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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0338490 | ABD33067.1 | 67.677 | 99 | 7 | 2 | 1 | 99 | 1 | 74 | 1.52e-28 | 108 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0011660 | Msa0338490 | -0.817051 | 4.029124e-52 | -8.615850e-47 |
| Msa0017510 | Msa0338490 | 0.838450 | 2.854476e-57 | -8.615850e-47 |
| Msa0021510 | Msa0338490 | 0.813130 | 2.990734e-51 | -8.615850e-47 |
| Msa0050390 | Msa0338490 | 0.816490 | 5.382824e-52 | -8.615850e-47 |
| Msa0067990 | Msa0338490 | 0.804120 | 2.515992e-49 | -8.615850e-47 |
| Msa0081360 | Msa0338490 | 0.806533 | 7.853904e-50 | -8.615850e-47 |
| Msa0081480 | Msa0338490 | 0.808059 | 3.729966e-50 | -8.615850e-47 |
| Msa0086650 | Msa0338490 | 0.809705 | 1.657884e-50 | -8.615850e-47 |
| Msa0089630 | Msa0338490 | 0.804062 | 2.587056e-49 | -8.615850e-47 |
| Msa0115270 | Msa0338490 | 0.817903 | 2.589527e-52 | -8.615850e-47 |
| Msa0150840 | Msa0338490 | 0.832333 | 1.003605e-55 | -8.615850e-47 |
| Msa0157290 | Msa0338490 | 0.838952 | 2.118422e-57 | -8.615850e-47 |
| Msa0166560 | Msa0338490 | 0.808823 | 2.562862e-50 | -8.615850e-47 |
| Msa0178960 | Msa0338490 | 0.805655 | 1.201909e-49 | -8.615850e-47 |
| Msa0180500 | Msa0338490 | 0.814346 | 1.614740e-51 | -8.615850e-47 |
| Msa0212990 | Msa0338490 | 0.802857 | 4.596740e-49 | -8.615850e-47 |
| Msa0220740 | Msa0338490 | 0.815536 | 8.794011e-52 | -8.615850e-47 |
| Msa0228070 | Msa0338490 | 0.801146 | 1.033466e-48 | -8.615850e-47 |
| Msa0229380 | Msa0338490 | 0.801691 | 7.988398e-49 | -8.615850e-47 |
| Msa0275000 | Msa0338490 | 0.803468 | 3.435661e-49 | -8.615850e-47 |
| Msa0279790 | Msa0338490 | 0.806468 | 8.108061e-50 | -8.615850e-47 |
| Msa0321310 | Msa0338490 | 0.811993 | 5.302009e-51 | -8.615850e-47 |
| Msa0336040 | Msa0338490 | -0.810368 | 1.193175e-50 | -8.615850e-47 |
| Msa0337620 | Msa0338490 | 0.802205 | 6.264814e-49 | -8.615850e-47 |
| Msa0338490 | Msa0342750 | 0.803185 | 3.933667e-49 | -8.615850e-47 |
| Msa0338490 | Msa0391430 | 0.810579 | 1.074689e-50 | -8.615850e-47 |
| Msa0338490 | Msa0395790 | 0.819685 | 1.020101e-52 | -8.615850e-47 |
| Msa0338490 | Msa0402790 | 0.818802 | 1.620431e-52 | -8.615850e-47 |
| Msa0338490 | Msa0424320 | 0.806402 | 8.370852e-50 | -8.615850e-47 |
| Msa0338490 | Msa0436050 | 0.801938 | 7.108160e-49 | -8.615850e-47 |
| Msa0338490 | Msa0440750 | 0.801356 | 9.357282e-49 | -8.615850e-47 |
| Msa0338490 | Msa0467060 | 0.803530 | 3.335575e-49 | -8.615850e-47 |
| Msa0338490 | Msa0479660 | 0.807009 | 6.231533e-50 | -8.615850e-47 |
| Msa0338490 | Msa0490390 | 0.833785 | 4.367829e-56 | -8.615850e-47 |
| Msa0338490 | Msa0498650 | 0.801759 | 7.736194e-49 | -8.615850e-47 |
| Msa0338490 | Msa0523940 | 0.827920 | 1.198221e-54 | -8.615850e-47 |
| Msa0338490 | Msa0529040 | 0.813384 | 2.630417e-51 | -8.615850e-47 |
| Msa0338490 | Msa0594660 | 0.819695 | 1.014867e-52 | -8.615850e-47 |
| Msa0338490 | Msa0597330 | 0.815520 | 8.863320e-52 | -8.615850e-47 |
| Msa0338490 | Msa0613440 | 0.807743 | 4.353661e-50 | -8.615850e-47 |
| Msa0338490 | Msa0632740 | 0.837521 | 4.950732e-57 | -8.615850e-47 |
| Msa0338490 | Msa0633400 | 0.809840 | 1.550827e-50 | -8.615850e-47 |
| Msa0338490 | Msa0701010 | 0.817477 | 3.230748e-52 | -8.615850e-47 |
| Msa0338490 | Msa0731940 | 0.806437 | 8.230555e-50 | -8.615850e-47 |
| Msa0338490 | Msa0743720 | 0.824864 | 6.406847e-54 | -8.615850e-47 |
| Msa0338490 | Msa0777230 | 0.803876 | 2.827586e-49 | -8.615850e-47 |
| Msa0338490 | Msa0820850 | 0.801035 | 1.088734e-48 | -8.615850e-47 |
| Msa0338490 | Msa0835530 | 0.800045 | 1.732479e-48 | -8.615850e-47 |
| Msa0338490 | Msa0844410 | 0.832979 | 6.938674e-56 | -8.615850e-47 |
| Msa0338490 | Msa0844470 | 0.845563 | 3.756371e-59 | -8.615850e-47 |
| Msa0338490 | Msa0844490 | 0.810025 | 1.414732e-50 | -8.615850e-47 |
| Msa0338490 | Msa0871270 | 0.806430 | 8.259334e-50 | -8.615850e-47 |
| Msa0338490 | Msa0880140 | 0.832732 | 7.991106e-56 | -8.615850e-47 |
| Msa0338490 | Msa0893950 | 0.802137 | 6.471043e-49 | -8.615850e-47 |
| Msa0338490 | Msa0897330 | 0.807669 | 4.514119e-50 | -8.615850e-47 |
| Msa0338490 | Msa0907950 | 0.807890 | 4.052375e-50 | -8.615850e-47 |
| Msa0338490 | Msa0922410 | 0.800392 | 1.472430e-48 | -8.615850e-47 |
| Msa0338490 | Msa0936300 | 0.815036 | 1.135362e-51 | -8.615850e-47 |
| Msa0338490 | Msa0938220 | 0.800945 | 1.135866e-48 | -8.615850e-47 |
| Msa0338490 | Msa0947660 | 0.828045 | 1.118344e-54 | -8.615850e-47 |
| Msa0338490 | Msa0959360 | 0.818567 | 1.832186e-52 | -8.615850e-47 |
| Msa0338490 | Msa0966750 | 0.817679 | 2.910593e-52 | -8.615850e-47 |
| Msa0338490 | Msa0973100 | 0.820897 | 5.378908e-53 | -8.615850e-47 |
| Msa0338490 | Msa0998690 | 0.800586 | 1.344215e-48 | -8.615850e-47 |
| Msa0338490 | Msa1003030 | 0.812076 | 5.084845e-51 | -8.615850e-47 |
| Msa0338490 | Msa1003620 | 0.801895 | 7.256326e-49 | -8.615850e-47 |
| Msa0338490 | Msa1014540 | 0.818190 | 2.231144e-52 | -8.615850e-47 |
| Msa0338490 | Msa1030970 | 0.809912 | 1.496891e-50 | -8.615850e-47 |
| Msa0338490 | Msa1065390 | 0.804940 | 1.696793e-49 | -8.615850e-47 |
| Msa0338490 | Msa1075540 | 0.824123 | 9.571212e-54 | -8.615850e-47 |
| Msa0338490 | Msa1121490 | 0.803850 | 2.862563e-49 | -8.615850e-47 |
| Msa0338490 | Msa1124410 | 0.800473 | 1.418019e-48 | -8.615850e-47 |
| Msa0338490 | Msa1137570 | 0.833426 | 5.370305e-56 | -8.615850e-47 |
| Msa0338490 | Msa1190400 | 0.810315 | 1.225486e-50 | -8.615850e-47 |
| Msa0338490 | Msa1199220 | 0.803169 | 3.962238e-49 | -8.615850e-47 |
| Msa0338490 | Msa1210020 | 0.812626 | 3.855902e-51 | -8.615850e-47 |
| Msa0338490 | Msa1211140 | -0.800443 | 1.438096e-48 | -8.615850e-47 |
| Msa0338490 | Msa1238930 | 0.830333 | 3.116219e-55 | -8.615850e-47 |
| Msa0338490 | Msa1244250 | 0.818078 | 2.365123e-52 | -8.615850e-47 |
| Msa0338490 | Msa1253020 | 0.804441 | 2.156620e-49 | -8.615850e-47 |
| Msa0338490 | Msa1275360 | 0.802002 | 6.896817e-49 | -8.615850e-47 |
| Msa0338490 | Msa1276600 | 0.801274 | 9.728964e-49 | -8.615850e-47 |
| Msa0338490 | Msa1276890 | 0.809080 | 2.257642e-50 | -8.615850e-47 |
| Msa0338490 | Msa1277660 | 0.812299 | 4.547040e-51 | -8.615850e-47 |
| Msa0338490 | Msa1284680 | 0.814844 | 1.252815e-51 | -8.615850e-47 |
| Msa0338490 | Msa1286800 | 0.809612 | 1.736022e-50 | -8.615850e-47 |
| Msa0338490 | Msa1298510 | 0.813270 | 2.786106e-51 | -8.615850e-47 |
| Msa0338490 | Msa1346370 | 0.801768 | 7.703077e-49 | -8.615850e-47 |
| Msa0338490 | Msa1353460 | 0.817282 | 3.575278e-52 | -8.615850e-47 |
| Msa0338490 | Msa1395900 | 0.806777 | 6.976453e-50 | -8.615850e-47 |
| Msa0338490 | Msa1412530 | 0.812704 | 3.707288e-51 | -8.615850e-47 |
| Msa0338490 | Msa1461300 | 0.802486 | 5.484778e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0338490 | MtrunA17_Chr2g0326261 | 67.677 | 99 | 7 | 2 | 1 | 99 | 1 | 74 | 1.40e-32 | 108 |
| Msa0338490 | MtrunA17_Chr4g0029791 | 50.000 | 80 | 22 | 3 | 1 | 78 | 1 | 64 | 2.64e-17 | 70.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTCTCTTGCAATGTTAATT+TGG | 0.112196 | 2_4:-58845984 | None:intergenic |
| GGTCTTCCTCTATGTCTTTC+AGG | 0.117611 | 2_4:+58845688 | Msa0338490:CDS |
| CTTGGAAGAGAGGGTATTAT+TGG | 0.266004 | 2_4:+58845928 | Msa0338490:CDS |
| GCTAATGTTAATCAAGAAAT+AGG | 0.282507 | 2_4:+58845958 | Msa0338490:CDS |
| TTCTCTTGCAATGTTAATTT+GGG | 0.301938 | 2_4:-58845983 | None:intergenic |
| ATTGCAAGAGAATACTTTGA+TGG | 0.385480 | 2_4:+58845994 | Msa0338490:CDS |
| GTCTTCCTCTATGTCTTTCA+GGG | 0.392224 | 2_4:+58845689 | Msa0338490:CDS |
| GCACCCTCTTCCTCTTTCTC+AGG | 0.405268 | 2_4:+58845717 | Msa0338490:CDS |
| TATAGTTACTCCTGAGAAAG+AGG | 0.471510 | 2_4:-58845727 | None:intergenic |
| GCAAAGATCACTTGGAAGAG+AGG | 0.494466 | 2_4:+58845918 | Msa0338490:CDS |
| TACTCCTGAGAAAGAGGAAG+AGG | 0.496462 | 2_4:-58845721 | None:intergenic |
| ATGAGGAAGCAAAGATCACT+TGG | 0.513383 | 2_4:+58845910 | Msa0338490:CDS |
| CAAAGATCACTTGGAAGAGA+GGG | 0.562619 | 2_4:+58845919 | Msa0338490:CDS |
| GGAACAATAGTACTGTGTAA+AGG | 0.572644 | 2_4:-58845614 | None:intergenic |
| GGATGGTAGATCATGATCGT+AGG | 0.629333 | 2_4:+58845860 | Msa0338490:intron |
| ACCATGACGAATGTTTAACA+TGG | 0.634844 | 2_4:-58845668 | None:intergenic |
| TCCATGTTAAACATTCGTCA+TGG | 0.647513 | 2_4:+58845667 | Msa0338490:CDS |
| ACTCCTGAGAAAGAGGAAGA+GGG | 0.652401 | 2_4:-58845720 | None:intergenic |
| ATGATCCCTGAAAGACATAG+AGG | 0.666245 | 2_4:-58845694 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTGCTTAATTTCTTTCTT+TGG | - | chr2_4:58845638-58845657 | None:intergenic | 20.0% |
| !!! | TTTGTGTTTTGTTTTGTTGA+TGG | + | chr2_4:58845832-58845851 | Msa0338490:intron | 25.0% |
| !!! | TTGTGTTTTGTTTTGTTGAT+GGG | + | chr2_4:58845833-58845852 | Msa0338490:intron | 25.0% |
| ! | GCTAATGTTAATCAAGAAAT+AGG | + | chr2_4:58845958-58845977 | Msa0338490:CDS | 25.0% |
| ! | TTCTCTTGCAATGTTAATTT+GGG | - | chr2_4:58845986-58846005 | None:intergenic | 25.0% |
| ! | ATTCTCTTGCAATGTTAATT+TGG | - | chr2_4:58845987-58846006 | None:intergenic | 25.0% |
| ATTGCAAGAGAATACTTTGA+TGG | + | chr2_4:58845994-58846013 | Msa0338490:CDS | 30.0% | |
| GGAACAATAGTACTGTGTAA+AGG | - | chr2_4:58845617-58845636 | None:intergenic | 35.0% | |
| TCCATGTTAAACATTCGTCA+TGG | + | chr2_4:58845667-58845686 | Msa0338490:CDS | 35.0% | |
| ACCATGACGAATGTTTAACA+TGG | - | chr2_4:58845671-58845690 | None:intergenic | 35.0% | |
| TATAGTTACTCCTGAGAAAG+AGG | - | chr2_4:58845730-58845749 | None:intergenic | 35.0% | |
| !!! | TTTGTTTTGTTGATGGGTGT+AGG | + | chr2_4:58845839-58845858 | Msa0338490:intron | 35.0% |
| CATCATCATCATCATCATCA+TGG | - | chr2_4:58845893-58845912 | None:intergenic | 35.0% | |
| ! | TGATGATGATGATGATGATG+AGG | + | chr2_4:58845893-58845912 | Msa0338490:CDS | 35.0% |
| GTCTTCCTCTATGTCTTTCA+GGG | + | chr2_4:58845689-58845708 | Msa0338490:CDS | 40.0% | |
| ATGATCCCTGAAAGACATAG+AGG | - | chr2_4:58845697-58845716 | None:intergenic | 40.0% | |
| !! | TTTTGTTGATGGGTGTAGGA+TGG | + | chr2_4:58845843-58845862 | Msa0338490:intron | 40.0% |
| ATGAGGAAGCAAAGATCACT+TGG | + | chr2_4:58845910-58845929 | Msa0338490:CDS | 40.0% | |
| CAAAGATCACTTGGAAGAGA+GGG | + | chr2_4:58845919-58845938 | Msa0338490:CDS | 40.0% | |
| !! | CTTGGAAGAGAGGGTATTAT+TGG | + | chr2_4:58845928-58845947 | Msa0338490:CDS | 40.0% |
| !!! | CAGCTTTTGCTGTTAAAGTG+TGG | - | chr2_4:58846056-58846075 | None:intergenic | 40.0% |
| GGTCTTCCTCTATGTCTTTC+AGG | + | chr2_4:58845688-58845707 | Msa0338490:CDS | 45.0% | |
| ACTCCTGAGAAAGAGGAAGA+GGG | - | chr2_4:58845723-58845742 | None:intergenic | 45.0% | |
| TACTCCTGAGAAAGAGGAAG+AGG | - | chr2_4:58845724-58845743 | None:intergenic | 45.0% | |
| GGATGGTAGATCATGATCGT+AGG | + | chr2_4:58845860-58845879 | Msa0338490:intron | 45.0% | |
| GCAAAGATCACTTGGAAGAG+AGG | + | chr2_4:58845918-58845937 | Msa0338490:CDS | 45.0% | |
| CACTACTTTGTGTGTGTGTG+TGG | + | chr2_4:58846107-58846126 | Msa0338490:three_prime_UTR | 45.0% | |
| GCACCCTCTTCCTCTTTCTC+AGG | + | chr2_4:58845717-58845736 | Msa0338490:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 58845584 | 58846206 | 58845584 | ID=Msa0338490;Name=Msa0338490 |
| chr2_4 | mRNA | 58845584 | 58846206 | 58845584 | ID=Msa0338490-mRNA-1;Parent=Msa0338490;Name=Msa0338490-mRNA-1;_AED=0.00;_eAED=0.00;_QI=77|1|1|1|1|1|2|126|99 |
| chr2_4 | exon | 58845584 | 58845740 | 58845584 | ID=Msa0338490-mRNA-1:exon:18150;Parent=Msa0338490-mRNA-1 |
| chr2_4 | exon | 58845861 | 58846206 | 58845861 | ID=Msa0338490-mRNA-1:exon:18151;Parent=Msa0338490-mRNA-1 |
| chr2_4 | five_prime_UTR | 58845584 | 58845660 | 58845584 | ID=Msa0338490-mRNA-1:five_prime_utr;Parent=Msa0338490-mRNA-1 |
| chr2_4 | CDS | 58845661 | 58845740 | 58845661 | ID=Msa0338490-mRNA-1:cds;Parent=Msa0338490-mRNA-1 |
| chr2_4 | CDS | 58845861 | 58846080 | 58845861 | ID=Msa0338490-mRNA-1:cds;Parent=Msa0338490-mRNA-1 |
| chr2_4 | three_prime_UTR | 58846081 | 58846206 | 58846081 | ID=Msa0338490-mRNA-1:three_prime_utr;Parent=Msa0338490-mRNA-1 |
| Gene Sequence |
| Protein sequence |
