53803489 | 53804072 | 53803489 | ID=Msa0257840;Name=Msa0257840 |
| chr2_2 | mRNA | 53803489 | 53804072 | 53803489 | ID=Msa0257840-mRNA-1;Parent=Msa0257840;Name=Msa0257840-mRNA-1;_AED=0.14;_eAED=0.18;_QI=0|0|0|1|1|0.5|2|0|134 |
| chr2_2 | exon | 53803489 | 53803656 | 53803489 | ID=Msa0257840-mRNA-1:exon:16177;Parent=Msa0257840-mRNA-1 |
| chr2_2 | exon | 53803839 | 53804072 | 53803839 | ID=Msa0257840-mRNA-1:exon:16178;Parent=Msa0257840-mRNA-1 |
| chr2_2 | CDS | 53803489 | 53803656 | 53803489 | ID=Msa0257840-mRNA-1:cds;Parent=Msa0257840-mRNA-1 |
| chr2_2 | CDS | 53803839 | 53804072 | 53803839 | ID=Msa0257840-mRNA-1:cds;Parent=Msa0257840-mRNA-1 |
| Gene Sequence |
| Protein sequence |
