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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0554590 | XP_039687084.1 | 85.246 | 122 | 18 | 0 | 1 | 122 | 1 | 122 | 4.37e-71 | 218 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0554590 | G7INX6 | 85.246 | 122 | 18 | 0 | 1 | 122 | 1 | 122 | 2.09e-71 | 218 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0554590 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0554590 | MtrunA17_Chr2g0281511 | 85.246 | 122 | 18 | 0 | 1 | 122 | 1 | 122 | 4.02e-75 | 218 |
| Msa0554590 | MtrunA17_Chr2g0309121 | 81.967 | 122 | 21 | 1 | 1 | 122 | 1 | 121 | 7.39e-70 | 205 |
| Msa0554590 | MtrunA17_Chr3g0081891 | 84.810 | 79 | 12 | 0 | 1 | 79 | 1 | 79 | 7.79e-45 | 140 |
| Msa0554590 | MtrunA17_Chr7g0276661 | 35.115 | 131 | 65 | 4 | 7 | 119 | 38 | 166 | 3.86e-21 | 83.2 |
| Msa0554590 | MtrunA17_Chr0c01g0489371 | 41.758 | 91 | 51 | 1 | 22 | 110 | 224 | 314 | 2.78e-17 | 75.9 |
| Msa0554590 | MtrunA17_Chr8g0356961 | 40.449 | 89 | 51 | 1 | 24 | 110 | 77 | 165 | 1.10e-16 | 71.6 |
| Msa0554590 | MtrunA17_Chr8g0372431 | 29.897 | 97 | 68 | 0 | 24 | 120 | 6 | 102 | 1.25e-16 | 69.7 |
| Msa0554590 | MtrunA17_Chr6g0485871 | 33.721 | 86 | 56 | 1 | 24 | 108 | 214 | 299 | 8.65e-13 | 63.2 |
| Msa0554590 | MtrunA17_Chr8g0356951 | 37.363 | 91 | 53 | 2 | 24 | 110 | 217 | 307 | 1.21e-12 | 62.8 |
| Msa0554590 | MtrunA17_Chr5g0434641 | 34.066 | 91 | 58 | 1 | 22 | 110 | 208 | 298 | 1.61e-12 | 62.4 |
| Msa0554590 | MtrunA17_Chr7g0228081 | 31.250 | 80 | 55 | 0 | 41 | 120 | 13 | 92 | 4.05e-12 | 57.8 |
| Msa0554590 | MtrunA17_Chr5g0430431 | 42.623 | 61 | 35 | 0 | 56 | 116 | 194 | 254 | 8.33e-12 | 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 23 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAATGTTACTGCTTCTATTT+TGG | 0.123735 | 4_1:-51973323 | Msa0554590:CDS |
| AAAATTCCGATGTTCATTAT+TGG | 0.199581 | 4_1:-51973351 | Msa0554590:CDS |
| GAAGTCAATGGTGCTGAATT+AGG | 0.200131 | 4_1:-51973382 | Msa0554590:CDS |
| TACCAGTTTCTTCATCAAAA+AGG | 0.252196 | 4_1:+51973132 | None:intergenic |
| TGTATGCTACCGTCGTTAAC+TGG | 0.297739 | 4_1:-51972965 | Msa0554590:CDS |
| CCTCGACGTGTTGCCGAGAA+TGG | 0.307864 | 4_1:-51973182 | Msa0554590:CDS |
| CGGTCAATAATCCTCCTAAT+AGG | 0.355854 | 4_1:-51972989 | Msa0554590:CDS |
| TTTGGATGGAAACAATGTTT+TGG | 0.356448 | 4_1:-51973305 | Msa0554590:intron |
| AAGTCAATGGTGCTGAATTA+GGG | 0.416476 | 4_1:-51973381 | Msa0554590:CDS |
| ACGGTAGCATACATCCTATT+AGG | 0.440754 | 4_1:+51972975 | None:intergenic |
| ATTGGTATACAAACCATTCT+CGG | 0.470714 | 4_1:+51973169 | None:intergenic |
| GTATGCTACCGTCGTTAACT+GGG | 0.522932 | 4_1:-51972964 | Msa0554590:CDS |
| GCATGGATCAGAAATACATA+GGG | 0.559318 | 4_1:-51973073 | Msa0554590:CDS |
| AGCATGGATCAGAAATACAT+AGG | 0.564126 | 4_1:-51973074 | Msa0554590:CDS |
| CTTGAAAAGTGCCTAAAAGT+TGG | 0.570138 | 4_1:-51973029 | Msa0554590:CDS |
| AGAAATACATAGGGAGAGGA+TGG | 0.573439 | 4_1:-51973064 | Msa0554590:CDS |
| GATCAGAAATACATAGGGAG+AGG | 0.587262 | 4_1:-51973068 | Msa0554590:CDS |
| TCACACTGCGTCAAGAAGCA+TGG | 0.587686 | 4_1:-51973090 | Msa0554590:CDS |
| CCATTCTCGGCAACACGTCG+AGG | 0.599354 | 4_1:+51973182 | None:intergenic |
| GAGATTGGAGTTGAAGTCAA+TGG | 0.619642 | 4_1:-51973394 | Msa0554590:CDS |
| GTAGCATACATCCTATTAGG+AGG | 0.633251 | 4_1:+51972978 | None:intergenic |
| ATACTTCCAATAATGAACAT+CGG | 0.646998 | 4_1:+51973345 | None:intergenic |
| TAATCAGTCCCAGTTAACGA+CGG | 0.733495 | 4_1:+51972956 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAAATTCCGATGTTCATTAT+TGG | - | chr4_1:51973008-51973027 | Msa0554590:CDS | 25.0% |
| ! | ATACTTCCAATAATGAACAT+CGG | + | chr4_1:51973017-51973036 | None:intergenic | 25.0% |
| !! | TAATGTTACTGCTTCTATTT+TGG | - | chr4_1:51973036-51973055 | Msa0554590:CDS | 25.0% |
| !! | AAGGAGAATTTTAGATTGAT+TGG | + | chr4_1:51973211-51973230 | None:intergenic | 25.0% |
| ! | TTTGGATGGAAACAATGTTT+TGG | - | chr4_1:51973054-51973073 | Msa0554590:CDS | 30.0% |
| ATTGGTATACAAACCATTCT+CGG | + | chr4_1:51973193-51973212 | None:intergenic | 30.0% | |
| TACCAGTTTCTTCATCAAAA+AGG | + | chr4_1:51973230-51973249 | None:intergenic | 30.0% | |
| ! | AAACAACATCACCAACTTTT+AGG | + | chr4_1:51973344-51973363 | None:intergenic | 30.0% |
| ! | AAGTCAATGGTGCTGAATTA+GGG | - | chr4_1:51972978-51972997 | Msa0554590:CDS | 35.0% |
| !! | GTTACTGCTTCTATTTTGGA+TGG | - | chr4_1:51973040-51973059 | Msa0554590:CDS | 35.0% |
| !!! | GGAAACAATGTTTTGGTTAG+TGG | - | chr4_1:51973061-51973080 | Msa0554590:CDS | 35.0% |
| ! | CTCCTTTTTGATGAAGAAAC+TGG | - | chr4_1:51973225-51973244 | Msa0554590:intron | 35.0% |
| AGCATGGATCAGAAATACAT+AGG | - | chr4_1:51973285-51973304 | Msa0554590:intron | 35.0% | |
| GCATGGATCAGAAATACATA+GGG | - | chr4_1:51973286-51973305 | Msa0554590:intron | 35.0% | |
| !! | CTTGAAAAGTGCCTAAAAGT+TGG | - | chr4_1:51973330-51973349 | Msa0554590:CDS | 35.0% |
| !!! | TGGTGATGTTGTTTTGTTCA+CGG | - | chr4_1:51973350-51973369 | Msa0554590:CDS | 35.0% |
| GAGATTGGAGTTGAAGTCAA+TGG | - | chr4_1:51972965-51972984 | Msa0554590:CDS | 40.0% | |
| ! | GAAGTCAATGGTGCTGAATT+AGG | - | chr4_1:51972977-51972996 | Msa0554590:CDS | 40.0% |
| GATCAGAAATACATAGGGAG+AGG | - | chr4_1:51973291-51973310 | Msa0554590:intron | 40.0% | |
| AGAAATACATAGGGAGAGGA+TGG | - | chr4_1:51973295-51973314 | Msa0554590:intron | 40.0% | |
| CGGTCAATAATCCTCCTAAT+AGG | - | chr4_1:51973370-51973389 | Msa0554590:CDS | 40.0% | |
| GTAGCATACATCCTATTAGG+AGG | + | chr4_1:51973384-51973403 | None:intergenic | 40.0% | |
| ACGGTAGCATACATCCTATT+AGG | + | chr4_1:51973387-51973406 | None:intergenic | 40.0% | |
| TGTATGCTACCGTCGTTAAC+TGG | - | chr4_1:51973394-51973413 | Msa0554590:CDS | 45.0% | |
| GTATGCTACCGTCGTTAACT+GGG | - | chr4_1:51973395-51973414 | Msa0554590:CDS | 45.0% | |
| TCACACTGCGTCAAGAAGCA+TGG | - | chr4_1:51973269-51973288 | Msa0554590:intron | 50.0% | |
| CCATTCTCGGCAACACGTCG+AGG | + | chr4_1:51973180-51973199 | None:intergenic | 60.0% | |
| CCTCGACGTGTTGCCGAGAA+TGG | - | chr4_1:51973177-51973196 | Msa0554590:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 51972959 | 51973422 | 51972959 | ID=Msa0554590;Name=Msa0554590 |
| chr4_1 | mRNA | 51972959 | 51973422 | 51972959 | ID=Msa0554590-mRNA-1;Parent=Msa0554590;Name=Msa0554590-mRNA-1;_AED=0.06;_eAED=0.06;_QI=0|0|0|1|1|1|2|0|122 |
| chr4_1 | exon | 51973306 | 51973422 | 51973306 | ID=Msa0554590-mRNA-1:exon:14959;Parent=Msa0554590-mRNA-1 |
| chr4_1 | exon | 51972959 | 51973210 | 51972959 | ID=Msa0554590-mRNA-1:exon:14958;Parent=Msa0554590-mRNA-1 |
| chr4_1 | CDS | 51973306 | 51973422 | 51973306 | ID=Msa0554590-mRNA-1:cds;Parent=Msa0554590-mRNA-1 |
| chr4_1 | CDS | 51972959 | 51973210 | 51972959 | ID=Msa0554590-mRNA-1:cds;Parent=Msa0554590-mRNA-1 |
| Gene Sequence |
| Protein sequence |
