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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0081620 | XP_003591335.1 | 97.949 | 390 | 8 | 0 | 1 | 390 | 1 | 390 | 0.0 | 785 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0081620 | sp|Q3EAF9|P2C49_ARATH | 61.224 | 392 | 138 | 8 | 1 | 386 | 1 | 384 | 1.87e-164 | 469 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001380 | Msa0081620 | 0.811407 | 7.108796e-51 | -8.615850e-47 |
| Msa0011050 | Msa0081620 | 0.803211 | 3.884090e-49 | -8.615850e-47 |
| Msa0012710 | Msa0081620 | 0.803617 | 3.200757e-49 | -8.615850e-47 |
| Msa0026630 | Msa0081620 | 0.807561 | 4.759731e-50 | -8.615850e-47 |
| Msa0032080 | Msa0081620 | 0.826478 | 2.653411e-54 | -8.615850e-47 |
| Msa0032470 | Msa0081620 | 0.829968 | 3.824295e-55 | -8.615850e-47 |
| Msa0033850 | Msa0081620 | 0.970555 | 8.529854e-132 | -8.615850e-47 |
| Msa0043530 | Msa0081620 | 0.820124 | 8.093992e-53 | -8.615850e-47 |
| Msa0045910 | Msa0081620 | 0.803662 | 3.132376e-49 | -8.615850e-47 |
| Msa0048390 | Msa0081620 | 0.803009 | 4.277052e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0081620 | MtrunA17_Chr1g0194191 | 97.949 | 390 | 8 | 0 | 1 | 390 | 1 | 390 | 0.0 | 785 |
| Msa0081620 | MtrunA17_Chr2g0293811 | 56.589 | 387 | 149 | 3 | 1 | 387 | 1 | 368 | 1.21e-152 | 435 |
| Msa0081620 | MtrunA17_Chr5g0407161 | 50.943 | 318 | 134 | 3 | 73 | 386 | 79 | 378 | 3.58e-110 | 328 |
| Msa0081620 | MtrunA17_Chr3g0144111 | 52.333 | 300 | 96 | 4 | 92 | 385 | 1 | 259 | 4.47e-104 | 308 |
| Msa0081620 | MtrunA17_Chr4g0065141 | 47.904 | 334 | 146 | 6 | 62 | 385 | 68 | 383 | 2.07e-99 | 300 |
| Msa0081620 | MtrunA17_Chr3g0138281 | 47.230 | 343 | 154 | 8 | 50 | 385 | 55 | 377 | 1.18e-93 | 285 |
| Msa0081620 | MtrunA17_Chr4g0068971 | 65.625 | 160 | 54 | 1 | 228 | 387 | 110 | 268 | 3.02e-69 | 219 |
| Msa0081620 | MtrunA17_Chr4g0068971 | 37.815 | 119 | 63 | 3 | 1 | 116 | 1 | 111 | 1.37e-14 | 73.6 |
| Msa0081620 | MtrunA17_Chr1g0150451 | 34.058 | 276 | 148 | 8 | 87 | 357 | 85 | 331 | 1.04e-42 | 152 |
| Msa0081620 | MtrunA17_Chr3g0136711 | 33.216 | 283 | 154 | 9 | 87 | 364 | 42 | 294 | 4.00e-41 | 147 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0081620 | AT3G62260.1 | 61.224 | 392 | 137 | 8 | 1 | 386 | 1 | 383 | 9.32e-166 | 469 |
| Msa0081620 | AT3G62260.2 | 61.224 | 392 | 138 | 8 | 1 | 386 | 1 | 384 | 1.90e-165 | 469 |
| Msa0081620 | AT3G62260.3 | 68.243 | 296 | 91 | 2 | 92 | 386 | 1 | 294 | 1.19e-149 | 425 |
| Msa0081620 | AT1G48040.1 | 58.376 | 394 | 138 | 11 | 1 | 386 | 7 | 382 | 3.43e-145 | 417 |
| Msa0081620 | AT3G17250.1 | 55.495 | 364 | 142 | 10 | 34 | 386 | 68 | 422 | 1.06e-129 | 379 |
| Msa0081620 | AT2G33700.1 | 53.605 | 319 | 125 | 3 | 73 | 386 | 78 | 378 | 4.78e-117 | 345 |
| Msa0081620 | AT3G51470.2 | 49.524 | 315 | 132 | 4 | 74 | 384 | 23 | 314 | 1.65e-105 | 314 |
| Msa0081620 | AT3G51470.1 | 49.524 | 315 | 132 | 4 | 74 | 384 | 67 | 358 | 6.24e-105 | 314 |
| Msa0081620 | AT2G25620.1 | 46.087 | 345 | 157 | 7 | 53 | 386 | 63 | 389 | 5.03e-95 | 290 |
| Msa0081620 | AT2G25620.2 | 46.087 | 345 | 157 | 7 | 53 | 386 | 63 | 389 | 5.03e-95 | 290 |
Find 118 sgRNAs with CRISPR-Local
Find 211 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTACCGGAACGGATGG+AGG | 0.545279 | 1_2:+60242085 | None:intergenic |
| AAAATTGGGTGGCTATGTTG+AGG | 0.666115 | 1_2:-60241149 | Msa0081620:CDS |
| AAACTACCGGAACGGATGGA+GGG | 0.556241 | 1_2:+60242086 | None:intergenic |
| AAAGCTCATTACCCCATAAA+AGG | 0.322934 | 1_2:+60241962 | None:intergenic |
| AAAGGTGAGGGAGTACCCCT+AGG | 0.611278 | 1_2:+60241064 | None:intergenic |
| AAATAAATGTCGTGTCATAG+TGG | 0.573103 | 1_2:+60240494 | None:intergenic |
| AAATCCCTGGCGCACTTCTC+TGG | 0.265688 | 1_2:+60240899 | None:intergenic |
| AACTACCGGAACGGATGGAG+GGG | 0.553531 | 1_2:+60242087 | None:intergenic |
| AACTCAGGATCTGCAATCAA+AGG | 0.595994 | 1_2:+60241046 | None:intergenic |
| AATCCCTGGCGCACTTCTCT+GGG | 0.496285 | 1_2:+60240900 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGATTATTGCTCCCTTTATT+CGG | + | chr1_2:60240749-60240768 | None:intergenic | 30.0% | |
| CAAAGAAACTCAATTTCAAC+TGG | + | chr1_2:60241239-60241258 | None:intergenic | 30.0% | |
| TGAAATTGAGTTTCTTTGTG+AGG | - | chr1_2:60241241-60241260 | Msa0081620:CDS | 30.0% | |
| GTTTATAACCTTCATTGTTG+AGG | - | chr1_2:60241395-60241414 | Msa0081620:intron | 30.0% | |
| TAAGACTACAGATATAACCT+CGG | - | chr1_2:60241739-60241758 | Msa0081620:CDS | 30.0% | |
| ACATGGAAGATGAACATATA+AGG | - | chr1_2:60241843-60241862 | Msa0081620:CDS | 30.0% | |
| CAAATGTATCAGGTATTTGA+TGG | - | chr1_2:60242000-60242019 | Msa0081620:CDS | 30.0% | |
| TATCAACTTCAGATATCTGA+GGG | + | chr1_2:60242098-60242117 | None:intergenic | 30.0% | |
| TTATCAACTTCAGATATCTG+AGG | + | chr1_2:60242099-60242118 | None:intergenic | 30.0% | |
| CAAAAGAAAAGCCTTTCTAA+GGG | + | chr1_2:60242148-60242167 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 60240444 | 60243461 | 60240444 | ID=Msa0081620;Name=Msa0081620 |
| chr1_2 | mRNA | 60240444 | 60243461 | 60240444 | ID=Msa0081620-mRNA-1;Parent=Msa0081620;Name=Msa0081620-mRNA-1;_AED=0.02;_eAED=0.02;_QI=245|1|1|1|1|1|4|268|390 |
| chr1_2 | exon | 60240444 | 60241288 | 60240444 | ID=Msa0081620-mRNA-1:exon:19615;Parent=Msa0081620-mRNA-1 |
| chr1_2 | exon | 60241658 | 60241893 | 60241658 | ID=Msa0081620-mRNA-1:exon:19614;Parent=Msa0081620-mRNA-1 |
| chr1_2 | exon | 60241974 | 60242171 | 60241974 | ID=Msa0081620-mRNA-1:exon:19613;Parent=Msa0081620-mRNA-1 |
| chr1_2 | exon | 60243055 | 60243461 | 60243055 | ID=Msa0081620-mRNA-1:exon:19612;Parent=Msa0081620-mRNA-1 |
| chr1_2 | five_prime_UTR | 60243217 | 60243461 | 60243217 | ID=Msa0081620-mRNA-1:five_prime_utr;Parent=Msa0081620-mRNA-1 |
| chr1_2 | CDS | 60243055 | 60243216 | 60243055 | ID=Msa0081620-mRNA-1:cds;Parent=Msa0081620-mRNA-1 |
| chr1_2 | CDS | 60241974 | 60242171 | 60241974 | ID=Msa0081620-mRNA-1:cds;Parent=Msa0081620-mRNA-1 |
| chr1_2 | CDS | 60241658 | 60241893 | 60241658 | ID=Msa0081620-mRNA-1:cds;Parent=Msa0081620-mRNA-1 |
| chr1_2 | CDS | 60240712 | 60241288 | 60240712 | ID=Msa0081620-mRNA-1:cds;Parent=Msa0081620-mRNA-1 |
| chr1_2 | three_prime_UTR | 60240444 | 60240711 | 60240444 | ID=Msa0081620-mRNA-1:three_prime_utr;Parent=Msa0081620-mRNA-1 |
| Gene Sequence |
>Msa0081620 ATGGTGGCTGAAGCAGAGGTTGTTGTGTGTCAACAAAGCGTGGATGTGAAGTATTTTCCGAATAAAGGGAGCAATAATCACGAGATCGGTGATGTAGATTCGAATTTTGATCGAGTTCGTGTTTCTGAATCAGTTTCTGCTGAGTTACTTACTACAAAAGAAGATGTTAAGACTACAGATATAACCTCGGAAGCTGGTCTTGAATCTGCGGTTCTGCAATTTGTCCCCTCCATCCGTTCCGGTAGTTTTGCCGACATTGGGCCACGTAGATACATGGAAGATGAACATATAAGGATAGATGATTTGTCATCTCATCTGGGATCACAATACAATTTTCCTAAACCAAGTGCCTTTTATGGGGTATTTGATGGTCACGGAGGACCTGAAGCTGCAGCGTATATAAGAAAAAATGTTCTAAAATTCTTCTTTGAGGATGTCAATTTCCCTCAGATATCTGAAGTTGATAATGTATTTTTACAAGAGGTAGAGAATTCCCTTAGAAAGGCTTTTCTTTTGGCAGACTCAGCTTTGGCTGATGATAGCAATGTGAACACTTCATCAGGGACCACAGCTCTTACTGCTTTGATATTTGGAAGGCTTCTAATGGTGGCAAATGCCGGTGACTGCCGAGCAGTTCTCAGTCGTAAAGGAGAGGCCATTGACATGTCTCAAGATCATAGGCCTATTTATCCATCAGAGCGGAGGCGAGTTGAAAAATTGGGTGGCTATGTTGAGGATGGTTATCTTAATGGCGTTTTATCAGTTACGAGAGCACTAGGGGACTGGGACATGAAGTTACCTAGGGGTACTCCCTCACCTTTGATTGCAGATCCTGAGTTCCACCAAGTGGTTCTAACAGAGGATGACGAATTCCTCATCATAGGATGCGACGGCATCTGGGATGTGATGACAAGTCAGCATGCTGTTAGCCTTGTTCGTAAAGGTTTGAGGAGGCATGATGACCCAGAGAAGTGCGCCAGGGATTTAGTTATGGAGGCATTACGGCTCAACACATTTGACAATCTTACAGTGATCATCATATGCCTCTCCTCCCTTGACCATGGGGAGTCAGAGCCATCACCACCTCCCCAACGGAAATTGAGATGCTGTAGCCTCTCTGCAGAGGCTCTTTGTAGCTTGAGAAGCTTGTTGGAAGGCAATGCTAGCAACTGA |
| Protein sequence |
>Msa0081620 MVAEAEVVVCQQSVDVKYFPNKGSNNHEIGDVDSNFDRVRVSESVSAELLTTKEDVKTTDITSEAGLESAVLQFVPSIRSGSFADIGPRRYMEDEHIRIDDLSSHLGSQYNFPKPSAFYGVFDGHGGPEAAAYIRKNVLKFFFEDVNFPQISEVDNVFLQEVENSLRKAFLLADSALADDSNVNTSSGTTALTALIFGRLLMVANAGDCRAVLSRKGEAIDMSQDHRPIYPSERRRVEKLGGYVEDGYLNGVLSVTRALGDWDMKLPRGTPSPLIADPEFHQVVLTEDDEFLIIGCDGIWDVMTSQHAVSLVRKGLRRHDDPEKCARDLVMEALRLNTFDNLTVIIICLSSLDHGESEPSPPPQRKLRCCSLSAEALCSLRSLLEGNASN* |
