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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1378490 | XP_003624883.1 | 96.330 | 109 | 4 | 0 | 1 | 109 | 95 | 203 | 2.53e-67 | 211 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1378490 | sp|Q9M612|NACA_PINTA | 77.273 | 110 | 24 | 1 | 1 | 109 | 96 | 205 | 2.08e-52 | 166 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1378490 | G7L4T7 | 96.330 | 109 | 4 | 0 | 1 | 109 | 95 | 203 | 1.21e-67 | 211 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0004880 | Msa1378490 | 0.802091 | 6.614433e-49 | -8.615850e-47 |
| Msa0014990 | Msa1378490 | 0.807334 | 5.317332e-50 | -8.615850e-47 |
| Msa0017510 | Msa1378490 | 0.833144 | 6.313674e-56 | -8.615850e-47 |
| Msa0028420 | Msa1378490 | 0.810654 | 1.035290e-50 | -8.615850e-47 |
| Msa0051790 | Msa1378490 | 0.806731 | 7.135534e-50 | -8.615850e-47 |
| Msa0076250 | Msa1378490 | 0.806470 | 8.100922e-50 | -8.615850e-47 |
| Msa0089630 | Msa1378490 | 0.825634 | 4.212716e-54 | -8.615850e-47 |
| Msa0092790 | Msa1378490 | 0.804044 | 2.608686e-49 | -8.615850e-47 |
| Msa0112750 | Msa1378490 | 0.807859 | 4.113636e-50 | -8.615850e-47 |
| Msa1378490 | Msa1438250 | 0.816132 | 6.474533e-52 | -8.615850e-47 |
| Msa1378490 | Msa1466540 | 0.809437 | 1.893350e-50 | -8.615850e-47 |
| Msa1378490 | Msa1466920 | 0.803657 | 3.139645e-49 | -8.615850e-47 |
| Msa0657970 | Msa1378490 | 0.826820 | 2.199725e-54 | -8.615850e-47 |
| Msa0682330 | Msa1378490 | 0.812677 | 3.758720e-51 | -8.615850e-47 |
| Msa0723990 | Msa1378490 | 0.806760 | 7.035190e-50 | -8.615850e-47 |
| Msa0124060 | Msa1378490 | 0.828110 | 1.078666e-54 | -8.615850e-47 |
| Msa0157290 | Msa1378490 | 0.833771 | 4.403551e-56 | -8.615850e-47 |
| Msa0168500 | Msa1378490 | 0.823726 | 1.185857e-53 | -8.615850e-47 |
| Msa0200260 | Msa1378490 | 0.803048 | 4.198202e-49 | -8.615850e-47 |
| Msa1267960 | Msa1378490 | 0.805670 | 1.193368e-49 | -8.615850e-47 |
| Msa1283860 | Msa1378490 | 0.807249 | 5.544214e-50 | -8.615850e-47 |
| Msa1328710 | Msa1378490 | 0.808519 | 2.976585e-50 | -8.615850e-47 |
| Msa0379270 | Msa1378490 | 0.800276 | 1.555088e-48 | -8.615850e-47 |
| Msa0410650 | Msa1378490 | 0.803676 | 3.110916e-49 | -8.615850e-47 |
| Msa0440750 | Msa1378490 | 0.801410 | 9.122451e-49 | -8.615850e-47 |
| Msa0479170 | Msa1378490 | 0.807126 | 5.884503e-50 | -8.615850e-47 |
| Msa1082500 | Msa1378490 | 0.821099 | 4.834646e-53 | -8.615850e-47 |
| Msa1085200 | Msa1378490 | 0.807721 | 4.401060e-50 | -8.615850e-47 |
| Msa1098400 | Msa1378490 | 0.802893 | 4.520418e-49 | -8.615850e-47 |
| Msa0243100 | Msa1378490 | 0.810032 | 1.410017e-50 | -8.615850e-47 |
| Msa0254790 | Msa1378490 | 0.808053 | 3.741290e-50 | -8.615850e-47 |
| Msa0257460 | Msa1378490 | 0.804710 | 1.895332e-49 | -8.615850e-47 |
| Msa0262510 | Msa1378490 | 0.805607 | 1.230022e-49 | -8.615850e-47 |
| Msa0287650 | Msa1378490 | 0.820709 | 5.942541e-53 | -8.615850e-47 |
| Msa1123380 | Msa1378490 | 0.810415 | 1.165696e-50 | -8.615850e-47 |
| Msa1193290 | Msa1378490 | 0.807079 | 6.023304e-50 | -8.615850e-47 |
| Msa1199570 | Msa1378490 | 0.803375 | 3.592372e-49 | -8.615850e-47 |
| Msa0484780 | Msa1378490 | 0.812640 | 3.829366e-51 | -8.615850e-47 |
| Msa0523460 | Msa1378490 | 0.812599 | 3.908526e-51 | -8.615850e-47 |
| Msa0535040 | Msa1378490 | 0.802712 | 4.925426e-49 | -8.615850e-47 |
| Msa0880140 | Msa1378490 | 0.829903 | 3.968041e-55 | -8.615850e-47 |
| Msa0909120 | Msa1378490 | 0.811657 | 6.272819e-51 | -8.615850e-47 |
| Msa0909140 | Msa1378490 | 0.801414 | 9.106280e-49 | -8.615850e-47 |
| Msa0954130 | Msa1378490 | 0.804013 | 2.648162e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1378490 | MtrunA17_Chr7g0255421 | 96.330 | 109 | 4 | 0 | 1 | 109 | 95 | 203 | 2.33e-71 | 211 |
| Msa1378490 | MtrunA17_Chr3g0128041 | 66.087 | 115 | 33 | 2 | 1 | 109 | 113 | 227 | 4.68e-42 | 137 |
| Msa1378490 | MtrunA17_Chr3g0128051 | 55.738 | 122 | 33 | 2 | 1 | 109 | 105 | 218 | 9.81e-36 | 121 |
| Msa1378490 | MtrunA17_Chr3g0128591 | 55.357 | 112 | 37 | 4 | 1 | 109 | 398 | 499 | 2.19e-25 | 98.6 |
| Msa1378490 | MtrunA17_Chr3g0128571 | 76.744 | 43 | 10 | 0 | 67 | 109 | 21 | 63 | 1.38e-16 | 69.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1378490 | AT3G12390.1 | 72.973 | 111 | 28 | 1 | 1 | 109 | 93 | 203 | 1.09e-41 | 136 |
| Msa1378490 | AT5G13850.1 | 69.565 | 115 | 28 | 1 | 1 | 108 | 89 | 203 | 7.23e-40 | 131 |
| Msa1378490 | AT3G49470.1 | 60.870 | 115 | 39 | 1 | 1 | 109 | 103 | 217 | 1.79e-38 | 128 |
| Msa1378490 | AT1G33040.1 | 59.649 | 114 | 40 | 2 | 1 | 108 | 95 | 208 | 2.85e-36 | 122 |
| Msa1378490 | AT4G10480.2 | 62.931 | 116 | 33 | 2 | 1 | 108 | 97 | 210 | 1.23e-35 | 121 |
| Msa1378490 | AT4G10480.1 | 62.931 | 116 | 33 | 2 | 1 | 108 | 98 | 211 | 1.50e-35 | 120 |
| Msa1378490 | AT3G49470.2 | 59.434 | 106 | 37 | 1 | 1 | 100 | 103 | 208 | 5.25e-33 | 115 |
Find 27 sgRNAs with CRISPR-Local
Find 27 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTGACACCTACATTATATT+TGG | 0.098409 | tig0020061:+72867 | Msa1378490:CDS |
| GGAGCAATACCAGAGGATTC+TGG | 0.324111 | tig0020061:-72981 | None:intergenic |
| TCGTCTACATCCTCATCTTC+TGG | 0.324398 | tig0020061:-73002 | None:intergenic |
| CTGACACCTACATTATATTT+GGG | 0.330139 | tig0020061:+72868 | Msa1378490:CDS |
| GCACCCGCATTGGTCAAATT+AGG | 0.333932 | tig0020061:-72954 | None:intergenic |
| GCTTTAACAGCTCTTGATCT+TGG | 0.356165 | tig0020061:-73077 | None:intergenic |
| AGACATTGTTGCTGCCATTA+TGG | 0.359211 | tig0020061:+73118 | Msa1378490:CDS |
| GTTGGACTCTTGAAAACATC+TGG | 0.370830 | tig0020061:-72843 | None:intergenic |
| TTAATTTGTTAGCTCCATAA+TGG | 0.425574 | tig0020061:-73132 | None:intergenic |
| CACCACCAACTCAATATCCT+TGG | 0.437037 | tig0020061:-73039 | None:intergenic |
| TTCTGGCTTCGCACCCGCAT+TGG | 0.469966 | tig0020061:-72964 | None:intergenic |
| TCAGGCTGCAGAGCAGTTCA+AGG | 0.493163 | tig0020061:+72929 | Msa1378490:CDS |
| AAAGCTCTCAAAGCTGTCAA+TGG | 0.508744 | tig0020061:+73095 | Msa1378490:CDS |
| ATAATGTAGGTGTCAGAAGT+TGG | 0.511639 | tig0020061:-72861 | None:intergenic |
| TCCCAAGGATATTGAGTTGG+TGG | 0.515624 | tig0020061:+73037 | Msa1378490:CDS |
| GATCCTAATTTGACCAATGC+GGG | 0.519700 | tig0020061:+72951 | Msa1378490:CDS |
| ACCACCAACTCAATATCCTT+GGG | 0.531886 | tig0020061:-73038 | None:intergenic |
| GGTGCGAAGCCAGAATCCTC+TGG | 0.535151 | tig0020061:+72972 | Msa1378490:CDS |
| GATGAGGATGTAGACGAGAC+TGG | 0.538671 | tig0020061:+73008 | Msa1378490:CDS |
| GAGTTGGTGGTGACTCAAGC+TGG | 0.556994 | tig0020061:+73050 | Msa1378490:CDS |
| AGCTTTCCCAAATATAATGT+AGG | 0.558527 | tig0020061:-72874 | None:intergenic |
| GAGCTCACAGCTACAAACTC+AGG | 0.597975 | tig0020061:+72911 | Msa1378490:CDS |
| CGAGACTGGTGTAGATCCCA+AGG | 0.607645 | tig0020061:+73022 | Msa1378490:CDS |
| TGGTATTGCTCCAGAAGATG+AGG | 0.607813 | tig0020061:+72992 | Msa1378490:CDS |
| AGATCCCAAGGATATTGAGT+TGG | 0.629225 | tig0020061:+73034 | Msa1378490:CDS |
| ATCTTCTGGAGCAATACCAG+AGG | 0.670950 | tig0020061:-72988 | None:intergenic |
| GGATCCTAATTTGACCAATG+CGG | 0.677685 | tig0020061:+72950 | Msa1378490:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTAATTTGTTAGCTCCATAA+TGG | - | tig0020061:73135-73154 | None:intergenic | 25.0% |
| TCTGACACCTACATTATATT+TGG | + | tig0020061:72867-72886 | Msa1378490:CDS | 30.0% | |
| CTGACACCTACATTATATTT+GGG | + | tig0020061:72868-72887 | Msa1378490:CDS | 30.0% | |
| AGCTTTCCCAAATATAATGT+AGG | - | tig0020061:72877-72896 | None:intergenic | 30.0% | |
| ATAATGTAGGTGTCAGAAGT+TGG | - | tig0020061:72864-72883 | None:intergenic | 35.0% | |
| GTTGGACTCTTGAAAACATC+TGG | - | tig0020061:72846-72865 | None:intergenic | 40.0% | |
| GGATCCTAATTTGACCAATG+CGG | + | tig0020061:72950-72969 | Msa1378490:CDS | 40.0% | |
| GATCCTAATTTGACCAATGC+GGG | + | tig0020061:72951-72970 | Msa1378490:CDS | 40.0% | |
| AGATCCCAAGGATATTGAGT+TGG | + | tig0020061:73034-73053 | Msa1378490:CDS | 40.0% | |
| ACCACCAACTCAATATCCTT+GGG | - | tig0020061:73041-73060 | None:intergenic | 40.0% | |
| GCTTTAACAGCTCTTGATCT+TGG | - | tig0020061:73080-73099 | None:intergenic | 40.0% | |
| AAAGCTCTCAAAGCTGTCAA+TGG | + | tig0020061:73095-73114 | Msa1378490:CDS | 40.0% | |
| AGACATTGTTGCTGCCATTA+TGG | + | tig0020061:73118-73137 | Msa1378490:CDS | 40.0% | |
| !! | ATCTTCTGGAGCAATACCAG+AGG | - | tig0020061:72991-73010 | None:intergenic | 45.0% |
| TGGTATTGCTCCAGAAGATG+AGG | + | tig0020061:72992-73011 | Msa1378490:CDS | 45.0% | |
| TCGTCTACATCCTCATCTTC+TGG | - | tig0020061:73005-73024 | None:intergenic | 45.0% | |
| !! | TCCCAAGGATATTGAGTTGG+TGG | + | tig0020061:73037-73056 | Msa1378490:CDS | 45.0% |
| CACCACCAACTCAATATCCT+TGG | - | tig0020061:73042-73061 | None:intergenic | 45.0% | |
| GAGCTCACAGCTACAAACTC+AGG | + | tig0020061:72911-72930 | Msa1378490:CDS | 50.0% | |
| ! | GCACCCGCATTGGTCAAATT+AGG | - | tig0020061:72957-72976 | None:intergenic | 50.0% |
| GGAGCAATACCAGAGGATTC+TGG | - | tig0020061:72984-73003 | None:intergenic | 50.0% | |
| GATGAGGATGTAGACGAGAC+TGG | + | tig0020061:73008-73027 | Msa1378490:CDS | 50.0% | |
| TCAGGCTGCAGAGCAGTTCA+AGG | + | tig0020061:72929-72948 | Msa1378490:CDS | 55.0% | |
| CGAGACTGGTGTAGATCCCA+AGG | + | tig0020061:73022-73041 | Msa1378490:CDS | 55.0% | |
| !! | GAGTTGGTGGTGACTCAAGC+TGG | + | tig0020061:73050-73069 | Msa1378490:CDS | 55.0% |
| !! | TTCTGGCTTCGCACCCGCAT+TGG | - | tig0020061:72967-72986 | None:intergenic | 60.0% |
| GGTGCGAAGCCAGAATCCTC+TGG | + | tig0020061:72972-72991 | Msa1378490:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0020061 | gene | 72825 | 73154 | 72825 | ID=Msa1378490;Name=Msa1378490 |
| tig0020061 | mRNA | 72825 | 73154 | 72825 | ID=Msa1378490-mRNA-1;Parent=Msa1378490;Name=Msa1378490-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|109 |
| tig0020061 | exon | 72825 | 73154 | 72825 | ID=Msa1378490-mRNA-1:exon:6039;Parent=Msa1378490-mRNA-1 |
| tig0020061 | CDS | 72825 | 73154 | 72825 | ID=Msa1378490-mRNA-1:cds;Parent=Msa1378490-mRNA-1 |
| Gene Sequence |
| Protein sequence |
