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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1187400 | AET02509.2 | 93.130 | 655 | 45 | 0 | 1 | 655 | 1 | 655 | 0.0 | 1211 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1187400 | sp|Q8GYA4|CRK10_ARATH | 44.977 | 647 | 326 | 14 | 28 | 655 | 34 | 669 | 0.0 | 531 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0058270 | Msa1187400 | 0.808002 | 3.836293e-50 | -8.615850e-47 |
| Msa1187400 | Msa1282810 | 0.836011 | 1.201458e-56 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1187400 | MtrunA17_Chr8g0354271 | 93.130 | 655 | 45 | 0 | 1 | 655 | 1 | 655 | 0.0 | 1211 |
| Msa1187400 | MtrunA17_Chr3g0081001 | 63.363 | 666 | 218 | 8 | 9 | 655 | 4 | 662 | 0.0 | 833 |
| Msa1187400 | MtrunA17_Chr3g0081011 | 63.608 | 643 | 210 | 8 | 28 | 655 | 25 | 658 | 0.0 | 820 |
| Msa1187400 | MtrunA17_Chr8g0354421 | 56.904 | 659 | 260 | 8 | 13 | 655 | 32 | 682 | 0.0 | 758 |
| Msa1187400 | MtrunA17_Chr8g0354281 | 58.556 | 637 | 252 | 6 | 26 | 655 | 22 | 653 | 0.0 | 753 |
| Msa1187400 | MtrunA17_Chr8g0354351 | 56.601 | 659 | 251 | 10 | 11 | 655 | 15 | 652 | 0.0 | 739 |
| Msa1187400 | MtrunA17_Chr8g0354441 | 55.572 | 664 | 269 | 8 | 12 | 655 | 12 | 669 | 0.0 | 724 |
| Msa1187400 | MtrunA17_Chr8g0354431 | 54.009 | 661 | 281 | 8 | 12 | 655 | 7 | 661 | 0.0 | 698 |
| Msa1187400 | MtrunA17_Chr3g0082941 | 62.722 | 507 | 147 | 7 | 167 | 655 | 1 | 483 | 0.0 | 626 |
| Msa1187400 | MtrunA17_Chr3g0081031 | 52.857 | 630 | 272 | 10 | 41 | 655 | 52 | 671 | 0.0 | 622 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1187400 | AT4G23180.1 | 44.977 | 647 | 326 | 14 | 28 | 655 | 34 | 669 | 0.0 | 531 |
| Msa1187400 | AT4G05200.1 | 43.722 | 677 | 336 | 13 | 12 | 655 | 11 | 675 | 4.70e-178 | 522 |
| Msa1187400 | AT4G05200.2 | 43.722 | 677 | 336 | 13 | 12 | 655 | 29 | 693 | 7.88e-178 | 522 |
| Msa1187400 | AT4G23160.1 | 44.462 | 650 | 332 | 12 | 28 | 655 | 40 | 682 | 2.68e-171 | 505 |
| Msa1187400 | AT4G21410.3 | 42.291 | 681 | 350 | 16 | 11 | 655 | 6 | 679 | 1.33e-164 | 488 |
| Msa1187400 | AT4G23140.1 | 43.778 | 667 | 320 | 14 | 28 | 655 | 24 | 674 | 3.86e-162 | 481 |
| Msa1187400 | AT4G23230.1 | 42.857 | 609 | 323 | 12 | 33 | 625 | 26 | 625 | 4.48e-161 | 477 |
| Msa1187400 | AT4G23140.2 | 43.388 | 673 | 320 | 15 | 28 | 655 | 24 | 680 | 8.74e-160 | 475 |
| Msa1187400 | AT4G23310.2 | 41.308 | 673 | 340 | 14 | 24 | 655 | 132 | 790 | 1.12e-156 | 471 |
| Msa1187400 | AT4G23310.2 | 30.350 | 257 | 161 | 6 | 28 | 274 | 23 | 271 | 5.75e-21 | 98.2 |
Find 127 sgRNAs with CRISPR-Local
Find 200 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTGATGTATTCAGCTT+TGG | 0.435845 | 8_1:-27106684 | Msa1187400:CDS |
| AAAAGAGAAAGGAACTAAAT+TGG | 0.268939 | 8_1:-27107055 | Msa1187400:CDS |
| AAAAGGCTCTCAAGAACTTC+TGG | 0.330395 | 8_1:-27107942 | Msa1187400:CDS |
| AAATTAGGGGAAGGTGGTTT+TGG | 0.264935 | 8_1:-27108097 | Msa1187400:CDS |
| AACCAGTCCATACCTTCCCA+CGG | 0.656154 | 8_1:+27108760 | None:intergenic |
| AACCCTAATTGGACTCATGT+TGG | 0.528762 | 8_1:-27108908 | Msa1187400:CDS |
| AACGTTGAATTGTGATCAAT+GGG | 0.429643 | 8_1:+27108146 | None:intergenic |
| AACTACCCATATAATACAAT+TGG | 0.399945 | 8_1:+27108798 | None:intergenic |
| AACTTCTGGTCAAGGCTCGG+AGG | 0.636654 | 8_1:-27107928 | Msa1187400:CDS |
| AAGAACTTCTGGTCAAGGCT+CGG | 0.550805 | 8_1:-27107931 | Msa1187400:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GAAGCTGTAAAATATAGTAG+CGG | + | chr8_1:27106285-27106304 | None:intergenic | 30.0% | |
| GAGCAACCAATTGTATTATA+TGG | - | chr8_1:27106457-27106476 | Msa1187400:CDS | 30.0% | |
| AGTAGAGATCTTACAAATGA+AGG | - | chr8_1:27106530-27106549 | Msa1187400:intron | 30.0% | |
| GTAGAGATCTTACAAATGAA+GGG | - | chr8_1:27106531-27106550 | Msa1187400:intron | 30.0% | |
| ACATGTTGTGAACATAAGTT+GGG | - | chr8_1:27106593-27106612 | Msa1187400:intron | 30.0% | |
| CTATTTACTACCAGTGAAAA+TGG | + | chr8_1:27106775-27106794 | None:intergenic | 30.0% | |
| ACAGTTACAGCAAAAAAGAA+AGG | - | chr8_1:27106821-27106840 | Msa1187400:intron | 30.0% | |
| AAGTCAAGAAACTTGATCAT+TGG | - | chr8_1:27106851-27106870 | Msa1187400:CDS | 30.0% | |
| AACGTTGAATTGTGATCAAT+GGG | + | chr8_1:27107118-27107137 | None:intergenic | 30.0% | |
| GAAGACAAATAGCAGTAAAA+AGG | - | chr8_1:27107302-27107321 | Msa1187400:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 27105927 | 27109356 | 27105927 | ID=Msa1187400;Name=Msa1187400 |
| chr8_1 | mRNA | 27105927 | 27109356 | 27105927 | ID=Msa1187400-mRNA-1;Parent=Msa1187400;Name=Msa1187400-mRNA-1;_AED=0.21;_eAED=0.21;_QI=0|1|0.85|1|0.83|0.71|7|282|655 |
| chr8_1 | exon | 27105927 | 27106520 | 27105927 | ID=Msa1187400-mRNA-1:exon:9524;Parent=Msa1187400-mRNA-1 |
| chr8_1 | exon | 27106602 | 27106752 | 27106602 | ID=Msa1187400-mRNA-1:exon:9523;Parent=Msa1187400-mRNA-1 |
| chr8_1 | exon | 27106846 | 27107083 | 27106846 | ID=Msa1187400-mRNA-1:exon:9522;Parent=Msa1187400-mRNA-1 |
| chr8_1 | exon | 27107787 | 27107997 | 27107787 | ID=Msa1187400-mRNA-1:exon:9521;Parent=Msa1187400-mRNA-1 |
| chr8_1 | exon | 27108084 | 27108220 | 27108084 | ID=Msa1187400-mRNA-1:exon:9520;Parent=Msa1187400-mRNA-1 |
| chr8_1 | exon | 27108333 | 27108458 | 27108333 | ID=Msa1187400-mRNA-1:exon:9519;Parent=Msa1187400-mRNA-1 |
| chr8_1 | exon | 27108564 | 27109356 | 27108564 | ID=Msa1187400-mRNA-1:exon:9518;Parent=Msa1187400-mRNA-1 |
| chr8_1 | CDS | 27108564 | 27109356 | 27108564 | ID=Msa1187400-mRNA-1:cds;Parent=Msa1187400-mRNA-1 |
| chr8_1 | CDS | 27108333 | 27108458 | 27108333 | ID=Msa1187400-mRNA-1:cds;Parent=Msa1187400-mRNA-1 |
| chr8_1 | CDS | 27108084 | 27108220 | 27108084 | ID=Msa1187400-mRNA-1:cds;Parent=Msa1187400-mRNA-1 |
| chr8_1 | CDS | 27107787 | 27107997 | 27107787 | ID=Msa1187400-mRNA-1:cds;Parent=Msa1187400-mRNA-1 |
| chr8_1 | CDS | 27106846 | 27107083 | 27106846 | ID=Msa1187400-mRNA-1:cds;Parent=Msa1187400-mRNA-1 |
| chr8_1 | CDS | 27106602 | 27106752 | 27106602 | ID=Msa1187400-mRNA-1:cds;Parent=Msa1187400-mRNA-1 |
| chr8_1 | CDS | 27106209 | 27106520 | 27106209 | ID=Msa1187400-mRNA-1:cds;Parent=Msa1187400-mRNA-1 |
| chr8_1 | three_prime_UTR | 27105927 | 27106208 | 27105927 | ID=Msa1187400-mRNA-1:three_prime_utr;Parent=Msa1187400-mRNA-1 |
| Gene Sequence |
>Msa1187400 ATGAAAGGAAGACAACTAAACTTGAAACCAATACTTTTTGCTTTCATACTATATATAAGCTTCAAACAACTCATTACAAAAGCTCAATCGCCCACTTATGTGGGGGATGACTGTAATTACTCAACACCAAAGGTTCTTAGCAATGCATACAAAACAAATCTCAAAAGCATCCTCTCATATCTATCTGCTGAAGCAGCCACAAGCAAAGGTTATAACTACACCAGCATAGGCGACAACGCAACAAAAGGAGATGCAGTGTATGGTCTCTATGATTGTCGTGGCGATGTAAACTTTTGTGAATTCTGTGTCGCTTCAGCTACTAGAGAAGTTCTTGAGCGCTGCCCCAATAGAGTTGCCGCTACTATATTTTACAGCTTCTGCATTTTGAGGTACTCAAATGAGAATTTCTTTGGGAAAGTCACAACAAACCCTAATTGGACTCATGTTGGATCCAAAACCGTCTCTAATGCAATAGAAATTCAGAAAAGTGAGGATCTGATGAAATTTTTGATCAAAAAAGCAACTAATGAGAGCAACCAATTGTATTATATGGGTAGTTTCAACTTGAGTTCTACCGTGGGAAGGTATGGACTGGTTCAATGCAGTAGAGATCTTACAAATGAAGGGTGCCGACAGTGTTTGGAGTTTATGTTAGCAAAGGTTGCCACATGTTGTGAACATAAGTTGGGGTGGCAGGTTTCATCTGCTAGTTGTCTAATTAGGTATGATGATTATATGTTCTATCAGAACCATGAGCAATCACCTTCGGTCCTTGTTCCTGATCCACAAACAGTTACAGCAAAAAAGAAAGGTACTAGTAAGTCAAGAAACTTGATCATTGGCTTTAGTGTGCTGGGATCAGTAATTCTACTAAGTTTTACTATATACTGCTTCTGGTGGAAGAAGAGAGTTAGAAAAGATTGGCTGGCACCTGCATACGAGGAAACACTGAATGCCGATCTTCCTACAATCCCATTGATCACAATTCAACGTTGTACTAATAATTTTTCAGAAACATCTAAATTAGGGGAAGGTGGTTTTGGATCTGTGTATAAGGGAATTCTTCCGGATGGAAGACAAATAGCAGTAAAAAGGCTCTCAAGAACTTCTGGTCAAGGCTCGGAGGAGTTCAAGAATGAAGTAATGTTTATAGCAAAATTGCAACATCGCAATCTTGTAAGACTTTTAGCATGCTGCTTGGAAGGAAATGAAAAGCTACTTGTGTATGAGTTTATGCCGAATGCAAGTCTCGACTTTCACCTGTTTGATAATGAAAAGAGAAAGGAACTAAATTGGAAACTAAGTTTGAGCATTATCAATGGAATAGCTAAAGGTCTTTTATACCTACATGAGGACTCTAGATTAAGAGTAATTCATAGAGATCTGAAAGCTAGCAATGTTCTATTAGATCATGAAATGAATCCCAAAATATCAGATTTTGGATTGGCAAGGGCATTTGACATAGGCCAGAACCAGGCAAATACAAGAAGAATAATGGGCACCTATGGATACATGGCACCAGAATACGCAATGGAAGGAGTATTTTCTGTGAAAACTGATGTATTCAGCTTTGGAGTATTAGTTTTGGAAATCATTAGCGGGAAAAAGAATACTGGATTCTATCTATCAGAACATGGTCAGAGTCTTCTTTTATATACATGGAAAAAGTGGTGTGAAGGAACGTGTTTAGAAATAATGGATTCGGTACTAGAAAAATCCTGTATAGATGAAAACGAAGTTGTGAGGTGCATAAACATTGGTTTATTGTGTGTTCAAGAAGATGCTGCAGATAGACCAACCATGTCAACTGTTGTTGTAATGTTGGCTAGTGACACAATGACCCTTCCAAAACCCAAACAACCTGCATTTTCAATCGGAAGAATGACCTCTAATGATTCATCTACCTCGAAAAGTTTCAAGGATCCTTCTATCAATGATGTAACAGTCTCAAATATTTTACCAAGGTAA |
| Protein sequence |
>Msa1187400 MKGRQLNLKPILFAFILYISFKQLITKAQSPTYVGDDCNYSTPKVLSNAYKTNLKSILSYLSAEAATSKGYNYTSIGDNATKGDAVYGLYDCRGDVNFCEFCVASATREVLERCPNRVAATIFYSFCILRYSNENFFGKVTTNPNWTHVGSKTVSNAIEIQKSEDLMKFLIKKATNESNQLYYMGSFNLSSTVGRYGLVQCSRDLTNEGCRQCLEFMLAKVATCCEHKLGWQVSSASCLIRYDDYMFYQNHEQSPSVLVPDPQTVTAKKKGTSKSRNLIIGFSVLGSVILLSFTIYCFWWKKRVRKDWLAPAYEETLNADLPTIPLITIQRCTNNFSETSKLGEGGFGSVYKGILPDGRQIAVKRLSRTSGQGSEEFKNEVMFIAKLQHRNLVRLLACCLEGNEKLLVYEFMPNASLDFHLFDNEKRKELNWKLSLSIINGIAKGLLYLHEDSRLRVIHRDLKASNVLLDHEMNPKISDFGLARAFDIGQNQANTRRIMGTYGYMAPEYAMEGVFSVKTDVFSFGVLVLEIISGKKNTGFYLSEHGQSLLLYTWKKWCEGTCLEIMDSVLEKSCIDENEVVRCINIGLLCVQEDAADRPTMSTVVVMLASDTMTLPKPKQPAFSIGRMTSNDSSTSKSFKDPSINDVTVSNILPR* |
