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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1088160 | XP_003601714.1 | 98.582 | 282 | 4 | 0 | 1 | 282 | 1 | 282 | 0.0 | 583 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1088160 | sp|P35694|XTH2_SOYBN | 83.099 | 284 | 42 | 2 | 1 | 279 | 1 | 283 | 1.18e-176 | 491 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0046970 | Msa1088160 | 0.831161 | 1.953162e-55 | -8.615850e-47 |
| Msa0091090 | Msa1088160 | -0.801434 | 9.020881e-49 | -8.615850e-47 |
| Msa0183200 | Msa1088160 | -0.801057 | 1.077249e-48 | -8.615850e-47 |
| Msa0198210 | Msa1088160 | 0.817546 | 3.117512e-52 | -8.615850e-47 |
| Msa0207680 | Msa1088160 | 0.856441 | 3.211064e-62 | -8.615850e-47 |
| Msa0207690 | Msa1088160 | 0.826152 | 3.173018e-54 | -8.615850e-47 |
| Msa0209360 | Msa1088160 | 0.853807 | 1.871463e-61 | -8.615850e-47 |
| Msa0242820 | Msa1088160 | 0.860884 | 1.512609e-63 | -8.615850e-47 |
| Msa0256550 | Msa1088160 | 0.810961 | 8.884258e-51 | -8.615850e-47 |
| Msa0287640 | Msa1088160 | 0.850076 | 2.145795e-60 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1088160 | MtrunA17_Chr3g0122031 | 98.582 | 282 | 4 | 0 | 1 | 282 | 1 | 282 | 0.0 | 583 |
| Msa1088160 | MtrunA17_Chr3g0122021 | 98.227 | 282 | 5 | 0 | 1 | 282 | 1 | 282 | 0.0 | 580 |
| Msa1088160 | MtrunA17_Chr8g0377841 | 86.245 | 269 | 35 | 2 | 10 | 277 | 14 | 281 | 5.66e-178 | 491 |
| Msa1088160 | MtrunA17_Chr8g0389641 | 80.851 | 282 | 17 | 2 | 1 | 281 | 1 | 246 | 1.13e-166 | 461 |
| Msa1088160 | MtrunA17_Chr4g0072611 | 72.426 | 272 | 67 | 2 | 14 | 278 | 11 | 281 | 6.47e-144 | 405 |
| Msa1088160 | MtrunA17_Chr7g0258911 | 72.593 | 270 | 68 | 1 | 14 | 277 | 10 | 279 | 7.08e-142 | 400 |
| Msa1088160 | MtrunA17_Chr4g0072671 | 72.285 | 267 | 64 | 1 | 21 | 277 | 19 | 285 | 1.53e-139 | 394 |
| Msa1088160 | MtrunA17_Chr4g0072601 | 63.958 | 283 | 96 | 1 | 1 | 277 | 1 | 283 | 3.72e-133 | 378 |
| Msa1088160 | MtrunA17_Chr2g0299061 | 65.468 | 278 | 85 | 1 | 11 | 277 | 9 | 286 | 1.86e-132 | 377 |
| Msa1088160 | MtrunA17_Chr4g0071341 | 67.681 | 263 | 78 | 1 | 22 | 277 | 19 | 281 | 4.16e-131 | 373 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1088160 | AT3G23730.1 | 72.028 | 286 | 69 | 2 | 7 | 281 | 5 | 290 | 2.40e-164 | 457 |
| Msa1088160 | AT4G14130.1 | 73.264 | 288 | 70 | 2 | 1 | 281 | 1 | 288 | 2.90e-163 | 455 |
| Msa1088160 | AT4G25810.1 | 65.455 | 275 | 87 | 1 | 11 | 277 | 9 | 283 | 1.45e-133 | 379 |
| Msa1088160 | AT4G30270.1 | 64.885 | 262 | 84 | 1 | 16 | 277 | 12 | 265 | 2.24e-129 | 368 |
| Msa1088160 | AT5G57550.1 | 65.370 | 257 | 86 | 1 | 25 | 278 | 27 | 283 | 5.09e-129 | 368 |
| Msa1088160 | AT5G57560.1 | 62.455 | 277 | 91 | 2 | 10 | 277 | 9 | 281 | 6.27e-129 | 368 |
| Msa1088160 | AT5G57530.1 | 63.258 | 264 | 81 | 2 | 25 | 277 | 24 | 282 | 6.45e-124 | 355 |
| Msa1088160 | AT5G57540.1 | 62.500 | 264 | 83 | 3 | 25 | 277 | 23 | 281 | 2.93e-122 | 351 |
| Msa1088160 | AT2G18800.1 | 57.857 | 280 | 99 | 2 | 17 | 277 | 17 | 296 | 6.05e-121 | 348 |
| Msa1088160 | AT4G25820.1 | 62.782 | 266 | 91 | 2 | 20 | 278 | 22 | 286 | 6.52e-120 | 345 |
Find 89 sgRNAs with CRISPR-Local
Find 234 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATCTATTTCATCGTGTGT+TGG | 0.556214 | 7_3:+1172557 | None:intergenic |
| AAGTGTGGAAGTTCTTGGTT+GGG | 0.498153 | 7_3:+1172432 | None:intergenic |
| ACCAAGACTTTGATCTAACT+TGG | 0.385781 | 7_3:-1173307 | Msa1088160:CDS |
| ACGTACGTAGTAAGCAGTGA+CGG | 0.675655 | 7_3:+1173133 | None:intergenic |
| ACGTTTGTATGAAGAATGTA+AGG | 0.516073 | 7_3:+1172506 | None:intergenic |
| ACTCGGTAGCTTTGAAATTG+CGG | 0.568678 | 7_3:+1172114 | None:intergenic |
| ACTCTGCAGGAATACCTTCT+GGG | 0.505825 | 7_3:+1171955 | None:intergenic |
| AGAACCGTTATAAAATAAGA+TGG | 0.549036 | 7_3:+1171884 | None:intergenic |
| AGAAGCCATATTAATTGATT+TGG | 0.245541 | 7_3:+1173406 | None:intergenic |
| AGACTTGAATAGATTCTCAT+TGG | 0.409589 | 7_3:+1172215 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGTTATGGGAATGTAATGTA+GGG | + | chr7_3:1171716-1171735 | None:intergenic | 30.0% | |
| ATGTTATGGGAATGTAATGT+AGG | + | chr7_3:1171717-1171736 | None:intergenic | 30.0% | |
| ATGTAATTGTTGTGATGTGA+AGG | + | chr7_3:1171814-1171833 | None:intergenic | 30.0% | |
| TTGCAAAATCATTGTAACAC+TGG | - | chr7_3:1172226-1172245 | Msa1088160:CDS | 30.0% | |
| TTTCAAAAGCAACTTTACCT+TGG | - | chr7_3:1172378-1172397 | Msa1088160:intron | 30.0% | |
| TGTCGTGAATGCATAAATAA+CGG | + | chr7_3:1172495-1172514 | None:intergenic | 30.0% | |
| AAATCTATTTCATCGTGTGT+TGG | + | chr7_3:1172729-1172748 | None:intergenic | 30.0% | |
| ACGTTTGTATGAAGAATGTA+AGG | + | chr7_3:1172780-1172799 | None:intergenic | 30.0% | |
| CATTCTTGAAGATCCTTATA+GGG | + | chr7_3:1173013-1173032 | None:intergenic | 30.0% | |
| TTCAAGAATGCTGAATCAAT+TGG | - | chr7_3:1173023-1173042 | Msa1088160:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 1171703 | 1173602 | 1171703 | ID=Msa1088160;Name=Msa1088160 |
| chr7_3 | mRNA | 1171703 | 1173602 | 1171703 | ID=Msa1088160-mRNA-1;Parent=Msa1088160;Name=Msa1088160-mRNA-1;_AED=0.25;_eAED=0.25;_QI=188|1|1|1|1|1|3|232|282 |
| chr7_3 | exon | 1171703 | 1172313 | 1171703 | ID=Msa1088160-mRNA-1:exon:468;Parent=Msa1088160-mRNA-1 |
| chr7_3 | exon | 1172401 | 1172594 | 1172401 | ID=Msa1088160-mRNA-1:exon:467;Parent=Msa1088160-mRNA-1 |
| chr7_3 | exon | 1173139 | 1173602 | 1173139 | ID=Msa1088160-mRNA-1:exon:466;Parent=Msa1088160-mRNA-1 |
| chr7_3 | five_prime_UTR | 1173415 | 1173602 | 1173415 | ID=Msa1088160-mRNA-1:five_prime_utr;Parent=Msa1088160-mRNA-1 |
| chr7_3 | CDS | 1173139 | 1173414 | 1173139 | ID=Msa1088160-mRNA-1:cds;Parent=Msa1088160-mRNA-1 |
| chr7_3 | CDS | 1172401 | 1172594 | 1172401 | ID=Msa1088160-mRNA-1:cds;Parent=Msa1088160-mRNA-1 |
| chr7_3 | CDS | 1171935 | 1172313 | 1171935 | ID=Msa1088160-mRNA-1:cds;Parent=Msa1088160-mRNA-1 |
| chr7_3 | three_prime_UTR | 1171703 | 1171934 | 1171703 | ID=Msa1088160-mRNA-1:three_prime_utr;Parent=Msa1088160-mRNA-1 |
| Gene Sequence |
>Msa1088160 ATGGCTTCTTCTATTGGCATGAACAATATGCTGATTGGAGTCATGATAATTAGCTCCTTGGTAGCTACATGTTCTGCTAACTTCAACCAAGACTTTGATCTAACTTGGGGTGACCACCGTGCTAAGATATTCAATGGTGGTCAACTTCTATCTCTTTCTCTAGACAAAACCTCGGGCTCTGGCTTCCAATCGAAGAAAGAGTATTTATTTGGTAGAATTGATATGCAACTCAAACTCGTTGCTGGAAACTCCGCTGGAACCGTCACTGCTTACTACTTATCATCACAAGGGCCAACACACGATGAAATAGATTTTGAGTTCTTGGGAAATGTTAGCGGTGATCCTTACATTCTTCATACAAACGTGTTTTCTCAAGGCAAAGGAAACAGAGAACAACAATTCTACCTTTGGTTTGACCCAACCAAGAACTTCCACACTTACTCTATCATCTGGAAGCCCCAACACATTATATTTTTAGTTGATAACATCCCTATAAGGATCTTCAAGAATGCTGAATCAATTGGTATTCCATTCCCAAAGAACCAACCAATGAGAATCTATTCAAGTCTCTGGAACGCTGATGATTGGGCTACAAGAGGTGGTTTGGTGAAAACTGATTGGTCCAAAGCACCATTTACAGCTTACTACCGCAATTTCAAAGCTACCGAGTTATCATCTATCTCTTCCACTTCCTTCTCTGATTCTGCATTGCAAAGCAATGAGCTTGATGCATATGGTAGAAGAAGATTGAGGTGGGTTCAGAAGTACTTCATGATCTATAACTACTGCAACGATCTTAAGCGATTCCCAGAAGGTATTCCTGCAGAGTGCAAGCGTCCAAGGTTCTGA |
| Protein sequence |
>Msa1088160 MASSIGMNNMLIGVMIISSLVATCSANFNQDFDLTWGDHRAKIFNGGQLLSLSLDKTSGSGFQSKKEYLFGRIDMQLKLVAGNSAGTVTAYYLSSQGPTHDEIDFEFLGNVSGDPYILHTNVFSQGKGNREQQFYLWFDPTKNFHTYSIIWKPQHIIFLVDNIPIRIFKNAESIGIPFPKNQPMRIYSSLWNADDWATRGGLVKTDWSKAPFTAYYRNFKATELSSISSTSFSDSALQSNELDAYGRRRLRWVQKYFMIYNYCNDLKRFPEGIPAECKRPRF* |
