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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0723090 | XP_003613285.1 | 96.784 | 342 | 11 | 0 | 1 | 342 | 1 | 342 | 0.0 | 672 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0723090 | sp|Q9FL08|WTR42_ARATH | 43.491 | 338 | 186 | 2 | 10 | 342 | 22 | 359 | 3.06e-86 | 267 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0003080 | Msa0723090 | 0.831780 | 1.374587e-55 | -8.615850e-47 |
| Msa0013270 | Msa0723090 | 0.818488 | 1.910111e-52 | -8.615850e-47 |
| Msa0017670 | Msa0723090 | 0.805420 | 1.346645e-49 | -8.615850e-47 |
| Msa0019900 | Msa0723090 | 0.819886 | 9.175384e-53 | -8.615850e-47 |
| Msa0025160 | Msa0723090 | 0.843526 | 1.327688e-58 | -8.615850e-47 |
| Msa0025560 | Msa0723090 | 0.810799 | 9.629345e-51 | -8.615850e-47 |
| Msa0028690 | Msa0723090 | 0.821864 | 3.218652e-53 | -8.615850e-47 |
| Msa0033220 | Msa0723090 | 0.834049 | 3.751311e-56 | -8.615850e-47 |
| Msa0035930 | Msa0723090 | 0.809194 | 2.134855e-50 | -8.615850e-47 |
| Msa0036180 | Msa0723090 | 0.810575 | 1.076865e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0723090 | MtrunA17_Chr5g0413921 | 96.784 | 342 | 11 | 0 | 1 | 342 | 1 | 342 | 0.0 | 672 |
| Msa0723090 | MtrunA17_Chr5g0413931 | 74.855 | 346 | 81 | 2 | 1 | 341 | 1 | 345 | 0.0 | 521 |
| Msa0723090 | MtrunA17_Chr5g0413941 | 74.551 | 334 | 85 | 0 | 1 | 334 | 1 | 334 | 0.0 | 514 |
| Msa0723090 | MtrunA17_Chr5g0413951 | 72.923 | 325 | 88 | 0 | 5 | 329 | 5 | 329 | 2.16e-176 | 493 |
| Msa0723090 | MtrunA17_Chr7g0227921 | 44.828 | 319 | 167 | 3 | 12 | 326 | 16 | 329 | 1.85e-80 | 249 |
| Msa0723090 | MtrunA17_Chr5g0413961 | 41.088 | 331 | 184 | 3 | 19 | 342 | 26 | 352 | 5.88e-80 | 248 |
| Msa0723090 | MtrunA17_Chr4g0059311 | 45.312 | 320 | 172 | 3 | 10 | 327 | 14 | 332 | 3.38e-79 | 246 |
| Msa0723090 | MtrunA17_Chr3g0126101 | 41.590 | 327 | 179 | 4 | 12 | 333 | 11 | 330 | 7.25e-77 | 239 |
| Msa0723090 | MtrunA17_Chr1g0150151 | 41.433 | 321 | 183 | 4 | 12 | 328 | 16 | 335 | 3.55e-72 | 228 |
| Msa0723090 | MtrunA17_Chr6g0451211 | 41.562 | 320 | 177 | 4 | 12 | 326 | 17 | 331 | 4.52e-71 | 225 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0723090 | AT5G40240.1 | 43.491 | 338 | 186 | 2 | 10 | 342 | 22 | 359 | 3.11e-87 | 267 |
| Msa0723090 | AT5G40240.3 | 43.491 | 338 | 186 | 2 | 10 | 342 | 22 | 359 | 3.11e-87 | 267 |
| Msa0723090 | AT5G40240.2 | 43.491 | 338 | 186 | 2 | 10 | 342 | 36 | 373 | 9.20e-87 | 266 |
| Msa0723090 | AT5G40230.1 | 43.149 | 343 | 174 | 3 | 12 | 341 | 25 | 359 | 2.68e-84 | 259 |
| Msa0723090 | AT5G40210.1 | 45.231 | 325 | 159 | 5 | 4 | 327 | 10 | 316 | 2.02e-81 | 251 |
| Msa0723090 | AT3G28050.1 | 46.082 | 319 | 166 | 3 | 8 | 325 | 13 | 326 | 5.70e-80 | 248 |
| Msa0723090 | AT3G28080.1 | 40.113 | 354 | 186 | 6 | 4 | 341 | 11 | 354 | 1.10e-69 | 222 |
| Msa0723090 | AT4G15540.1 | 42.500 | 320 | 168 | 3 | 12 | 328 | 21 | 327 | 1.52e-69 | 221 |
| Msa0723090 | AT4G15540.2 | 42.500 | 320 | 168 | 3 | 12 | 328 | 21 | 327 | 1.52e-69 | 221 |
| Msa0723090 | AT3G28100.1 | 41.194 | 335 | 176 | 5 | 4 | 327 | 11 | 335 | 3.16e-69 | 220 |
Find 99 sgRNAs with CRISPR-Local
Find 214 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATTGAGGATGAAATTGG+AGG | 0.543678 | 5_1:-20719210 | None:intergenic |
| AAAGGAAACATAGAGCAAAA+AGG | 0.418237 | 5_1:-20719149 | None:intergenic |
| AACAAGCATTTGTTGCAGCA+TGG | 0.633651 | 5_1:+20720612 | Msa0723090:CDS |
| AACAAGGACAACTCCCGTTA+AGG | 0.448089 | 5_1:+20721853 | Msa0723090:three_prime_UTR |
| AAGCATAGCAGATGCTAGTG+TGG | 0.579129 | 5_1:-20719487 | None:intergenic |
| AAGCATTTGTTGCAGCATGG+TGG | 0.684295 | 5_1:+20720615 | Msa0723090:CDS |
| AAGGAACAGACAACTATATA+AGG | 0.361781 | 5_1:+20721912 | Msa0723090:three_prime_UTR |
| AATACTCATTCCATCATTGG+TGG | 0.565236 | 5_1:-20719103 | None:intergenic |
| AATATAGATATTGGAGGAAG+TGG | 0.416383 | 5_1:+20720231 | Msa0723090:CDS |
| AATGGTCATTGCACTTGGCA+TGG | 0.561423 | 5_1:+20721476 | Msa0723090:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAAGGAAACATAGAGCAAAA+AGG | - | chr5_1:20719152-20719171 | None:intergenic | 30.0% | |
| AAAATTGAGGATGAAATTGG+AGG | - | chr5_1:20719213-20719232 | None:intergenic | 30.0% | |
| GAAAATTGTGTTCAATGTGA+AGG | + | chr5_1:20719709-20719728 | Msa0723090:intron | 30.0% | |
| AATATAGATATTGGAGGAAG+TGG | + | chr5_1:20720231-20720250 | Msa0723090:CDS | 30.0% | |
| ACCTTTCAGTTAAATCAGAT+TGG | + | chr5_1:20720259-20720278 | Msa0723090:CDS | 30.0% | |
| TCCAATCTGATTTAACTGAA+AGG | - | chr5_1:20720263-20720282 | None:intergenic | 30.0% | |
| GTTAAATCAGATTGGATAGT+TGG | + | chr5_1:20720267-20720286 | Msa0723090:CDS | 30.0% | |
| GGACAATATACAAAACAGAA+AGG | - | chr5_1:20720323-20720342 | None:intergenic | 30.0% | |
| TAAATTCCCAATTTAGTGCA+AGG | - | chr5_1:20720522-20720541 | None:intergenic | 30.0% | |
| TTGTATGCAATGTCATTGAA+AGG | + | chr5_1:20720796-20720815 | Msa0723090:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_1 | gene | 20718949 | 20722173 | 20718949 | ID=Msa0723090;Name=Msa0723090 |
| chr5_1 | mRNA | 20718949 | 20722173 | 20718949 | ID=Msa0723090-mRNA-1;Parent=Msa0723090;Name=Msa0723090-mRNA-1;_AED=0.23;_eAED=0.23;_QI=69|1|1|1|1|1|6|367|344 |
| chr5_1 | exon | 20718949 | 20719262 | 20718949 | ID=Msa0723090-mRNA-1:exon:7888;Parent=Msa0723090-mRNA-1 |
| chr5_1 | exon | 20719440 | 20719553 | 20719440 | ID=Msa0723090-mRNA-1:exon:7889;Parent=Msa0723090-mRNA-1 |
| chr5_1 | exon | 20720104 | 20720344 | 20720104 | ID=Msa0723090-mRNA-1:exon:7890;Parent=Msa0723090-mRNA-1 |
| chr5_1 | exon | 20720574 | 20720732 | 20720574 | ID=Msa0723090-mRNA-1:exon:7891;Parent=Msa0723090-mRNA-1 |
| chr5_1 | exon | 20721384 | 20721535 | 20721384 | ID=Msa0723090-mRNA-1:exon:7892;Parent=Msa0723090-mRNA-1 |
| chr5_1 | exon | 20721683 | 20722173 | 20721683 | ID=Msa0723090-mRNA-1:exon:7893;Parent=Msa0723090-mRNA-1 |
| chr5_1 | five_prime_UTR | 20718949 | 20719017 | 20718949 | ID=Msa0723090-mRNA-1:five_prime_utr;Parent=Msa0723090-mRNA-1 |
| chr5_1 | CDS | 20719018 | 20719262 | 20719018 | ID=Msa0723090-mRNA-1:cds;Parent=Msa0723090-mRNA-1 |
| chr5_1 | CDS | 20719440 | 20719553 | 20719440 | ID=Msa0723090-mRNA-1:cds;Parent=Msa0723090-mRNA-1 |
| chr5_1 | CDS | 20720104 | 20720344 | 20720104 | ID=Msa0723090-mRNA-1:cds;Parent=Msa0723090-mRNA-1 |
| chr5_1 | CDS | 20720574 | 20720732 | 20720574 | ID=Msa0723090-mRNA-1:cds;Parent=Msa0723090-mRNA-1 |
| chr5_1 | CDS | 20721384 | 20721535 | 20721384 | ID=Msa0723090-mRNA-1:cds;Parent=Msa0723090-mRNA-1 |
| chr5_1 | CDS | 20721683 | 20721806 | 20721683 | ID=Msa0723090-mRNA-1:cds;Parent=Msa0723090-mRNA-1 |
| chr5_1 | three_prime_UTR | 20721807 | 20722173 | 20721807 | ID=Msa0723090-mRNA-1:three_prime_utr;Parent=Msa0723090-mRNA-1 |
| Gene Sequence |
>Msa0723090 ATGGTGATCGAAGGAGCAAGTGTAACAGCAACAATGGTTGCAGTTCAATTCCTAGAAGTGGGTGGTAACACTCTGATCAAATCAGCCACCAATGATGGAATGAGTATTTTTGTTTTCACTTTTTACTCAAACCTTTTTGCTCTATGTTTCCTTTTACCATGCACCTTTTTTTACCACAGAAAAAGATCTCCTCCTCCAATTTCATCCTCAATTTTATGTAGAATTTTTCTTCTTAGTTGCCTCAGTACTGCAGTGCAGATTTTAACGAATATTGGAATTGAATGTAGCTCTCCCACACTAGCATCTGCTATGCTTGACCTTCTCCCTGCTTTTACCTTCATACTTGCTTTAATTTCAAGGATGGAAAATCTAAATCTGAAACACCATAGCAGCCAAGCTAAAATAATTGGCACAGTGGTCTCCATTGCAGGGGCATTAACTGTGACATTATATAAAGGGATACCATTGATTAGTAACGCCTTTCAAAATATAGATATTGGAGGAAGTGGAATTCACCTTTCAGTTAAATCAGATTGGATAGTTGGTGCTTTTCTTCTTGCAACTGCTAGCTTTTGCCTTTCTGTTTTGTATATTGTCCAGACTTGGATTATAAGGGATTATCCTGAAGAGCTAGTGGTAACAAGCATTTGTTGCAGCATGGTGGTAATTCTATCTGCAATTGTAGCTCTCATTGCAGAGGGAAATTCAAAAGTTTGGATTCTCAGACCTGATAGGGAGTTGGTAGCTGTGTGTTATTCAGCAATTTGTGTGGTATCAATGAGGAGTGTTGTATACACATGGGCATTCCGTAAGAAAGGACCAATATATGTAGCTATGTTCAACCCATTAGGAATGGTCATTGCACTTGGCATGGGTGTAATATTTTTGGGAGACAGTCTTTATCTTGGAAGCATGATTGGAGCTGCTATAATAGCCATTGGATTTTATGCAGTTATGTGGGCACAAGCTCAAGAGGAAAACACAACATGTGAAAATAAATTTCCCCCTCTGTTGTCAACCAAAATAGGTGCCTAG |
| Protein sequence |
>Msa0723090 MVIEGASVTATMVAVQFLEVGGNTLIKSATNDGMSIFVFTFYSNLFALCFLLPCTFFYHRKRSPPPISSSILCRIFLLSCLSTAVQILTNIGIECSSPTLASAMLDLLPAFTFILALISRMENLNLKHHSSQAKIIGTVVSIAGALTVTLYKGIPLISNAFQNIDIGGSGIHLSVKSDWIVGAFLLATASFCLSVLYIVQTWIIRDYPEELVVTSICCSMVVILSAIVALIAEGNSKVWILRPDRELVAVCYSAICVVSMRSVVYTWAFRKKGPIYVAMFNPLGMVIALGMGVIFLGDSLYLGSMIGAAIIAIGFYAVMWAQAQEENTTCENKFPPLLSTKIGA* |
