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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1124960 | XP_024627325.1 | 96.610 | 59 | 2 | 0 | 2 | 60 | 111 | 169 | 4.55e-27 | 108 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1124960 | A0A396H772 | 96.552 | 58 | 2 | 0 | 3 | 60 | 113 | 170 | 6.10e-27 | 107 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001450 | Msa1124960 | 0.811821 | 5.780014e-51 | -8.615850e-47 |
| Msa0003700 | Msa1124960 | 0.817561 | 3.093157e-52 | -8.615850e-47 |
| Msa0003890 | Msa1124960 | 0.849845 | 2.490029e-60 | -8.615850e-47 |
| Msa0004920 | Msa1124960 | 0.800887 | 1.167069e-48 | -8.615850e-47 |
| Msa0005430 | Msa1124960 | 0.807905 | 4.021776e-50 | -8.615850e-47 |
| Msa0006070 | Msa1124960 | 0.800333 | 1.513812e-48 | -8.615850e-47 |
| Msa0006380 | Msa1124960 | 0.830984 | 2.158315e-55 | -8.615850e-47 |
| Msa0009430 | Msa1124960 | 0.845996 | 2.865765e-59 | -8.615850e-47 |
| Msa0011170 | Msa1124960 | 0.828415 | 9.103416e-55 | -8.615850e-47 |
| Msa0011960 | Msa1124960 | 0.813565 | 2.399942e-51 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1124960 | MtrunA17_Chr7g0265761 | 96.552 | 58 | 2 | 0 | 3 | 60 | 113 | 170 | 1.18e-30 | 107 |
Find 91 sgRNAs with CRISPR-Local
Find 206 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACATTCCTGTGATGATT+CGG | 0.428683 | 7_3:+76229787 | Msa1124960:three_prime_UTR |
| AAAATACAAATGTAGGGCAC+TGG | 0.544061 | 7_3:+76229643 | Msa1124960:three_prime_UTR |
| AAACATTCCTGTGATGATTC+GGG | 0.444165 | 7_3:+76229788 | Msa1124960:three_prime_UTR |
| AAACCTGTGTTGGAGGTGAA+TGG | 0.584764 | 7_3:+76229356 | Msa1124960:CDS |
| AACACCTGTACCTGTGAAGA+AGG | 0.532518 | 7_3:+76230456 | Msa1124960:three_prime_UTR |
| AACTCCAATCACCTGTTACA+GGG | 0.600270 | 7_3:-76231207 | None:intergenic |
| AAGCGATGAAGATTCTGATG+AGG | 0.625838 | 7_3:+76230310 | Msa1124960:three_prime_UTR |
| AAGTGGATTTCAATATATAA+TGG | 0.387939 | 7_3:+76229500 | Msa1124960:three_prime_UTR |
| AATACTAATTGGGTAGAAGA+AGG | 0.536290 | 7_3:+76229667 | Msa1124960:three_prime_UTR |
| AATCCACTTTCTAGATTATA+CGG | 0.293808 | 7_3:-76229486 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GTCTCAAATCTTTATATGAC+AGG | + | chr7_3:76228731-76228750 | Msa1124960:intron | 30.0% | |
| TTTATATGACAGGCATGTTT+GGG | + | chr7_3:76228741-76228760 | Msa1124960:intron | 30.0% | |
| TATCCCATAACTGGAAATAT+GGG | + | chr7_3:76228904-76228923 | Msa1124960:intron | 30.0% | |
| AAAGGATATGAATCATGTTC+CGG | - | chr7_3:76228966-76228985 | None:intergenic | 30.0% | |
| ATATTAGAACGCATTGTTGT+TGG | - | chr7_3:76229031-76229050 | None:intergenic | 30.0% | |
| TAACCGTATAATCTAGAAAG+TGG | + | chr7_3:76229483-76229502 | Msa1124960:exon | 30.0% | |
| TTTAATTCAATAACTGCAGC+TGG | - | chr7_3:76229609-76229628 | None:intergenic | 30.0% | |
| CTACGGAAAAATACAAATGT+AGG | + | chr7_3:76229636-76229655 | Msa1124960:three_prime_UTR | 30.0% | |
| AATACTAATTGGGTAGAAGA+AGG | + | chr7_3:76229667-76229686 | Msa1124960:three_prime_UTR | 30.0% | |
| AAAACATTCCTGTGATGATT+CGG | + | chr7_3:76229787-76229806 | Msa1124960:three_prime_UTR | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 76228456 | 76231695 | 76228456 | ID=Msa1124960;Name=Msa1124960 |
| chr7_3 | mRNA | 76228456 | 76231695 | 76228456 | ID=Msa1124960-mRNA-1;Parent=Msa1124960;Name=Msa1124960-mRNA-1;_AED=0.16;_eAED=0.16;_QI=0|0.8|0.83|0.83|1|0.83|6|1465|62 |
| chr7_3 | exon | 76228456 | 76228459 | 76228456 | ID=Msa1124960-mRNA-1:exon:20705;Parent=Msa1124960-mRNA-1 |
| chr7_3 | exon | 76229222 | 76229266 | 76229222 | ID=Msa1124960-mRNA-1:exon:20706;Parent=Msa1124960-mRNA-1 |
| chr7_3 | exon | 76229354 | 76230346 | 76229354 | ID=Msa1124960-mRNA-1:exon:20707;Parent=Msa1124960-mRNA-1 |
| chr7_3 | exon | 76230415 | 76230505 | 76230415 | ID=Msa1124960-mRNA-1:exon:20708;Parent=Msa1124960-mRNA-1 |
| chr7_3 | exon | 76231085 | 76231217 | 76231085 | ID=Msa1124960-mRNA-1:exon:20709;Parent=Msa1124960-mRNA-1 |
| chr7_3 | exon | 76231308 | 76231695 | 76231308 | ID=Msa1124960-mRNA-1:exon:20710;Parent=Msa1124960-mRNA-1 |
| chr7_3 | CDS | 76228456 | 76228459 | 76228456 | ID=Msa1124960-mRNA-1:cds;Parent=Msa1124960-mRNA-1 |
| chr7_3 | CDS | 76229222 | 76229266 | 76229222 | ID=Msa1124960-mRNA-1:cds;Parent=Msa1124960-mRNA-1 |
| chr7_3 | CDS | 76229354 | 76229493 | 76229354 | ID=Msa1124960-mRNA-1:cds;Parent=Msa1124960-mRNA-1 |
| chr7_3 | three_prime_UTR | 76229494 | 76230346 | 76229494 | ID=Msa1124960-mRNA-1:three_prime_utr;Parent=Msa1124960-mRNA-1 |
| chr7_3 | three_prime_UTR | 76230415 | 76230505 | 76230415 | ID=Msa1124960-mRNA-1:three_prime_utr;Parent=Msa1124960-mRNA-1 |
| chr7_3 | three_prime_UTR | 76231085 | 76231217 | 76231085 | ID=Msa1124960-mRNA-1:three_prime_utr;Parent=Msa1124960-mRNA-1 |
| chr7_3 | three_prime_UTR | 76231308 | 76231695 | 76231308 | ID=Msa1124960-mRNA-1:three_prime_utr;Parent=Msa1124960-mRNA-1 |
| Gene Sequence |
>Msa1124960 ATGGATACTGATTCTGAAGAGGAAGATATTCCACTTAATGCTGCTAATGGGAAACCTGTGTTGGAGGTGAATGGTGCCAAACCCGTTGTAAATGCATCAAAACAGAAAAAGAATCAGAAGGATGCTAGTACTGACGACAGTTCAGATTCATCTGATGAGGATTCTAGTGAAGATGAGGTAACCGTATAA |
| Protein sequence |
>Msa1124960 MDTDSEEEDIPLNAANGKPVLEVNGAKPVVNASKQKKNQKDASTDDSSDSSDEDSSEDEVTV* |
