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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1250110 | XP_013446022.1 | 95.872 | 218 | 9 | 0 | 1 | 218 | 1 | 218 | 2.96e-155 | 439 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1250110 | sp|B5XZE0|PCP_KLEP3 | 32.065 | 184 | 105 | 7 | 13 | 195 | 6 | 170 | 5.16e-15 | 73.9 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0002560 | Msa1250110 | 0.812559 | 3.988343e-51 | -8.615850e-47 |
| Msa0003630 | Msa1250110 | 0.845375 | 4.224743e-59 | -8.615850e-47 |
| Msa0005270 | Msa1250110 | 0.831369 | 1.735440e-55 | -8.615850e-47 |
| Msa0007990 | Msa1250110 | 0.802801 | 4.720780e-49 | -8.615850e-47 |
| Msa0008200 | Msa1250110 | 0.822306 | 2.541460e-53 | -8.615850e-47 |
| Msa0008220 | Msa1250110 | 0.820860 | 5.485719e-53 | -8.615850e-47 |
| Msa0008840 | Msa1250110 | 0.808430 | 3.108965e-50 | -8.615850e-47 |
| Msa0010490 | Msa1250110 | 0.847922 | 8.507727e-60 | -8.615850e-47 |
| Msa0010500 | Msa1250110 | 0.836163 | 1.099006e-56 | -8.615850e-47 |
| Msa0010770 | Msa1250110 | 0.833885 | 4.123930e-56 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1250110 | MtrunA17_Chr8g0365921 | 95.872 | 218 | 9 | 0 | 1 | 218 | 1 | 218 | 2.72e-159 | 439 |
| Msa1250110 | MtrunA17_Chr1g0193061 | 68.182 | 220 | 65 | 4 | 1 | 216 | 1 | 219 | 5.30e-106 | 304 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1250110 | AT1G23440.1 | 69.725 | 218 | 65 | 1 | 1 | 218 | 1 | 217 | 2.32e-113 | 323 |
| Msa1250110 | AT1G23440.3 | 69.725 | 218 | 65 | 1 | 1 | 218 | 1 | 217 | 2.32e-113 | 323 |
| Msa1250110 | AT1G56700.1 | 61.644 | 219 | 82 | 2 | 1 | 218 | 1 | 218 | 2.78e-99 | 287 |
| Msa1250110 | AT1G56700.2 | 61.644 | 219 | 82 | 2 | 1 | 218 | 1 | 218 | 2.78e-99 | 287 |
| Msa1250110 | AT1G56700.4 | 61.644 | 219 | 82 | 2 | 1 | 218 | 1 | 218 | 2.78e-99 | 287 |
| Msa1250110 | AT1G56700.3 | 60.000 | 190 | 74 | 2 | 30 | 218 | 1 | 189 | 3.53e-82 | 243 |
| Msa1250110 | AT1G23440.2 | 62.222 | 90 | 34 | 0 | 1 | 90 | 1 | 90 | 6.47e-35 | 119 |
Find 92 sgRNAs with CRISPR-Local
Find 456 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATTACAATTCATGTAAC+TGG | 0.219675 | 8_2:-45304494 | Msa1250110:CDS |
| AAACTGTACTCAACCATACA+AGG | 0.489075 | 8_2:+45301311 | None:intergenic |
| AAATAAATAAATAGTATATG+TGG | 0.418546 | 8_2:-45301118 | Msa1250110:three_prime_UTR |
| AAATTACAATTCATGTAACT+GGG | 0.560230 | 8_2:-45304493 | Msa1250110:CDS |
| AAGAAGAAAGCAATGCTTTG+CGG | 0.495683 | 8_2:+45305016 | None:intergenic |
| AAGAATTCAGAATTCAGAAA+TGG | 0.372313 | 8_2:-45304534 | Msa1250110:exon |
| AAGGTTTGCCATTGAGCGGT+TGG | 0.517019 | 8_2:-45303119 | Msa1250110:CDS |
| AAGTTGCACTATTCTTGACG+TGG | 0.643245 | 8_2:-45304366 | Msa1250110:CDS |
| AATAAATAAATAGTATATGT+GGG | 0.522277 | 8_2:-45301117 | Msa1250110:three_prime_UTR |
| AATCTTGAAATCCTTGAAAA+AGG | 0.203646 | 8_2:-45301944 | Msa1250110:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CCATGAAAAAGAGAGAAAAA+TGG | + | chr8_2:45301274-45301293 | None:intergenic | 30.0% | |
| AAGAGACAGAGAAACATAAT+TGG | + | chr8_2:45301317-45301336 | None:intergenic | 30.0% | |
| TAGCAGAAATTAAGATTGTG+TGG | + | chr8_2:45301340-45301359 | None:intergenic | 30.0% | |
| ATAATCTCTGTAGGGTTTAT+TGG | + | chr8_2:45301723-45301742 | None:intergenic | 30.0% | |
| AGGGATTATGTTGAAAAGAA+AGG | - | chr8_2:45301756-45301775 | Msa1250110:CDS | 30.0% | |
| TCTCTAGTGTCAATTTAGAT+GGG | + | chr8_2:45302136-45302155 | None:intergenic | 30.0% | |
| GTACTATCGTATAATCTGTT+TGG | + | chr8_2:45302284-45302303 | None:intergenic | 30.0% | |
| TGTCAATTGCATAACAGTAA+TGG | + | chr8_2:45302577-45302596 | None:intergenic | 30.0% | |
| TTGTAAAATAGCAGTTATGG+CGG | + | chr8_2:45302871-45302890 | None:intergenic | 30.0% | |
| CATTATGGGTAACCAATAAT+CGG | - | chr8_2:45302891-45302910 | Msa1250110:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 45301049 | 45305142 | 45301049 | ID=Msa1250110;Name=Msa1250110 |
| chr8_2 | mRNA | 45301049 | 45305142 | 45301049 | ID=Msa1250110-mRNA-1;Parent=Msa1250110;Name=Msa1250110-mRNA-1;_AED=0.03;_eAED=0.03;_QI=283|1|1|1|0.75|0.6|5|695|218 |
| chr8_2 | exon | 45301049 | 45301986 | 45301049 | ID=Msa1250110-mRNA-1:exon:13721;Parent=Msa1250110-mRNA-1 |
| chr8_2 | exon | 45302878 | 45302925 | 45302878 | ID=Msa1250110-mRNA-1:exon:13720;Parent=Msa1250110-mRNA-1 |
| chr8_2 | exon | 45303066 | 45303170 | 45303066 | ID=Msa1250110-mRNA-1:exon:13719;Parent=Msa1250110-mRNA-1 |
| chr8_2 | exon | 45304277 | 45304601 | 45304277 | ID=Msa1250110-mRNA-1:exon:13718;Parent=Msa1250110-mRNA-1 |
| chr8_2 | exon | 45304924 | 45305142 | 45304924 | ID=Msa1250110-mRNA-1:exon:13717;Parent=Msa1250110-mRNA-1 |
| chr8_2 | five_prime_UTR | 45304924 | 45305142 | 45304924 | ID=Msa1250110-mRNA-1:five_prime_utr;Parent=Msa1250110-mRNA-1 |
| chr8_2 | five_prime_UTR | 45304538 | 45304601 | 45304538 | ID=Msa1250110-mRNA-1:five_prime_utr;Parent=Msa1250110-mRNA-1 |
| chr8_2 | CDS | 45304277 | 45304537 | 45304277 | ID=Msa1250110-mRNA-1:cds;Parent=Msa1250110-mRNA-1 |
| chr8_2 | CDS | 45303066 | 45303170 | 45303066 | ID=Msa1250110-mRNA-1:cds;Parent=Msa1250110-mRNA-1 |
| chr8_2 | CDS | 45302878 | 45302925 | 45302878 | ID=Msa1250110-mRNA-1:cds;Parent=Msa1250110-mRNA-1 |
| chr8_2 | CDS | 45301744 | 45301986 | 45301744 | ID=Msa1250110-mRNA-1:cds;Parent=Msa1250110-mRNA-1 |
| chr8_2 | three_prime_UTR | 45301049 | 45301743 | 45301049 | ID=Msa1250110-mRNA-1:three_prime_utr;Parent=Msa1250110-mRNA-1 |
| Gene Sequence |
>Msa1250110 ATGGGATCTGAAGGGCCAAAGAAAATTACAATTCATGTAACTGGGTTTAAGAAGTTTCAAGGAGTGCCAATAAACCCTACAGAGATTATTGTTAATAATCTGAGGGATTATGTTGAAAAGAAAGGTCTTCCAGTTGGTGTTACTCTTGGAAGTTGCACTATTCTTGACGTGGCTGGTGATGGTGCACTTCCTCAGCTTTATCAGACCATGGAATCTGTTGTGTCGAAAACGGATACAGAGAGTAATTCAAATGTTGTTTGGCTTCACTTGGGGGTGAACAGTGGAGCTGCAAGGTTTGCCATTGAGCGGTTGGCAGCAAATGAAGCTACTTTCCGCTGTTCTGATGAATTAGGATGGCAACCACAACAAGTACCAATAGTCCTTGAGGATGGAGGAATTTCTCGAACGAGAGAGACTTCTCTGCCTGTTGATGCAATCTTGAAATCCTTGAAAAAGGGAAAAGATTATGACGTGATGATATCACAGGACGCAGGACGATTTGTTTGCAATTATGTGTATTACCACTCTCTTCGGTTCGCAGAACAGAAGGGTAACAAGTCTCTATTTGTTCATGTTCCCTTATTTTCGAGAATCGATGAAGAAACTCAGATGAGATTTACAGCCTCTCTTTTGGAGGCCATTGCTTCTGCATGTTAA |
| Protein sequence |
>Msa1250110 MGSEGPKKITIHVTGFKKFQGVPINPTEIIVNNLRDYVEKKGLPVGVTLGSCTILDVAGDGALPQLYQTMESVVSKTDTESNSNVVWLHLGVNSGAARFAIERLAANEATFRCSDELGWQPQQVPIVLEDGGISRTRETSLPVDAILKSLKKGKDYDVMISQDAGRFVCNYVYYHSLRFAEQKGNKSLFVHVPLFSRIDEETQMRFTASLLEAIASAC* |
