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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0607160 | RHN61630.1 | 97.778 | 135 | 3 | 0 | 1 | 135 | 10 | 144 | 6.22e-94 | 277 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0607160 | sp|Q0V7Z5|SAU64_ARATH | 46.667 | 135 | 67 | 2 | 1 | 133 | 10 | 141 | 4.00e-34 | 119 |
| 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 |
|---|---|---|---|---|
| Msa0003470 | Msa0607160 | 0.815811 | 7.636694e-52 | -8.615850e-47 |
| Msa0012460 | Msa0607160 | 0.802749 | 4.839797e-49 | -8.615850e-47 |
| Msa0017120 | Msa0607160 | 0.800267 | 1.561520e-48 | -8.615850e-47 |
| Msa0043680 | Msa0607160 | 0.800513 | 1.391435e-48 | -8.615850e-47 |
| Msa0065390 | Msa0607160 | 0.810577 | 1.075537e-50 | -8.615850e-47 |
| Msa0077910 | Msa0607160 | 0.813568 | 2.397069e-51 | -8.615850e-47 |
| Msa0089210 | Msa0607160 | 0.801115 | 1.048358e-48 | -8.615850e-47 |
| Msa0110710 | Msa0607160 | 0.809822 | 1.564704e-50 | -8.615850e-47 |
| Msa0607160 | Msa0640880 | 0.809143 | 2.188472e-50 | -8.615850e-47 |
| Msa0607160 | Msa0647110 | 0.811486 | 6.835422e-51 | -8.615850e-47 |
| Msa0607160 | Msa0683650 | 0.813530 | 2.443556e-51 | -8.615850e-47 |
| Msa0607160 | Msa0702070 | 0.800615 | 1.326031e-48 | -8.615850e-47 |
| Msa0607160 | Msa0702120 | 0.801248 | 9.845542e-49 | -8.615850e-47 |
| Msa0607160 | Msa0703720 | 0.816758 | 4.688754e-52 | -8.615850e-47 |
| Msa0607160 | Msa0703760 | 0.818278 | 2.130628e-52 | -8.615850e-47 |
| Msa0607160 | Msa0742130 | 0.810396 | 1.177043e-50 | -8.615850e-47 |
| Msa0607160 | Msa0786090 | 0.805775 | 1.134453e-49 | -8.615850e-47 |
| Msa0607160 | Msa0790830 | 0.801277 | 9.715305e-49 | -8.615850e-47 |
| Msa0607160 | Msa0823300 | 0.821560 | 3.783155e-53 | -8.615850e-47 |
| Msa0607160 | Msa0862240 | 0.813000 | 3.193723e-51 | -8.615850e-47 |
| Msa0607160 | Msa0900320 | 0.803073 | 4.147599e-49 | -8.615850e-47 |
| Msa0607160 | Msa0972730 | 0.830740 | 2.476448e-55 | -8.615850e-47 |
| Msa0607160 | Msa0992590 | 0.816428 | 5.557482e-52 | -8.615850e-47 |
| Msa0607160 | Msa1027790 | 0.813413 | 2.592578e-51 | -8.615850e-47 |
| Msa0607160 | Msa1067430 | 0.806252 | 9.002348e-50 | -8.615850e-47 |
| Msa0607160 | Msa1070900 | 0.822876 | 1.873785e-53 | -8.615850e-47 |
| Msa0607160 | Msa1112610 | 0.810007 | 1.427605e-50 | -8.615850e-47 |
| Msa0607160 | Msa1166180 | 0.800645 | 1.307489e-48 | -8.615850e-47 |
| Msa0607160 | Msa1183610 | 0.800149 | 1.649967e-48 | -8.615850e-47 |
| Msa0607160 | Msa1222390 | 0.819463 | 1.146290e-52 | -8.615850e-47 |
| Msa0607160 | Msa1228950 | 0.809483 | 1.850273e-50 | -8.615850e-47 |
| Msa0607160 | Msa1293530 | 0.813694 | 2.248818e-51 | -8.615850e-47 |
| Msa0607160 | Msa1312730 | 0.800058 | 1.722279e-48 | -8.615850e-47 |
| Msa0607160 | Msa1325650 | 0.801533 | 8.610614e-49 | -8.615850e-47 |
| Msa0607160 | Msa1336320 | 0.808867 | 2.508012e-50 | -8.615850e-47 |
| Msa0607160 | Msa1339250 | 0.807590 | 4.692403e-50 | -8.615850e-47 |
| Msa0607160 | Msa1367810 | 0.815494 | 8.982667e-52 | -8.615850e-47 |
| Msa0607160 | Msa1406550 | 0.802080 | 6.647729e-49 | -8.615850e-47 |
| Msa0607160 | Msa1415250 | 0.800077 | 1.706683e-48 | -8.615850e-47 |
| Msa0607160 | Msa1422490 | 0.810747 | 9.883053e-51 | -8.615850e-47 |
| Msa0607160 | Msa1424240 | 0.803459 | 3.450738e-49 | -8.615850e-47 |
| Msa0607160 | Msa1432470 | 0.811363 | 7.269773e-51 | -8.615850e-47 |
| Msa0125800 | Msa0607160 | 0.818238 | 2.175095e-52 | -8.615850e-47 |
| Msa0144340 | Msa0607160 | 0.805887 | 1.074325e-49 | -8.615850e-47 |
| Msa0146470 | Msa0607160 | 0.815197 | 1.046099e-51 | -8.615850e-47 |
| Msa0149070 | Msa0607160 | 0.802610 | 5.169132e-49 | -8.615850e-47 |
| Msa0152380 | Msa0607160 | 0.805585 | 1.243440e-49 | -8.615850e-47 |
| Msa0157020 | Msa0607160 | 0.805146 | 1.537078e-49 | -8.615850e-47 |
| Msa0170440 | Msa0607160 | 0.815261 | 1.012371e-51 | -8.615850e-47 |
| Msa0225010 | Msa0607160 | 0.801247 | 9.854499e-49 | -8.615850e-47 |
| Msa0379110 | Msa0607160 | 0.827180 | 1.803835e-54 | -8.615850e-47 |
| Msa0415050 | Msa0607160 | 0.800560 | 1.360808e-48 | -8.615850e-47 |
| Msa0415460 | Msa0607160 | 0.809652 | 1.702447e-50 | -8.615850e-47 |
| Msa0417630 | Msa0607160 | 0.817675 | 2.916356e-52 | -8.615850e-47 |
| Msa0434630 | Msa0607160 | 0.810335 | 1.213156e-50 | -8.615850e-47 |
| Msa0448160 | Msa0607160 | 0.814137 | 1.795752e-51 | -8.615850e-47 |
| Msa0247310 | Msa0607160 | 0.815764 | 7.821946e-52 | -8.615850e-47 |
| Msa0280140 | Msa0607160 | 0.807013 | 6.218046e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0607160 | MtrunA17_Chr4g0038731 | 97.778 | 135 | 3 | 0 | 1 | 135 | 10 | 144 | 5.72e-98 | 277 |
| Msa0607160 | MtrunA17_Chr4g0036841 | 39.326 | 89 | 47 | 4 | 9 | 94 | 14 | 98 | 3.04e-11 | 56.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0607160 | AT1G29450.1 | 46.667 | 135 | 67 | 2 | 1 | 133 | 10 | 141 | 4.07e-35 | 119 |
| Msa0607160 | AT1G29450.2 | 46.667 | 135 | 67 | 2 | 1 | 133 | 10 | 141 | 4.07e-35 | 119 |
| Msa0607160 | AT1G29420.1 | 53.279 | 122 | 54 | 2 | 1 | 119 | 10 | 131 | 7.07e-34 | 115 |
| Msa0607160 | AT1G29430.1 | 53.922 | 102 | 46 | 1 | 5 | 105 | 15 | 116 | 2.01e-33 | 114 |
| Msa0607160 | AT1G29420.2 | 53.279 | 122 | 54 | 2 | 1 | 119 | 50 | 171 | 4.19e-33 | 115 |
| Msa0607160 | AT1G29510.1 | 45.736 | 129 | 68 | 2 | 5 | 132 | 15 | 142 | 2.36e-32 | 112 |
| Msa0607160 | AT5G27780.1 | 55.140 | 107 | 46 | 1 | 1 | 105 | 11 | 117 | 3.87e-32 | 111 |
| Msa0607160 | AT1G29500.1 | 51.429 | 105 | 49 | 1 | 1 | 105 | 10 | 112 | 9.22e-32 | 110 |
| Msa0607160 | AT1G29460.1 | 49.558 | 113 | 49 | 1 | 1 | 105 | 10 | 122 | 8.93e-31 | 108 |
| Msa0607160 | AT1G29460.2 | 49.558 | 113 | 49 | 1 | 1 | 105 | 48 | 160 | 9.37e-31 | 108 |
| Msa0607160 | AT1G29440.1 | 53.922 | 102 | 46 | 1 | 5 | 105 | 14 | 115 | 3.06e-28 | 101 |
| Msa0607160 | AT1G29490.1 | 52.747 | 91 | 42 | 1 | 1 | 90 | 10 | 100 | 1.68e-24 | 90.5 |
| Msa0607160 | AT1G76190.1 | 41.333 | 75 | 41 | 1 | 32 | 103 | 23 | 97 | 3.98e-15 | 67.4 |
| Msa0607160 | AT1G20470.1 | 39.394 | 66 | 40 | 0 | 30 | 95 | 23 | 88 | 8.45e-13 | 61.6 |
| Msa0607160 | AT5G66260.1 | 39.189 | 74 | 44 | 1 | 20 | 92 | 24 | 97 | 2.43e-11 | 57.0 |
Find 26 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAACTCTTCATCAGTAAATA+AGG | 0.216090 | 4_2:-53869289 | Msa0607160:CDS |
| TTCATATCCACTTCGTTTCT+TGG | 0.266340 | 4_2:+53869309 | None:intergenic |
| TTAATCTCTGTCATGATCTT+AGG | 0.329706 | 4_2:-53869014 | Msa0607160:CDS |
| AAGATCATGACAGAGATTAA+AGG | 0.359430 | 4_2:+53869017 | None:intergenic |
| TGTTTAGAGAACTCTTTAAA+TGG | 0.360343 | 4_2:-53869197 | Msa0607160:CDS |
| AATGAACAAATAATTATCTA+TGG | 0.367557 | 4_2:-53868985 | Msa0607160:CDS |
| CTATCACACGGCAACATAAT+AGG | 0.373785 | 4_2:+53869141 | None:intergenic |
| TCATATCCACTTCGTTTCTT+GGG | 0.376786 | 4_2:+53869310 | None:intergenic |
| CAAAGCCTTCTCCACGTCTT+CGG | 0.381612 | 4_2:+53869074 | None:intergenic |
| CATTGATCGCAAGCGATTTG+TGG | 0.397346 | 4_2:-53869247 | Msa0607160:CDS |
| AAAGCCTTCTCCACGTCTTC+GGG | 0.423323 | 4_2:+53869075 | None:intergenic |
| AACTCTTCATCAGTAAATAA+GGG | 0.445037 | 4_2:-53869288 | Msa0607160:CDS |
| TTCGTGCTAAGATACTTTAG+AGG | 0.450847 | 4_2:+53869222 | None:intergenic |
| AAATGGTCCGAGGAAGTGTT+CGG | 0.456406 | 4_2:-53869180 | Msa0607160:CDS |
| GAGGAAGTGTTCGGATTACC+AGG | 0.460604 | 4_2:-53869171 | Msa0607160:CDS |
| TGGCGGTCGAAAAGCGCAAG+AGG | 0.546936 | 4_2:-53869341 | Msa0607160:CDS |
| TGGTAATCCGAACACTTCCT+CGG | 0.549919 | 4_2:+53869173 | None:intergenic |
| GATTCCCGAAGACGTGGAGA+AGG | 0.576460 | 4_2:-53869079 | Msa0607160:CDS |
| GTGTTCGGATTACCAGGGAA+TGG | 0.590996 | 4_2:-53869165 | Msa0607160:CDS |
| AACATAATAGGTCCATTCCC+TGG | 0.597389 | 4_2:+53869153 | None:intergenic |
| AGAACAGATTCCCGAAGACG+TGG | 0.599588 | 4_2:-53869085 | Msa0607160:CDS |
| CTCATACCCAAGAAACGAAG+TGG | 0.601207 | 4_2:-53869316 | Msa0607160:CDS |
| AGAACTCTTTAAATGGTCCG+AGG | 0.631606 | 4_2:-53869190 | Msa0607160:CDS |
| CATGTATGCTTGTCACAACG+AGG | 0.660738 | 4_2:-53869043 | Msa0607160:CDS |
| TCCAAGAAAACACTATCACA+CGG | 0.685946 | 4_2:+53869129 | None:intergenic |
| AGGAAGTGTTCGGATTACCA+GGG | 0.722902 | 4_2:-53869170 | Msa0607160:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATGAACAAATAATTATCTA+TGG | - | chr4_2:53869356-53869375 | Msa0607160:CDS | 15.0% |
| ! | AACTCTTCATCAGTAAATAA+GGG | - | chr4_2:53869053-53869072 | Msa0607160:CDS | 25.0% |
| ! | TGTTTAGAGAACTCTTTAAA+TGG | - | chr4_2:53869144-53869163 | Msa0607160:CDS | 25.0% |
| GAACTCTTCATCAGTAAATA+AGG | - | chr4_2:53869052-53869071 | Msa0607160:CDS | 30.0% | |
| AAGATCATGACAGAGATTAA+AGG | + | chr4_2:53869327-53869346 | None:intergenic | 30.0% | |
| TTAATCTCTGTCATGATCTT+AGG | - | chr4_2:53869327-53869346 | Msa0607160:CDS | 30.0% | |
| TCATATCCACTTCGTTTCTT+GGG | + | chr4_2:53869034-53869053 | None:intergenic | 35.0% | |
| TTCATATCCACTTCGTTTCT+TGG | + | chr4_2:53869035-53869054 | None:intergenic | 35.0% | |
| TTCGTGCTAAGATACTTTAG+AGG | + | chr4_2:53869122-53869141 | None:intergenic | 35.0% | |
| TCCAAGAAAACACTATCACA+CGG | + | chr4_2:53869215-53869234 | None:intergenic | 35.0% | |
| GAAAAAGTGGCAGAAAATGG+CGG | - | chr4_2:53868983-53869002 | Msa0607160:CDS | 40.0% | |
| AGAACTCTTTAAATGGTCCG+AGG | - | chr4_2:53869151-53869170 | Msa0607160:CDS | 40.0% | |
| AACATAATAGGTCCATTCCC+TGG | + | chr4_2:53869191-53869210 | None:intergenic | 40.0% | |
| CTATCACACGGCAACATAAT+AGG | + | chr4_2:53869203-53869222 | None:intergenic | 40.0% | |
| GGCGAAAAAGTGGCAGAAAA+TGG | - | chr4_2:53868980-53868999 | Msa0607160:CDS | 45.0% | |
| CTCATACCCAAGAAACGAAG+TGG | - | chr4_2:53869025-53869044 | Msa0607160:CDS | 45.0% | |
| CATTGATCGCAAGCGATTTG+TGG | - | chr4_2:53869094-53869113 | Msa0607160:CDS | 45.0% | |
| !! | AAATGGTCCGAGGAAGTGTT+CGG | - | chr4_2:53869161-53869180 | Msa0607160:CDS | 45.0% |
| TGGTAATCCGAACACTTCCT+CGG | + | chr4_2:53869171-53869190 | None:intergenic | 45.0% | |
| !! | AGGAAGTGTTCGGATTACCA+GGG | - | chr4_2:53869171-53869190 | Msa0607160:CDS | 45.0% |
| !! | GCCGTGTGATAGTGTTTTCT+TGG | - | chr4_2:53869211-53869230 | Msa0607160:CDS | 45.0% |
| CATGTATGCTTGTCACAACG+AGG | - | chr4_2:53869298-53869317 | Msa0607160:CDS | 45.0% | |
| !! | GAGGAAGTGTTCGGATTACC+AGG | - | chr4_2:53869170-53869189 | Msa0607160:CDS | 50.0% |
| GTGTTCGGATTACCAGGGAA+TGG | - | chr4_2:53869176-53869195 | Msa0607160:CDS | 50.0% | |
| AGAACAGATTCCCGAAGACG+TGG | - | chr4_2:53869256-53869275 | Msa0607160:CDS | 50.0% | |
| AAAGCCTTCTCCACGTCTTC+GGG | + | chr4_2:53869269-53869288 | None:intergenic | 50.0% | |
| CAAAGCCTTCTCCACGTCTT+CGG | + | chr4_2:53869270-53869289 | None:intergenic | 50.0% | |
| GATTCCCGAAGACGTGGAGA+AGG | - | chr4_2:53869262-53869281 | Msa0607160:CDS | 55.0% | |
| ! | TGGCGGTCGAAAAGCGCAAG+AGG | - | chr4_2:53869000-53869019 | Msa0607160:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 53868978 | 53869385 | 53868978 | ID=Msa0607160;Name=Msa0607160 |
| chr4_2 | mRNA | 53868978 | 53869385 | 53868978 | ID=Msa0607160-mRNA-1;Parent=Msa0607160;Name=Msa0607160-mRNA-1;_AED=0.15;_eAED=0.15;_QI=0|-1|0|1|-1|1|1|0|135 |
| chr4_2 | exon | 53868978 | 53869385 | 53868978 | ID=Msa0607160-mRNA-1:exon:13397;Parent=Msa0607160-mRNA-1 |
| chr4_2 | CDS | 53868978 | 53869385 | 53868978 | ID=Msa0607160-mRNA-1:cds;Parent=Msa0607160-mRNA-1 |
| Gene Sequence |
| Protein sequence |
