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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0795440 | XP_003611107.1 | 97.579 | 661 | 12 | 1 | 1 | 657 | 1 | 661 | 0.0 | 1326 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0795440 | sp|C0LGH8|Y1634_ARATH | 64.297 | 661 | 220 | 8 | 7 | 655 | 6 | 662 | 0.0 | 857 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0795440 | MtrunA17_Chr5g0397651 | 97.579 | 661 | 12 | 1 | 1 | 657 | 1 | 661 | 0.0 | 1326 |
| Msa0795440 | MtrunA17_Chr8g0386631 | 74.242 | 660 | 161 | 4 | 1 | 655 | 1 | 656 | 0.0 | 1001 |
| Msa0795440 | MtrunA17_Chr3g0113951 | 31.944 | 648 | 386 | 15 | 26 | 655 | 140 | 750 | 6.48e-94 | 306 |
| Msa0795440 | MtrunA17_Chr2g0283991 | 35.135 | 407 | 228 | 9 | 258 | 657 | 64 | 441 | 2.30e-73 | 243 |
| Msa0795440 | MtrunA17_Chr8g0379101 | 37.534 | 365 | 200 | 7 | 302 | 657 | 358 | 703 | 2.64e-68 | 236 |
| Msa0795440 | MtrunA17_Chr8g0379101 | 42.963 | 135 | 75 | 1 | 31 | 165 | 36 | 168 | 2.74e-18 | 89.4 |
| Msa0795440 | MtrunA17_Chr1g0193121 | 34.759 | 374 | 209 | 9 | 293 | 655 | 275 | 624 | 5.48e-68 | 234 |
| Msa0795440 | MtrunA17_Chr1g0193121 | 34.884 | 172 | 107 | 4 | 31 | 199 | 36 | 205 | 2.58e-19 | 92.4 |
| Msa0795440 | MtrunA17_Chr3g0105841 | 35.027 | 374 | 206 | 10 | 293 | 657 | 184 | 529 | 2.28e-61 | 213 |
| Msa0795440 | MtrunA17_Chr6g0456231 | 27.642 | 615 | 362 | 19 | 28 | 633 | 34 | 574 | 8.04e-55 | 197 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0795440 | AT1G63430.3 | 64.297 | 661 | 220 | 8 | 7 | 655 | 6 | 662 | 0.0 | 857 |
| Msa0795440 | AT1G63430.1 | 64.297 | 661 | 220 | 8 | 7 | 655 | 6 | 662 | 0.0 | 857 |
| Msa0795440 | AT1G63430.2 | 62.044 | 685 | 220 | 9 | 7 | 655 | 6 | 686 | 0.0 | 845 |
| Msa0795440 | AT5G41180.1 | 56.907 | 666 | 256 | 8 | 3 | 655 | 4 | 651 | 0.0 | 744 |
| Msa0795440 | AT5G41180.2 | 57.603 | 559 | 209 | 7 | 107 | 655 | 1 | 541 | 0.0 | 634 |
| Msa0795440 | AT5G45840.2 | 33.133 | 664 | 374 | 19 | 30 | 657 | 35 | 664 | 4.23e-92 | 299 |
| Msa0795440 | AT4G18640.1 | 37.561 | 410 | 218 | 15 | 254 | 657 | 297 | 674 | 1.09e-69 | 240 |
| Msa0795440 | AT4G18640.1 | 38.012 | 171 | 98 | 4 | 7 | 176 | 13 | 176 | 1.53e-20 | 96.7 |
| Msa0795440 | AT5G45840.1 | 36.623 | 385 | 216 | 11 | 278 | 657 | 341 | 702 | 5.03e-63 | 222 |
| Msa0795440 | AT5G45840.1 | 38.462 | 156 | 93 | 2 | 30 | 184 | 35 | 188 | 4.13e-23 | 105 |
Find 161 sgRNAs with CRISPR-Local
Find 249 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACCAACATCCTTGAAAA+CGG | 0.497708 | 5_3:-7392444 | None:intergenic |
| AAAAGCATGTATGTTTCCTT+TGG | 0.370616 | 5_3:-7393057 | None:intergenic |
| AAAAGGTTACTTGGTGGATT+GGG | 0.411568 | 5_3:+7393130 | Msa0795440:CDS |
| AAACTTGCTTACAACAATGT+AGG | 0.525194 | 5_3:-7392500 | None:intergenic |
| AAAGGAAACATACATGCTTT+TGG | 0.310951 | 5_3:+7393059 | Msa0795440:CDS |
| AAATAATGAATTAAATAAAA+TGG | 0.273688 | 5_3:-7389877 | None:intergenic |
| AACATACAATTCTTCCAAAT+AGG | 0.397002 | 5_3:-7390740 | None:intergenic |
| AACTAGTGGGCACACCTTAG+GGG | 0.641801 | 5_3:-7392740 | None:intergenic |
| AAGAAGATACCTTCATTTGA+GGG | 0.487811 | 5_3:-7390291 | None:intergenic |
| AAGAAGGATGCCAATTCTCA+TGG | 0.518282 | 5_3:+7392593 | Msa0795440:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAGAAGATACCTTCATTTGA+GGG | - | chr5_3:7390294-7390313 | None:intergenic | 30.0% | |
| TTGAATCAGATCTTTGTAAC+TGG | + | chr5_3:7390617-7390636 | Msa0795440:CDS | 30.0% | |
| ATTAGGCCAAATTACCTATT+TGG | + | chr5_3:7390726-7390745 | Msa0795440:CDS | 30.0% | |
| TTGCATGGGAACAATTTAAT+TGG | + | chr5_3:7390853-7390872 | Msa0795440:CDS | 30.0% | |
| TTCAACACACATAGTTCTTT+AGG | - | chr5_3:7390886-7390905 | None:intergenic | 30.0% | |
| TGAGATACCTTAAAGAACTT+CGG | + | chr5_3:7391130-7391149 | Msa0795440:CDS | 30.0% | |
| TAGGAATAAGTTTCAAGGAT+CGG | + | chr5_3:7391158-7391177 | Msa0795440:CDS | 30.0% | |
| CACATAAGGAAAAAACAAGA+TGG | - | chr5_3:7391279-7391298 | None:intergenic | 30.0% | |
| ATCAACATGACAATCAGAAA+AGG | - | chr5_3:7391597-7391616 | None:intergenic | 30.0% | |
| CTTTACATATTCTGTCAAAC+AGG | + | chr5_3:7391655-7391674 | Msa0795440:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 7389874 | 7393922 | 7389874 | ID=Msa0795440;Name=Msa0795440 |
| chr5_3 | mRNA | 7389874 | 7393922 | 7389874 | ID=Msa0795440-mRNA-1;Parent=Msa0795440;Name=Msa0795440-mRNA-1;_AED=0.12;_eAED=0.12;_QI=345|1|1|1|1|1|11|264|657 |
| chr5_3 | exon | 7389874 | 7390303 | 7389874 | ID=Msa0795440-mRNA-1:exon:3064;Parent=Msa0795440-mRNA-1 |
| chr5_3 | exon | 7390545 | 7390755 | 7390545 | ID=Msa0795440-mRNA-1:exon:3065;Parent=Msa0795440-mRNA-1 |
| chr5_3 | exon | 7390849 | 7390992 | 7390849 | ID=Msa0795440-mRNA-1:exon:3066;Parent=Msa0795440-mRNA-1 |
| chr5_3 | exon | 7391077 | 7391214 | 7391077 | ID=Msa0795440-mRNA-1:exon:3067;Parent=Msa0795440-mRNA-1 |
| chr5_3 | exon | 7391474 | 7391590 | 7391474 | ID=Msa0795440-mRNA-1:exon:3068;Parent=Msa0795440-mRNA-1 |
| chr5_3 | exon | 7391677 | 7391996 | 7391677 | ID=Msa0795440-mRNA-1:exon:3069;Parent=Msa0795440-mRNA-1 |
| chr5_3 | exon | 7392074 | 7392279 | 7392074 | ID=Msa0795440-mRNA-1:exon:3070;Parent=Msa0795440-mRNA-1 |
| chr5_3 | exon | 7392375 | 7392510 | 7392375 | ID=Msa0795440-mRNA-1:exon:3071;Parent=Msa0795440-mRNA-1 |
| chr5_3 | exon | 7392590 | 7392747 | 7392590 | ID=Msa0795440-mRNA-1:exon:3072;Parent=Msa0795440-mRNA-1 |
| chr5_3 | exon | 7392936 | 7393151 | 7392936 | ID=Msa0795440-mRNA-1:exon:3073;Parent=Msa0795440-mRNA-1 |
| chr5_3 | exon | 7393416 | 7393922 | 7393416 | ID=Msa0795440-mRNA-1:exon:3074;Parent=Msa0795440-mRNA-1 |
| chr5_3 | five_prime_UTR | 7389874 | 7390218 | 7389874 | ID=Msa0795440-mRNA-1:five_prime_utr;Parent=Msa0795440-mRNA-1 |
| chr5_3 | CDS | 7390219 | 7390303 | 7390219 | ID=Msa0795440-mRNA-1:cds;Parent=Msa0795440-mRNA-1 |
| chr5_3 | CDS | 7390545 | 7390755 | 7390545 | ID=Msa0795440-mRNA-1:cds;Parent=Msa0795440-mRNA-1 |
| chr5_3 | CDS | 7390849 | 7390992 | 7390849 | ID=Msa0795440-mRNA-1:cds;Parent=Msa0795440-mRNA-1 |
| chr5_3 | CDS | 7391077 | 7391214 | 7391077 | ID=Msa0795440-mRNA-1:cds;Parent=Msa0795440-mRNA-1 |
| chr5_3 | CDS | 7391474 | 7391590 | 7391474 | ID=Msa0795440-mRNA-1:cds;Parent=Msa0795440-mRNA-1 |
| chr5_3 | CDS | 7391677 | 7391996 | 7391677 | ID=Msa0795440-mRNA-1:cds;Parent=Msa0795440-mRNA-1 |
| chr5_3 | CDS | 7392074 | 7392279 | 7392074 | ID=Msa0795440-mRNA-1:cds;Parent=Msa0795440-mRNA-1 |
| chr5_3 | CDS | 7392375 | 7392510 | 7392375 | ID=Msa0795440-mRNA-1:cds;Parent=Msa0795440-mRNA-1 |
| chr5_3 | CDS | 7392590 | 7392747 | 7392590 | ID=Msa0795440-mRNA-1:cds;Parent=Msa0795440-mRNA-1 |
| chr5_3 | CDS | 7392936 | 7393151 | 7392936 | ID=Msa0795440-mRNA-1:cds;Parent=Msa0795440-mRNA-1 |
| chr5_3 | CDS | 7393416 | 7393658 | 7393416 | ID=Msa0795440-mRNA-1:cds;Parent=Msa0795440-mRNA-1 |
| chr5_3 | three_prime_UTR | 7393659 | 7393922 | 7393659 | ID=Msa0795440-mRNA-1:three_prime_utr;Parent=Msa0795440-mRNA-1 |
| Gene Sequence |
>Msa0795440 ATGAAATTTTTAGTTTCATTTTTGGTTCTCTCTTTGATTTCAACAATCTCTCTTGTCAACTCAGACACTCTACCCTCAAATGAAGTTTGGGCACTTACAAGCTTTAAAGAAGCAATATATGAAGACCCAAATTTGGTTTTATCAAATTGGAATATGCTTGAATCAGATCTTTGTAACTGGTTTGGTGTATCATGCACTCTGGATAGAGATCATGTCATCAAGTTAAACATCTCAGGTTCATCATTGAAGGGGTTTCTTGCAAAGGAATTAGGCCAAATTACCTATTTGGAAGAATTAATTTTGCATGGGAACAATTTAATTGGAACTATACCTAAAGAACTATGTGTGTTGAAATCTCTTGAGGTGTTGGATTTGGGAATGAATCAGTTAACAGGACCGATTCCGCCGGAGATTGGAAATTTAGCTCTACTTGTGAACATAAACCTGCAGTCCAATGGGTTGACTGGTCGGATACCTCATGAGTTTGGAAATTTGAGATACCTTAAAGAACTTCGGCTCGATAGGAATAAGTTTCAAGGATCGGTTCCTGCTAGTGGAAGTTCTAATACACATGGAATGTATGTATCAAACGAGAATGTAACTGGCATCTGTCGTTCTCCTCAGTTAGAAGTAGCAGACTTTTCATATAATTTTTTAGTTGGTAGTATACCTAAATGCTTGGAGTTTCTCCCAAGGTTAAGTTTTCAAGGAAATTGCCTCCAGAGCAATGATCCAAAGCAGCGGCCTTCCACACAATGCGGCGGTGCCTCACCTGCCAAGAGTCAGCCAGTGGTGGACCACCAATTCCACCAACTAGGTAATCATGTGCGCAAGCATCACGGACTGTCAGAACCTACTTGGCTTTTGGCTCTAGAAATAGTAGCAGGAACTATGGTCGGTTCTCTCTGTTTGATTGCCATTCTCGCTGCTTTTCAAAGATGCAATAACAAATCATCTATCATTATTCCTTGGAAAAAGTCTGCCAGCCAGAAATATCACACTGCAGTATACATAGACCCGGAGATGTTAAAGGACGTGAGAAGGTATAGCAGACAGGAGCTTGAAGAGGCTTGCGAAGACTTCAGCAACATAATTGGTTCCTCTCCAGACAGTGTGGTGTACAAGGGAACCATGAAAGGTGGACCTGAGATTGCTGTAATTTCTCTCTGCATCAAGGAGGAGCATTGGACAGGATATCTGGAACTCTACTTTCAGAGAGAGGTGGCAGAATTGGCAAGGTTAAATCATGAGAATACTGGAAAACTACTGGGATATTGTAGAGAGAGCAATCCGTTTTCAAGGATGTTGGTTTTTGATTATGCTTCAAATGGGACACTTCATGAGCACCTACATTGTTATGAAGAAGGATGCCAATTCTCATGGACACGGCGTATGAAAATTATCATAGGCATTGCACGTGGACTCAAGTATTTGCACACAGAAGTTGAACCTCCATTCACTATCTCAGAGCTGAACTCTAGTGCTGTATACCTTACGGAAGAATTTGCCCCTAAGTTGGTTGATTTTGAAAGCTGGAAGACAATTCTTGAAAGATCAGAAAAGAATTCTGGTTCTATTAGCAGCCAAGGTGCTGTTTGTGTTCTTCCGAACTCCCTCGAGGCACGCCATCTGGATACCAAAGGAAACATACATGCTTTTGGAGTACTTCTACTAGAGATAATCAGCGGGCGACCTCCATACTGTAAGGAAAAAGGTTACTTGGTGGATTGGGCCAAAGACTATCTTGAAAAGCCAGAAGTAATGTCGCATTTGGTGAATTCAGAATTGAAAAATTTTAGACATGATGACCTCAAAGTGATATGCGAGGTGATAACTCTTTGTATCAATCCCGATACAACTGCTCGTCCATCTATGCAAGAATTATGCGGCATGCTGGAGAGCAGAATCGACACATCAGTATGCGCGGATCTCAAGTCATCTTTGGCCTGGGCTGAACTTGCTCTTTTAGCATAA |
| Protein sequence |
>Msa0795440 MKFLVSFLVLSLISTISLVNSDTLPSNEVWALTSFKEAIYEDPNLVLSNWNMLESDLCNWFGVSCTLDRDHVIKLNISGSSLKGFLAKELGQITYLEELILHGNNLIGTIPKELCVLKSLEVLDLGMNQLTGPIPPEIGNLALLVNINLQSNGLTGRIPHEFGNLRYLKELRLDRNKFQGSVPASGSSNTHGMYVSNENVTGICRSPQLEVADFSYNFLVGSIPKCLEFLPRLSFQGNCLQSNDPKQRPSTQCGGASPAKSQPVVDHQFHQLGNHVRKHHGLSEPTWLLALEIVAGTMVGSLCLIAILAAFQRCNNKSSIIIPWKKSASQKYHTAVYIDPEMLKDVRRYSRQELEEACEDFSNIIGSSPDSVVYKGTMKGGPEIAVISLCIKEEHWTGYLELYFQREVAELARLNHENTGKLLGYCRESNPFSRMLVFDYASNGTLHEHLHCYEEGCQFSWTRRMKIIIGIARGLKYLHTEVEPPFTISELNSSAVYLTEEFAPKLVDFESWKTILERSEKNSGSISSQGAVCVLPNSLEARHLDTKGNIHAFGVLLLEIISGRPPYCKEKGYLVDWAKDYLEKPEVMSHLVNSELKNFRHDDLKVICEVITLCINPDTTARPSMQELCGMLESRIDTSVCADLKSSLAWAELALLA* |
