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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0212710 | XP_027929706.1 | 71.250 | 80 | 18 | 2 | 1 | 75 | 1 | 80 | 1.42e-31 | 115 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0212710 | sp|Q9SKY1|CSTM4_ARATH | 52.000 | 75 | 32 | 2 | 1 | 75 | 1 | 71 | 8.44e-19 | 75.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0212710 | A0A4D6NCS9 | 71.250 | 80 | 18 | 2 | 1 | 75 | 1 | 80 | 6.76e-32 | 115 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0147790 | Msa0212710 | 0.851845 | 6.805550e-61 | -8.615850e-47 |
| Msa0212710 | Msa0235840 | 0.801120 | 1.045933e-48 | -8.615850e-47 |
| Msa0212710 | Msa0253130 | 0.802393 | 5.729987e-49 | -8.615850e-47 |
| Msa0212710 | Msa0253140 | 0.822459 | 2.342031e-53 | -8.615850e-47 |
| Msa0212710 | Msa0351050 | 0.807347 | 5.284147e-50 | -8.615850e-47 |
| Msa0212710 | Msa0816630 | 0.805631 | 1.216258e-49 | -8.615850e-47 |
| Msa0212710 | Msa1212470 | 0.807675 | 4.501522e-50 | -8.615850e-47 |
| Msa0212710 | Msa1221220 | 0.810132 | 1.341907e-50 | -8.615850e-47 |
| Msa0212710 | Msa1329900 | 0.810442 | 1.150446e-50 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0212710 | MtrunA17_Chr2g0312051 | 82.895 | 76 | 12 | 1 | 1 | 75 | 1 | 76 | 5.54e-34 | 110 |
| Msa0212710 | MtrunA17_Chr1g0166081 | 77.215 | 79 | 14 | 2 | 1 | 75 | 1 | 79 | 1.91e-31 | 104 |
| Msa0212710 | MtrunA17_Chr5g0417951 | 75.949 | 79 | 15 | 2 | 1 | 75 | 1 | 79 | 5.25e-31 | 103 |
| Msa0212710 | MtrunA17_Chr4g0048281 | 80.000 | 80 | 11 | 3 | 1 | 75 | 1 | 80 | 1.89e-28 | 97.1 |
| Msa0212710 | MtrunA17_Chr2g0312011 | 58.333 | 60 | 20 | 2 | 1 | 59 | 1 | 56 | 3.94e-14 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0212710 | AT2G32190.1 | 52.000 | 75 | 32 | 2 | 1 | 75 | 1 | 71 | 8.58e-20 | 75.5 |
| Msa0212710 | AT2G32210.1 | 52.000 | 75 | 32 | 2 | 1 | 75 | 1 | 71 | 1.53e-19 | 74.7 |
| Msa0212710 | AT2G32200.2 | 48.718 | 78 | 33 | 3 | 1 | 75 | 35 | 108 | 6.60e-16 | 66.6 |
| Msa0212710 | AT2G32200.1 | 48.718 | 78 | 33 | 3 | 1 | 75 | 1 | 74 | 9.91e-16 | 65.1 |
| Msa0212710 | AT3G22240.1 | 50.685 | 73 | 34 | 2 | 3 | 75 | 2 | 72 | 7.51e-11 | 52.8 |
Find 31 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTAGCAGGGGTGATGGTTTC+TGG | 0.152080 | 2_1:+54868217 | Msa0212710:CDS |
| GTGCCCTTCAGTGCCATCTT+TGG | 0.313951 | 2_1:-54868166 | None:intergenic |
| GAACTTAAAAGCAGATATCT+AGG | 0.339148 | 2_1:-54868275 | None:intergenic |
| ACTGGTGGTGGATATGATAC+TGG | 0.355057 | 2_1:-54868096 | None:intergenic |
| CATCACCCCTGCTAGTAGTT+TGG | 0.398219 | 2_1:-54868209 | None:intergenic |
| TGTAACTGCACCACCACCTA+TGG | 0.404681 | 2_1:+54868134 | Msa0212710:CDS |
| ACATATGGAGCTGTAGATAC+TGG | 0.438751 | 2_1:-54868114 | None:intergenic |
| TAACTTCAACAATAAGCAAC+AGG | 0.473699 | 2_1:+54868071 | Msa0212710:CDS |
| CCCCTGCTAGTAGTTTGGTC+TGG | 0.475028 | 2_1:-54868204 | None:intergenic |
| CTGGTGGTGGATATGATACT+GGG | 0.477844 | 2_1:-54868095 | None:intergenic |
| GGTGGTGGTGCAGTTACATA+TGG | 0.482974 | 2_1:-54868129 | None:intergenic |
| CCTTCCAAAGATGGCACTGA+AGG | 0.487973 | 2_1:+54868162 | Msa0212710:CDS |
| TTCCAGACCAAACTACTAGC+AGG | 0.517123 | 2_1:+54868202 | Msa0212710:CDS |
| ATGGGTTATCCTTCCAAAGA+TGG | 0.529377 | 2_1:+54868153 | Msa0212710:CDS |
| GGTCTGGAATCGTTTGTTGA+GGG | 0.533042 | 2_1:-54868188 | None:intergenic |
| CCTTCAGTGCCATCTTTGGA+AGG | 0.555857 | 2_1:-54868162 | None:intergenic |
| AGGGGTGATGGTTTCTGGAA+GGG | 0.573021 | 2_1:+54868222 | Msa0212710:CDS |
| TCCAGACCAAACTACTAGCA+GGG | 0.582626 | 2_1:+54868203 | Msa0212710:CDS |
| CAAACTACTAGCAGGGGTGA+TGG | 0.586318 | 2_1:+54868210 | Msa0212710:CDS |
| GAAGGATAACCCATAGGTGG+TGG | 0.596519 | 2_1:-54868144 | None:intergenic |
| GTAACTGCACCACCACCTAT+GGG | 0.597034 | 2_1:+54868135 | Msa0212710:CDS |
| CTTCCAAAGATGGCACTGAA+GGG | 0.598808 | 2_1:+54868163 | Msa0212710:CDS |
| CAGGGGTGATGGTTTCTGGA+AGG | 0.601686 | 2_1:+54868221 | Msa0212710:CDS |
| TGGTCTGGAATCGTTTGTTG+AGG | 0.604125 | 2_1:-54868189 | None:intergenic |
| AACTTAAAAGCAGATATCTA+GGG | 0.606743 | 2_1:-54868274 | None:intergenic |
| GGAGCTGTAGATACTGGTGG+TGG | 0.617769 | 2_1:-54868108 | None:intergenic |
| TCTTTGGAAGGATAACCCAT+AGG | 0.652777 | 2_1:-54868150 | None:intergenic |
| CCAGACCAAACTACTAGCAG+GGG | 0.657589 | 2_1:+54868204 | Msa0212710:CDS |
| TTGGAAGGATAACCCATAGG+TGG | 0.675232 | 2_1:-54868147 | None:intergenic |
| TGGTGGTGGATATGATACTG+GGG | 0.717786 | 2_1:-54868094 | None:intergenic |
| TATGGAGCTGTAGATACTGG+TGG | 0.763094 | 2_1:-54868111 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TAACTTCAACAATAAGCAAC+AGG | + | chr2_1:54868071-54868090 | Msa0212710:CDS | 30.0% | |
| ACATATGGAGCTGTAGATAC+TGG | - | chr2_1:54868117-54868136 | None:intergenic | 40.0% | |
| ! | TCTTTGGAAGGATAACCCAT+AGG | - | chr2_1:54868153-54868172 | None:intergenic | 40.0% |
| ! | ATGGGTTATCCTTCCAAAGA+TGG | + | chr2_1:54868153-54868172 | Msa0212710:CDS | 40.0% |
| !! | TGGTGGTGGATATGATACTG+GGG | - | chr2_1:54868097-54868116 | None:intergenic | 45.0% |
| !! | CTGGTGGTGGATATGATACT+GGG | - | chr2_1:54868098-54868117 | None:intergenic | 45.0% |
| !! | ACTGGTGGTGGATATGATAC+TGG | - | chr2_1:54868099-54868118 | None:intergenic | 45.0% |
| TATGGAGCTGTAGATACTGG+TGG | - | chr2_1:54868114-54868133 | None:intergenic | 45.0% | |
| TTGGAAGGATAACCCATAGG+TGG | - | chr2_1:54868150-54868169 | None:intergenic | 45.0% | |
| ! | CTTCCAAAGATGGCACTGAA+GGG | + | chr2_1:54868163-54868182 | Msa0212710:CDS | 45.0% |
| ! | GGTCTGGAATCGTTTGTTGA+GGG | - | chr2_1:54868191-54868210 | None:intergenic | 45.0% |
| ! | TGGTCTGGAATCGTTTGTTG+AGG | - | chr2_1:54868192-54868211 | None:intergenic | 45.0% |
| TTCCAGACCAAACTACTAGC+AGG | + | chr2_1:54868202-54868221 | Msa0212710:CDS | 45.0% | |
| TCCAGACCAAACTACTAGCA+GGG | + | chr2_1:54868203-54868222 | Msa0212710:CDS | 45.0% | |
| ! | GGTGGTGGTGCAGTTACATA+TGG | - | chr2_1:54868132-54868151 | None:intergenic | 50.0% |
| TGTAACTGCACCACCACCTA+TGG | + | chr2_1:54868134-54868153 | Msa0212710:CDS | 50.0% | |
| GTAACTGCACCACCACCTAT+GGG | + | chr2_1:54868135-54868154 | Msa0212710:CDS | 50.0% | |
| GAAGGATAACCCATAGGTGG+TGG | - | chr2_1:54868147-54868166 | None:intergenic | 50.0% | |
| CCTTCAGTGCCATCTTTGGA+AGG | - | chr2_1:54868165-54868184 | None:intergenic | 50.0% | |
| ! | CCTTCCAAAGATGGCACTGA+AGG | + | chr2_1:54868162-54868181 | Msa0212710:CDS | 50.0% |
| CCAGACCAAACTACTAGCAG+GGG | + | chr2_1:54868204-54868223 | Msa0212710:CDS | 50.0% | |
| CATCACCCCTGCTAGTAGTT+TGG | - | chr2_1:54868212-54868231 | None:intergenic | 50.0% | |
| CAAACTACTAGCAGGGGTGA+TGG | + | chr2_1:54868210-54868229 | Msa0212710:CDS | 50.0% | |
| ! | AGGGGTGATGGTTTCTGGAA+GGG | + | chr2_1:54868222-54868241 | Msa0212710:CDS | 50.0% |
| GGAGCTGTAGATACTGGTGG+TGG | - | chr2_1:54868111-54868130 | None:intergenic | 55.0% | |
| GTGCCCTTCAGTGCCATCTT+TGG | - | chr2_1:54868169-54868188 | None:intergenic | 55.0% | |
| CCCCTGCTAGTAGTTTGGTC+TGG | - | chr2_1:54868207-54868226 | None:intergenic | 55.0% | |
| ! | CTAGCAGGGGTGATGGTTTC+TGG | + | chr2_1:54868217-54868236 | Msa0212710:CDS | 55.0% |
| ! | CAGGGGTGATGGTTTCTGGA+AGG | + | chr2_1:54868221-54868240 | Msa0212710:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 54868066 | 54868293 | 54868066 | ID=Msa0212710;Name=Msa0212710 |
| chr2_1 | mRNA | 54868066 | 54868293 | 54868066 | ID=Msa0212710-mRNA-1;Parent=Msa0212710;Name=Msa0212710-mRNA-1;_AED=0.43;_eAED=0.44;_QI=0|-1|0|1|-1|1|1|0|75 |
| chr2_1 | exon | 54868066 | 54868293 | 54868066 | ID=Msa0212710-mRNA-1:exon:15212;Parent=Msa0212710-mRNA-1 |
| chr2_1 | CDS | 54868066 | 54868293 | 54868066 | ID=Msa0212710-mRNA-1:cds;Parent=Msa0212710-mRNA-1 |
| Gene Sequence |
| Protein sequence |
