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 |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| 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 |
|---|---|---|
| Msa0013580 | TF | B3 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0013580 | MtrunA17_Chr1g0163091 | 90.909 | 132 | 12 | 0 | 6 | 137 | 1 | 132 | 1.61e-87 | 253 |
| Msa0013580 | MtrunA17_Chr1g0162151 | 75.000 | 132 | 33 | 0 | 6 | 137 | 1 | 132 | 2.49e-63 | 194 |
| Msa0013580 | MtrunA17_Chr1g0163251 | 48.201 | 139 | 72 | 0 | 7 | 145 | 163 | 301 | 1.54e-39 | 138 |
| Msa0013580 | MtrunA17_Chr1g0163181 | 35.938 | 192 | 100 | 3 | 1 | 174 | 175 | 361 | 1.49e-36 | 131 |
| Msa0013580 | MtrunA17_Chr1g0163261 | 46.763 | 139 | 70 | 1 | 1 | 135 | 156 | 294 | 4.53e-36 | 127 |
| Msa0013580 | MtrunA17_Chr1g0163201 | 38.068 | 176 | 96 | 2 | 1 | 174 | 160 | 324 | 7.35e-36 | 128 |
| Msa0013580 | MtrunA17_Chr6g0476171 | 46.099 | 141 | 69 | 3 | 2 | 135 | 6 | 146 | 1.67e-30 | 111 |
| Msa0013580 | MtrunA17_Chr1g0163151 | 35.928 | 167 | 91 | 2 | 6 | 172 | 1 | 151 | 5.77e-30 | 109 |
| Msa0013580 | MtrunA17_Chr1g0163111 | 40.000 | 125 | 67 | 1 | 6 | 130 | 1 | 117 | 2.40e-26 | 100 |
| Msa0013580 | MtrunA17_Chr1g0163231 | 45.736 | 129 | 63 | 4 | 2 | 126 | 156 | 281 | 4.87e-26 | 100 |
| Msa0013580 | MtrunA17_Chr1g0171611 | 44.643 | 112 | 58 | 3 | 19 | 126 | 158 | 269 | 1.02e-23 | 94.4 |
| Msa0013580 | MtrunA17_Chr5g0419211 | 39.130 | 92 | 55 | 1 | 46 | 136 | 11 | 102 | 1.26e-17 | 74.3 |
| Msa0013580 | MtrunA17_Chr1g0163071 | 31.034 | 116 | 70 | 3 | 22 | 136 | 193 | 299 | 4.78e-13 | 65.5 |
| Msa0013580 | MtrunA17_Chr3g0131891 | 33.636 | 110 | 68 | 3 | 28 | 132 | 202 | 311 | 5.41e-12 | 62.8 |
| Msa0013580 | MtrunA17_Chr8g0390841 | 35.294 | 119 | 66 | 5 | 20 | 136 | 235 | 344 | 2.74e-11 | 61.2 |
| Msa0013580 | MtrunA17_Chr1g0208771 | 37.190 | 121 | 62 | 7 | 20 | 136 | 194 | 304 | 6.26e-11 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 31 sgRNAs with CRISPR-Local
Find 80 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAGATATCTTCAACAAATTT+AGG | 0.185019 | 1_1:+21026132 | Msa0013580:CDS |
| TCGAAGGGATTGCAAGGTTA+AGG | 0.333047 | 1_1:+21025753 | Msa0013580:CDS |
| AATGTAAACTTACACATAAA+CGG | 0.345758 | 1_1:-21025628 | None:intergenic |
| GCAAAGAGGTGCTCAATAAC+TGG | 0.354403 | 1_1:+21025533 | Msa0013580:CDS |
| GTTAATGATAAATCTAATAA+TGG | 0.356741 | 1_1:+21025560 | Msa0013580:CDS |
| TATTCTCTTGAAAACTTAGT+TGG | 0.372973 | 1_1:-21025719 | None:intergenic |
| CGAAGGGATTGCAAGGTTAA+GGG | 0.387959 | 1_1:+21025754 | Msa0013580:CDS |
| CCTTGCAATTTGTTAGGGCT+TGG | 0.389952 | 1_1:-21025965 | None:intergenic |
| ATGTAAACTTACACATAAAC+GGG | 0.402078 | 1_1:-21025627 | None:intergenic |
| GTCAATTTAAGTTCAAAACT+TGG | 0.428551 | 1_1:-21025587 | None:intergenic |
| AGATGTTCTATTCTAAATGT+AGG | 0.453577 | 1_1:+21025827 | Msa0013580:CDS |
| GTTCTATTCTAAATGTAGGT+TGG | 0.464202 | 1_1:+21025831 | Msa0013580:CDS |
| AACATGCAAGTTATTGTCCT+TGG | 0.471688 | 1_1:-21025864 | None:intergenic |
| ACAGAAATATTAAATGAAAG+TGG | 0.514531 | 1_1:-21025923 | None:intergenic |
| GGGTTGGTGAGGATAGAGCT+TGG | 0.522308 | 1_1:+21025774 | Msa0013580:CDS |
| TGGTGAGGATAGAGCTTGGA+AGG | 0.526001 | 1_1:+21025778 | Msa0013580:CDS |
| TGCAAGGTTAAGGGTTGGTG+AGG | 0.534060 | 1_1:+21025763 | Msa0013580:CDS |
| AATTAATCGTACCGGGTAGG+AGG | 0.544955 | 1_1:-21026202 | None:intergenic |
| AACTTACACATAAACGGGCG+TGG | 0.553545 | 1_1:-21025622 | None:intergenic |
| AATACTTGAACGAGTTCGAA+GGG | 0.571263 | 1_1:+21025738 | Msa0013580:CDS |
| ATATCTTCAACAAATTTAGG+AGG | 0.578461 | 1_1:+21026135 | Msa0013580:CDS |
| GAATACTTGAACGAGTTCGA+AGG | 0.582457 | 1_1:+21025737 | Msa0013580:CDS |
| GAGGTGCTCAATAACTGGAC+TGG | 0.587974 | 1_1:+21025538 | Msa0013580:CDS |
| CCAAGCCCTAACAAATTGCA+AGG | 0.590895 | 1_1:+21025965 | Msa0013580:CDS |
| GGGATTGCAAGGTTAAGGGT+TGG | 0.591648 | 1_1:+21025758 | Msa0013580:CDS |
| AATAATTAATCGTACCGGGT+AGG | 0.610224 | 1_1:-21026205 | None:intergenic |
| ACGAGTTCGAAGGGATTGCA+AGG | 0.614875 | 1_1:+21025747 | Msa0013580:CDS |
| AGGTTGGAATTTATTTACCA+AGG | 0.625829 | 1_1:+21025847 | Msa0013580:CDS |
| AAGGACAATAACTTGCATGT+TGG | 0.641573 | 1_1:+21025866 | Msa0013580:CDS |
| CTATGTGTAGGTACTAACAA+AGG | 0.667077 | 1_1:+21025494 | None:intergenic |
| GCATGACTAAGAAAGCAAAG+AGG | 0.728766 | 1_1:+21025519 | Msa0013580:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATTTATTTTATAACTTACT+AGG | + | chr1_1:21026099-21026118 | Msa0013580:intron | 10.0% |
| !!! | AATTTATTTTATAACTTACT+AGG | + | chr1_1:21026099-21026118 | Msa0013580:intron | 10.0% |
| !! | GTTAATGATAAATCTAATAA+TGG | + | chr1_1:21025560-21025579 | Msa0013580:CDS | 15.0% |
| !!! | TTAAAATGTCTACTAATTTT+TGG | + | chr1_1:21025651-21025670 | Msa0013580:intron | 15.0% |
| !! | TTAATTATTTACACAAAATG+TGG | + | chr1_1:21026219-21026238 | Msa0013580:intron | 15.0% |
| !! | GTTAATGATAAATCTAATAA+TGG | + | chr1_1:21025560-21025579 | Msa0013580:CDS | 15.0% |
| !!! | TTAAAATGTCTACTAATTTT+TGG | + | chr1_1:21025651-21025670 | Msa0013580:intron | 15.0% |
| !! | TTAATTATTTACACAAAATG+TGG | + | chr1_1:21026219-21026238 | Msa0013580:intron | 15.0% |
| !! | AATGTAAACTTACACATAAA+CGG | - | chr1_1:21025631-21025650 | None:intergenic | 20.0% |
| !! | ACAGAAATATTAAATGAAAG+TGG | - | chr1_1:21025926-21025945 | None:intergenic | 20.0% |
| !! | AATGTAAACTTACACATAAA+CGG | - | chr1_1:21025631-21025650 | None:intergenic | 20.0% |
| !! | ACAGAAATATTAAATGAAAG+TGG | - | chr1_1:21025926-21025945 | None:intergenic | 20.0% |
| !! | GTCAATTTAAGTTCAAAACT+TGG | - | chr1_1:21025590-21025609 | None:intergenic | 25.0% |
| ! | ATGTAAACTTACACATAAAC+GGG | - | chr1_1:21025630-21025649 | None:intergenic | 25.0% |
| ! | TATTCTCTTGAAAACTTAGT+TGG | - | chr1_1:21025722-21025741 | None:intergenic | 25.0% |
| ! | AGATGTTCTATTCTAAATGT+AGG | + | chr1_1:21025827-21025846 | Msa0013580:CDS | 25.0% |
| !!! | AAAAACCTTGCAATTTGTTA+GGG | - | chr1_1:21025973-21025992 | None:intergenic | 25.0% |
| ! | GAGATATCTTCAACAAATTT+AGG | + | chr1_1:21026132-21026151 | Msa0013580:CDS | 25.0% |
| ! | ATATCTTCAACAAATTTAGG+AGG | + | chr1_1:21026135-21026154 | Msa0013580:CDS | 25.0% |
| ! | TGTAAATAATTAATCGTACC+GGG | - | chr1_1:21026212-21026231 | None:intergenic | 25.0% |
| ! | GTGTAAATAATTAATCGTAC+CGG | - | chr1_1:21026213-21026232 | None:intergenic | 25.0% |
| !! | GTCAATTTAAGTTCAAAACT+TGG | - | chr1_1:21025590-21025609 | None:intergenic | 25.0% |
| ! | ATGTAAACTTACACATAAAC+GGG | - | chr1_1:21025630-21025649 | None:intergenic | 25.0% |
| ! | TATTCTCTTGAAAACTTAGT+TGG | - | chr1_1:21025722-21025741 | None:intergenic | 25.0% |
| ! | AGATGTTCTATTCTAAATGT+AGG | + | chr1_1:21025827-21025846 | Msa0013580:CDS | 25.0% |
| !!! | AAAAACCTTGCAATTTGTTA+GGG | - | chr1_1:21025973-21025992 | None:intergenic | 25.0% |
| ! | GAGATATCTTCAACAAATTT+AGG | + | chr1_1:21026132-21026151 | Msa0013580:CDS | 25.0% |
| ! | ATATCTTCAACAAATTTAGG+AGG | + | chr1_1:21026135-21026154 | Msa0013580:CDS | 25.0% |
| ! | TGTAAATAATTAATCGTACC+GGG | - | chr1_1:21026212-21026231 | None:intergenic | 25.0% |
| ! | GTGTAAATAATTAATCGTAC+CGG | - | chr1_1:21026213-21026232 | None:intergenic | 25.0% |
| GTTCTATTCTAAATGTAGGT+TGG | + | chr1_1:21025831-21025850 | Msa0013580:CDS | 30.0% | |
| AGGTTGGAATTTATTTACCA+AGG | + | chr1_1:21025847-21025866 | Msa0013580:CDS | 30.0% | |
| ! | GAAAAACCTTGCAATTTGTT+AGG | - | chr1_1:21025974-21025993 | None:intergenic | 30.0% |
| GTTCTATTCTAAATGTAGGT+TGG | + | chr1_1:21025831-21025850 | Msa0013580:CDS | 30.0% | |
| AGGTTGGAATTTATTTACCA+AGG | + | chr1_1:21025847-21025866 | Msa0013580:CDS | 30.0% | |
| ! | GAAAAACCTTGCAATTTGTT+AGG | - | chr1_1:21025974-21025993 | None:intergenic | 30.0% |
| CAAACCAAGAATTGAAACAG+TGG | + | chr1_1:21025693-21025712 | Msa0013580:intron | 35.0% | |
| GTATCCACTGTTTCAATTCT+TGG | - | chr1_1:21025700-21025719 | None:intergenic | 35.0% | |
| AATACTTGAACGAGTTCGAA+GGG | + | chr1_1:21025738-21025757 | Msa0013580:CDS | 35.0% | |
| AACATGCAAGTTATTGTCCT+TGG | - | chr1_1:21025867-21025886 | None:intergenic | 35.0% | |
| ! | AAGGACAATAACTTGCATGT+TGG | + | chr1_1:21025866-21025885 | Msa0013580:CDS | 35.0% |
| AATAATTAATCGTACCGGGT+AGG | - | chr1_1:21026208-21026227 | None:intergenic | 35.0% | |
| CAAACCAAGAATTGAAACAG+TGG | + | chr1_1:21025693-21025712 | Msa0013580:intron | 35.0% | |
| GTATCCACTGTTTCAATTCT+TGG | - | chr1_1:21025700-21025719 | None:intergenic | 35.0% | |
| AATACTTGAACGAGTTCGAA+GGG | + | chr1_1:21025738-21025757 | Msa0013580:CDS | 35.0% | |
| AACATGCAAGTTATTGTCCT+TGG | - | chr1_1:21025867-21025886 | None:intergenic | 35.0% | |
| ! | AAGGACAATAACTTGCATGT+TGG | + | chr1_1:21025866-21025885 | Msa0013580:CDS | 35.0% |
| AATAATTAATCGTACCGGGT+AGG | - | chr1_1:21026208-21026227 | None:intergenic | 35.0% | |
| GCATGACTAAGAAAGCAAAG+AGG | + | chr1_1:21025519-21025538 | Msa0013580:CDS | 40.0% | |
| GAATACTTGAACGAGTTCGA+AGG | + | chr1_1:21025737-21025756 | Msa0013580:CDS | 40.0% | |
| ! | TTTTGTGAATTCCTCCTACC+CGG | + | chr1_1:21026191-21026210 | Msa0013580:CDS | 40.0% |
| GCATGACTAAGAAAGCAAAG+AGG | + | chr1_1:21025519-21025538 | Msa0013580:CDS | 40.0% | |
| GAATACTTGAACGAGTTCGA+AGG | + | chr1_1:21025737-21025756 | Msa0013580:CDS | 40.0% | |
| ! | TTTTGTGAATTCCTCCTACC+CGG | + | chr1_1:21026191-21026210 | Msa0013580:CDS | 40.0% |
| !! | GCAAAGAGGTGCTCAATAAC+TGG | + | chr1_1:21025533-21025552 | Msa0013580:CDS | 45.0% |
| AACTTACACATAAACGGGCG+TGG | - | chr1_1:21025625-21025644 | None:intergenic | 45.0% | |
| TCGAAGGGATTGCAAGGTTA+AGG | + | chr1_1:21025753-21025772 | Msa0013580:CDS | 45.0% | |
| CGAAGGGATTGCAAGGTTAA+GGG | + | chr1_1:21025754-21025773 | Msa0013580:CDS | 45.0% | |
| !! | CCTTGCAATTTGTTAGGGCT+TGG | - | chr1_1:21025968-21025987 | None:intergenic | 45.0% |
| CCAAGCCCTAACAAATTGCA+AGG | + | chr1_1:21025965-21025984 | Msa0013580:CDS | 45.0% | |
| AATTAATCGTACCGGGTAGG+AGG | - | chr1_1:21026205-21026224 | None:intergenic | 45.0% | |
| !! | GCAAAGAGGTGCTCAATAAC+TGG | + | chr1_1:21025533-21025552 | Msa0013580:CDS | 45.0% |
| AACTTACACATAAACGGGCG+TGG | - | chr1_1:21025625-21025644 | None:intergenic | 45.0% | |
| TCGAAGGGATTGCAAGGTTA+AGG | + | chr1_1:21025753-21025772 | Msa0013580:CDS | 45.0% | |
| CGAAGGGATTGCAAGGTTAA+GGG | + | chr1_1:21025754-21025773 | Msa0013580:CDS | 45.0% | |
| !! | CCTTGCAATTTGTTAGGGCT+TGG | - | chr1_1:21025968-21025987 | None:intergenic | 45.0% |
| CCAAGCCCTAACAAATTGCA+AGG | + | chr1_1:21025965-21025984 | Msa0013580:CDS | 45.0% | |
| AATTAATCGTACCGGGTAGG+AGG | - | chr1_1:21026205-21026224 | None:intergenic | 45.0% | |
| ! | GAGGTGCTCAATAACTGGAC+TGG | + | chr1_1:21025538-21025557 | Msa0013580:CDS | 50.0% |
| ACGAGTTCGAAGGGATTGCA+AGG | + | chr1_1:21025747-21025766 | Msa0013580:CDS | 50.0% | |
| GGGATTGCAAGGTTAAGGGT+TGG | + | chr1_1:21025758-21025777 | Msa0013580:CDS | 50.0% | |
| !! | TGCAAGGTTAAGGGTTGGTG+AGG | + | chr1_1:21025763-21025782 | Msa0013580:CDS | 50.0% |
| TGGTGAGGATAGAGCTTGGA+AGG | + | chr1_1:21025778-21025797 | Msa0013580:CDS | 50.0% | |
| ! | GAGGTGCTCAATAACTGGAC+TGG | + | chr1_1:21025538-21025557 | Msa0013580:CDS | 50.0% |
| ACGAGTTCGAAGGGATTGCA+AGG | + | chr1_1:21025747-21025766 | Msa0013580:CDS | 50.0% | |
| GGGATTGCAAGGTTAAGGGT+TGG | + | chr1_1:21025758-21025777 | Msa0013580:CDS | 50.0% | |
| !! | TGCAAGGTTAAGGGTTGGTG+AGG | + | chr1_1:21025763-21025782 | Msa0013580:CDS | 50.0% |
| TGGTGAGGATAGAGCTTGGA+AGG | + | chr1_1:21025778-21025797 | Msa0013580:CDS | 50.0% | |
| !! | GGGTTGGTGAGGATAGAGCT+TGG | + | chr1_1:21025774-21025793 | Msa0013580:CDS | 55.0% |
| !! | GGGTTGGTGAGGATAGAGCT+TGG | + | chr1_1:21025774-21025793 | Msa0013580:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 21025506 | 21026354 | 21025506 | ID=Msa0013580;Name=Msa0013580 |
| chr1_1 | mRNA | 21025506 | 21026354 | 21025506 | ID=Msa0013580-mRNA-1;Parent=Msa0013580;Name=Msa0013580-mRNA-1;_AED=0.38;_eAED=0.39;_QI=0|0|0|0.5|1|1|4|0|174 |
| chr1_1 | exon | 21025506 | 21025637 | 21025506 | ID=Msa0013580-mRNA-1:exon:7478;Parent=Msa0013580-mRNA-1 |
| chr1_1 | exon | 21025713 | 21025986 | 21025713 | ID=Msa0013580-mRNA-1:exon:7479;Parent=Msa0013580-mRNA-1 |
| chr1_1 | exon | 21026121 | 21026212 | 21026121 | ID=Msa0013580-mRNA-1:exon:7480;Parent=Msa0013580-mRNA-1 |
| chr1_1 | exon | 21026328 | 21026354 | 21026328 | ID=Msa0013580-mRNA-1:exon:7481;Parent=Msa0013580-mRNA-1 |
| chr1_1 | CDS | 21025506 | 21025637 | 21025506 | ID=Msa0013580-mRNA-1:cds;Parent=Msa0013580-mRNA-1 |
| chr1_1 | CDS | 21025713 | 21025986 | 21025713 | ID=Msa0013580-mRNA-1:cds;Parent=Msa0013580-mRNA-1 |
| chr1_1 | CDS | 21026121 | 21026212 | 21026121 | ID=Msa0013580-mRNA-1:cds;Parent=Msa0013580-mRNA-1 |
| chr1_1 | CDS | 21026328 | 21026354 | 21026328 | ID=Msa0013580-mRNA-1:cds;Parent=Msa0013580-mRNA-1 |
| Gene Sequence |
| Protein sequence |
