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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1273290 | XP_003626931.1 | 94.324 | 370 | 21 | 0 | 1 | 370 | 1 | 370 | 0.0 | 722 |
Co-expression Network
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1273290 | MtrunA17_Chr8g0339041 | 94.324 | 370 | 21 | 0 | 1 | 370 | 1 | 370 | 0.0 | 722 |
| Msa1273290 | MtrunA17_Chr2g0296121 | 23.024 | 291 | 211 | 8 | 63 | 348 | 172 | 454 | 3.20e-13 | 70.9 |
| Msa1273290 | MtrunA17_Chr2g0296301 | 20.130 | 308 | 233 | 9 | 63 | 363 | 80 | 381 | 1.04e-12 | 68.9 |
| Msa1273290 | MtrunA17_Chr4g0043941 | 21.951 | 246 | 182 | 4 | 63 | 298 | 17 | 262 | 2.90e-12 | 67.0 |
| Msa1273290 | MtrunA17_Chr2g0295731 | 20.139 | 288 | 225 | 4 | 62 | 348 | 92 | 375 | 4.55e-12 | 66.6 |
| Msa1273290 | MtrunA17_Chr2g0296151 | 22.260 | 292 | 214 | 7 | 62 | 348 | 85 | 368 | 7.00e-12 | 66.2 |
| Msa1273290 | MtrunA17_Chr2g0296111 | 21.583 | 278 | 206 | 6 | 62 | 333 | 84 | 355 | 9.56e-12 | 65.9 |
| Msa1273290 | MtrunA17_Chr4g0067671 | 21.356 | 295 | 214 | 8 | 47 | 333 | 72 | 356 | 1.20e-11 | 65.5 |
| Msa1273290 | MtrunA17_Chr2g0286191 | 23.052 | 308 | 169 | 11 | 58 | 351 | 107 | 360 | 1.48e-11 | 65.1 |
| Msa1273290 | MtrunA17_Chr2g0295741 | 22.337 | 291 | 213 | 7 | 63 | 348 | 92 | 374 | 1.93e-11 | 65.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1273290 | AT1G79220.1 | 48.485 | 330 | 165 | 3 | 44 | 370 | 72 | 399 | 2.83e-105 | 315 |
| Msa1273290 | AT1G61990.2 | 21.515 | 330 | 204 | 9 | 62 | 349 | 94 | 410 | 8.51e-12 | 66.6 |
| Msa1273290 | AT1G61990.1 | 21.515 | 330 | 204 | 9 | 62 | 349 | 94 | 410 | 8.51e-12 | 66.6 |
| Msa1273290 | AT1G21150.3 | 22.266 | 256 | 191 | 5 | 48 | 297 | 47 | 300 | 2.03e-11 | 65.1 |
| Msa1273290 | AT5G64950.1 | 25.090 | 279 | 183 | 7 | 87 | 348 | 107 | 376 | 2.14e-11 | 65.1 |
| Msa1273290 | AT1G21150.1 | 22.266 | 256 | 191 | 5 | 48 | 297 | 83 | 336 | 2.74e-11 | 65.1 |
| Msa1273290 | AT1G21150.2 | 22.047 | 254 | 194 | 4 | 48 | 297 | 147 | 400 | 3.97e-11 | 64.7 |
| Msa1273290 | AT1G62010.1 | 20.544 | 331 | 217 | 9 | 57 | 347 | 75 | 399 | 7.84e-11 | 63.5 |
Find 61 sgRNAs with CRISPR-Local
Find 170 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATATGTGGTGACATTAAT+AGG | 0.301744 | 8_3:-7002462 | Msa1273290:CDS |
| AAATGTTGAAGACAAATGGA+AGG | 0.655802 | 8_3:-7002958 | Msa1273290:CDS |
| AAGAGTGCTTCTAGCAATGA+AGG | 0.527541 | 8_3:-7002208 | Msa1273290:CDS |
| AAGAGTTAGGTATACCGAAA+AGG | 0.464523 | 8_3:-7002599 | Msa1273290:CDS |
| AAGTAGGATTGGGCTTTCCA+AGG | 0.560292 | 8_3:-7002499 | Msa1273290:CDS |
| AATATAAAAGTAGTTCAGAA+AGG | 0.519070 | 8_3:+7001991 | None:intergenic |
| ACTTCGCTTGCTTAGTGATT+TGG | 0.257285 | 8_3:-7002826 | Msa1273290:CDS |
| ACTTTCGTCGAATAGGTGGC+AGG | 0.582772 | 8_3:+7003008 | None:intergenic |
| AGAAGATGGAATATATAAGT+AGG | 0.535407 | 8_3:-7002515 | Msa1273290:CDS |
| AGAGATTAGCAGTTTCATCA+AGG | 0.536690 | 8_3:-7002035 | Msa1273290:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATGCTTCGATTTCTTTCAAA+TGG | - | chr8_3:7002005-7002024 | Msa1273290:CDS | 30.0% | |
| TGCTTCGATTTCTTTCAAAT+GGG | - | chr8_3:7002006-7002025 | Msa1273290:CDS | 30.0% | |
| TGCAAAATGTTGAAGACAAA+TGG | - | chr8_3:7002138-7002157 | Msa1273290:CDS | 30.0% | |
| AAATGTTGAAGACAAATGGA+AGG | - | chr8_3:7002142-7002161 | Msa1273290:CDS | 30.0% | |
| TATGTCATTGTTTGAGTCAA+AGG | - | chr8_3:7002394-7002413 | Msa1273290:CDS | 30.0% | |
| GAAGTTCTTGAAATAACAGT+CGG | + | chr8_3:7002554-7002573 | None:intergenic | 30.0% | |
| TTTGTACAATTTCGAATCCT+TGG | + | chr8_3:7002621-7002640 | None:intergenic | 30.0% | |
| TGTCAATTGATAAGGTTCAA+AGG | - | chr8_3:7002771-7002790 | Msa1273290:CDS | 30.0% | |
| ATGCTTCGATTTCTTTCAAA+TGG | - | chr8_3:7002005-7002024 | Msa1273290:CDS | 30.0% | |
| TGCTTCGATTTCTTTCAAAT+GGG | - | chr8_3:7002006-7002025 | Msa1273290:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 7002005 | 7003117 | 7002005 | ID=Msa1273290;Name=Msa1273290 |
| chr8_3 | mRNA | 7002005 | 7003117 | 7002005 | ID=Msa1273290-mRNA-1;Parent=Msa1273290;Name=Msa1273290-mRNA-1;_AED=0.33;_eAED=0.33;_QI=0|-1|0|1|-1|1|1|0|370 |
| chr8_3 | exon | 7002005 | 7003117 | 7002005 | ID=Msa1273290-mRNA-1:exon:2762;Parent=Msa1273290-mRNA-1 |
| chr8_3 | CDS | 7002005 | 7003117 | 7002005 | ID=Msa1273290-mRNA-1:cds;Parent=Msa1273290-mRNA-1 |
| Gene Sequence |
>Msa1273290 ATGCTTCGATTTCTTTCAAATGGGTTAAAAAAATTTCACCATTTTACATTCACCCAAGCAATTATAAAAGATTTCCCAGTTTTTATGCCTGCCACCTATTCGACGAAAGTCCCAGCTCAAAATGAGGTTGAAATGCAAAATGTTGAAGACAAATGGAAGGATGCTACTGAAGTTTTGAGTAAATGGGGTTGTGGTGATGACGATTTGGCAAGAATATTCACTCGTTGCCCGTCTTTGCGCAATGCGGATCCTTCTCAGGTTCAGTCGAAACTTCGCTTGCTTAGTGATTTGGGTTTAGGCTCAGCTGAGCTTGTAAAGATTATCAATTGTAGGCCTCGATTTTTCAGGACTCGACTTAACCATAATTTCGACGAGAGGCTTGACTCTCTTATGTCATTGTTTGAGTCAAAGGAAATGCTTCATAAGGCCATTGCAAGAAACCCTTCATTGCTGTGTGAAAATAATTATGACATTGAACGTATTGTTGCACAGTATGAAGAGTTAGGTATACCGAAAAGGGACTTGGTTCAAATGATGATTTTGAGACCGACTGTTATTTCAAGAACTTCCTTTGATGATGAGAAGATGGAATATATAAGTAGGATTGGGCTTTCCAAGGATTCGAAATTGTACAAATATGTGGTGACATTAATAGGCATCTCTCGTGTGGAAACAATTCGCGAAAAGGTGTTGAATTTTACAAAGTATGGTTTTTCGGATGATGAAATATTCGGTCTTTTTGGGAAGTCTCCTAATATTTTGACATTGTCAATTGATAAGGTTCAAAGGAACATGACTTTCATTTTAGGCACAATGAAGCTTGAAGCTAACATAATCTTTACGTACCCATATCTGTTGTTTTCAAATATGGAGACTGTTTTGAAGCCAAGAGTGCTTCTAGCAATGAAGGTACAGAATATGGTTCCTAATATGAAAACACCCTCAATACTTAGAGCATTGAGGATGTCCGAGGAGAGGTTTTTCAATACGTTTGTCAGATGCCATGATAAGGAAATTGCTGATGAGTTAATGGAATTTTATAAAAGGACAAAACAGGTCAAGAGATTAGCAGTTTCATCAAGGAATTGGACTACTAGAGGATTCCCTTTCTGA |
| Protein sequence |
>Msa1273290 MLRFLSNGLKKFHHFTFTQAIIKDFPVFMPATYSTKVPAQNEVEMQNVEDKWKDATEVLSKWGCGDDDLARIFTRCPSLRNADPSQVQSKLRLLSDLGLGSAELVKIINCRPRFFRTRLNHNFDERLDSLMSLFESKEMLHKAIARNPSLLCENNYDIERIVAQYEELGIPKRDLVQMMILRPTVISRTSFDDEKMEYISRIGLSKDSKLYKYVVTLIGISRVETIREKVLNFTKYGFSDDEIFGLFGKSPNILTLSIDKVQRNMTFILGTMKLEANIIFTYPYLLFSNMETVLKPRVLLAMKVQNMVPNMKTPSILRALRMSEERFFNTFVRCHDKEIADELMEFYKRTKQVKRLAVSSRNWTTRGFPF* |
