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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0825120 | AET00799.1 | 96.774 | 62 | 2 | 0 | 5 | 66 | 1 | 62 | 2.10e-35 | 124 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0825120 | sp|O22633|NOI4_ARATH | 89.362 | 47 | 5 | 0 | 6 | 52 | 3 | 49 | 2.19e-24 | 89.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0825120 | G7KEH8 | 96.774 | 62 | 2 | 0 | 5 | 66 | 1 | 62 | 1.00e-35 | 124 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0017320 | Msa0825120 | 0.814378 | 1.588737e-51 | -8.615850e-47 |
| Msa0038870 | Msa0825120 | 0.801667 | 8.080243e-49 | -8.615850e-47 |
| Msa0043730 | Msa0825120 | 0.808806 | 2.584301e-50 | -8.615850e-47 |
| Msa0065650 | Msa0825120 | 0.803478 | 3.420330e-49 | -8.615850e-47 |
| Msa0103790 | Msa0825120 | 0.804449 | 2.148284e-49 | -8.615850e-47 |
| Msa0111080 | Msa0825120 | 0.818165 | 2.260128e-52 | -8.615850e-47 |
| Msa0620330 | Msa0825120 | 0.805344 | 1.397021e-49 | -8.615850e-47 |
| Msa0640940 | Msa0825120 | 0.810316 | 1.224610e-50 | -8.615850e-47 |
| Msa0679360 | Msa0825120 | 0.807200 | 5.676677e-50 | -8.615850e-47 |
| Msa0679550 | Msa0825120 | 0.818453 | 1.945230e-52 | -8.615850e-47 |
| Msa0732600 | Msa0825120 | 0.802516 | 5.406840e-49 | -8.615850e-47 |
| Msa0743530 | Msa0825120 | 0.821619 | 3.667539e-53 | -8.615850e-47 |
| Msa0746170 | Msa0825120 | 0.805035 | 1.621072e-49 | -8.615850e-47 |
| Msa0748070 | Msa0825120 | 0.805007 | 1.642848e-49 | -8.615850e-47 |
| Msa0749440 | Msa0825120 | 0.803578 | 3.260727e-49 | -8.615850e-47 |
| Msa0805420 | Msa0825120 | 0.805510 | 1.288974e-49 | -8.615850e-47 |
| Msa0822170 | Msa0825120 | 0.815276 | 1.004423e-51 | -8.615850e-47 |
| Msa0825120 | Msa0842770 | 0.816815 | 4.552250e-52 | -8.615850e-47 |
| Msa0825120 | Msa0844110 | 0.802044 | 6.762182e-49 | -8.615850e-47 |
| Msa0825120 | Msa0854920 | 0.800549 | 1.368142e-48 | -8.615850e-47 |
| Msa0825120 | Msa0861470 | 0.818981 | 1.475544e-52 | -8.615850e-47 |
| Msa0825120 | Msa0861570 | 0.814016 | 1.908922e-51 | -8.615850e-47 |
| Msa0825120 | Msa0877710 | 0.805099 | 1.571682e-49 | -8.615850e-47 |
| Msa0825120 | Msa0901320 | 0.819931 | 8.961871e-53 | -8.615850e-47 |
| Msa0825120 | Msa0947800 | 0.800095 | 1.692139e-48 | -8.615850e-47 |
| Msa0825120 | Msa0980020 | 0.809000 | 2.348800e-50 | -8.615850e-47 |
| Msa0825120 | Msa1031820 | 0.806180 | 9.323430e-50 | -8.615850e-47 |
| Msa0825120 | Msa1042660 | 0.818571 | 1.828893e-52 | -8.615850e-47 |
| Msa0825120 | Msa1071320 | 0.814170 | 1.765548e-51 | -8.615850e-47 |
| Msa0825120 | Msa1072900 | 0.802399 | 5.714700e-49 | -8.615850e-47 |
| Msa0825120 | Msa1174310 | 0.805693 | 1.180393e-49 | -8.615850e-47 |
| Msa0825120 | Msa1197070 | 0.803860 | 2.848958e-49 | -8.615850e-47 |
| Msa0825120 | Msa1205590 | 0.802235 | 6.176003e-49 | -8.615850e-47 |
| Msa0825120 | Msa1207310 | 0.807700 | 4.446595e-50 | -8.615850e-47 |
| Msa0825120 | Msa1259530 | 0.806052 | 9.921601e-50 | -8.615850e-47 |
| Msa0825120 | Msa1297530 | 0.818449 | 1.949327e-52 | -8.615850e-47 |
| Msa0825120 | Msa1331350 | 0.813299 | 2.746617e-51 | -8.615850e-47 |
| Msa0825120 | Msa1340830 | 0.800886 | 1.167510e-48 | -8.615850e-47 |
| Msa0825120 | Msa1363700 | 0.809214 | 2.113403e-50 | -8.615850e-47 |
| Msa0825120 | Msa1371940 | 0.808725 | 2.688901e-50 | -8.615850e-47 |
| Msa0825120 | Msa1372290 | 0.816444 | 5.514310e-52 | -8.615850e-47 |
| Msa0825120 | Msa1396940 | 0.802874 | 4.559797e-49 | -8.615850e-47 |
| Msa0825120 | Msa1416260 | 0.807681 | 4.487875e-50 | -8.615850e-47 |
| Msa0825120 | Msa1442790 | 0.812485 | 4.140501e-51 | -8.615850e-47 |
| Msa0126880 | Msa0825120 | 0.804121 | 2.515071e-49 | -8.615850e-47 |
| Msa0142500 | Msa0825120 | 0.801211 | 1.001976e-48 | -8.615850e-47 |
| Msa0154920 | Msa0825120 | 0.832609 | 8.574149e-56 | -8.615850e-47 |
| Msa0171980 | Msa0825120 | 0.800161 | 1.641035e-48 | -8.615850e-47 |
| Msa0187490 | Msa0825120 | 0.806306 | 8.770270e-50 | -8.615850e-47 |
| Msa0202930 | Msa0825120 | 0.824738 | 6.858128e-54 | -8.615850e-47 |
| Msa0229360 | Msa0825120 | 0.810073 | 1.381665e-50 | -8.615850e-47 |
| Msa0232340 | Msa0825120 | 0.802119 | 6.524504e-49 | -8.615850e-47 |
| Msa0439890 | Msa0825120 | 0.807583 | 4.708714e-50 | -8.615850e-47 |
| Msa0241740 | Msa0825120 | 0.814908 | 1.212180e-51 | -8.615850e-47 |
| Msa0271790 | Msa0825120 | 0.811811 | 5.807937e-51 | -8.615850e-47 |
| Msa0284450 | Msa0825120 | 0.812663 | 3.786345e-51 | -8.615850e-47 |
| Msa0304840 | Msa0825120 | 0.806252 | 9.003738e-50 | -8.615850e-47 |
| Msa0310430 | Msa0825120 | 0.812152 | 4.893843e-51 | -8.615850e-47 |
| Msa0347750 | Msa0825120 | 0.826296 | 2.931813e-54 | -8.615850e-47 |
| Msa0566350 | Msa0825120 | 0.804861 | 1.762536e-49 | -8.615850e-47 |
| Msa0566750 | Msa0825120 | 0.811331 | 7.384575e-51 | -8.615850e-47 |
| Msa0567240 | Msa0825120 | 0.802481 | 5.495559e-49 | -8.615850e-47 |
| Msa0594200 | Msa0825120 | 0.800365 | 1.491221e-48 | -8.615850e-47 |
| Msa0600450 | Msa0825120 | 0.804655 | 1.946578e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0825120 | MtrunA17_Chr5g0446701 | 96.774 | 62 | 2 | 0 | 5 | 66 | 1 | 62 | 1.93e-39 | 124 |
| Msa0825120 | MtrunA17_Chr3g0102501 | 75.000 | 60 | 13 | 1 | 6 | 63 | 3 | 62 | 7.08e-26 | 90.9 |
| Msa0825120 | MtrunA17_Chr4g0058001 | 64.062 | 64 | 20 | 1 | 2 | 65 | 1 | 61 | 2.45e-21 | 79.3 |
| Msa0825120 | MtrunA17_Chr8g0381181 | 89.744 | 39 | 4 | 0 | 5 | 43 | 5 | 43 | 5.02e-21 | 78.6 |
| Msa0825120 | MtrunA17_Chr3g0123181 | 80.556 | 36 | 7 | 0 | 8 | 43 | 9 | 44 | 2.73e-17 | 69.3 |
| Msa0825120 | MtrunA17_Chr8g0339841 | 64.865 | 37 | 13 | 0 | 6 | 42 | 191 | 227 | 1.96e-11 | 57.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0825120 | AT5G55850.1 | 87.500 | 48 | 6 | 0 | 5 | 52 | 2 | 49 | 4.97e-26 | 92.4 |
| Msa0825120 | AT5G55850.2 | 87.500 | 48 | 6 | 0 | 5 | 52 | 18 | 65 | 1.31e-25 | 92.0 |
| Msa0825120 | AT5G55850.3 | 89.362 | 47 | 5 | 0 | 6 | 52 | 3 | 49 | 2.22e-25 | 89.7 |
| Msa0825120 | AT2G04410.1 | 81.250 | 48 | 9 | 0 | 6 | 53 | 3 | 50 | 5.78e-23 | 83.6 |
| Msa0825120 | AT5G63270.1 | 76.923 | 39 | 9 | 0 | 3 | 41 | 1 | 39 | 1.81e-17 | 70.1 |
| Msa0825120 | AT5G40645.1 | 85.714 | 35 | 5 | 0 | 9 | 43 | 13 | 47 | 7.82e-17 | 68.2 |
| Msa0825120 | AT2G17660.1 | 56.364 | 55 | 21 | 1 | 2 | 56 | 1 | 52 | 1.31e-15 | 64.7 |
| Msa0825120 | AT4G35655.1 | 80.000 | 35 | 7 | 0 | 8 | 42 | 7 | 41 | 1.51e-15 | 64.7 |
| Msa0825120 | AT3G48450.1 | 75.000 | 36 | 9 | 0 | 6 | 41 | 5 | 40 | 4.41e-15 | 63.9 |
| Msa0825120 | AT3G48450.2 | 75.000 | 36 | 9 | 0 | 6 | 41 | 5 | 40 | 4.41e-15 | 63.9 |
Find 24 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTTGAGGGTTTGCCTTTGC+AGG | 0.277944 | 5_3:-64864281 | None:intergenic |
| AGGTCTTACACCATGAGTTT+TGG | 0.363230 | 5_3:-64864324 | None:intergenic |
| TCTAATGGAGGCCTGGTTTG+AGG | 0.380324 | 5_3:-64864296 | None:intergenic |
| CTAATGGAGGCCTGGTTTGA+GGG | 0.387262 | 5_3:-64864295 | None:intergenic |
| GGTAGGCCACTACCAAAGTT+TGG | 0.438854 | 5_3:+64864161 | Msa0825120:CDS |
| GGCATGTTCTAATGGAGGCC+TGG | 0.443687 | 5_3:-64864303 | None:intergenic |
| TTTGCCTTTGCAGGTGACTC+AGG | 0.465835 | 5_3:-64864272 | None:intergenic |
| ACTACCAAAGTTTGGCGAAT+GGG | 0.469822 | 5_3:+64864169 | Msa0825120:CDS |
| ACATCCCATTCGCCAAACTT+TGG | 0.479103 | 5_3:-64864173 | None:intergenic |
| GTGTAACCTTCAGCTGAAGC+TGG | 0.488641 | 5_3:-64864203 | None:intergenic |
| TCATTGTTTCAAATTTCAAA+GGG | 0.490981 | 5_3:-64864569 | None:intergenic |
| CATTCGCCAAACTTTGGTAG+TGG | 0.530105 | 5_3:-64864167 | None:intergenic |
| GATTAATCTGATTATCCCAC+AGG | 0.531204 | 5_3:+64864133 | None:intergenic |
| AACGATCCAGCTTCAGCTGA+AGG | 0.533395 | 5_3:+64864197 | Msa0825120:CDS |
| GTGGCCTACCCTTGTCCTGT+GGG | 0.535692 | 5_3:-64864148 | None:intergenic |
| CAAAGGCAAACCCTCAAACC+AGG | 0.538967 | 5_3:+64864285 | Msa0825120:CDS |
| AGTGGCCTACCCTTGTCCTG+TGG | 0.544425 | 5_3:-64864149 | None:intergenic |
| TCTGATTATCCCACAGGACA+AGG | 0.558158 | 5_3:+64864139 | None:intergenic |
| TTAGAACATGCCAAAACTCA+TGG | 0.564917 | 5_3:+64864314 | Msa0825120:CDS |
| CAAACCTGAGTCACCTGCAA+AGG | 0.574344 | 5_3:+64864268 | Msa0825120:CDS |
| CACTACCAAAGTTTGGCGAA+TGG | 0.577691 | 5_3:+64864168 | Msa0825120:CDS |
| CTGATTATCCCACAGGACAA+GGG | 0.624818 | 5_3:+64864140 | Msa0825120:CDS |
| TCAAAGGGTCCTAGATCCAG+TGG | 0.641530 | 5_3:-64864554 | None:intergenic |
| TTATCCCACAGGACAAGGGT+AGG | 0.668511 | 5_3:+64864144 | Msa0825120:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATACATAATGAAACCAAAAA+AGG | - | chr5_3:64864442-64864461 | None:intergenic | 20.0% |
| !! | AATATATATGATGTCATTGT+AGG | + | chr5_3:64864516-64864535 | Msa0825120:intron | 20.0% |
| !! | AGTGATTTTTAACAAAGCTA+GGG | + | chr5_3:64864226-64864245 | Msa0825120:CDS | 25.0% |
| ! | ATATGTTCAATAAAGAGAAG+AGG | - | chr5_3:64864347-64864366 | None:intergenic | 25.0% |
| ! | CAAAAGAATTGAGAAATAGT+TGG | + | chr5_3:64864466-64864485 | Msa0825120:intron | 25.0% |
| ! | CAATGACATCATATATATTC+AGG | - | chr5_3:64864515-64864534 | None:intergenic | 25.0% |
| ! | CAGTGATTTTTAACAAAGCT+AGG | + | chr5_3:64864225-64864244 | Msa0825120:CDS | 30.0% |
| !!! | TGTTTTGGTGTAACCTTTTT+TGG | + | chr5_3:64864426-64864445 | Msa0825120:intron | 30.0% |
| !! | TGAGTTTTGGCATGTTCTAA+TGG | - | chr5_3:64864314-64864333 | None:intergenic | 35.0% |
| TTAGAACATGCCAAAACTCA+TGG | + | chr5_3:64864314-64864333 | Msa0825120:CDS | 35.0% | |
| ! | GCATGTGTGCATATTTGTTT+TGG | + | chr5_3:64864411-64864430 | Msa0825120:intron | 35.0% |
| AATAGTTGGACGAAAGTTTG+AGG | + | chr5_3:64864480-64864499 | Msa0825120:intron | 35.0% | |
| ! | TCCAGTGGCATTTTTAACAA+AGG | - | chr5_3:64864542-64864561 | None:intergenic | 35.0% |
| TTAAAAATGCCACTGGATCT+AGG | + | chr5_3:64864545-64864564 | Msa0825120:CDS | 35.0% | |
| ACTACCAAAGTTTGGCGAAT+GGG | + | chr5_3:64864169-64864188 | Msa0825120:CDS | 40.0% | |
| !! | GTTTTGGCATGTTCTAATGG+AGG | - | chr5_3:64864311-64864330 | None:intergenic | 40.0% |
| ! | AGGTCTTACACCATGAGTTT+TGG | - | chr5_3:64864327-64864346 | None:intergenic | 40.0% |
| GCCTTTGTTAAAAATGCCAC+TGG | + | chr5_3:64864538-64864557 | Msa0825120:CDS | 40.0% | |
| CTGATTATCCCACAGGACAA+GGG | + | chr5_3:64864140-64864159 | Msa0825120:CDS | 45.0% | |
| CATTCGCCAAACTTTGGTAG+TGG | - | chr5_3:64864170-64864189 | None:intergenic | 45.0% | |
| CACTACCAAAGTTTGGCGAA+TGG | + | chr5_3:64864168-64864187 | Msa0825120:CDS | 45.0% | |
| ACATCCCATTCGCCAAACTT+TGG | - | chr5_3:64864176-64864195 | None:intergenic | 45.0% | |
| GCTAGGGATGAGAAAAAGAC+AGG | + | chr5_3:64864242-64864261 | Msa0825120:CDS | 45.0% | |
| AGGGATGAGAAAAAGACAGG+TGG | + | chr5_3:64864245-64864264 | Msa0825120:CDS | 45.0% | |
| TTATCCCACAGGACAAGGGT+AGG | + | chr5_3:64864144-64864163 | Msa0825120:CDS | 50.0% | |
| GGTAGGCCACTACCAAAGTT+TGG | + | chr5_3:64864161-64864180 | Msa0825120:CDS | 50.0% | |
| AACGATCCAGCTTCAGCTGA+AGG | + | chr5_3:64864197-64864216 | Msa0825120:CDS | 50.0% | |
| GTGTAACCTTCAGCTGAAGC+TGG | - | chr5_3:64864206-64864225 | None:intergenic | 50.0% | |
| CAAACCTGAGTCACCTGCAA+AGG | + | chr5_3:64864268-64864287 | Msa0825120:CDS | 50.0% | |
| TTTGCCTTTGCAGGTGACTC+AGG | - | chr5_3:64864275-64864294 | None:intergenic | 50.0% | |
| GTTTGAGGGTTTGCCTTTGC+AGG | - | chr5_3:64864284-64864303 | None:intergenic | 50.0% | |
| CAAAGGCAAACCCTCAAACC+AGG | + | chr5_3:64864285-64864304 | Msa0825120:CDS | 50.0% | |
| ! | CTAATGGAGGCCTGGTTTGA+GGG | - | chr5_3:64864298-64864317 | None:intergenic | 50.0% |
| ! | TCTAATGGAGGCCTGGTTTG+AGG | - | chr5_3:64864299-64864318 | None:intergenic | 50.0% |
| TCAAAGGGTCCTAGATCCAG+TGG | - | chr5_3:64864557-64864576 | None:intergenic | 50.0% | |
| GGCATGTTCTAATGGAGGCC+TGG | - | chr5_3:64864306-64864325 | None:intergenic | 55.0% | |
| GTGGCCTACCCTTGTCCTGT+GGG | - | chr5_3:64864151-64864170 | None:intergenic | 60.0% | |
| AGTGGCCTACCCTTGTCCTG+TGG | - | chr5_3:64864152-64864171 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 64864140 | 64864576 | 64864140 | ID=Msa0825120;Name=Msa0825120 |
| chr5_3 | mRNA | 64864140 | 64864576 | 64864140 | ID=Msa0825120-mRNA-1;Parent=Msa0825120;Name=Msa0825120-mRNA-1;_AED=0.45;_eAED=0.45;_QI=0|0|0|0.5|1|1|2|0|78 |
| chr5_3 | exon | 64864140 | 64864337 | 64864140 | ID=Msa0825120-mRNA-1:exon:20246;Parent=Msa0825120-mRNA-1 |
| chr5_3 | exon | 64864538 | 64864576 | 64864538 | ID=Msa0825120-mRNA-1:exon:20247;Parent=Msa0825120-mRNA-1 |
| chr5_3 | CDS | 64864140 | 64864337 | 64864140 | ID=Msa0825120-mRNA-1:cds;Parent=Msa0825120-mRNA-1 |
| chr5_3 | CDS | 64864538 | 64864576 | 64864538 | ID=Msa0825120-mRNA-1:cds;Parent=Msa0825120-mRNA-1 |
| Gene Sequence |
| Protein sequence |
