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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0679530 | XP_013455731.1 | 87.234 | 47 | 5 | 1 | 1 | 47 | 1 | 46 | 9.34e-16 | 79.7 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0679530 | A0A072UJ96 | 87.234 | 47 | 5 | 1 | 1 | 47 | 1 | 46 | 4.46e-16 | 79.7 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0006110 | Msa0679530 | 0.806207 | 9.203188e-50 | -8.615850e-47 |
| Msa0020410 | Msa0679530 | 0.804787 | 1.826839e-49 | -8.615850e-47 |
| Msa0037880 | Msa0679530 | 0.809324 | 2.001856e-50 | -8.615850e-47 |
| Msa0054480 | Msa0679530 | 0.801180 | 1.017045e-48 | -8.615850e-47 |
| Msa0079180 | Msa0679530 | 0.816129 | 6.483633e-52 | -8.615850e-47 |
| Msa0114430 | Msa0679530 | 0.802924 | 4.453834e-49 | -8.615850e-47 |
| Msa0610430 | Msa0679530 | 0.807459 | 5.003677e-50 | -8.615850e-47 |
| Msa0620960 | Msa0679530 | 0.812049 | 5.154235e-51 | -8.615850e-47 |
| Msa0679530 | Msa0715700 | 0.817566 | 3.086485e-52 | -8.615850e-47 |
| Msa0679530 | Msa0771720 | 0.815499 | 8.959304e-52 | -8.615850e-47 |
| Msa0679530 | Msa0790660 | -0.809649 | 1.704865e-50 | -8.615850e-47 |
| Msa0679530 | Msa0831850 | 0.805037 | 1.619319e-49 | -8.615850e-47 |
| Msa0679530 | Msa0849030 | 0.828608 | 8.177392e-55 | -8.615850e-47 |
| Msa0679530 | Msa0868700 | 0.816767 | 4.666614e-52 | -8.615850e-47 |
| Msa0679530 | Msa0876580 | 0.811472 | 6.881436e-51 | -8.615850e-47 |
| Msa0679530 | Msa0909110 | 0.800486 | 1.409288e-48 | -8.615850e-47 |
| Msa0679530 | Msa0947760 | 0.804206 | 2.414500e-49 | -8.615850e-47 |
| Msa0679530 | Msa0982270 | 0.803310 | 3.705376e-49 | -8.615850e-47 |
| Msa0679530 | Msa0999960 | -0.805301 | 1.425811e-49 | -8.615850e-47 |
| Msa0679530 | Msa1003620 | 0.822696 | 2.063452e-53 | -8.615850e-47 |
| Msa0679530 | Msa1023120 | 0.803625 | 3.188714e-49 | -8.615850e-47 |
| Msa0679530 | Msa1063510 | 0.818967 | 1.486721e-52 | -8.615850e-47 |
| Msa0679530 | Msa1109680 | 0.818769 | 1.648943e-52 | -8.615850e-47 |
| Msa0679530 | Msa1144040 | 0.840558 | 8.090602e-58 | -8.615850e-47 |
| Msa0679530 | Msa1172400 | 0.804980 | 1.664523e-49 | -8.615850e-47 |
| Msa0679530 | Msa1174040 | 0.807887 | 4.057637e-50 | -8.615850e-47 |
| Msa0679530 | Msa1181250 | 0.830488 | 2.855333e-55 | -8.615850e-47 |
| Msa0679530 | Msa1181330 | 0.828334 | 9.525638e-55 | -8.615850e-47 |
| Msa0679530 | Msa1186950 | -0.810262 | 1.258192e-50 | -8.615850e-47 |
| Msa0679530 | Msa1276440 | 0.816556 | 5.203299e-52 | -8.615850e-47 |
| Msa0679530 | Msa1277660 | 0.816177 | 6.325536e-52 | -8.615850e-47 |
| Msa0679530 | Msa1345220 | 0.807197 | 5.685174e-50 | -8.615850e-47 |
| Msa0679530 | Msa1392780 | 0.814267 | 1.681090e-51 | -8.615850e-47 |
| Msa0679530 | Msa1412070 | 0.813765 | 2.169112e-51 | -8.615850e-47 |
| Msa0679530 | Msa1427230 | 0.804629 | 1.971302e-49 | -8.615850e-47 |
| Msa0679530 | Msa1432630 | 0.806853 | 6.723468e-50 | -8.615850e-47 |
| Msa0679530 | Msa1455490 | 0.809749 | 1.622232e-50 | -8.615850e-47 |
| Msa0679530 | Msa1460830 | 0.813279 | 2.773445e-51 | -8.615850e-47 |
| Msa0172000 | Msa0679530 | 0.814788 | 1.288570e-51 | -8.615850e-47 |
| Msa0178930 | Msa0679530 | 0.803249 | 3.814785e-49 | -8.615850e-47 |
| Msa0223010 | Msa0679530 | 0.806171 | 9.365272e-50 | -8.615850e-47 |
| Msa0223910 | Msa0679530 | 0.805562 | 1.257523e-49 | -8.615850e-47 |
| Msa0389810 | Msa0679530 | 0.800078 | 1.705886e-48 | -8.615850e-47 |
| Msa0412840 | Msa0679530 | 0.804293 | 2.315992e-49 | -8.615850e-47 |
| Msa0434180 | Msa0679530 | 0.813888 | 2.037773e-51 | -8.615850e-47 |
| Msa0438200 | Msa0679530 | 0.800179 | 1.627050e-48 | -8.615850e-47 |
| Msa0481280 | Msa0679530 | 0.837484 | 5.058011e-57 | -8.615850e-47 |
| Msa0287410 | Msa0679530 | 0.801569 | 8.464901e-49 | -8.615850e-47 |
| Msa0319170 | Msa0679530 | 0.831273 | 1.832289e-55 | -8.615850e-47 |
| Msa0339620 | Msa0679530 | 0.818025 | 2.430996e-52 | -8.615850e-47 |
| Msa0512750 | Msa0679530 | 0.800536 | 1.376147e-48 | -8.615850e-47 |
| Msa0542090 | Msa0679530 | 0.800144 | 1.654150e-48 | -8.615850e-47 |
| Msa0562440 | Msa0679530 | 0.807863 | 4.106344e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0679530 | MtrunA17_Chr4g0025511 | 87.234 | 47 | 5 | 1 | 1 | 47 | 1 | 46 | 8.59e-20 | 79.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 20 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAGTCTATACAGAGCTTATT+TGG | 0.102588 | 4_4:-37270888 | Msa0679530:CDS |
| TGTAACAGCAACGTCGTAAT+TGG | 0.296832 | 4_4:+37271104 | None:intergenic |
| CTGCGATTCCCTTTCTCCAT+TGG | 0.339175 | 4_4:+37271165 | None:intergenic |
| AGTCTATACAGAGCTTATTT+GGG | 0.395575 | 4_4:-37270887 | Msa0679530:CDS |
| GGTATTAGATTCGTATATCA+AGG | 0.419423 | 4_4:-37270924 | Msa0679530:CDS |
| TCAATAGAATCTTGTGAAGC+AGG | 0.424057 | 4_4:+37271066 | None:intergenic |
| CGTATATCAAGGTGATATGT+TGG | 0.455780 | 4_4:-37270913 | Msa0679530:CDS |
| TGGACTCGTTATTCACAACT+AGG | 0.472270 | 4_4:+37271124 | None:intergenic |
| AGATCGAAACCAATGGAGAA+AGG | 0.488275 | 4_4:-37271174 | Msa0679530:exon |
| AGAATCTTGTGAAGCAGGAT+TGG | 0.501265 | 4_4:+37271071 | None:intergenic |
| CCATTGGTTTCGATCTCAGA+AGG | 0.502831 | 4_4:+37271181 | None:intergenic |
| GGTTTCGATCTCAGAAGGAA+TGG | 0.516768 | 4_4:+37271186 | None:intergenic |
| GTATATCAAGGTGATATGTT+GGG | 0.530686 | 4_4:-37270912 | Msa0679530:CDS |
| GATCGAAACCAATGGAGAAA+GGG | 0.543665 | 4_4:-37271173 | Msa0679530:exon |
| GGACTCGTTATTCACAACTA+GGG | 0.561314 | 4_4:+37271125 | None:intergenic |
| AATTCTTCTTCTGCTGATGA+CGG | 0.565819 | 4_4:-37271042 | Msa0679530:intron |
| TCTTGTGAAGCAGGATTGGT+CGG | 0.594648 | 4_4:+37271075 | None:intergenic |
| GAAGCAGGATTGGTCGGTGA+TGG | 0.602035 | 4_4:+37271081 | None:intergenic |
| GAAAGTGAGAGTGTGTTGAC+CGG | 0.621447 | 4_4:-37271216 | Msa0679530:five_prime_UTR |
| CCTTCTGAGATCGAAACCAA+TGG | 0.621819 | 4_4:-37271181 | Msa0679530:exon |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ATACGAATCTAATACCTAAA+AGG | + | chr4_4:37271171-37271190 | None:intergenic | 25.0% |
| GGTATTAGATTCGTATATCA+AGG | - | chr4_4:37271175-37271194 | Msa0679530:exon | 30.0% | |
| GTATATCAAGGTGATATGTT+GGG | - | chr4_4:37271187-37271206 | Msa0679530:five_prime_UTR | 30.0% | |
| AGTCTATACAGAGCTTATTT+GGG | - | chr4_4:37271212-37271231 | Msa0679530:five_prime_UTR | 30.0% | |
| TCAATAGAATCTTGTGAAGC+AGG | + | chr4_4:37271036-37271055 | None:intergenic | 35.0% | |
| AATTCTTCTTCTGCTGATGA+CGG | - | chr4_4:37271057-37271076 | Msa0679530:CDS | 35.0% | |
| CGTATATCAAGGTGATATGT+TGG | - | chr4_4:37271186-37271205 | Msa0679530:five_prime_UTR | 35.0% | |
| CAGTCTATACAGAGCTTATT+TGG | - | chr4_4:37271211-37271230 | Msa0679530:five_prime_UTR | 35.0% | |
| !! | CAGAAGGAATGGATTTTCAC+CGG | + | chr4_4:37270905-37270924 | None:intergenic | 40.0% |
| AGATCGAAACCAATGGAGAA+AGG | - | chr4_4:37270925-37270944 | Msa0679530:CDS | 40.0% | |
| GATCGAAACCAATGGAGAAA+GGG | - | chr4_4:37270926-37270945 | Msa0679530:CDS | 40.0% | |
| GGACTCGTTATTCACAACTA+GGG | + | chr4_4:37270977-37270996 | None:intergenic | 40.0% | |
| TGGACTCGTTATTCACAACT+AGG | + | chr4_4:37270978-37270997 | None:intergenic | 40.0% | |
| TGTAACAGCAACGTCGTAAT+TGG | + | chr4_4:37270998-37271017 | None:intergenic | 40.0% | |
| AGAATCTTGTGAAGCAGGAT+TGG | + | chr4_4:37271031-37271050 | None:intergenic | 40.0% | |
| TTATGTAGCAAACCTAGCGT+TGG | - | chr4_4:37271110-37271129 | Msa0679530:CDS | 40.0% | |
| ! | GAAAGTGAGAGTGTGTTGAC+CGG | - | chr4_4:37270883-37270902 | Msa0679530:CDS | 45.0% |
| GGTTTCGATCTCAGAAGGAA+TGG | + | chr4_4:37270916-37270935 | None:intergenic | 45.0% | |
| !! | CCATTGGTTTCGATCTCAGA+AGG | + | chr4_4:37270921-37270940 | None:intergenic | 45.0% |
| !! | CCTTCTGAGATCGAAACCAA+TGG | - | chr4_4:37270918-37270937 | Msa0679530:CDS | 45.0% |
| ! | TCTTGTGAAGCAGGATTGGT+CGG | + | chr4_4:37271027-37271046 | None:intergenic | 45.0% |
| !! | CTTGGGAGTGTGTTCCTTTT+AGG | - | chr4_4:37271154-37271173 | Msa0679530:CDS | 45.0% |
| CTGCGATTCCCTTTCTCCAT+TGG | + | chr4_4:37270937-37270956 | None:intergenic | 50.0% | |
| CTGGTGTAGGCTTGAGACTT+GGG | - | chr4_4:37271137-37271156 | Msa0679530:CDS | 50.0% | |
| !! | GAAGCAGGATTGGTCGGTGA+TGG | + | chr4_4:37271021-37271040 | None:intergenic | 55.0% |
| GCTGGTGTAGGCTTGAGACT+TGG | - | chr4_4:37271136-37271155 | Msa0679530:CDS | 55.0% | |
| !! | CAAACCTAGCGTTGGCGTGC+TGG | - | chr4_4:37271118-37271137 | Msa0679530:CDS | 60.0% |
| TACACCAGCACGCCAACGCT+AGG | + | chr4_4:37271125-37271144 | None:intergenic | 60.0% | |
| !! | TAGCGTTGGCGTGCTGGTGT+AGG | - | chr4_4:37271124-37271143 | Msa0679530:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 37270881 | 37271240 | 37270881 | ID=Msa0679530;Name=Msa0679530 |
| chr4_4 | mRNA | 37270881 | 37271240 | 37270881 | ID=Msa0679530-mRNA-1;Parent=Msa0679530;Name=Msa0679530-mRNA-1;_AED=0.53;_eAED=0.53;_QI=56|0|0.5|0.5|1|1|2|0|68 |
| chr4_4 | exon | 37270881 | 37270945 | 37270881 | ID=Msa0679530-mRNA-1:exon:8815;Parent=Msa0679530-mRNA-1 |
| chr4_4 | exon | 37271043 | 37271240 | 37271043 | ID=Msa0679530-mRNA-1:exon:8814;Parent=Msa0679530-mRNA-1 |
| chr4_4 | five_prime_UTR | 37271185 | 37271240 | 37271185 | ID=Msa0679530-mRNA-1:five_prime_utr;Parent=Msa0679530-mRNA-1 |
| chr4_4 | CDS | 37271043 | 37271184 | 37271043 | ID=Msa0679530-mRNA-1:cds;Parent=Msa0679530-mRNA-1 |
| chr4_4 | CDS | 37270881 | 37270945 | 37270881 | ID=Msa0679530-mRNA-1:cds;Parent=Msa0679530-mRNA-1 |
| Gene Sequence |
| Protein sequence |
