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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0865970 | XP_003618114.1 | 90.025 | 401 | 37 | 3 | 1 | 400 | 1 | 399 | 0.0 | 706 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0865970 | sp|Q9SII6|PIX13_ARATH | 67.656 | 337 | 99 | 2 | 71 | 397 | 45 | 381 | 6.58e-170 | 484 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0011050 | Msa0865970 | 0.802817 | 4.685861e-49 | -8.615850e-47 |
| Msa0012710 | Msa0865970 | 0.828843 | 7.174271e-55 | -8.615850e-47 |
| Msa0015670 | Msa0865970 | 0.828825 | 7.249510e-55 | -8.615850e-47 |
| Msa0030480 | Msa0865970 | 0.834476 | 2.931858e-56 | -8.615850e-47 |
| Msa0030530 | Msa0865970 | 0.826123 | 3.224140e-54 | -8.615850e-47 |
| Msa0033850 | Msa0865970 | 0.818411 | 1.987429e-52 | -8.615850e-47 |
| Msa0041690 | Msa0865970 | 0.804843 | 1.777840e-49 | -8.615850e-47 |
| Msa0043650 | Msa0865970 | 0.803415 | 3.524207e-49 | -8.615850e-47 |
| Msa0045550 | Msa0865970 | 0.835806 | 1.354228e-56 | -8.615850e-47 |
| Msa0046560 | Msa0865970 | 0.837406 | 5.298139e-57 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0865970 | MtrunA17_Chr5g0448661 | 90.025 | 401 | 37 | 3 | 1 | 400 | 1 | 399 | 0.0 | 706 |
| Msa0865970 | MtrunA17_Chr8g0370461 | 59.280 | 361 | 143 | 1 | 37 | 393 | 24 | 384 | 2.82e-152 | 436 |
| Msa0865970 | MtrunA17_Chr5g0406841 | 62.540 | 315 | 112 | 2 | 80 | 388 | 121 | 435 | 8.89e-143 | 414 |
| Msa0865970 | MtrunA17_Chr4g0071481 | 51.990 | 402 | 180 | 5 | 6 | 397 | 19 | 417 | 4.21e-135 | 394 |
| Msa0865970 | MtrunA17_Chr5g0435211 | 55.911 | 313 | 134 | 1 | 82 | 390 | 52 | 364 | 5.52e-134 | 390 |
| Msa0865970 | MtrunA17_Chr8g0370571 | 58.896 | 326 | 128 | 3 | 73 | 393 | 24 | 348 | 1.06e-133 | 387 |
| Msa0865970 | MtrunA17_Chr3g0143951 | 59.877 | 324 | 123 | 2 | 69 | 388 | 46 | 366 | 3.30e-132 | 385 |
| Msa0865970 | MtrunA17_Chr2g0328171 | 51.685 | 356 | 163 | 3 | 37 | 387 | 9 | 360 | 5.80e-130 | 379 |
| Msa0865970 | MtrunA17_Chr7g0238671 | 56.774 | 310 | 130 | 1 | 82 | 387 | 50 | 359 | 2.36e-129 | 378 |
| Msa0865970 | MtrunA17_Chr5g0416311 | 56.913 | 311 | 128 | 2 | 82 | 388 | 53 | 361 | 4.04e-126 | 370 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0865970 | AT2G17220.1 | 67.656 | 337 | 99 | 2 | 71 | 397 | 45 | 381 | 6.69e-171 | 484 |
| Msa0865970 | AT2G17220.2 | 67.656 | 337 | 99 | 2 | 71 | 397 | 44 | 380 | 7.86e-171 | 484 |
| Msa0865970 | AT4G35600.1 | 53.951 | 367 | 155 | 5 | 36 | 393 | 17 | 378 | 1.19e-141 | 410 |
| Msa0865970 | AT4G35600.2 | 53.804 | 368 | 155 | 6 | 36 | 393 | 17 | 379 | 1.80e-140 | 407 |
| Msa0865970 | AT1G76360.1 | 60.000 | 320 | 121 | 3 | 82 | 397 | 141 | 457 | 3.58e-136 | 398 |
| Msa0865970 | AT2G28930.1 | 54.913 | 346 | 146 | 2 | 52 | 387 | 21 | 366 | 3.13e-132 | 386 |
| Msa0865970 | AT2G28930.2 | 57.419 | 310 | 128 | 1 | 82 | 387 | 46 | 355 | 5.66e-132 | 385 |
| Msa0865970 | AT5G02290.2 | 52.586 | 348 | 153 | 3 | 44 | 387 | 15 | 354 | 6.01e-132 | 384 |
| Msa0865970 | AT5G02290.1 | 52.586 | 348 | 153 | 3 | 44 | 387 | 15 | 354 | 6.01e-132 | 384 |
| Msa0865970 | AT2G28930.3 | 57.419 | 310 | 128 | 1 | 82 | 387 | 49 | 358 | 9.46e-132 | 385 |
Find 149 sgRNAs with CRISPR-Local
Find 188 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGAAGGAAGAAAGGAAG+AGG | 0.515024 | 5_4:+67381454 | None:intergenic |
| AAAATCCAAAATGAAAATTT+GGG | 0.341983 | 5_4:+67379594 | None:intergenic |
| AAAGTAACAAGAATAGGATC+TGG | 0.504578 | 5_4:-67379546 | Msa0865970:three_prime_UTR |
| AAATGGGATTGACTAGCTGA+AGG | 0.648493 | 5_4:+67380302 | None:intergenic |
| AAATTTGTGCATTTCTGCTG+TGG | 0.539631 | 5_4:-67379708 | Msa0865970:three_prime_UTR |
| AACAGAACCGTGGAGGTGAG+GGG | 0.638117 | 5_4:-67379819 | Msa0865970:CDS |
| AAGAAAGGAAGAGGTTACCT+TGG | 0.559477 | 5_4:+67381463 | None:intergenic |
| AAGACCCTGAGATTAGAAGT+AGG | 0.609427 | 5_4:+67381053 | None:intergenic |
| AAGAGTGACGTCTATGGGTT+TGG | 0.430613 | 5_4:-67380113 | Msa0865970:CDS |
| AAGGTTATGGATCCACAATT+GGG | 0.510792 | 5_4:-67379972 | Msa0865970:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CAGTCATAGAGAAATTAAGA+GGG | + | chr5_4:67379226-67379245 | None:intergenic | 30.0% | |
| TCAGTCATAGAGAAATTAAG+AGG | + | chr5_4:67379227-67379246 | None:intergenic | 30.0% | |
| GCAAAGAAAGAAAGAATTAG+TGG | - | chr5_4:67379393-67379412 | Msa0865970:three_prime_UTR | 30.0% | |
| TATGCAAAAAGAAGGAAGAA+AGG | + | chr5_4:67379616-67379635 | None:intergenic | 30.0% | |
| GTTGAATTATTACGACTTAC+CGG | + | chr5_4:67379719-67379738 | None:intergenic | 30.0% | |
| AATTCTACTTCTTATGGAAG+TGG | - | chr5_4:67379894-67379913 | Msa0865970:CDS | 30.0% | |
| AATTGAATAATCAGAGACAG+AGG | + | chr5_4:67379973-67379992 | None:intergenic | 30.0% | |
| TCTGTCTCTGATTATTCAAT+TGG | - | chr5_4:67379972-67379991 | Msa0865970:CDS | 30.0% | |
| TAACAAGGTTAGGATGATAA+AGG | + | chr5_4:67380346-67380365 | None:intergenic | 30.0% | |
| CATCCAATATATTGCTTGAT+GGG | - | chr5_4:67380576-67380595 | Msa0865970:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_4 | gene | 67379215 | 67381868 | 67379215 | ID=Msa0865970;Name=Msa0865970 |
| chr5_4 | mRNA | 67379215 | 67381868 | 67379215 | ID=Msa0865970-mRNA-1;Parent=Msa0865970;Name=Msa0865970-mRNA-1;_AED=0.06;_eAED=0.06;_QI=452|1|1|1|1|1|5|594|400 |
| chr5_4 | exon | 67379215 | 67380149 | 67379215 | ID=Msa0865970-mRNA-1:exon:21187;Parent=Msa0865970-mRNA-1 |
| chr5_4 | exon | 67380246 | 67380369 | 67380246 | ID=Msa0865970-mRNA-1:exon:21186;Parent=Msa0865970-mRNA-1 |
| chr5_4 | exon | 67380485 | 67380763 | 67380485 | ID=Msa0865970-mRNA-1:exon:21185;Parent=Msa0865970-mRNA-1 |
| chr5_4 | exon | 67380872 | 67381278 | 67380872 | ID=Msa0865970-mRNA-1:exon:21184;Parent=Msa0865970-mRNA-1 |
| chr5_4 | exon | 67381365 | 67381868 | 67381365 | ID=Msa0865970-mRNA-1:exon:21183;Parent=Msa0865970-mRNA-1 |
| chr5_4 | five_prime_UTR | 67381417 | 67381868 | 67381417 | ID=Msa0865970-mRNA-1:five_prime_utr;Parent=Msa0865970-mRNA-1 |
| chr5_4 | CDS | 67381365 | 67381416 | 67381365 | ID=Msa0865970-mRNA-1:cds;Parent=Msa0865970-mRNA-1 |
| chr5_4 | CDS | 67380872 | 67381278 | 67380872 | ID=Msa0865970-mRNA-1:cds;Parent=Msa0865970-mRNA-1 |
| chr5_4 | CDS | 67380485 | 67380763 | 67380485 | ID=Msa0865970-mRNA-1:cds;Parent=Msa0865970-mRNA-1 |
| chr5_4 | CDS | 67380246 | 67380369 | 67380246 | ID=Msa0865970-mRNA-1:cds;Parent=Msa0865970-mRNA-1 |
| chr5_4 | CDS | 67379809 | 67380149 | 67379809 | ID=Msa0865970-mRNA-1:cds;Parent=Msa0865970-mRNA-1 |
| chr5_4 | three_prime_UTR | 67379215 | 67379808 | 67379215 | ID=Msa0865970-mRNA-1:three_prime_utr;Parent=Msa0865970-mRNA-1 |
| Gene Sequence |
>Msa0865970 ATGGGGATTTGCTGGAGTTCGACACCTAACAATCCAATTCCAACTGGAACCGTCACACCTGCAGGGATATCTTCTTATTCCCAAGCGGCCACCAGTGGCAGCTATGGTATTAATAGTAGTACGACCACAACAACTACTTTTAATTCTACTTCTTATGGAAGTGGTAGTGGAAGCAGCGGCAGTAACATGTCATCCTCCATAAACAGAAGCAACTTCTCCTCTGTCTCTGATTATTCAATTGGTGGTCAGATCTTACCTACTTCTAATCTCAGGGTCTTCACTTTTGCTGAATTGAAGACTGCTACCAAGAATTTCAGAATTGATAATCTCCTTGGAGAAGGTGGTTTTGGTAAAGTCTACAAGGGATGGCTTGAATCTCCTTCCAGGAATTCTAGTGGAACCACTGTTGCCGTCAAAAAGTTGAACACTGAAGGCTACCAAGGCCTTGAGGAATGGCAGTCAGAAATACATTTTCTAGGACGCCTTTATCATCCTAACCTTGTTAAGCTGTTGGGATACTGTTGTGAGGAAACAGATCTTCTTCTTGTCTATGAATACATGCAGAAGGGCAGTTTGGAGAATCATCTCTTTGGAAGGGGTGCTGCTGTTCAACCACTTCCTTGGGACCTCAGACTTAAGATAGCTATTGGTGCAGCCTGTGGCCTTTCCTTTTTACATACCTCCGATAAAGAAATTATTTACAGAGATTTTAAGGCATCCAATATATTGCTTGATGGGTCCTATAATGCAAAGATATCAGATTTTGGACTTGCTAAGCTGGGTCCTTCAGCTAGTCAATCCCATTTGTCAACAACAGTGATGGGAACACCTGGTTATGCAGCTCCTGAATATATGCAAACAGGGCATCTATATGTAAAGAGTGACGTCTATGGGTTTGGAGTTGTTTTGGTCGAGATACTCACAGGACTACGAGCAGTTGATCTCAACCGTCCAAGCGGACGTCACATTCTAACAGACTGGATCAAACCAGAATTACAAGATAGAAAAAAATTGAAGAAGGTTATGGATCCACAATTGGGAGATAAGTATCCAATCAAAGCTGCACTTCCTATAGCTAAGCTTGCTACAAGTTGCCTTGCACCTGAGCCCAGGCTGCGTCCATCCATGAAGGATGTTATGGAAAGGTTGCAGGGAATTCAAGCTGCCACTAACAGAACCGTGGAGGTGAGGGGTGCAAATTAA |
| Protein sequence |
>Msa0865970 MGICWSSTPNNPIPTGTVTPAGISSYSQAATSGSYGINSSTTTTTTFNSTSYGSGSGSSGSNMSSSINRSNFSSVSDYSIGGQILPTSNLRVFTFAELKTATKNFRIDNLLGEGGFGKVYKGWLESPSRNSSGTTVAVKKLNTEGYQGLEEWQSEIHFLGRLYHPNLVKLLGYCCEETDLLLVYEYMQKGSLENHLFGRGAAVQPLPWDLRLKIAIGAACGLSFLHTSDKEIIYRDFKASNILLDGSYNAKISDFGLAKLGPSASQSHLSTTVMGTPGYAAPEYMQTGHLYVKSDVYGFGVVLVEILTGLRAVDLNRPSGRHILTDWIKPELQDRKKLKKVMDPQLGDKYPIKAALPIAKLATSCLAPEPRLRPSMKDVMERLQGIQAATNRTVEVRGAN* |
