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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0442870 | XP_027190480.1 | 72.779 | 698 | 164 | 5 | 1 | 674 | 1 | 696 | 0.0 | 996 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0442870 | sp|Q8GYA4|CRK10_ARATH | 41.422 | 647 | 340 | 10 | 48 | 674 | 42 | 669 | 3.75e-165 | 492 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0442870 | A0A3Q7YFH1 | 72.779 | 698 | 164 | 5 | 1 | 674 | 1 | 696 | 0.0 | 996 |
Co-expression Network
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0442870 | MtrunA17_Chr3g0081031 | 73.828 | 661 | 164 | 3 | 22 | 674 | 12 | 671 | 0.0 | 977 |
| Msa0442870 | MtrunA17_Chr3g0081001 | 52.914 | 652 | 297 | 6 | 30 | 674 | 14 | 662 | 0.0 | 655 |
| Msa0442870 | MtrunA17_Chr3g0081011 | 54.032 | 620 | 272 | 9 | 61 | 674 | 46 | 658 | 0.0 | 640 |
| Msa0442870 | MtrunA17_Chr8g0354421 | 51.298 | 655 | 308 | 7 | 27 | 674 | 32 | 682 | 0.0 | 637 |
| Msa0442870 | MtrunA17_Chr8g0354441 | 50.842 | 653 | 307 | 7 | 33 | 674 | 20 | 669 | 0.0 | 633 |
| Msa0442870 | MtrunA17_Chr8g0354351 | 51.181 | 635 | 292 | 9 | 46 | 674 | 30 | 652 | 0.0 | 612 |
| Msa0442870 | MtrunA17_Chr8g0354271 | 51.360 | 625 | 279 | 8 | 59 | 674 | 47 | 655 | 0.0 | 599 |
| Msa0442870 | MtrunA17_Chr8g0354281 | 49.763 | 633 | 297 | 7 | 50 | 674 | 34 | 653 | 0.0 | 595 |
| Msa0442870 | MtrunA17_Chr8g0354431 | 47.872 | 658 | 327 | 6 | 27 | 674 | 10 | 661 | 0.0 | 578 |
| Msa0442870 | MtrunA17_Chr3g0082941 | 54.930 | 497 | 207 | 5 | 181 | 674 | 1 | 483 | 0.0 | 529 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0442870 | AT4G23180.1 | 41.422 | 647 | 340 | 10 | 48 | 674 | 42 | 669 | 3.81e-166 | 492 |
| Msa0442870 | AT4G05200.1 | 40.000 | 650 | 349 | 11 | 57 | 674 | 35 | 675 | 1.49e-165 | 491 |
| Msa0442870 | AT4G05200.2 | 40.000 | 650 | 349 | 11 | 57 | 674 | 53 | 693 | 3.00e-165 | 491 |
| Msa0442870 | AT4G23160.1 | 40.860 | 651 | 345 | 10 | 48 | 674 | 48 | 682 | 9.87e-161 | 478 |
| Msa0442870 | AT4G23230.1 | 42.114 | 615 | 307 | 8 | 57 | 643 | 32 | 625 | 1.04e-160 | 476 |
| Msa0442870 | AT4G21410.3 | 40.630 | 667 | 373 | 8 | 30 | 674 | 14 | 679 | 7.11e-157 | 468 |
| Msa0442870 | AT4G11530.1 | 40.153 | 655 | 342 | 11 | 58 | 674 | 34 | 676 | 1.33e-154 | 462 |
| Msa0442870 | AT4G11480.3 | 39.286 | 672 | 368 | 13 | 22 | 674 | 1 | 651 | 3.54e-153 | 458 |
| Msa0442870 | AT4G23140.1 | 39.620 | 631 | 332 | 9 | 76 | 674 | 61 | 674 | 1.45e-152 | 457 |
| Msa0442870 | AT4G11480.4 | 39.286 | 672 | 365 | 13 | 22 | 674 | 1 | 648 | 2.10e-152 | 456 |
Find 112 sgRNAs with CRISPR-Local
Find 279 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATAGCTGAAGCATTATT+AGG | 0.182513 | 3_3:-13226626 | None:intergenic |
| AAACTATTGAACAGACAAAG+TGG | 0.582544 | 3_3:+13226266 | Msa0442870:CDS |
| AAAGATGGACATATGGGGAT+TGG | 0.477119 | 3_3:-13230583 | None:intergenic |
| AAATAGCTGAAGCATTATTA+GGG | 0.397810 | 3_3:-13226625 | None:intergenic |
| AAATTCTATCTTTCAGAGCA+TGG | 0.541936 | 3_3:+13230278 | Msa0442870:CDS |
| AACACATGAGTTACAAAGGG+TGG | 0.628295 | 3_3:-13226570 | None:intergenic |
| AACATTTGGAGGAGATCAGG+GGG | 0.646344 | 3_3:+13229832 | Msa0442870:CDS |
| AACGATTAAACATTATTAAT+GGG | 0.320403 | 3_3:+13229681 | Msa0442870:CDS |
| AACGGTACGCAAAGAAGGTA+TGG | 0.542313 | 3_3:+13226854 | Msa0442870:CDS |
| AAGAACATTTGGAGGAGATC+AGG | 0.380038 | 3_3:+13229829 | Msa0442870:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAACTATTGAACAGACAAAG+TGG | + | chr3_3:13226266-13226285 | Msa0442870:CDS | 30.0% | |
| AAGTTGTTGTGTATAAGCAA+AGG | - | chr3_3:13226360-13226379 | None:intergenic | 30.0% | |
| TTTCTTTGGTATGTGTTTGA+TGG | - | chr3_3:13226422-13226441 | None:intergenic | 30.0% | |
| TTGAACACATGAGTTACAAA+GGG | - | chr3_3:13226576-13226595 | None:intergenic | 30.0% | |
| ATTGAACACATGAGTTACAA+AGG | - | chr3_3:13226577-13226596 | None:intergenic | 30.0% | |
| AGTATCTCAAAAGACAAAAG+GGG | - | chr3_3:13226658-13226677 | None:intergenic | 30.0% | |
| GAGTATCTCAAAAGACAAAA+GGG | - | chr3_3:13226659-13226678 | None:intergenic | 30.0% | |
| TGAGTATCTCAAAAGACAAA+AGG | - | chr3_3:13226660-13226679 | None:intergenic | 30.0% | |
| GATGAATGGTTTGATACAAA+TGG | + | chr3_3:13226787-13226806 | Msa0442870:CDS | 30.0% | |
| ATATGTGTTCCAAACATTAG+TGG | - | chr3_3:13226824-13226843 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 13226248 | 13230767 | 13226248 | ID=Msa0442870;Name=Msa0442870 |
| chr3_3 | mRNA | 13226248 | 13230767 | 13226248 | ID=Msa0442870-mRNA-1;Parent=Msa0442870;Name=Msa0442870-mRNA-1;_AED=0.43;_eAED=0.43;_QI=0|0.83|0.71|1|1|1|7|59|674 |
| chr3_3 | exon | 13226248 | 13227070 | 13226248 | ID=Msa0442870-mRNA-1:exon:2912;Parent=Msa0442870-mRNA-1 |
| chr3_3 | exon | 13227562 | 13227678 | 13227562 | ID=Msa0442870-mRNA-1:exon:2913;Parent=Msa0442870-mRNA-1 |
| chr3_3 | exon | 13227760 | 13227932 | 13227760 | ID=Msa0442870-mRNA-1:exon:2914;Parent=Msa0442870-mRNA-1 |
| chr3_3 | exon | 13228034 | 13228244 | 13228034 | ID=Msa0442870-mRNA-1:exon:2915;Parent=Msa0442870-mRNA-1 |
| chr3_3 | exon | 13229648 | 13229885 | 13229648 | ID=Msa0442870-mRNA-1:exon:2916;Parent=Msa0442870-mRNA-1 |
| chr3_3 | exon | 13230169 | 13230319 | 13230169 | ID=Msa0442870-mRNA-1:exon:2917;Parent=Msa0442870-mRNA-1 |
| chr3_3 | exon | 13230397 | 13230767 | 13230397 | ID=Msa0442870-mRNA-1:exon:2918;Parent=Msa0442870-mRNA-1 |
| chr3_3 | CDS | 13226248 | 13227070 | 13226248 | ID=Msa0442870-mRNA-1:cds;Parent=Msa0442870-mRNA-1 |
| chr3_3 | CDS | 13227562 | 13227678 | 13227562 | ID=Msa0442870-mRNA-1:cds;Parent=Msa0442870-mRNA-1 |
| chr3_3 | CDS | 13227760 | 13227932 | 13227760 | ID=Msa0442870-mRNA-1:cds;Parent=Msa0442870-mRNA-1 |
| chr3_3 | CDS | 13228034 | 13228244 | 13228034 | ID=Msa0442870-mRNA-1:cds;Parent=Msa0442870-mRNA-1 |
| chr3_3 | CDS | 13229648 | 13229885 | 13229648 | ID=Msa0442870-mRNA-1:cds;Parent=Msa0442870-mRNA-1 |
| chr3_3 | CDS | 13230169 | 13230319 | 13230169 | ID=Msa0442870-mRNA-1:cds;Parent=Msa0442870-mRNA-1 |
| chr3_3 | CDS | 13230397 | 13230708 | 13230397 | ID=Msa0442870-mRNA-1:cds;Parent=Msa0442870-mRNA-1 |
| chr3_3 | three_prime_UTR | 13230709 | 13230767 | 13230709 | ID=Msa0442870-mRNA-1:three_prime_utr;Parent=Msa0442870-mRNA-1 |
| Gene Sequence |
>Msa0442870 ATGGCAGTAACGTCACATAAACTATTGAACAGACAAAGTGGCAGTGGCAGTAGCATCTCAGCAATGCTCTATCAATGGTTGATTACCATCAAATTGATATGGTTTTTTTCCTTTGCTTATACACAACAACTTGAATATAGATATGCTTGTGTAGATCATTCTTCTATTCCTCCATCAAACACATACCAAAGAAACCTCAACAATTTGCTCTCAATACTATCATCAGATTCTGCTATCAGCAATGGTTTTGGACACACAACTTCAGGTAATGATCAAAACAATAAGGTTTATGGACTATACTTTTGTCGTGGCGATGCGAACGCCACCCTTTGTAACTCATGTGTTCAATATTCTAGCAAATTGATAAAGCAGAAATGCCCTAATAATGCTTCAGCTATTTTTTGGTGCCCCTTTTGTCTTTTGAGATACTCAAACCAAAATTTCATTGGTAAATTAGCTGTAAGACCAAGGATTCCTATGTTTGATTCAACACAAAATTTTACAAGTGCTGGTGAGTTTGATAGTGATGCTAGGATTTTGATGAATGGTTTGATACAAATGGGATCACAGACACCACTAATGTTTGGAACACATATGTTTAACATAAACGGTACGCAAAGAAGGTATGGTTGGGTGCAATGCAGCCGAGATATTACTAGCGAGGAATGCAGAACTTGTTTGAGCAATATGCTTGATGACGTTGAAAATTGTTGTATGGAGAAGCGAGTGTGGCGTATATTTTCGCCAAGTTGTGTTGTGATGTATGAAACTCAGCCATTCCTTTTGACGGGTACACAGCCTGACGCGCCTGCACATCAGAAAGAAAACAAGAGCAAACAAAAGGATACAATTCTAATAATAATCATTGTTGTAATCGCAACGGTGGTAGCGTTATTGGCTTTCAGTACATTCTACTACAGGCGCTTGCAACGGAAAAAAGATGAAAAAGAGATGCATATCCTCGATGCAGTTTTGTCTCAAGACGAGACTAACAACGAGGAGAATGTGAATTCTGAGCTACCTATGATGCCTCTGAGCACTATTCTAAAAAGTACTCACAATTTTTCTGATAAATATAAATTGGGGGAAGGTGGATTTGGAAATGTCTACAAGGGTGTTTTAGCAGATGGAAGGGAAATTGCTGTTAAAAGGCTTTCGAAAACATCGGTTCAAGGTGTTGAAGAATTCAAGAATGAAGTAATGTTGATAGCCAAATTGCAGCATCGGAACCTTGTGAGACTGTTAGCTTTCTGCATTGAGCAAAATGAAAAGCTGCTCATCTATGAGTACATGCCTAATTCAAGCCTCAATTTCCAGCTACGCGATTTGGTAAAGGGCACACAGTTGGACTGGAAACAACGATTAAACATTATTAATGGGATTGCTAAAGGGCTTCTCTATCTTCATGAGGACTCTAGACTCAGGGTTATTCATAGAGACTTGAAAGCTAGCAATATTTTGTTAGATCATGAAATGAATCCAAAAATCTCAGACTTTGGACTAGCAAGAACATTTGGAGGAGATCAGGGGGAATCAAACACATTGAGAGTTGTGGGAACATATGGATACATGGCTCCAGAGTATGCTATCGAAGGCTTGTTTTCAGTGAAGTCAGATGTTTTCAGCTTTGGCGTTCTTTTGCTAGAGATCATAAGTGGAAAAAGGAACAACAAATTCTATCTTTCAGAGCATGGCCAAAGCCTTCTCACATATGCATGGAACTTTTGGAGTGAAGGCAAAGGTTTAGAATTGATGGATCCATTGATAGTAAAGTCATGTATGCCTAGTGAAGTTTTGAAGTGTATACACATTGGCCTATTGTGTGTACAAGATAACGCAGCTGATAGGCCTACAATGTCAGGTGTTGTTCACATGCTTGGAAGTGACAATGTTACTCTTCCAATCCCCATATGTCCATCTTTTTCTGTTGGAAGGTCTACAAATATTGAAGAAGGGTCTTCATCAAACGCTTCTACCTCTGTCACTGTCAATGAAATAACCCTATCCGAAGTGTTGCCTAGATGA |
| Protein sequence |
>Msa0442870 MAVTSHKLLNRQSGSGSSISAMLYQWLITIKLIWFFSFAYTQQLEYRYACVDHSSIPPSNTYQRNLNNLLSILSSDSAISNGFGHTTSGNDQNNKVYGLYFCRGDANATLCNSCVQYSSKLIKQKCPNNASAIFWCPFCLLRYSNQNFIGKLAVRPRIPMFDSTQNFTSAGEFDSDARILMNGLIQMGSQTPLMFGTHMFNINGTQRRYGWVQCSRDITSEECRTCLSNMLDDVENCCMEKRVWRIFSPSCVVMYETQPFLLTGTQPDAPAHQKENKSKQKDTILIIIIVVIATVVALLAFSTFYYRRLQRKKDEKEMHILDAVLSQDETNNEENVNSELPMMPLSTILKSTHNFSDKYKLGEGGFGNVYKGVLADGREIAVKRLSKTSVQGVEEFKNEVMLIAKLQHRNLVRLLAFCIEQNEKLLIYEYMPNSSLNFQLRDLVKGTQLDWKQRLNIINGIAKGLLYLHEDSRLRVIHRDLKASNILLDHEMNPKISDFGLARTFGGDQGESNTLRVVGTYGYMAPEYAIEGLFSVKSDVFSFGVLLLEIISGKRNNKFYLSEHGQSLLTYAWNFWSEGKGLELMDPLIVKSCMPSEVLKCIHIGLLCVQDNAADRPTMSGVVHMLGSDNVTLPIPICPSFSVGRSTNIEEGSSSNASTSVTVNEITLSEVLPR* |
