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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0547940 | XP_024636636.1 | 100.000 | 55 | 0 | 0 | 1 | 55 | 1 | 55 | 3.47e-32 | 115 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0547940 | sp|P0DO45|ATP6B_ARATH | 81.818 | 55 | 10 | 0 | 1 | 55 | 1 | 55 | 7.07e-29 | 99.4 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0547940 | G7JTP1 | 100.000 | 55 | 0 | 0 | 1 | 55 | 1 | 55 | 1.66e-32 | 115 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0003780 | Msa0547940 | 0.806289 | 8.841772e-50 | -8.615850e-47 |
| Msa0037250 | Msa0547940 | 0.800012 | 1.759479e-48 | -8.615850e-47 |
| Msa0056470 | Msa0547940 | 0.828156 | 1.051450e-54 | -8.615850e-47 |
| Msa0140850 | Msa0547940 | 0.821434 | 4.046205e-53 | -8.615850e-47 |
| Msa0146340 | Msa0547940 | 0.831266 | 1.840581e-55 | -8.615850e-47 |
| Msa0369450 | Msa0547940 | 0.809394 | 1.933330e-50 | -8.615850e-47 |
| Msa0414800 | Msa0547940 | 0.812351 | 4.429164e-51 | -8.615850e-47 |
| Msa0427150 | Msa0547940 | 0.842335 | 2.753813e-58 | -8.615850e-47 |
| Msa0443390 | Msa0547940 | 0.815108 | 1.094572e-51 | -8.615850e-47 |
| Msa0458060 | Msa0547940 | 0.807455 | 5.011628e-50 | -8.615850e-47 |
| Msa0471590 | Msa0547940 | 0.810088 | 1.371638e-50 | -8.615850e-47 |
| Msa0298990 | Msa0547940 | 0.800540 | 1.373965e-48 | -8.615850e-47 |
| Msa0304590 | Msa0547940 | 0.819995 | 8.666494e-53 | -8.615850e-47 |
| Msa0304660 | Msa0547940 | 0.800030 | 1.745021e-48 | -8.615850e-47 |
| Msa0322890 | Msa0547940 | 0.808396 | 3.161172e-50 | -8.615850e-47 |
| Msa0327330 | Msa0547940 | 0.806899 | 6.574719e-50 | -8.615850e-47 |
| Msa0331700 | Msa0547940 | 0.801449 | 8.956792e-49 | -8.615850e-47 |
| Msa0348830 | Msa0547940 | 0.805767 | 1.138926e-49 | -8.615850e-47 |
| Msa0526540 | Msa0547940 | 0.808899 | 2.468859e-50 | -8.615850e-47 |
| Msa0547940 | Msa0576940 | 0.809443 | 1.887585e-50 | -8.615850e-47 |
| Msa0547940 | Msa0581070 | 0.809625 | 1.724923e-50 | -8.615850e-47 |
| Msa0547940 | Msa0602920 | 0.992005 | 9.233915e-191 | -8.615850e-47 |
| Msa0547940 | Msa0622750 | 0.800516 | 1.389501e-48 | -8.615850e-47 |
| Msa0547940 | Msa0643980 | 0.931975 | 1.700789e-94 | -8.615850e-47 |
| Msa0547940 | Msa0661300 | 0.827941 | 1.184208e-54 | -8.615850e-47 |
| Msa0547940 | Msa0666560 | -0.824443 | 8.049545e-54 | -8.615850e-47 |
| Msa0547940 | Msa0687630 | 0.812401 | 4.318358e-51 | -8.615850e-47 |
| Msa0547940 | Msa0966270 | 0.819440 | 1.159889e-52 | -8.615850e-47 |
| Msa0547940 | Msa1019240 | 0.809733 | 1.635612e-50 | -8.615850e-47 |
| Msa0547940 | Msa1019260 | 0.822583 | 2.192147e-53 | -8.615850e-47 |
| Msa0547940 | Msa1081150 | 0.807535 | 4.821636e-50 | -8.615850e-47 |
| Msa0547940 | Msa1085470 | 0.814029 | 1.896377e-51 | -8.615850e-47 |
| Msa0547940 | Msa1104140 | 0.800219 | 1.597292e-48 | -8.615850e-47 |
| Msa0547940 | Msa1104210 | 0.824556 | 7.569951e-54 | -8.615850e-47 |
| Msa0547940 | Msa1126510 | 0.830802 | 2.392581e-55 | -8.615850e-47 |
| Msa0547940 | Msa1126770 | 0.811574 | 6.541949e-51 | -8.615850e-47 |
| Msa0547940 | Msa1165940 | 0.805860 | 1.088713e-49 | -8.615850e-47 |
| Msa0547940 | Msa1166860 | 0.844198 | 8.768055e-59 | -8.615850e-47 |
| Msa0547940 | Msa1166870 | 0.801150 | 1.031120e-48 | -8.615850e-47 |
| Msa0547940 | Msa1257510 | 0.802111 | 6.549566e-49 | -8.615850e-47 |
| Msa0547940 | Msa1338190 | 0.803415 | 3.524207e-49 | -8.615850e-47 |
| Msa0547940 | Msa1363330 | 0.808551 | 2.929467e-50 | -8.615850e-47 |
| Msa0547940 | Msa1369190 | 0.801695 | 7.976228e-49 | -8.615850e-47 |
| Msa0547940 | Msa1370860 | 0.801676 | 8.047732e-49 | -8.615850e-47 |
| Msa0547940 | Msa1386600 | 0.809104 | 2.231255e-50 | -8.615850e-47 |
| Msa0547940 | Msa1462860 | 0.802398 | 5.718914e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0547940 | MtrunA17_Chr4g0030851 | 100.000 | 55 | 0 | 0 | 1 | 55 | 1 | 55 | 3.19e-36 | 115 |
| Msa0547940 | MtrunA17_Chr2g0327811 | 89.091 | 55 | 6 | 0 | 1 | 55 | 1 | 55 | 7.42e-32 | 103 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0547940 | AT3G46430.1 | 81.818 | 55 | 10 | 0 | 1 | 55 | 1 | 55 | 7.19e-30 | 99.4 |
| Msa0547940 | AT5G59613.1 | 81.818 | 55 | 10 | 0 | 1 | 55 | 1 | 55 | 7.19e-30 | 99.4 |
| Msa0547940 | AT5G59613.2 | 81.818 | 55 | 10 | 0 | 1 | 55 | 1 | 55 | 7.19e-30 | 99.4 |
Find 16 sgRNAs with CRISPR-Local
Find 26 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATTCTCTCTTGAAGAAAAC+TGG | 0.292105 | 4_1:-41493626 | None:intergenic |
| TTTGTGATGCTGAACGAATT+TGG | 0.293620 | 4_1:-41493850 | None:intergenic |
| GGTAAGACCAAGAGAGAATT+TGG | 0.344448 | 4_1:-41493702 | None:intergenic |
| AAATTCTCTCTTGGTCTTAC+CGG | 0.355061 | 4_1:+41493704 | Msa0547940:CDS |
| CTTGTCACCAAATTCTCTCT+TGG | 0.398915 | 4_1:+41493695 | Msa0547940:CDS |
| CTCGTTGGATTCGCCGTCAC+CGG | 0.441426 | 4_1:+41493668 | Msa0547940:CDS |
| AGAGAGAATGGAAACGTACT+TGG | 0.486234 | 4_1:+41493639 | Msa0547940:CDS |
| CTCTTGAAGAAAACTGGCCA+TGG | 0.493329 | 4_1:-41493620 | None:intergenic |
| TCTTCGTCACACCAAAGTTA+CGG | 0.513023 | 4_1:-41493518 | None:intergenic |
| AATTCGTTCAGCATCACAAA+AGG | 0.536789 | 4_1:+41493853 | Msa0547940:CDS |
| ACGGCGAATCCAACGAGGAA+TGG | 0.540309 | 4_1:-41493662 | None:intergenic |
| GAATTTGGTGACAAGAGCTC+CGG | 0.557010 | 4_1:-41493687 | None:intergenic |
| CGTACTTGGCCATTCCTCGT+TGG | 0.562709 | 4_1:+41493653 | Msa0547940:CDS |
| AAATGAGACAGTTCGATCCA+TGG | 0.569004 | 4_1:+41493603 | Msa0547940:exon |
| GGTGACAAGAGCTCCGGTGA+CGG | 0.581739 | 4_1:-41493681 | None:intergenic |
| CGGTGACGGCGAATCCAACG+AGG | 0.732353 | 4_1:-41493667 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTTTATTTGTAGAATTA+GGG | + | chr4_1:41493755-41493774 | Msa0547940:intron | 10.0% |
| !! | CTAATTCTACAAATAAAAAA+AGG | - | chr4_1:41493756-41493775 | None:intergenic | 15.0% |
| !!! | CTTTTTTTATTTGTAGAATT+AGG | + | chr4_1:41493754-41493773 | Msa0547940:intron | 15.0% |
| !! | TACGGTTTTTGTTACAAAAA+TGG | - | chr4_1:41493503-41493522 | None:intergenic | 25.0% |
| ! | AGAGAAATAGAATGAATTAC+CGG | - | chr4_1:41493726-41493745 | None:intergenic | 25.0% |
| CAAAAATGGTAGAGTTTAGA+TGG | - | chr4_1:41493489-41493508 | None:intergenic | 30.0% | |
| TGTAACAAAAACCGTAACTT+TGG | + | chr4_1:41493507-41493526 | Msa0547940:five_prime_UTR | 30.0% | |
| CATTCTCTCTTGAAGAAAAC+TGG | - | chr4_1:41493629-41493648 | None:intergenic | 35.0% | |
| ! | CAGTTTTCTTCAAGAGAGAA+TGG | + | chr4_1:41493627-41493646 | Msa0547940:CDS | 35.0% |
| !! | AAATTCTCTCTTGGTCTTAC+CGG | + | chr4_1:41493704-41493723 | Msa0547940:CDS | 35.0% |
| CTGCAACAGAAACAAAATGA+AGG | - | chr4_1:41493812-41493831 | None:intergenic | 35.0% | |
| !!! | TCATTTTGTTTCTGTTGCAG+AGG | + | chr4_1:41493812-41493831 | Msa0547940:intron | 35.0% |
| TTTGTGATGCTGAACGAATT+TGG | - | chr4_1:41493853-41493872 | None:intergenic | 35.0% | |
| AATTCGTTCAGCATCACAAA+AGG | + | chr4_1:41493853-41493872 | Msa0547940:CDS | 35.0% | |
| TCTTCGTCACACCAAAGTTA+CGG | - | chr4_1:41493521-41493540 | None:intergenic | 40.0% | |
| AAATGAGACAGTTCGATCCA+TGG | + | chr4_1:41493603-41493622 | Msa0547940:exon | 40.0% | |
| AGAGAGAATGGAAACGTACT+TGG | + | chr4_1:41493639-41493658 | Msa0547940:CDS | 40.0% | |
| CTTGTCACCAAATTCTCTCT+TGG | + | chr4_1:41493695-41493714 | Msa0547940:CDS | 40.0% | |
| GGTAAGACCAAGAGAGAATT+TGG | - | chr4_1:41493705-41493724 | None:intergenic | 40.0% | |
| CTCTTGAAGAAAACTGGCCA+TGG | - | chr4_1:41493623-41493642 | None:intergenic | 45.0% | |
| ! | GAATTTGGTGACAAGAGCTC+CGG | - | chr4_1:41493690-41493709 | None:intergenic | 45.0% |
| CGTACTTGGCCATTCCTCGT+TGG | + | chr4_1:41493653-41493672 | Msa0547940:CDS | 55.0% | |
| ACGGCGAATCCAACGAGGAA+TGG | - | chr4_1:41493665-41493684 | None:intergenic | 55.0% | |
| CTCGTTGGATTCGCCGTCAC+CGG | + | chr4_1:41493668-41493687 | Msa0547940:CDS | 60.0% | |
| GGTGACAAGAGCTCCGGTGA+CGG | - | chr4_1:41493684-41493703 | None:intergenic | 60.0% | |
| ! | CGGTGACGGCGAATCCAACG+AGG | - | chr4_1:41493670-41493689 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 41493474 | 41493878 | 41493474 | ID=Msa0547940;Name=Msa0547940 |
| chr4_1 | mRNA | 41493474 | 41493878 | 41493474 | ID=Msa0547940-mRNA-1;Parent=Msa0547940;Name=Msa0547940-mRNA-1;_AED=0.28;_eAED=0.28;_QI=131|1|0.5|1|1|1|2|0|55 |
| chr4_1 | exon | 41493474 | 41493725 | 41493474 | ID=Msa0547940-mRNA-1:exon:10692;Parent=Msa0547940-mRNA-1 |
| chr4_1 | exon | 41493832 | 41493878 | 41493832 | ID=Msa0547940-mRNA-1:exon:10693;Parent=Msa0547940-mRNA-1 |
| chr4_1 | five_prime_UTR | 41493474 | 41493604 | 41493474 | ID=Msa0547940-mRNA-1:five_prime_utr;Parent=Msa0547940-mRNA-1 |
| chr4_1 | CDS | 41493605 | 41493725 | 41493605 | ID=Msa0547940-mRNA-1:cds;Parent=Msa0547940-mRNA-1 |
| chr4_1 | CDS | 41493832 | 41493878 | 41493832 | ID=Msa0547940-mRNA-1:cds;Parent=Msa0547940-mRNA-1 |
| Gene Sequence |
| Protein sequence |
