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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0438770 | XP_003602442.1 | 97.436 | 117 | 3 | 0 | 1 | 117 | 1 | 117 | 3.57e-75 | 228 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0438770 | sp|Q9FIR9|LSU2_ARATH | 48.571 | 105 | 39 | 3 | 12 | 113 | 1 | 93 | 8.32e-22 | 85.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0438770 | G7J9Q1 | 97.436 | 117 | 3 | 0 | 1 | 117 | 1 | 117 | 1.70e-75 | 228 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0438770 | Msa1405950 | 0.968340 | 1.543945e-128 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0438770 | MtrunA17_Chr3g0128351 | 97.436 | 117 | 3 | 0 | 1 | 117 | 1 | 117 | 3.28e-79 | 228 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0438770 | AT5G24660.1 | 48.571 | 105 | 39 | 3 | 12 | 113 | 1 | 93 | 8.45e-23 | 85.5 |
| Msa0438770 | AT5G24655.1 | 48.485 | 99 | 36 | 3 | 12 | 107 | 1 | 87 | 4.51e-21 | 80.9 |
| Msa0438770 | AT3G49580.1 | 54.667 | 75 | 27 | 1 | 30 | 104 | 17 | 84 | 4.58e-20 | 78.6 |
| Msa0438770 | AT3G49570.1 | 52.083 | 96 | 37 | 2 | 12 | 107 | 1 | 87 | 2.99e-19 | 76.6 |
| Msa0438770 | AT3G49580.2 | 73.684 | 38 | 10 | 0 | 67 | 104 | 28 | 65 | 3.38e-13 | 60.5 |
Find 25 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAAAGAGTTGAAGGAGAGT+AGG | 0.397427 | 3_3:+3503859 | Msa0438770:CDS |
| GCTGCGCGTGGCGGAGGAAG+CGG | 0.401471 | 3_3:+3503929 | Msa0438770:CDS |
| GAAAGAGTTGAAGGAGAGTA+GGG | 0.413600 | 3_3:+3503860 | Msa0438770:CDS |
| CTTCTCTTCAGCTCCGACTC+CGG | 0.438820 | 3_3:-3503822 | None:intergenic |
| CGATCGTATTGTTTCTCTGA+TGG | 0.452561 | 3_3:+3504019 | Msa0438770:CDS |
| GGAAAGGCTGCGCGTGGCGG+AGG | 0.464821 | 3_3:+3503923 | Msa0438770:CDS |
| TCAGCTTGAGAAAGAGTTGA+AGG | 0.470244 | 3_3:+3503851 | Msa0438770:CDS |
| ATGCTCACAGCTCGGAGAGC+TGG | 0.481510 | 3_3:+3503962 | Msa0438770:CDS |
| GTGGGAAAGGCTGCGCGTGG+CGG | 0.509515 | 3_3:+3503920 | Msa0438770:CDS |
| AGTTACAGAGCGCGTGGGAA+AGG | 0.511401 | 3_3:+3503907 | Msa0438770:CDS |
| TGCGGTGCCGGTGCCGGAGT+CGG | 0.513302 | 3_3:+3503809 | Msa0438770:CDS |
| GTGCCGATCACTGCCATCAT+CGG | 0.537295 | 3_3:-3503762 | None:intergenic |
| CGCGTGGGAAAGGCTGCGCG+TGG | 0.538078 | 3_3:+3503917 | Msa0438770:CDS |
| TTCAGCTCCGACTCCGGCAC+CGG | 0.539404 | 3_3:-3503816 | None:intergenic |
| TCACCGATGATGGCAGTGAT+CGG | 0.571734 | 3_3:+3503759 | Msa0438770:CDS |
| ATGATGGCAGTGATCGGCAC+CGG | 0.580016 | 3_3:+3503765 | Msa0438770:CDS |
| GCGCGTGGCGGAGGAAGCGG+AGG | 0.588927 | 3_3:+3503932 | Msa0438770:CDS |
| GACGGCAGTTACAGAGCGCG+TGG | 0.590880 | 3_3:+3503901 | Msa0438770:CDS |
| AGAGAGAAGAGCAAATGAGA+CGG | 0.606848 | 3_3:+3503883 | Msa0438770:CDS |
| TGGCGGAGGAAGCGGAGGAG+AGG | 0.608333 | 3_3:+3503937 | Msa0438770:CDS |
| ATGGCAGTGATCGGCACCGG+AGG | 0.608782 | 3_3:+3503768 | Msa0438770:CDS |
| GAGAGGTTATGCTCACAGCT+CGG | 0.627892 | 3_3:+3503954 | Msa0438770:CDS |
| ACGGCAGTTACAGAGCGCGT+GGG | 0.692882 | 3_3:+3503902 | Msa0438770:CDS |
| CAAAACCAATCACAACGAGG+TGG | 0.696964 | 3_3:-3504084 | None:intergenic |
| ACACAAAACCAATCACAACG+AGG | 0.794409 | 3_3:-3504087 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAAAAGAGTCTAAAAATG+CGG | + | chr3_3:3503791-3503810 | Msa0438770:CDS | 20.0% |
| ! | TATTTTCATTTCACCGATGA+TGG | + | chr3_3:3503749-3503768 | Msa0438770:CDS | 30.0% |
| !!! | TTTAGACTCTTTTTTTCCTC+CGG | - | chr3_3:3503787-3503806 | None:intergenic | 30.0% |
| TCAGCTTGAGAAAGAGTTGA+AGG | + | chr3_3:3503851-3503870 | Msa0438770:CDS | 40.0% | |
| AGAAAGAGTTGAAGGAGAGT+AGG | + | chr3_3:3503859-3503878 | Msa0438770:CDS | 40.0% | |
| GAAAGAGTTGAAGGAGAGTA+GGG | + | chr3_3:3503860-3503879 | Msa0438770:CDS | 40.0% | |
| AGAGAGAAGAGCAAATGAGA+CGG | + | chr3_3:3503883-3503902 | Msa0438770:CDS | 40.0% | |
| ! | CGATCGTATTGTTTCTCTGA+TGG | + | chr3_3:3504019-3504038 | Msa0438770:CDS | 40.0% |
| AGAGTCTAAAAATGCGGTGC+CGG | + | chr3_3:3503797-3503816 | Msa0438770:CDS | 45.0% | |
| ! | TCACCGATGATGGCAGTGAT+CGG | + | chr3_3:3503759-3503778 | Msa0438770:CDS | 50.0% |
| GAGAGGTTATGCTCACAGCT+CGG | + | chr3_3:3503954-3503973 | Msa0438770:CDS | 50.0% | |
| ! | GTGCCGATCACTGCCATCAT+CGG | - | chr3_3:3503765-3503784 | None:intergenic | 55.0% |
| ATGATGGCAGTGATCGGCAC+CGG | + | chr3_3:3503765-3503784 | Msa0438770:CDS | 55.0% | |
| !! | TAAAAATGCGGTGCCGGTGC+CGG | + | chr3_3:3503803-3503822 | Msa0438770:CDS | 55.0% |
| CTTCTCTTCAGCTCCGACTC+CGG | - | chr3_3:3503825-3503844 | None:intergenic | 55.0% | |
| AGTTACAGAGCGCGTGGGAA+AGG | + | chr3_3:3503907-3503926 | Msa0438770:CDS | 55.0% | |
| ACGGCAGTTACAGAGCGCGT+GGG | + | chr3_3:3503902-3503921 | Msa0438770:CDS | 60.0% | |
| ATGCTCACAGCTCGGAGAGC+TGG | + | chr3_3:3503962-3503981 | Msa0438770:CDS | 60.0% | |
| ! | ATGGCAGTGATCGGCACCGG+AGG | + | chr3_3:3503768-3503787 | Msa0438770:CDS | 65.0% |
| TTCAGCTCCGACTCCGGCAC+CGG | - | chr3_3:3503819-3503838 | None:intergenic | 65.0% | |
| GACGGCAGTTACAGAGCGCG+TGG | + | chr3_3:3503901-3503920 | Msa0438770:CDS | 65.0% | |
| GTGGGAAAGGCTGCGCGTGG+CGG | + | chr3_3:3503920-3503939 | Msa0438770:CDS | 70.0% | |
| TGGCGGAGGAAGCGGAGGAG+AGG | + | chr3_3:3503937-3503956 | Msa0438770:CDS | 70.0% | |
| !! | TGCGGTGCCGGTGCCGGAGT+CGG | + | chr3_3:3503809-3503828 | Msa0438770:CDS | 75.0% |
| CGCGTGGGAAAGGCTGCGCG+TGG | + | chr3_3:3503917-3503936 | Msa0438770:CDS | 75.0% | |
| GGAAAGGCTGCGCGTGGCGG+AGG | + | chr3_3:3503923-3503942 | Msa0438770:CDS | 75.0% | |
| ! | GCTGCGCGTGGCGGAGGAAG+CGG | + | chr3_3:3503929-3503948 | Msa0438770:CDS | 75.0% |
| !! | GCGCGTGGCGGAGGAAGCGG+AGG | + | chr3_3:3503932-3503951 | Msa0438770:CDS | 80.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 3503744 | 3504097 | 3503744 | ID=Msa0438770;Name=Msa0438770 |
| chr3_3 | mRNA | 3503744 | 3504097 | 3503744 | ID=Msa0438770-mRNA-1;Parent=Msa0438770;Name=Msa0438770-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|117 |
| chr3_3 | exon | 3503744 | 3504097 | 3503744 | ID=Msa0438770-mRNA-1:exon:851;Parent=Msa0438770-mRNA-1 |
| chr3_3 | CDS | 3503744 | 3504097 | 3503744 | ID=Msa0438770-mRNA-1:cds;Parent=Msa0438770-mRNA-1 |
| Gene Sequence |
| Protein sequence |
