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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0395490 | XP_004499784.2 | 73.946 | 664 | 162 | 4 | 19 | 674 | 2 | 662 | 0.0 | 995 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0395490 | sp|Q8GYA4|CRK10_ARATH | 41.577 | 647 | 339 | 10 | 48 | 674 | 42 | 669 | 1.68e-164 | 490 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0395490 | A0A1S2Y5S5 | 73.946 | 664 | 162 | 4 | 19 | 674 | 2 | 662 | 0.0 | 995 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0395490 | MtrunA17_Chr3g0081031 | 74.130 | 661 | 162 | 3 | 22 | 674 | 12 | 671 | 0.0 | 979 |
| Msa0395490 | MtrunA17_Chr3g0081001 | 53.067 | 652 | 296 | 6 | 30 | 674 | 14 | 662 | 0.0 | 658 |
| Msa0395490 | MtrunA17_Chr3g0081011 | 54.032 | 620 | 272 | 8 | 61 | 674 | 46 | 658 | 0.0 | 642 |
| Msa0395490 | MtrunA17_Chr8g0354421 | 51.223 | 654 | 310 | 7 | 27 | 674 | 32 | 682 | 0.0 | 638 |
| Msa0395490 | MtrunA17_Chr8g0354441 | 50.842 | 653 | 307 | 7 | 33 | 674 | 20 | 669 | 0.0 | 632 |
| Msa0395490 | MtrunA17_Chr8g0354351 | 51.262 | 634 | 293 | 9 | 46 | 674 | 30 | 652 | 0.0 | 612 |
| Msa0395490 | MtrunA17_Chr8g0354271 | 51.520 | 625 | 278 | 8 | 59 | 674 | 47 | 655 | 0.0 | 600 |
| Msa0395490 | MtrunA17_Chr8g0354281 | 49.763 | 633 | 297 | 7 | 50 | 674 | 34 | 653 | 0.0 | 596 |
| Msa0395490 | MtrunA17_Chr8g0354431 | 47.720 | 658 | 328 | 6 | 27 | 674 | 10 | 661 | 0.0 | 577 |
| Msa0395490 | MtrunA17_Chr3g0082941 | 55.131 | 497 | 206 | 5 | 181 | 674 | 1 | 483 | 0.0 | 532 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0395490 | AT4G23180.1 | 41.577 | 647 | 339 | 10 | 48 | 674 | 42 | 669 | 1.71e-165 | 490 |
| Msa0395490 | AT4G05200.1 | 40.000 | 650 | 349 | 11 | 57 | 674 | 35 | 675 | 1.35e-164 | 488 |
| Msa0395490 | AT4G05200.2 | 40.000 | 650 | 349 | 11 | 57 | 674 | 53 | 693 | 2.01e-164 | 488 |
| Msa0395490 | AT4G23230.1 | 42.114 | 615 | 307 | 8 | 57 | 643 | 32 | 625 | 7.45e-160 | 474 |
| Msa0395490 | AT4G23160.1 | 40.860 | 651 | 345 | 10 | 48 | 674 | 48 | 682 | 1.09e-159 | 476 |
| Msa0395490 | AT4G21410.3 | 40.630 | 667 | 373 | 8 | 30 | 674 | 14 | 679 | 4.33e-157 | 469 |
| Msa0395490 | AT4G11530.1 | 40.153 | 655 | 342 | 11 | 58 | 674 | 34 | 676 | 3.96e-154 | 461 |
| Msa0395490 | AT4G11480.3 | 39.435 | 672 | 367 | 13 | 22 | 674 | 1 | 651 | 5.50e-153 | 457 |
| Msa0395490 | AT4G11480.4 | 39.286 | 672 | 365 | 13 | 22 | 674 | 1 | 648 | 9.62e-152 | 454 |
| Msa0395490 | AT4G23140.1 | 39.620 | 631 | 332 | 9 | 76 | 674 | 61 | 674 | 1.18e-151 | 455 |
Find 113 sgRNAs with CRISPR-Local
Find 280 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATAGCAGAAGCATTATT+AGG | 0.196339 | 3_2:-12184764 | None:intergenic |
| AAACTATTGAACAGACAAAG+TGG | 0.582544 | 3_2:+12184404 | Msa0395490:CDS |
| AAAGATGGACATATGGGGCT+TGG | 0.473347 | 3_2:-12188678 | None:intergenic |
| AAATAGCAGAAGCATTATTA+GGG | 0.397810 | 3_2:-12184763 | None:intergenic |
| AAATTCTATCTTTCAGAGCA+TGG | 0.541936 | 3_2:+12188373 | Msa0395490:CDS |
| AACACATGAGTTACAAAGGG+TGG | 0.628295 | 3_2:-12184708 | None:intergenic |
| AACATCGGTTCAAGGTGTTG+AGG | 0.597669 | 3_2:+12186220 | Msa0395490:CDS |
| AACATTTGGAGGAGATCAGG+GGG | 0.622418 | 3_2:+12187928 | Msa0395490:CDS |
| AACGATTAAACATTATTAAT+GGG | 0.320403 | 3_2:+12187777 | Msa0395490:CDS |
| AAGCCTTCAATAGCATACTC+TGG | 0.547938 | 3_2:-12188277 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAACTATTGAACAGACAAAG+TGG | + | chr3_2:12184404-12184423 | Msa0395490:CDS | 30.0% | |
| AAGTTGTTGTGTATAAGCAA+AGG | - | chr3_2:12184498-12184517 | None:intergenic | 30.0% | |
| TTTCTTTGGTATGTGTTTGA+TGG | - | chr3_2:12184560-12184579 | None:intergenic | 30.0% | |
| TTGAACACATGAGTTACAAA+GGG | - | chr3_2:12184714-12184733 | None:intergenic | 30.0% | |
| ATTGAACACATGAGTTACAA+AGG | - | chr3_2:12184715-12184734 | None:intergenic | 30.0% | |
| AGTATCTCAAAAGACAAAAG+GGG | - | chr3_2:12184796-12184815 | None:intergenic | 30.0% | |
| GAGTATCTCAAAAGACAAAA+GGG | - | chr3_2:12184797-12184816 | None:intergenic | 30.0% | |
| TGAGTATCTCAAAAGACAAA+AGG | - | chr3_2:12184798-12184817 | None:intergenic | 30.0% | |
| TACTCAAACCAGAATTTCAT+TGG | + | chr3_2:12184812-12184831 | Msa0395490:CDS | 30.0% | |
| GATGAATGGTTTGATACAAA+TGG | + | chr3_2:12184925-12184944 | Msa0395490:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 12184386 | 12188862 | 12184386 | ID=Msa0395490;Name=Msa0395490 |
| chr3_2 | mRNA | 12184386 | 12188862 | 12184386 | ID=Msa0395490-mRNA-1;Parent=Msa0395490;Name=Msa0395490-mRNA-1;_AED=0.33;_eAED=0.33;_QI=0|0.83|0.71|1|1|1|7|59|674 |
| chr3_2 | exon | 12184386 | 12185208 | 12184386 | ID=Msa0395490-mRNA-1:exon:2877;Parent=Msa0395490-mRNA-1 |
| chr3_2 | exon | 12185701 | 12185817 | 12185701 | ID=Msa0395490-mRNA-1:exon:2878;Parent=Msa0395490-mRNA-1 |
| chr3_2 | exon | 12185899 | 12186071 | 12185899 | ID=Msa0395490-mRNA-1:exon:2879;Parent=Msa0395490-mRNA-1 |
| chr3_2 | exon | 12186173 | 12186383 | 12186173 | ID=Msa0395490-mRNA-1:exon:2880;Parent=Msa0395490-mRNA-1 |
| chr3_2 | exon | 12187744 | 12187981 | 12187744 | ID=Msa0395490-mRNA-1:exon:2881;Parent=Msa0395490-mRNA-1 |
| chr3_2 | exon | 12188264 | 12188414 | 12188264 | ID=Msa0395490-mRNA-1:exon:2882;Parent=Msa0395490-mRNA-1 |
| chr3_2 | exon | 12188492 | 12188862 | 12188492 | ID=Msa0395490-mRNA-1:exon:2883;Parent=Msa0395490-mRNA-1 |
| chr3_2 | CDS | 12184386 | 12185208 | 12184386 | ID=Msa0395490-mRNA-1:cds;Parent=Msa0395490-mRNA-1 |
| chr3_2 | CDS | 12185701 | 12185817 | 12185701 | ID=Msa0395490-mRNA-1:cds;Parent=Msa0395490-mRNA-1 |
| chr3_2 | CDS | 12185899 | 12186071 | 12185899 | ID=Msa0395490-mRNA-1:cds;Parent=Msa0395490-mRNA-1 |
| chr3_2 | CDS | 12186173 | 12186383 | 12186173 | ID=Msa0395490-mRNA-1:cds;Parent=Msa0395490-mRNA-1 |
| chr3_2 | CDS | 12187744 | 12187981 | 12187744 | ID=Msa0395490-mRNA-1:cds;Parent=Msa0395490-mRNA-1 |
| chr3_2 | CDS | 12188264 | 12188414 | 12188264 | ID=Msa0395490-mRNA-1:cds;Parent=Msa0395490-mRNA-1 |
| chr3_2 | CDS | 12188492 | 12188803 | 12188492 | ID=Msa0395490-mRNA-1:cds;Parent=Msa0395490-mRNA-1 |
| chr3_2 | three_prime_UTR | 12188804 | 12188862 | 12188804 | ID=Msa0395490-mRNA-1:three_prime_utr;Parent=Msa0395490-mRNA-1 |
| Gene Sequence |
>Msa0395490 ATGGCAGTAACGTCACATAAACTATTGAACAGACAAAGTGGCAGTGGCAGTAGCATCTCAGCAATGCTCTATCAATGGTTGATTACCATCAAATTGATATGGTTTTTTTCCTTTGCTTATACACAACAACTTGAATATAGATATGCTTGTGTAGATCATTCTTCTATTCCTCCATCAAACACATACCAAAGAAACCTCAACAATTTGCTCTCAATACTATCATCAGATTCTGCTATCAGCAATGGTTTTGGACACACAACTTCAGGTAATGATCAAAACAATAAGGTTTATGGACTATACTTTTGTCGTGGCGATGCGAACGCCACCCTTTGTAACTCATGTGTTCAATATTCTAGCAAATTGATTAAGCAGAAATGCCCTAATAATGCTTCTGCTATTTTTTGGTGCCCCTTTTGTCTTTTGAGATACTCAAACCAGAATTTCATTGGTAAATTAGCTGTAAGACCAAGGATTCCTATGTTTGATTCAACACAAAATTTTACAAGTGCTGGTGAGTTTGATAGTGATGCTAGGATTTTGATGAATGGTTTGATACAAATGGGATCAAAGACACCGTTAATGTTTGGAACACATATGTTTAACATAAATGGTACTCAAAGAAGGTATGGTTGGGTGCAATGCAGCCGAGATATTACTAGCGAGGAATGCAGAACTTGTTTGAGTAATATGCTTGATGACGTTGAAAATTGTTGTATGGAGAAGCGAGTGTGGCGTATATTTTCGCCAAGTTGTGTTGTGATGTATGAAACTCAGCCATTCCTTTTGATGGGTACACAGCCTGACGCGCCTGCGCATCAGAAAGAAAACAAGAGCAAACAAAAGGATACAATTCTAATAATAATCATTGTTGTAATCGCAACGGTGGTAGCGTTATTGGCTTTCAGTACATTCTACTACAGGCGCTTGCAACGGAAAAAAGATGAAAAAGAGATGCATATCCTCGATGCAATTTTGTCTCAAGACGAGACTAACAACGAGGAGAATGTGAATTCTGAGCTACCTATGATGCCTCTGAGCACTATTCTAAAAAGTACTCACAATTTTTCTGATAAATATAAATTGGGGGAAGGTGGATTTGGAAATGTCTACAAGGGTGTTTTAGCAGATGGAAGGGAAATTGCTGTTAAAAGGCTTTCGAAAACATCGGTTCAAGGTGTTGAGGAATTCAAGAATGAAGTAATGTTGATAGCCAAATTGCAACATCGGAACCTTGTGAGATTGTTAGCTTTCTGCATTGAACAAAATGAAAAGCTGCTTATCTACGAGTACATGCCTAATTCAAGCCTCAATTTCCAGCTACGCGATTTGGTAAAGGGCACACAGTTGGACTGGAAACAACGATTAAACATTATTAATGGGATTGCTAAAGGGCTTCTCTATCTTCATGAGGACTCTAGACTCAGGGTTATTCATAGAGACTTGAAAGCTAGCAATATTTTGTTAGATCATGAAATGAATCCAAAAATCTCAGACTTTGGACTAGCGAGAACATTTGGAGGAGATCAGGGGGAAGCAAACACATTGAGAGTTGTGGGAACATATGGATACATGGCTCCAGAGTATGCTATTGAAGGCTTGTTTTCAGTGAAGTCAGATGTTTTCAGCTTTGGCGTTCTTTTGCTAGAGATCATAAGTGGAAAAAGGAACAACAAATTCTATCTTTCAGAGCATGGCCAAAGCCTTCTCACATATGCATGGAACTTTTGGAGTGAAGGCAAAGGTTTAGAATTGATGGATCCATTGATAGTAAAGTCATGTATGCCTAGTGAAGTTTTGAAGTGTATACACATTGGCCTATTGTGTGTACAAGATAACGCAGCTGATAGGCCTACAATGTCAGGTGTTGTTCACATGCTTGGAAGTGACAATGTTACTCTTCCAAGCCCCATATGTCCATCTTTTTCTGTTGGAAGGTCTACAAATATTGAAGAAGGGTCTTCATCAAACGCTTCTACCTCTGTCACTGTCAATGAAATAACCCTATCCGAAGTGTTGCCTAGATGA |
| Protein sequence |
>Msa0395490 MAVTSHKLLNRQSGSGSSISAMLYQWLITIKLIWFFSFAYTQQLEYRYACVDHSSIPPSNTYQRNLNNLLSILSSDSAISNGFGHTTSGNDQNNKVYGLYFCRGDANATLCNSCVQYSSKLIKQKCPNNASAIFWCPFCLLRYSNQNFIGKLAVRPRIPMFDSTQNFTSAGEFDSDARILMNGLIQMGSKTPLMFGTHMFNINGTQRRYGWVQCSRDITSEECRTCLSNMLDDVENCCMEKRVWRIFSPSCVVMYETQPFLLMGTQPDAPAHQKENKSKQKDTILIIIIVVIATVVALLAFSTFYYRRLQRKKDEKEMHILDAILSQDETNNEENVNSELPMMPLSTILKSTHNFSDKYKLGEGGFGNVYKGVLADGREIAVKRLSKTSVQGVEEFKNEVMLIAKLQHRNLVRLLAFCIEQNEKLLIYEYMPNSSLNFQLRDLVKGTQLDWKQRLNIINGIAKGLLYLHEDSRLRVIHRDLKASNILLDHEMNPKISDFGLARTFGGDQGEANTLRVVGTYGYMAPEYAIEGLFSVKSDVFSFGVLLLEIISGKRNNKFYLSEHGQSLLTYAWNFWSEGKGLELMDPLIVKSCMPSEVLKCIHIGLLCVQDNAADRPTMSGVVHMLGSDNVTLPSPICPSFSVGRSTNIEEGSSSNASTSVTVNEITLSEVLPR* |
