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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0248560 | ABD32433.2 | 92.880 | 309 | 22 | 0 | 1 | 309 | 9 | 317 | 0.0 | 595 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0248560 | sp|Q9SQK3|EM506_ARATH | 57.246 | 276 | 108 | 2 | 40 | 307 | 38 | 311 | 2.75e-105 | 312 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001950 | Msa0248560 | 0.815684 | 8.150611e-52 | -8.615850e-47 |
| Msa0003470 | Msa0248560 | 0.866822 | 2.152873e-65 | -8.615850e-47 |
| Msa0006820 | Msa0248560 | 0.805903 | 1.065956e-49 | -8.615850e-47 |
| Msa0007450 | Msa0248560 | 0.820756 | 5.796867e-53 | -8.615850e-47 |
| Msa0008850 | Msa0248560 | 0.838461 | 2.836560e-57 | -8.615850e-47 |
| Msa0012460 | Msa0248560 | 0.807287 | 5.441196e-50 | -8.615850e-47 |
| Msa0017120 | Msa0248560 | 0.846604 | 1.957396e-59 | -8.615850e-47 |
| Msa0017940 | Msa0248560 | 0.837020 | 6.647639e-57 | -8.615850e-47 |
| Msa0020630 | Msa0248560 | 0.810069 | 1.384607e-50 | -8.615850e-47 |
| Msa0021300 | Msa0248560 | 0.826696 | 2.354479e-54 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0248560 | MtrunA17_Chr2g0303671 | 92.880 | 309 | 22 | 0 | 1 | 309 | 1 | 309 | 0.0 | 595 |
| Msa0248560 | MtrunA17_Chr5g0405451 | 44.712 | 208 | 114 | 1 | 97 | 304 | 219 | 425 | 3.56e-55 | 185 |
| Msa0248560 | MtrunA17_Chr5g0406201 | 48.235 | 170 | 88 | 0 | 138 | 307 | 291 | 460 | 1.17e-52 | 179 |
| Msa0248560 | MtrunA17_Chr5g0418551 | 36.232 | 138 | 88 | 0 | 147 | 284 | 89 | 226 | 1.40e-21 | 91.7 |
| Msa0248560 | MtrunA17_Chr5g0418551 | 34.454 | 119 | 75 | 3 | 178 | 294 | 87 | 204 | 6.27e-15 | 73.2 |
| Msa0248560 | MtrunA17_Chr3g0127131 | 39.091 | 110 | 61 | 3 | 193 | 298 | 246 | 353 | 1.54e-14 | 73.2 |
| Msa0248560 | MtrunA17_Chr6g0461061 | 28.652 | 178 | 124 | 3 | 126 | 302 | 189 | 364 | 1.25e-12 | 68.2 |
| Msa0248560 | MtrunA17_Chr5g0409271 | 29.139 | 151 | 104 | 2 | 139 | 288 | 4 | 152 | 8.39e-12 | 64.3 |
| Msa0248560 | MtrunA17_Chr1g0211231 | 26.374 | 182 | 130 | 2 | 102 | 279 | 14 | 195 | 1.39e-11 | 65.1 |
| Msa0248560 | MtrunA17_Chr2g0328031 | 30.719 | 153 | 93 | 2 | 132 | 271 | 30 | 182 | 1.83e-11 | 64.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0248560 | AT5G40160.1 | 57.246 | 276 | 108 | 2 | 40 | 307 | 38 | 311 | 2.80e-106 | 312 |
| Msa0248560 | AT5G40160.2 | 54.962 | 262 | 104 | 3 | 40 | 293 | 38 | 293 | 8.19e-90 | 270 |
| Msa0248560 | AT5G66055.1 | 44.221 | 199 | 108 | 2 | 111 | 307 | 222 | 419 | 4.05e-51 | 174 |
| Msa0248560 | AT5G66055.2 | 42.446 | 139 | 77 | 2 | 111 | 247 | 222 | 359 | 6.14e-28 | 111 |
| Msa0248560 | AT2G03430.1 | 34.783 | 138 | 90 | 0 | 147 | 284 | 82 | 219 | 2.82e-18 | 82.8 |
| Msa0248560 | AT2G03430.1 | 28.814 | 177 | 119 | 4 | 130 | 301 | 29 | 203 | 5.30e-12 | 65.1 |
| Msa0248560 | AT2G25600.1 | 42.857 | 84 | 48 | 0 | 194 | 277 | 557 | 640 | 1.44e-13 | 71.6 |
| Msa0248560 | AT4G27780.1 | 37.113 | 97 | 58 | 1 | 193 | 286 | 242 | 338 | 5.33e-13 | 69.3 |
| Msa0248560 | AT5G53470.1 | 36.082 | 97 | 59 | 1 | 193 | 286 | 227 | 323 | 2.07e-12 | 67.4 |
| Msa0248560 | AT2G14255.1 | 32.624 | 141 | 92 | 2 | 150 | 287 | 93 | 233 | 3.56e-12 | 67.4 |
Find 81 sgRNAs with CRISPR-Local
Find 223 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGCAAGCACAGTAGCGGG+CGG | 0.710219 | 2_2:+32710383 | Msa0248560:five_prime_UTR |
| AAAGTTGTTTAATATTTAAA+TGG | 0.256738 | 2_2:+32714115 | Msa0248560:three_prime_UTR |
| AAGAAAGCAAGCACAGTAGC+GGG | 0.529268 | 2_2:+32710380 | Msa0248560:five_prime_UTR |
| AAGAGAAGAAGGATAAGTAA+AGG | 0.514249 | 2_2:+32710427 | Msa0248560:five_prime_UTR |
| AAGTCCTCATGTCCAGGATA+AGG | 0.522498 | 2_2:+32712676 | Msa0248560:CDS |
| AAGTCTTATTTCAGATATGT+AGG | 0.425070 | 2_2:+32713991 | Msa0248560:three_prime_UTR |
| AATTTATCCACACCTTATCC+TGG | 0.484529 | 2_2:-32712688 | None:intergenic |
| ACAGAATATAACTCCTAATT+TGG | 0.193363 | 2_2:+32712304 | Msa0248560:CDS |
| ACGAATATCTGGTTCTTCCC+AGG | 0.501030 | 2_2:-32711473 | None:intergenic |
| ACTAACTCCAAATTGGGAGC+CGG | 0.582328 | 2_2:+32711310 | Msa0248560:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAGAGAAGAAGGATAAGTAA+AGG | + | chr2_2:32710427-32710446 | Msa0248560:five_prime_UTR | 30.0% | |
| ATGAAGAAGAAACGAAGAAT+TGG | - | chr2_2:32710559-32710578 | None:intergenic | 30.0% | |
| TAATTGTTGGAGATAAGAAC+TGG | - | chr2_2:32711032-32711051 | None:intergenic | 30.0% | |
| GTTCTTATCTCCAACAATTA+AGG | + | chr2_2:32711032-32711051 | Msa0248560:intron | 30.0% | |
| AAAAGTAGGAATTGTTCTAG+AGG | - | chr2_2:32711068-32711087 | None:intergenic | 30.0% | |
| AGGCATTTGAAAACAAAAGT+AGG | - | chr2_2:32711082-32711101 | None:intergenic | 30.0% | |
| AGCCTTGGATTTAAAAATGA+TGG | + | chr2_2:32711535-32711554 | Msa0248560:CDS | 30.0% | |
| GCCTTGGATTTAAAAATGAT+GGG | + | chr2_2:32711536-32711555 | Msa0248560:CDS | 30.0% | |
| CCTTGGATTTAAAAATGATG+GGG | + | chr2_2:32711537-32711556 | Msa0248560:CDS | 30.0% | |
| CTGATCAATGATCATGATTA+TGG | - | chr2_2:32711781-32711800 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 32710309 | 32714155 | 32710309 | ID=Msa0248560;Name=Msa0248560 |
| chr2_2 | mRNA | 32710309 | 32714155 | 32710309 | ID=Msa0248560-mRNA-1;Parent=Msa0248560;Name=Msa0248560-mRNA-1;_AED=0.12;_eAED=0.12;_QI=156|1|1|1|0.85|0.87|8|407|309 |
| chr2_2 | exon | 32710309 | 32710454 | 32710309 | ID=Msa0248560-mRNA-1:exon:11144;Parent=Msa0248560-mRNA-1 |
| chr2_2 | exon | 32711243 | 32711610 | 32711243 | ID=Msa0248560-mRNA-1:exon:11145;Parent=Msa0248560-mRNA-1 |
| chr2_2 | exon | 32712261 | 32712340 | 32712261 | ID=Msa0248560-mRNA-1:exon:11146;Parent=Msa0248560-mRNA-1 |
| chr2_2 | exon | 32712421 | 32712519 | 32712421 | ID=Msa0248560-mRNA-1:exon:11147;Parent=Msa0248560-mRNA-1 |
| chr2_2 | exon | 32712599 | 32712697 | 32712599 | ID=Msa0248560-mRNA-1:exon:11148;Parent=Msa0248560-mRNA-1 |
| chr2_2 | exon | 32712783 | 32712881 | 32712783 | ID=Msa0248560-mRNA-1:exon:11149;Parent=Msa0248560-mRNA-1 |
| chr2_2 | exon | 32712979 | 32713077 | 32712979 | ID=Msa0248560-mRNA-1:exon:11150;Parent=Msa0248560-mRNA-1 |
| chr2_2 | exon | 32713653 | 32714155 | 32713653 | ID=Msa0248560-mRNA-1:exon:11151;Parent=Msa0248560-mRNA-1 |
| chr2_2 | five_prime_UTR | 32710309 | 32710454 | 32710309 | ID=Msa0248560-mRNA-1:five_prime_utr;Parent=Msa0248560-mRNA-1 |
| chr2_2 | five_prime_UTR | 32711243 | 32711252 | 32711243 | ID=Msa0248560-mRNA-1:five_prime_utr;Parent=Msa0248560-mRNA-1 |
| chr2_2 | CDS | 32711253 | 32711610 | 32711253 | ID=Msa0248560-mRNA-1:cds;Parent=Msa0248560-mRNA-1 |
| chr2_2 | CDS | 32712261 | 32712340 | 32712261 | ID=Msa0248560-mRNA-1:cds;Parent=Msa0248560-mRNA-1 |
| chr2_2 | CDS | 32712421 | 32712519 | 32712421 | ID=Msa0248560-mRNA-1:cds;Parent=Msa0248560-mRNA-1 |
| chr2_2 | CDS | 32712599 | 32712697 | 32712599 | ID=Msa0248560-mRNA-1:cds;Parent=Msa0248560-mRNA-1 |
| chr2_2 | CDS | 32712783 | 32712881 | 32712783 | ID=Msa0248560-mRNA-1:cds;Parent=Msa0248560-mRNA-1 |
| chr2_2 | CDS | 32712979 | 32713077 | 32712979 | ID=Msa0248560-mRNA-1:cds;Parent=Msa0248560-mRNA-1 |
| chr2_2 | CDS | 32713653 | 32713748 | 32713653 | ID=Msa0248560-mRNA-1:cds;Parent=Msa0248560-mRNA-1 |
| chr2_2 | three_prime_UTR | 32713749 | 32714155 | 32713749 | ID=Msa0248560-mRNA-1:three_prime_utr;Parent=Msa0248560-mRNA-1 |
| Gene Sequence |
>Msa0248560 ATGGATTGTTTGGCTACATCACCTGTTCTTTCTAATAAATTTATTCCTTTTTCTACCACTAACTCCAAATTGGGAGCCGGTTTCCACAGAATATACAGACGTACAACCAAACAAAAATTACGTCTCTCTTTTTATAAGGAGAATTGCGAAGGTCGGAGTAATGTTGCAATCAAATCAAGCAGAGGAGTATCTTCTTTGCAAACCCAACAAGAACATGGAACCTGGGAAGAACCAGATATTCGTAGTGACAGTGACGATGAGTATGCTGACGAAGAAGATAAAAGCCTTGGATTTAAAAATGATGGGGAGCAGGAAGAGACAGAGACGCAGGACGAGTATGAGGAGCGTATTAAGAAAGAGGTTGAACGACTTTTAAAACCAGAAGAACTAGAAATACTGCAACAGAATATAACTCCTAATTTGGAAAAAATATCATCTGAAAAATGGAGCCCGCTGCACTCTCTTGGCTTATCATTTCAGATTTTTAGTATGGACAAGCTTCTTGAAAGTGGTCATGATATTGATTTCGTCAATAAGGAAGGTCTCACTGCACTTCATAAGGCGGTTATAGGTAAAAAAGAAGCTGTTATAAGCCATCTTTTACGGAAAGGTGCAAGTCCTCATGTCCAGGATAAGGATGGAGCTACTCCACTTCATTATGCAGTTCAAGTTGGTGCAAAGCAAACTGTGAAATTATTGATCAAATACAATGTTGATGTCAATGTGGCAGATAATGAAGGTTGGACCCCATTGCATGTTGCCGTTCAAAGCCGGAATAGAGATATAGCGAAAATTTTGTTAGCCAATGGCGCAGATAGATCGATAGAAAATAAGGATGGGAAAACAGCACTGGATATAAGTATATGTTATGGAAAAGACTTCATGTCTTATGACCTTGCTAGATTAATTAAGATAGGTCCAGGCAACTGA |
| Protein sequence |
>Msa0248560 MDCLATSPVLSNKFIPFSTTNSKLGAGFHRIYRRTTKQKLRLSFYKENCEGRSNVAIKSSRGVSSLQTQQEHGTWEEPDIRSDSDDEYADEEDKSLGFKNDGEQEETETQDEYEERIKKEVERLLKPEELEILQQNITPNLEKISSEKWSPLHSLGLSFQIFSMDKLLESGHDIDFVNKEGLTALHKAVIGKKEAVISHLLRKGASPHVQDKDGATPLHYAVQVGAKQTVKLLIKYNVDVNVADNEGWTPLHVAVQSRNRDIAKILLANGADRSIENKDGKTALDISICYGKDFMSYDLARLIKIGPGN* |
