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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0823820 | XP_003617613.1 | 87.286 | 409 | 44 | 4 | 1 | 402 | 1 | 408 | 0.0 | 705 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0823820 | sp|Q9LSE7|B561C_ARATH | 37.216 | 352 | 201 | 9 | 50 | 391 | 42 | 383 | 1.21e-69 | 227 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0003700 | Msa0823820 | 0.820957 | 5.211857e-53 | -8.615850e-47 |
| Msa0005890 | Msa0823820 | 0.827828 | 1.261084e-54 | -8.615850e-47 |
| Msa0007970 | Msa0823820 | 0.803944 | 2.737481e-49 | -8.615850e-47 |
| Msa0009760 | Msa0823820 | 0.803402 | 3.547133e-49 | -8.615850e-47 |
| Msa0018000 | Msa0823820 | 0.816825 | 4.528268e-52 | -8.615850e-47 |
| Msa0027820 | Msa0823820 | 0.817272 | 3.594411e-52 | -8.615850e-47 |
| Msa0028420 | Msa0823820 | 0.814275 | 1.673456e-51 | -8.615850e-47 |
| Msa0030370 | Msa0823820 | 0.801518 | 8.671041e-49 | -8.615850e-47 |
| Msa0032920 | Msa0823820 | -0.826067 | 3.324030e-54 | -8.615850e-47 |
| Msa0032960 | Msa0823820 | -0.812462 | 4.188397e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0823820 | MtrunA17_Chr5g0444651 | 87.286 | 409 | 44 | 4 | 1 | 402 | 1 | 408 | 0.0 | 705 |
| Msa0823820 | MtrunA17_Chr7g0234191 | 35.248 | 383 | 226 | 11 | 7 | 384 | 49 | 414 | 1.41e-66 | 218 |
| Msa0823820 | MtrunA17_Chr2g0290131 | 36.212 | 359 | 206 | 10 | 48 | 396 | 41 | 386 | 1.89e-61 | 203 |
| Msa0823820 | MtrunA17_Chr4g0076051 | 32.361 | 377 | 233 | 9 | 32 | 399 | 23 | 386 | 5.60e-54 | 184 |
| Msa0823820 | MtrunA17_Chr5g0447771 | 33.889 | 360 | 209 | 10 | 45 | 387 | 67 | 414 | 3.80e-53 | 182 |
| Msa0823820 | MtrunA17_Chr3g0101961 | 31.746 | 378 | 233 | 13 | 22 | 391 | 14 | 374 | 1.52e-49 | 172 |
| Msa0823820 | MtrunA17_Chr2g0278181 | 34.641 | 306 | 184 | 6 | 101 | 399 | 1 | 297 | 1.08e-47 | 165 |
| Msa0823820 | MtrunA17_Chr8g0347591 | 28.779 | 344 | 218 | 11 | 48 | 386 | 58 | 379 | 2.04e-34 | 131 |
| Msa0823820 | MtrunA17_Chr7g0275621 | 29.769 | 346 | 202 | 14 | 65 | 401 | 76 | 389 | 2.03e-25 | 107 |
| Msa0823820 | MtrunA17_Chr8g0338731 | 31.148 | 183 | 111 | 7 | 6 | 187 | 1 | 169 | 2.67e-14 | 72.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0823820 | AT3G25290.1 | 37.216 | 352 | 201 | 9 | 50 | 391 | 42 | 383 | 1.23e-70 | 227 |
| Msa0823820 | AT3G25290.2 | 37.216 | 352 | 201 | 9 | 50 | 391 | 42 | 383 | 1.23e-70 | 227 |
| Msa0823820 | AT5G35735.1 | 35.891 | 404 | 221 | 14 | 2 | 398 | 5 | 377 | 1.17e-68 | 223 |
| Msa0823820 | AT5G47530.1 | 37.017 | 362 | 200 | 11 | 32 | 384 | 25 | 367 | 2.14e-67 | 219 |
| Msa0823820 | AT4G12980.1 | 33.152 | 368 | 224 | 8 | 45 | 402 | 38 | 393 | 4.17e-65 | 213 |
| Msa0823820 | AT4G17280.1 | 35.013 | 377 | 218 | 10 | 32 | 399 | 32 | 390 | 2.47e-64 | 211 |
| Msa0823820 | AT2G04850.1 | 33.600 | 375 | 216 | 12 | 45 | 403 | 32 | 389 | 2.49e-55 | 188 |
| Msa0823820 | AT3G59070.1 | 28.916 | 415 | 255 | 14 | 7 | 400 | 1 | 396 | 2.63e-49 | 173 |
| Msa0823820 | AT3G07570.1 | 28.982 | 383 | 243 | 12 | 13 | 386 | 6 | 368 | 1.34e-33 | 129 |
| Msa0823820 | AT3G61750.2 | 30.435 | 299 | 189 | 10 | 87 | 382 | 12 | 294 | 9.15e-30 | 117 |
Find 122 sgRNAs with CRISPR-Local
Find 366 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACCTATGATGTTACTAA+AGG | 0.534733 | 5_3:-62670211 | Msa0823820:CDS |
| AAAGGAGTAAGTAAACACAA+TGG | 0.708044 | 5_3:-62668762 | Msa0823820:three_prime_UTR |
| AAAGGATTGTTACCGATCGA+AGG | 0.580655 | 5_3:+62669903 | None:intergenic |
| AAGGAACCAAACAGGGTTGT+AGG | 0.414976 | 5_3:-62670192 | Msa0823820:CDS |
| AAGGGGATGGGTGGATAGCA+TGG | 0.470518 | 5_3:-62670318 | Msa0823820:CDS |
| AATCTCCAAAGCAAATGCAA+TGG | 0.631047 | 5_3:+62668881 | None:intergenic |
| AATCTTATTCGGTGCCAATA+TGG | 0.376709 | 5_3:-62670344 | Msa0823820:CDS |
| ACAATAAGTAAGTACCTATA+AGG | 0.370347 | 5_3:+62668315 | None:intergenic |
| ACAATACTTGAAATCTTATT+CGG | 0.359172 | 5_3:-62670355 | Msa0823820:CDS |
| ACAATGGTCATGCATATATG+AGG | 0.504429 | 5_3:-62668746 | Msa0823820:three_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GAGAAAGGACAATATCATAA+TGG | + | chr5_3:62668501-62668520 | None:intergenic | 30.0% | |
| GATATTTGCAAAGAAGAGAA+AGG | + | chr5_3:62668516-62668535 | None:intergenic | 30.0% | |
| ATCATAGGGATCAAATATCA+TGG | - | chr5_3:62668776-62668795 | Msa0823820:three_prime_UTR | 30.0% | |
| CATAGTAGCAAAAGAGAAAA+AGG | + | chr5_3:62669144-62669163 | None:intergenic | 30.0% | |
| CAATGAGAAAACCAATTGTT+TGG | + | chr5_3:62669533-62669552 | None:intergenic | 30.0% | |
| GAACAACTTCAATGCTTAAT+CGG | - | chr5_3:62669702-62669721 | Msa0823820:intron | 30.0% | |
| ACTAACTAAGTTATAGTCAC+GGG | + | chr5_3:62669763-62669782 | None:intergenic | 30.0% | |
| GTGACTATAACTTAGTTAGT+AGG | - | chr5_3:62669763-62669782 | Msa0823820:intron | 30.0% | |
| GGACATCGTATTATATATAG+AGG | - | chr5_3:62669785-62669804 | Msa0823820:intron | 30.0% | |
| CGTATTATATATAGAGGGTT+AGG | - | chr5_3:62669791-62669810 | Msa0823820:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 62668316 | 62670732 | 62668316 | ID=Msa0823820;Name=Msa0823820 |
| chr5_3 | mRNA | 62668316 | 62670732 | 62668316 | ID=Msa0823820-mRNA-1;Parent=Msa0823820;Name=Msa0823820-mRNA-1;_AED=0.01;_eAED=0.01;_QI=142|1|1|1|1|1|3|496|403 |
| chr5_3 | exon | 62668316 | 62669090 | 62668316 | ID=Msa0823820-mRNA-1:exon:19504;Parent=Msa0823820-mRNA-1 |
| chr5_3 | exon | 62669386 | 62669643 | 62669386 | ID=Msa0823820-mRNA-1:exon:19503;Parent=Msa0823820-mRNA-1 |
| chr5_3 | exon | 62669916 | 62670732 | 62669916 | ID=Msa0823820-mRNA-1:exon:19502;Parent=Msa0823820-mRNA-1 |
| chr5_3 | five_prime_UTR | 62670591 | 62670732 | 62670591 | ID=Msa0823820-mRNA-1:five_prime_utr;Parent=Msa0823820-mRNA-1 |
| chr5_3 | CDS | 62669916 | 62670590 | 62669916 | ID=Msa0823820-mRNA-1:cds;Parent=Msa0823820-mRNA-1 |
| chr5_3 | CDS | 62669386 | 62669643 | 62669386 | ID=Msa0823820-mRNA-1:cds;Parent=Msa0823820-mRNA-1 |
| chr5_3 | CDS | 62668812 | 62669090 | 62668812 | ID=Msa0823820-mRNA-1:cds;Parent=Msa0823820-mRNA-1 |
| chr5_3 | three_prime_UTR | 62668316 | 62668811 | 62668316 | ID=Msa0823820-mRNA-1:three_prime_utr;Parent=Msa0823820-mRNA-1 |
| Gene Sequence |
>Msa0823820 ATGAAGAGCAAAAAAATCATGTCATCTTCTACCTTAGTAACCATTATGATATTGTCCTTTCTCTTCTTTGCAAATATCGGTGTCAAACCTCAACAACCATGCAGCGATAACTTCGCGAAACTCATCGAAAAAAGAAACATAACAAAATGCAAAACATTACGAACTCTAGGAGCCGAATTCGGTTGGAGTTACCGCAACGGCACAAACTCAACCACAATACTTGAAATCTTATTCGGTGCCAATATGGATCAAGGGGATGGGTGGATAGCATGGGGTGTAAATCCAGGGGAAAGGGCTGAAATGATTGGAACAAAGGCAATCATAGGGATCAAATATCATGGTACATTTTTGCCAGTTAAAACCTATGATGTTACTAAAGGAACCAAACAGGGTTGTAGGCTTTTATCTACCAATGATATTGGCTTTAACGTGTCAGATATGTCGATTCAAGATGAAGGGTCAAATTTTTATACTATATATGCAAGATTAGTTCTCCCTTCTGATAAATATAACATAACAAGGTTGAACCATGTTTGGCAAGTTGGGAAGGCTGTTAGGGGTGATATACCTTTGGGCCATCCAACAAATATTCACAATATAGATAGCACTGAGACTATAGACTTGACTTCTCCCGATGGTCGCAGCAAGGGACAGAAACTGAGTTTCCTTCGATCGGTACATGGAGTTCTAAACATTATAGGGTGGGGAACATTGTTACCTATGGGAGTAATAATTCCAAGATACTTTCGAGTGTATCCTTTTAAAAAGGATCCATGGTGGTTTTACTTGCACATTGGTTGCCAAACAATTGGTTTTCTCATTGGTACTGCTGGTTGGGCTATTGGATTGGTTCTTGGACATTCTTCTAGATACTATGTCTTCCAAACTCATCGAACCTTTGGCATTCTCATTTTCACTTTTAGTACAATCCAGATGCTGGCTTTTCGGTTAAAACCCAAGTCGACAGATGATTACCGGAAATATTGGAATATGTATCATCATTTTCTTGGATATGGACTACTGGCTATCATAGTCATAAACATATTTAAAGGAATTAACATTTTGCATGGGGGTAATAGCTGGAAGTGGAGTTACATTGGAATTCTTATAGGTTTGGGTACCATTGCATTTGCTTTGGAGATTTTCACATGGATTAAATTTATTATGCATAAATGGCATGATAGAAGGGCAAACCAGCCAAACAAAAAATAA |
| Protein sequence |
>Msa0823820 MKSKKIMSSSTLVTIMILSFLFFANIGVKPQQPCSDNFAKLIEKRNITKCKTLRTLGAEFGWSYRNGTNSTTILEILFGANMDQGDGWIAWGVNPGERAEMIGTKAIIGIKYHGTFLPVKTYDVTKGTKQGCRLLSTNDIGFNVSDMSIQDEGSNFYTIYARLVLPSDKYNITRLNHVWQVGKAVRGDIPLGHPTNIHNIDSTETIDLTSPDGRSKGQKLSFLRSVHGVLNIIGWGTLLPMGVIIPRYFRVYPFKKDPWWFYLHIGCQTIGFLIGTAGWAIGLVLGHSSRYYVFQTHRTFGILIFTFSTIQMLAFRLKPKSTDDYRKYWNMYHHFLGYGLLAIIVINIFKGINILHGGNSWKWSYIGILIGLGTIAFALEIFTWIKFIMHKWHDRRANQPNKK* |
