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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0753290 | XP_003611107.1 | 97.579 | 661 | 12 | 1 | 1 | 657 | 1 | 661 | 0.0 | 1328 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0753290 | sp|C0LGH8|Y1634_ARATH | 64.297 | 661 | 220 | 8 | 7 | 655 | 6 | 662 | 0.0 | 860 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0753290 | Msa0795440 | 0.839434 | 1.587997e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0753290 | MtrunA17_Chr5g0397651 | 97.579 | 661 | 12 | 1 | 1 | 657 | 1 | 661 | 0.0 | 1328 |
| Msa0753290 | MtrunA17_Chr8g0386631 | 74.242 | 660 | 161 | 4 | 1 | 655 | 1 | 656 | 0.0 | 1005 |
| Msa0753290 | MtrunA17_Chr3g0113951 | 31.790 | 648 | 387 | 15 | 26 | 655 | 140 | 750 | 7.99e-94 | 306 |
| Msa0753290 | MtrunA17_Chr2g0283991 | 34.988 | 403 | 234 | 8 | 258 | 657 | 64 | 441 | 4.40e-73 | 242 |
| Msa0753290 | MtrunA17_Chr8g0379101 | 37.875 | 367 | 196 | 8 | 302 | 657 | 358 | 703 | 1.48e-68 | 237 |
| Msa0753290 | MtrunA17_Chr8g0379101 | 42.143 | 140 | 79 | 1 | 26 | 165 | 31 | 168 | 1.27e-18 | 90.1 |
| Msa0753290 | MtrunA17_Chr1g0193121 | 34.759 | 374 | 209 | 9 | 293 | 655 | 275 | 624 | 5.37e-68 | 234 |
| Msa0753290 | MtrunA17_Chr1g0193121 | 35.465 | 172 | 106 | 4 | 31 | 199 | 36 | 205 | 4.12e-20 | 94.7 |
| Msa0753290 | MtrunA17_Chr3g0105841 | 35.027 | 374 | 206 | 10 | 293 | 657 | 184 | 529 | 1.77e-61 | 214 |
| Msa0753290 | MtrunA17_Chr2g0284101 | 28.070 | 627 | 351 | 21 | 28 | 640 | 39 | 579 | 4.50e-56 | 201 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0753290 | AT1G63430.3 | 64.297 | 661 | 220 | 8 | 7 | 655 | 6 | 662 | 0.0 | 860 |
| Msa0753290 | AT1G63430.1 | 64.297 | 661 | 220 | 8 | 7 | 655 | 6 | 662 | 0.0 | 860 |
| Msa0753290 | AT1G63430.2 | 62.044 | 685 | 220 | 9 | 7 | 655 | 6 | 686 | 0.0 | 847 |
| Msa0753290 | AT5G41180.1 | 57.057 | 666 | 255 | 8 | 3 | 655 | 4 | 651 | 0.0 | 747 |
| Msa0753290 | AT5G41180.2 | 57.782 | 559 | 208 | 7 | 107 | 655 | 1 | 541 | 0.0 | 637 |
| Msa0753290 | AT5G45840.2 | 32.530 | 664 | 378 | 18 | 30 | 657 | 35 | 664 | 1.41e-90 | 295 |
| Msa0753290 | AT4G18640.1 | 37.561 | 410 | 218 | 15 | 254 | 657 | 297 | 674 | 4.27e-70 | 241 |
| Msa0753290 | AT4G18640.1 | 37.500 | 160 | 97 | 2 | 31 | 189 | 32 | 189 | 5.62e-20 | 95.1 |
| Msa0753290 | AT5G45840.1 | 36.623 | 385 | 216 | 11 | 278 | 657 | 341 | 702 | 2.36e-63 | 223 |
| Msa0753290 | AT5G45840.1 | 37.584 | 149 | 90 | 2 | 30 | 177 | 35 | 181 | 1.01e-21 | 100 |
Find 161 sgRNAs with CRISPR-Local
Find 500 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACCAACATCCTTGAAAA+CGG | 0.497708 | 5_2:+6969870 | None:intergenic |
| AAAAGCATGTATGTTTCCTT+TGG | 0.370616 | 5_2:+6969257 | None:intergenic |
| AAAAGGTTACTTGGTGGATT+GGG | 0.411568 | 5_2:-6969184 | Msa0753290:intron |
| AAACTTGCTTACAACAATGT+AGG | 0.525194 | 5_2:+6969814 | None:intergenic |
| AAAGGAAACATACATGCTTT+TGG | 0.310951 | 5_2:-6969255 | Msa0753290:CDS |
| AAATAATGAATTAAATAAAA+TGG | 0.273688 | 5_2:+6972469 | None:intergenic |
| AACATACAATTCTTCCAAAT+AGG | 0.397002 | 5_2:+6971584 | None:intergenic |
| AACTAGTGGGCACACCTTAG+GGG | 0.641801 | 5_2:+6969574 | None:intergenic |
| AAGAAGATACCTTCATTTGA+TGG | 0.369345 | 5_2:+6972045 | None:intergenic |
| AAGAAGGATGCCAATTCTCA+TGG | 0.518282 | 5_2:-6969721 | Msa0753290:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CTTGATCTTGATTAAGTCAT+TGG | + | chr5_2:6968499-6968518 | None:intergenic | 30.0% | |
| AAGAAGATACCTTCATTTGA+TGG | + | chr5_2:6968846-6968865 | None:intergenic | 30.0% | |
| TTGAATCAGATCTTTGTAAC+TGG | - | chr5_2:6969181-6969200 | Msa0753290:intron | 30.0% | |
| ATTAGGCCAAATTACCTATT+TGG | - | chr5_2:6969290-6969309 | Msa0753290:CDS | 30.0% | |
| TTGCATGGGAACAATTTAAT+TGG | - | chr5_2:6969416-6969435 | Msa0753290:intron | 30.0% | |
| TTCAACACACATAGTTCTTT+AGG | + | chr5_2:6969449-6969468 | None:intergenic | 30.0% | |
| TGAGATACCTTAAAGAACTT+CGG | - | chr5_2:6969693-6969712 | Msa0753290:CDS | 30.0% | |
| CACATAAGGAAAAAACAAGA+TGG | + | chr5_2:6969842-6969861 | None:intergenic | 30.0% | |
| ATCAACATGACAATCAGAAA+AGG | + | chr5_2:6970160-6970179 | None:intergenic | 30.0% | |
| GTTTACATATTCTGTCAAAC+AGG | - | chr5_2:6970227-6970246 | Msa0753290:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_2 | gene | 6968416 | 6972494 | 6968416 | ID=Msa0753290;Name=Msa0753290 |
| chr5_2 | mRNA | 6968416 | 6972494 | 6968416 | ID=Msa0753290-mRNA-1;Parent=Msa0753290;Name=Msa0753290-mRNA-1;_AED=0.12;_eAED=0.12;_QI=355|1|1|1|1|1|11|264|657 |
| chr5_2 | exon | 6968416 | 6968922 | 6968416 | ID=Msa0753290-mRNA-1:exon:3079;Parent=Msa0753290-mRNA-1 |
| chr5_2 | exon | 6969185 | 6969400 | 6969185 | ID=Msa0753290-mRNA-1:exon:3078;Parent=Msa0753290-mRNA-1 |
| chr5_2 | exon | 6969589 | 6969746 | 6969589 | ID=Msa0753290-mRNA-1:exon:3077;Parent=Msa0753290-mRNA-1 |
| chr5_2 | exon | 6969826 | 6969961 | 6969826 | ID=Msa0753290-mRNA-1:exon:3076;Parent=Msa0753290-mRNA-1 |
| chr5_2 | exon | 6970057 | 6970262 | 6970057 | ID=Msa0753290-mRNA-1:exon:3075;Parent=Msa0753290-mRNA-1 |
| chr5_2 | exon | 6970342 | 6970661 | 6970342 | ID=Msa0753290-mRNA-1:exon:3074;Parent=Msa0753290-mRNA-1 |
| chr5_2 | exon | 6970757 | 6970873 | 6970757 | ID=Msa0753290-mRNA-1:exon:3073;Parent=Msa0753290-mRNA-1 |
| chr5_2 | exon | 6971133 | 6971270 | 6971133 | ID=Msa0753290-mRNA-1:exon:3072;Parent=Msa0753290-mRNA-1 |
| chr5_2 | exon | 6971355 | 6971498 | 6971355 | ID=Msa0753290-mRNA-1:exon:3071;Parent=Msa0753290-mRNA-1 |
| chr5_2 | exon | 6971591 | 6971801 | 6971591 | ID=Msa0753290-mRNA-1:exon:3070;Parent=Msa0753290-mRNA-1 |
| chr5_2 | exon | 6972055 | 6972494 | 6972055 | ID=Msa0753290-mRNA-1:exon:3069;Parent=Msa0753290-mRNA-1 |
| chr5_2 | five_prime_UTR | 6972140 | 6972494 | 6972140 | ID=Msa0753290-mRNA-1:five_prime_utr;Parent=Msa0753290-mRNA-1 |
| chr5_2 | CDS | 6972055 | 6972139 | 6972055 | ID=Msa0753290-mRNA-1:cds;Parent=Msa0753290-mRNA-1 |
| chr5_2 | CDS | 6971591 | 6971801 | 6971591 | ID=Msa0753290-mRNA-1:cds;Parent=Msa0753290-mRNA-1 |
| chr5_2 | CDS | 6971355 | 6971498 | 6971355 | ID=Msa0753290-mRNA-1:cds;Parent=Msa0753290-mRNA-1 |
| chr5_2 | CDS | 6971133 | 6971270 | 6971133 | ID=Msa0753290-mRNA-1:cds;Parent=Msa0753290-mRNA-1 |
| chr5_2 | CDS | 6970757 | 6970873 | 6970757 | ID=Msa0753290-mRNA-1:cds;Parent=Msa0753290-mRNA-1 |
| chr5_2 | CDS | 6970342 | 6970661 | 6970342 | ID=Msa0753290-mRNA-1:cds;Parent=Msa0753290-mRNA-1 |
| chr5_2 | CDS | 6970057 | 6970262 | 6970057 | ID=Msa0753290-mRNA-1:cds;Parent=Msa0753290-mRNA-1 |
| chr5_2 | CDS | 6969826 | 6969961 | 6969826 | ID=Msa0753290-mRNA-1:cds;Parent=Msa0753290-mRNA-1 |
| chr5_2 | CDS | 6969589 | 6969746 | 6969589 | ID=Msa0753290-mRNA-1:cds;Parent=Msa0753290-mRNA-1 |
| chr5_2 | CDS | 6969185 | 6969400 | 6969185 | ID=Msa0753290-mRNA-1:cds;Parent=Msa0753290-mRNA-1 |
| chr5_2 | CDS | 6968680 | 6968922 | 6968680 | ID=Msa0753290-mRNA-1:cds;Parent=Msa0753290-mRNA-1 |
| chr5_2 | three_prime_UTR | 6968416 | 6968679 | 6968416 | ID=Msa0753290-mRNA-1:three_prime_utr;Parent=Msa0753290-mRNA-1 |
| Gene Sequence |
>Msa0753290 ATGAAATTTTTAGCTTCATTTGTGGTTCTCTCTTTGATTTCAACAATCTCTCTTGTGAACTCAGACACTCTACCATCAAATGAAGTTTGGGCACTTACAAGCTTTAAAGAAGCAATATATGAAGACCCAAATTTGGTTTTATCAAATTGGAATATGCTTGAATCAGATCTTTGTAACTGGTTTGGTGTATCATGCACTCTGGATAGAGATCATGTCATCAAGTTAAACATCTCAGGTTCATCATTGAAGGGGTTTCTTGCAAAGGAATTAGGCCAAATTACCTATTTGGAAGAATTAATTTTGCATGGGAACAATTTAATTGGAACTATACCTAAAGAACTATGTGTGTTGAAATCTCTTGAGGTGTTGGATTTGGGAATGAATCAGTTAACAGGACCGATTCCGGCGGAGATTGGAAATTTAGCTCTACTTGTGAACATAAACCTGCAGTCCAATGGGTTGACTGGTAGGATACCTCATCAGTTTGGAAATTTGAGATACCTTAAAGAACTTCGGCTCGATAGGAATAAGTTTCAAGGACCGGTTCCTGCTAGTGGAAGTTCTAATACACATGGAATGTATGCATCAAACGAGAATGTAACTGGCATCTGTCGTTCTCCTCAGTTAGAAGTAGCAGACTTTTCATATAATTTTTTAGTTGGTAGTATACCTAAATGCTTGGAGTTTCTCCCAAGGTTAAGTTTTCAAGGAAATTGCCTCCAGAGCAATGATCCAAAGCAGCGGCCTTCCACACAATGCGGCGGTGCCTCACCTGCCAAGAGTCAGCCAGTGGTCGACCACCAATTCCACCAGCTAGGTAATCATGTGCGCAAGCATCACGGACTATCAGAACCTACTTGGCTTTTGGCTTTAGAAATAGTAGCAGGAACTATGGTCGGTTCTCTCTGTTTGATTGCCATTCTCGCTGCTTTTCAAAGATGCAATAACAAATCATCTATCATTATTCCTTGGAAAAAGTCTGCCAGCCAGAAATATCACACTGCAGTATACATAGACCCGGAGATGTTAAAGGACGTGAGAAGGTATAGCAGACAGGAGCTTGAAGAGGCTTGCGAAGACTTCAGCAACATAATTGGTTCCTCTCCAGACAGTGTGGTGTACAAGGGAACCATGAAAGGTGGACCTGAGATTGCTGTAATTTCTCTCTGCATCAAGGAGGAGCATTGGACAGGATATCTGGAACTCTACTTTCAGAGAGAGGTGGCAGAATTGGCAAGGTTAAATCATGAGAATACTGGAAAACTACTGGGATATTGTAGAGAGAGCAATCCGTTTTCAAGGATGTTGGTTTTTGATTATGCTTCAAATGGGACACTTCATGAGCACCTACATTGTTATGAAGAAGGATGCCAATTCTCATGGACACGGCGTATGAAAATTATCATAGGCATTGCACGTGGACTCAAGTATTTGCACACAGAAGTTGAACCTCCATTCACTATCTCAGAGCTGAACTCTAGTGCTGTATACCTTACGGAAGAATTTGCCCCTAAGTTGGTTGATTTTGAAAGCTGGAAGACAATTCTTGAAAGATCAGAAAAGAATTCTGGTTCTATTAGCAGCCAAGGTGCTGTTTGTGTTCTTCCGAACTCCCTCGAGGCACGCCATCTGGATACCAAAGGAAACATACATGCTTTTGGAGTACTTCTACTAGAGATAATCAGCGGGCGACCTCCATACTGTAAGGAAAAAGGTTACTTGGTGGATTGGGCCAAAAACTATCTTGAAAAGCCAGAAGTAATGTCGCATTTGGTGAATTCAGAATTGAAAAATTTTAGACATGATGACCTCAAAGTGATATGCGAGGTGATAACTCTTTGTATCAATCCCGATACAACTGCACGTCCATCTATGCAAGAATTATGCGGCATGCTGGAGAGCAGAATCGACACATCAGTAAGCGCGGATCTCAAGTCATCTTTGGCCTGGGCTGAACTTGCTCTTTTAGCATAA |
| Protein sequence |
>Msa0753290 MKFLASFVVLSLISTISLVNSDTLPSNEVWALTSFKEAIYEDPNLVLSNWNMLESDLCNWFGVSCTLDRDHVIKLNISGSSLKGFLAKELGQITYLEELILHGNNLIGTIPKELCVLKSLEVLDLGMNQLTGPIPAEIGNLALLVNINLQSNGLTGRIPHQFGNLRYLKELRLDRNKFQGPVPASGSSNTHGMYASNENVTGICRSPQLEVADFSYNFLVGSIPKCLEFLPRLSFQGNCLQSNDPKQRPSTQCGGASPAKSQPVVDHQFHQLGNHVRKHHGLSEPTWLLALEIVAGTMVGSLCLIAILAAFQRCNNKSSIIIPWKKSASQKYHTAVYIDPEMLKDVRRYSRQELEEACEDFSNIIGSSPDSVVYKGTMKGGPEIAVISLCIKEEHWTGYLELYFQREVAELARLNHENTGKLLGYCRESNPFSRMLVFDYASNGTLHEHLHCYEEGCQFSWTRRMKIIIGIARGLKYLHTEVEPPFTISELNSSAVYLTEEFAPKLVDFESWKTILERSEKNSGSISSQGAVCVLPNSLEARHLDTKGNIHAFGVLLLEIISGRPPYCKEKGYLVDWAKNYLEKPEVMSHLVNSELKNFRHDDLKVICEVITLCINPDTTARPSMQELCGMLESRIDTSVSADLKSSLAWAELALLA* |
