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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0176300 | XP_013466755.2 | 93.491 | 169 | 11 | 0 | 1 | 169 | 650 | 818 | 1.48e-105 | 330 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0176300 | A0A396JLZ7 | 93.182 | 132 | 9 | 0 | 1 | 132 | 1 | 132 | 5.16e-85 | 256 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0176300 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0176300 | MtrunA17_Chr1g0163091 | 93.182 | 132 | 9 | 0 | 1 | 132 | 1 | 132 | 9.94e-89 | 256 |
| Msa0176300 | MtrunA17_Chr1g0162151 | 76.515 | 132 | 31 | 0 | 1 | 132 | 1 | 132 | 1.77e-64 | 197 |
| Msa0176300 | MtrunA17_Chr1g0163251 | 53.957 | 139 | 64 | 0 | 2 | 140 | 163 | 301 | 8.09e-45 | 151 |
| Msa0176300 | MtrunA17_Chr1g0163261 | 52.985 | 134 | 59 | 1 | 1 | 130 | 161 | 294 | 8.13e-40 | 136 |
| Msa0176300 | MtrunA17_Chr1g0163181 | 38.710 | 186 | 91 | 3 | 1 | 168 | 180 | 360 | 2.04e-38 | 135 |
| Msa0176300 | MtrunA17_Chr1g0163201 | 40.000 | 170 | 89 | 2 | 1 | 168 | 165 | 323 | 1.02e-35 | 128 |
| Msa0176300 | MtrunA17_Chr6g0476171 | 50.370 | 135 | 60 | 3 | 3 | 130 | 12 | 146 | 4.63e-33 | 117 |
| Msa0176300 | MtrunA17_Chr1g0163151 | 37.278 | 169 | 90 | 2 | 1 | 169 | 1 | 153 | 1.25e-32 | 115 |
| Msa0176300 | MtrunA17_Chr1g0163111 | 40.816 | 147 | 72 | 3 | 1 | 142 | 1 | 137 | 2.86e-29 | 107 |
| Msa0176300 | MtrunA17_Chr1g0163231 | 51.200 | 125 | 54 | 4 | 1 | 121 | 160 | 281 | 4.06e-29 | 108 |
| Msa0176300 | MtrunA17_Chr1g0171611 | 49.558 | 113 | 53 | 3 | 13 | 121 | 157 | 269 | 6.77e-27 | 102 |
| Msa0176300 | MtrunA17_Chr5g0419211 | 39.130 | 92 | 55 | 1 | 41 | 131 | 11 | 102 | 4.99e-18 | 75.1 |
| Msa0176300 | MtrunA17_Chr1g0163071 | 30.631 | 111 | 69 | 2 | 22 | 131 | 196 | 299 | 2.89e-15 | 71.6 |
| Msa0176300 | MtrunA17_Chr1g0208771 | 33.793 | 145 | 84 | 5 | 8 | 148 | 183 | 319 | 1.50e-14 | 70.5 |
| Msa0176300 | MtrunA17_Chr8g0390841 | 34.921 | 126 | 71 | 5 | 10 | 131 | 226 | 344 | 3.57e-14 | 69.3 |
| Msa0176300 | MtrunA17_Chr3g0131891 | 35.135 | 111 | 67 | 3 | 22 | 127 | 201 | 311 | 6.86e-13 | 65.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 27 sgRNAs with CRISPR-Local
Find 82 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTTGGATTTCCATTAT+TGG | 0.230784 | 1_4:-62604321 | None:intergenic |
| AACTTGCAAGTTATTATCTT+TGG | 0.260722 | 1_4:-62604612 | None:intergenic |
| GAGATATCTTCAACAAATTC+AGG | 0.324285 | 1_4:+62604878 | Msa0176300:CDS |
| TCGAAGGGATTGCAAGGTTA+AGG | 0.333047 | 1_4:+62604501 | Msa0176300:CDS |
| CCTTGCAATTTGTTAGGGTT+TGG | 0.338250 | 1_4:-62604713 | None:intergenic |
| TATTCTCTTGAAAACTTAGT+TGG | 0.372973 | 1_4:-62604467 | None:intergenic |
| CGAAGGGATTGCAAGGTTAA+GGG | 0.387959 | 1_4:+62604502 | Msa0176300:CDS |
| TTTAATGAGAAATCCAATAA+TGG | 0.406882 | 1_4:+62604308 | Msa0176300:CDS |
| AATGTAAACTTACACATAAA+CGG | 0.413291 | 1_4:-62604376 | None:intergenic |
| GTCAATTTAAGTTCAAAACT+TGG | 0.428551 | 1_4:-62604335 | None:intergenic |
| AGATGTTCTATTCTAAATGT+AGG | 0.453577 | 1_4:+62604575 | Msa0176300:CDS |
| GTTCTATTCTAAATGTAGGT+TGG | 0.464202 | 1_4:+62604579 | Msa0176300:CDS |
| GGGTTGGTGAGGATAGAGCT+TGG | 0.522308 | 1_4:+62604522 | Msa0176300:CDS |
| TGGTGAGGATAGAGCTTGGA+AGG | 0.526001 | 1_4:+62604526 | Msa0176300:CDS |
| TGCAAGGTTAAGGGTTGGTG+AGG | 0.534060 | 1_4:+62604511 | Msa0176300:CDS |
| AAAGATAATAACTTGCAAGT+TGG | 0.545014 | 1_4:+62604614 | Msa0176300:CDS |
| AACTTACACATAAACGGCCA+TGG | 0.550419 | 1_4:-62604370 | None:intergenic |
| AATACTTGAACGAGTTCGAA+GGG | 0.571263 | 1_4:+62604486 | Msa0176300:CDS |
| CCAAACCCTAACAAATTGCA+AGG | 0.573531 | 1_4:+62604713 | Msa0176300:CDS |
| AATTAATCATACCGGGTAGG+AGG | 0.574343 | 1_4:-62604948 | None:intergenic |
| GAATACTTGAACGAGTTCGA+AGG | 0.582457 | 1_4:+62604485 | Msa0176300:CDS |
| GGGATTGCAAGGTTAAGGGT+TGG | 0.591648 | 1_4:+62604506 | Msa0176300:CDS |
| ACGAGTTCGAAGGGATTGCA+AGG | 0.614875 | 1_4:+62604495 | Msa0176300:CDS |
| TTGACACGAAGTTATGTCCA+TGG | 0.615137 | 1_4:+62604353 | Msa0176300:CDS |
| AGTAATTAATCATACCGGGT+AGG | 0.623102 | 1_4:-62604951 | None:intergenic |
| ATATCTTCAACAAATTCAGG+TGG | 0.668634 | 1_4:+62604881 | Msa0176300:CDS |
| GCATGACTAAGAAAGCAAAG+AGG | 0.728766 | 1_4:+62604267 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTAAAATGTCTACTAATTTT+TGG | + | chr1_4:62604399-62604418 | Msa0176300:intron | 15.0% |
| !! | ATAAAAATAGTAAATGAAAG+TGG | - | chr1_4:62604674-62604693 | None:intergenic | 15.0% |
| !! | TTAATTACTTACATAAAATG+TGG | + | chr1_4:62604965-62604984 | Msa0176300:intron | 15.0% |
| !!! | TTAAAATGTCTACTAATTTT+TGG | + | chr1_4:62604399-62604418 | Msa0176300:intron | 15.0% |
| !! | ATAAAAATAGTAAATGAAAG+TGG | - | chr1_4:62604674-62604693 | None:intergenic | 15.0% |
| !! | TTAATTACTTACATAAAATG+TGG | + | chr1_4:62604965-62604984 | Msa0176300:intron | 15.0% |
| !! | TTTAATGAGAAATCCAATAA+TGG | + | chr1_4:62604308-62604327 | Msa0176300:CDS | 20.0% |
| !! | AATGTAAACTTACACATAAA+CGG | - | chr1_4:62604379-62604398 | None:intergenic | 20.0% |
| !!! | TCTTCATTATTTGTTTGTTT+TGG | + | chr1_4:62604748-62604767 | Msa0176300:intron | 20.0% |
| !!! | AATTCCTTTTATAACTTTCT+AGG | + | chr1_4:62604845-62604864 | Msa0176300:intron | 20.0% |
| !! | ATAACCTAGAAAGTTATAAA+AGG | - | chr1_4:62604852-62604871 | None:intergenic | 20.0% |
| !! | ATGTAAGTAATTAATCATAC+CGG | - | chr1_4:62604959-62604978 | None:intergenic | 20.0% |
| !! | TTTAATGAGAAATCCAATAA+TGG | + | chr1_4:62604308-62604327 | Msa0176300:CDS | 20.0% |
| !! | AATGTAAACTTACACATAAA+CGG | - | chr1_4:62604379-62604398 | None:intergenic | 20.0% |
| !!! | TCTTCATTATTTGTTTGTTT+TGG | + | chr1_4:62604748-62604767 | Msa0176300:intron | 20.0% |
| !!! | AATTCCTTTTATAACTTTCT+AGG | + | chr1_4:62604845-62604864 | Msa0176300:intron | 20.0% |
| !! | ATAACCTAGAAAGTTATAAA+AGG | - | chr1_4:62604852-62604871 | None:intergenic | 20.0% |
| !! | ATGTAAGTAATTAATCATAC+CGG | - | chr1_4:62604959-62604978 | None:intergenic | 20.0% |
| ! | AAAACTTGGATTTCCATTAT+TGG | - | chr1_4:62604324-62604343 | None:intergenic | 25.0% |
| !! | GTCAATTTAAGTTCAAAACT+TGG | - | chr1_4:62604338-62604357 | None:intergenic | 25.0% |
| ! | TATTCTCTTGAAAACTTAGT+TGG | - | chr1_4:62604470-62604489 | None:intergenic | 25.0% |
| ! | AGATGTTCTATTCTAAATGT+AGG | + | chr1_4:62604575-62604594 | Msa0176300:CDS | 25.0% |
| ! | AACTTGCAAGTTATTATCTT+TGG | - | chr1_4:62604615-62604634 | None:intergenic | 25.0% |
| !! | AAAGATAATAACTTGCAAGT+TGG | + | chr1_4:62604614-62604633 | Msa0176300:CDS | 25.0% |
| !!! | AAAAACCTTGCAATTTGTTA+GGG | - | chr1_4:62604721-62604740 | None:intergenic | 25.0% |
| ! | TGTAAGTAATTAATCATACC+GGG | - | chr1_4:62604958-62604977 | None:intergenic | 25.0% |
| ! | AAAACTTGGATTTCCATTAT+TGG | - | chr1_4:62604324-62604343 | None:intergenic | 25.0% |
| !! | GTCAATTTAAGTTCAAAACT+TGG | - | chr1_4:62604338-62604357 | None:intergenic | 25.0% |
| ! | TATTCTCTTGAAAACTTAGT+TGG | - | chr1_4:62604470-62604489 | None:intergenic | 25.0% |
| ! | AGATGTTCTATTCTAAATGT+AGG | + | chr1_4:62604575-62604594 | Msa0176300:CDS | 25.0% |
| ! | AACTTGCAAGTTATTATCTT+TGG | - | chr1_4:62604615-62604634 | None:intergenic | 25.0% |
| !! | AAAGATAATAACTTGCAAGT+TGG | + | chr1_4:62604614-62604633 | Msa0176300:CDS | 25.0% |
| !!! | AAAAACCTTGCAATTTGTTA+GGG | - | chr1_4:62604721-62604740 | None:intergenic | 25.0% |
| ! | TGTAAGTAATTAATCATACC+GGG | - | chr1_4:62604958-62604977 | None:intergenic | 25.0% |
| GTTCTATTCTAAATGTAGGT+TGG | + | chr1_4:62604579-62604598 | Msa0176300:CDS | 30.0% | |
| ! | GAAAAACCTTGCAATTTGTT+AGG | - | chr1_4:62604722-62604741 | None:intergenic | 30.0% |
| GAGATATCTTCAACAAATTC+AGG | + | chr1_4:62604878-62604897 | Msa0176300:CDS | 30.0% | |
| ATATCTTCAACAAATTCAGG+TGG | + | chr1_4:62604881-62604900 | Msa0176300:CDS | 30.0% | |
| GTTCTATTCTAAATGTAGGT+TGG | + | chr1_4:62604579-62604598 | Msa0176300:CDS | 30.0% | |
| ! | GAAAAACCTTGCAATTTGTT+AGG | - | chr1_4:62604722-62604741 | None:intergenic | 30.0% |
| GAGATATCTTCAACAAATTC+AGG | + | chr1_4:62604878-62604897 | Msa0176300:CDS | 30.0% | |
| ATATCTTCAACAAATTCAGG+TGG | + | chr1_4:62604881-62604900 | Msa0176300:CDS | 30.0% | |
| CAAACCAAGAATTGAAACAG+TGG | + | chr1_4:62604441-62604460 | Msa0176300:intron | 35.0% | |
| GTATCCACTGTTTCAATTCT+TGG | - | chr1_4:62604448-62604467 | None:intergenic | 35.0% | |
| AATACTTGAACGAGTTCGAA+GGG | + | chr1_4:62604486-62604505 | Msa0176300:CDS | 35.0% | |
| ! | TTTTATTGCTCGAGTTAGAG+AGG | + | chr1_4:62604688-62604707 | Msa0176300:CDS | 35.0% |
| AGTAATTAATCATACCGGGT+AGG | - | chr1_4:62604954-62604973 | None:intergenic | 35.0% | |
| CAAACCAAGAATTGAAACAG+TGG | + | chr1_4:62604441-62604460 | Msa0176300:intron | 35.0% | |
| GTATCCACTGTTTCAATTCT+TGG | - | chr1_4:62604448-62604467 | None:intergenic | 35.0% | |
| AATACTTGAACGAGTTCGAA+GGG | + | chr1_4:62604486-62604505 | Msa0176300:CDS | 35.0% | |
| ! | TTTTATTGCTCGAGTTAGAG+AGG | + | chr1_4:62604688-62604707 | Msa0176300:CDS | 35.0% |
| AGTAATTAATCATACCGGGT+AGG | - | chr1_4:62604954-62604973 | None:intergenic | 35.0% | |
| TTGACACGAAGTTATGTCCA+TGG | + | chr1_4:62604353-62604372 | Msa0176300:CDS | 40.0% | |
| AACTTACACATAAACGGCCA+TGG | - | chr1_4:62604373-62604392 | None:intergenic | 40.0% | |
| GAATACTTGAACGAGTTCGA+AGG | + | chr1_4:62604485-62604504 | Msa0176300:CDS | 40.0% | |
| !! | CCTTGCAATTTGTTAGGGTT+TGG | - | chr1_4:62604716-62604735 | None:intergenic | 40.0% |
| CCAAACCCTAACAAATTGCA+AGG | + | chr1_4:62604713-62604732 | Msa0176300:CDS | 40.0% | |
| ! | TTTTGTGAATTCCTCCTACC+CGG | + | chr1_4:62604937-62604956 | Msa0176300:CDS | 40.0% |
| AATTAATCATACCGGGTAGG+AGG | - | chr1_4:62604951-62604970 | None:intergenic | 40.0% | |
| TTGACACGAAGTTATGTCCA+TGG | + | chr1_4:62604353-62604372 | Msa0176300:CDS | 40.0% | |
| AACTTACACATAAACGGCCA+TGG | - | chr1_4:62604373-62604392 | None:intergenic | 40.0% | |
| GAATACTTGAACGAGTTCGA+AGG | + | chr1_4:62604485-62604504 | Msa0176300:CDS | 40.0% | |
| !! | CCTTGCAATTTGTTAGGGTT+TGG | - | chr1_4:62604716-62604735 | None:intergenic | 40.0% |
| CCAAACCCTAACAAATTGCA+AGG | + | chr1_4:62604713-62604732 | Msa0176300:CDS | 40.0% | |
| ! | TTTTGTGAATTCCTCCTACC+CGG | + | chr1_4:62604937-62604956 | Msa0176300:CDS | 40.0% |
| AATTAATCATACCGGGTAGG+AGG | - | chr1_4:62604951-62604970 | None:intergenic | 40.0% | |
| TCGAAGGGATTGCAAGGTTA+AGG | + | chr1_4:62604501-62604520 | Msa0176300:CDS | 45.0% | |
| CGAAGGGATTGCAAGGTTAA+GGG | + | chr1_4:62604502-62604521 | Msa0176300:CDS | 45.0% | |
| CATCAGGTACGAACTGCAAA+TGG | - | chr1_4:62605040-62605059 | None:intergenic | 45.0% | |
| TCGAAGGGATTGCAAGGTTA+AGG | + | chr1_4:62604501-62604520 | Msa0176300:CDS | 45.0% | |
| CGAAGGGATTGCAAGGTTAA+GGG | + | chr1_4:62604502-62604521 | Msa0176300:CDS | 45.0% | |
| CATCAGGTACGAACTGCAAA+TGG | - | chr1_4:62605040-62605059 | None:intergenic | 45.0% | |
| ACGAGTTCGAAGGGATTGCA+AGG | + | chr1_4:62604495-62604514 | Msa0176300:CDS | 50.0% | |
| GGGATTGCAAGGTTAAGGGT+TGG | + | chr1_4:62604506-62604525 | Msa0176300:CDS | 50.0% | |
| !! | TGCAAGGTTAAGGGTTGGTG+AGG | + | chr1_4:62604511-62604530 | Msa0176300:CDS | 50.0% |
| TGGTGAGGATAGAGCTTGGA+AGG | + | chr1_4:62604526-62604545 | Msa0176300:CDS | 50.0% | |
| ACGAGTTCGAAGGGATTGCA+AGG | + | chr1_4:62604495-62604514 | Msa0176300:CDS | 50.0% | |
| GGGATTGCAAGGTTAAGGGT+TGG | + | chr1_4:62604506-62604525 | Msa0176300:CDS | 50.0% | |
| !! | TGCAAGGTTAAGGGTTGGTG+AGG | + | chr1_4:62604511-62604530 | Msa0176300:CDS | 50.0% |
| TGGTGAGGATAGAGCTTGGA+AGG | + | chr1_4:62604526-62604545 | Msa0176300:CDS | 50.0% | |
| !! | GGGTTGGTGAGGATAGAGCT+TGG | + | chr1_4:62604522-62604541 | Msa0176300:CDS | 55.0% |
| !! | GGGTTGGTGAGGATAGAGCT+TGG | + | chr1_4:62604522-62604541 | Msa0176300:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 62604269 | 62605073 | 62604269 | ID=Msa0176300;Name=Msa0176300 |
| chr1_4 | mRNA | 62604269 | 62605073 | 62604269 | ID=Msa0176300-mRNA-1;Parent=Msa0176300;Name=Msa0176300-mRNA-1;_AED=0.57;_eAED=0.57;_QI=0|0|0|0.5|1|1|4|0|169 |
| chr1_4 | exon | 62604269 | 62604385 | 62604269 | ID=Msa0176300-mRNA-1:exon:20171;Parent=Msa0176300-mRNA-1 |
| chr1_4 | exon | 62604461 | 62604734 | 62604461 | ID=Msa0176300-mRNA-1:exon:20172;Parent=Msa0176300-mRNA-1 |
| chr1_4 | exon | 62604867 | 62604958 | 62604867 | ID=Msa0176300-mRNA-1:exon:20173;Parent=Msa0176300-mRNA-1 |
| chr1_4 | exon | 62605047 | 62605073 | 62605047 | ID=Msa0176300-mRNA-1:exon:20174;Parent=Msa0176300-mRNA-1 |
| chr1_4 | CDS | 62604269 | 62604385 | 62604269 | ID=Msa0176300-mRNA-1:cds;Parent=Msa0176300-mRNA-1 |
| chr1_4 | CDS | 62604461 | 62604734 | 62604461 | ID=Msa0176300-mRNA-1:cds;Parent=Msa0176300-mRNA-1 |
| chr1_4 | CDS | 62604867 | 62604958 | 62604867 | ID=Msa0176300-mRNA-1:cds;Parent=Msa0176300-mRNA-1 |
| chr1_4 | CDS | 62605047 | 62605073 | 62605047 | ID=Msa0176300-mRNA-1:cds;Parent=Msa0176300-mRNA-1 |
| Gene Sequence |
| Protein sequence |
