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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0419400 | XP_003601210.2 | 100.000 | 191 | 0 | 0 | 1 | 191 | 1 | 191 | 9.96e-138 | 392 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0419400 | sp|Q9FML4|LOB_ARATH | 75.000 | 148 | 19 | 2 | 1 | 130 | 1 | 148 | 3.36e-72 | 219 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0419400 | Msa0510850 | 0.962758 | 2.926269e-121 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0419400 | MtrunA17_Chr3g0117121 | 100.000 | 191 | 0 | 0 | 1 | 191 | 1 | 191 | 9.16e-142 | 392 |
| Msa0419400 | MtrunA17_Chr4g0058651 | 75.000 | 176 | 34 | 4 | 7 | 177 | 8 | 178 | 3.39e-86 | 252 |
| Msa0419400 | MtrunA17_Chr7g0227511 | 59.278 | 194 | 56 | 3 | 1 | 193 | 1 | 172 | 1.61e-71 | 214 |
| Msa0419400 | MtrunA17_Chr6g0449641 | 64.151 | 159 | 30 | 2 | 1 | 159 | 1 | 132 | 9.77e-66 | 198 |
| Msa0419400 | MtrunA17_Chr6g0449651 | 78.261 | 115 | 25 | 0 | 1 | 115 | 58 | 172 | 8.94e-64 | 195 |
| Msa0419400 | MtrunA17_Chr8g0353981 | 75.221 | 113 | 25 | 1 | 1 | 113 | 1 | 110 | 2.92e-52 | 167 |
| Msa0419400 | MtrunA17_Chr5g0402611 | 55.556 | 153 | 58 | 1 | 4 | 156 | 2 | 144 | 1.74e-51 | 167 |
| Msa0419400 | MtrunA17_Chr5g0437571 | 71.154 | 104 | 30 | 0 | 8 | 111 | 4 | 107 | 2.63e-50 | 160 |
| Msa0419400 | MtrunA17_Chr2g0311601 | 56.934 | 137 | 59 | 0 | 9 | 145 | 12 | 148 | 4.36e-50 | 159 |
| Msa0419400 | MtrunA17_Chr3g0115431 | 54.140 | 157 | 68 | 2 | 4 | 157 | 3 | 158 | 8.54e-48 | 155 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0419400 | AT5G63090.4 | 75.000 | 148 | 19 | 2 | 1 | 130 | 1 | 148 | 3.42e-73 | 219 |
| Msa0419400 | AT5G63090.3 | 75.000 | 148 | 19 | 2 | 1 | 130 | 1 | 148 | 3.42e-73 | 219 |
| Msa0419400 | AT5G63090.2 | 75.000 | 148 | 19 | 2 | 1 | 130 | 1 | 148 | 3.42e-73 | 219 |
| Msa0419400 | AT5G63090.1 | 75.000 | 148 | 19 | 2 | 1 | 130 | 1 | 148 | 3.42e-73 | 219 |
| Msa0419400 | AT3G27650.1 | 79.279 | 111 | 23 | 0 | 4 | 114 | 33 | 143 | 4.04e-63 | 192 |
| Msa0419400 | AT1G65620.1 | 73.451 | 113 | 29 | 1 | 1 | 113 | 1 | 112 | 3.81e-51 | 164 |
| Msa0419400 | AT1G65620.4 | 73.451 | 113 | 29 | 1 | 1 | 113 | 1 | 112 | 3.81e-51 | 164 |
| Msa0419400 | AT1G65620.3 | 73.451 | 113 | 29 | 1 | 1 | 113 | 1 | 112 | 3.81e-51 | 164 |
| Msa0419400 | AT1G65620.5 | 73.451 | 113 | 29 | 1 | 1 | 113 | 1 | 112 | 3.81e-51 | 164 |
| Msa0419400 | AT1G65620.2 | 73.451 | 113 | 29 | 1 | 1 | 113 | 1 | 112 | 3.81e-51 | 164 |
Find 65 sgRNAs with CRISPR-Local
Find 230 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGATAGAGAGATATAGA+GGG | 0.528555 | 3_2:-67447059 | None:intergenic |
| AACGAAGCCGGAACAACAAG+AGG | 0.585009 | 3_2:-67448706 | None:intergenic |
| AAGCCGGAACAACAAGAGGA+GGG | 0.639232 | 3_2:-67448702 | None:intergenic |
| AATGGAAATGTTGATGGAAA+TGG | 0.392662 | 3_2:+67448766 | Msa0419400:CDS |
| AATTAGGGTTTCCTCTTTAA+GGG | 0.304187 | 3_2:+67447114 | Msa0419400:five_prime_UTR |
| AATTCACTGCATCTTCTCTC+TGG | 0.451599 | 3_2:-67448504 | None:intergenic |
| ACAACAAGAGGAGGGAGAGG+TGG | 0.543814 | 3_2:-67448694 | None:intergenic |
| ACAAGTTCAGAGGCTTCAAA+AGG | 0.506762 | 3_2:+67448603 | Msa0419400:CDS |
| ACCTCTTCTGAGGATATAAG+TGG | 0.541161 | 3_2:+67448832 | Msa0419400:CDS |
| ACTGCATCTTCTCTCTGGTG+AGG | 0.556115 | 3_2:-67448499 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AATTAGGGTTTCCTCTTTAA+GGG | + | chr3_2:67447114-67447133 | Msa0419400:five_prime_UTR | 30.0% | |
| TCACGTAGATTTATTAGATG+AGG | - | chr3_2:67447149-67447168 | None:intergenic | 30.0% | |
| GATCAGGAGAATTACTAAAA+GGG | - | chr3_2:67447246-67447265 | None:intergenic | 30.0% | |
| TGATCAGGAGAATTACTAAA+AGG | - | chr3_2:67447247-67447266 | None:intergenic | 30.0% | |
| ATATGTAGGTTTCTTTGATC+AGG | - | chr3_2:67447262-67447281 | None:intergenic | 30.0% | |
| TTTACCTGTTTGTGATATGT+AGG | - | chr3_2:67447276-67447295 | None:intergenic | 30.0% | |
| AATAAATCGAACCAAAGATC+TGG | - | chr3_2:67447483-67447502 | None:intergenic | 30.0% | |
| TACATGAGACTTTACTTTGT+TGG | - | chr3_2:67447887-67447906 | None:intergenic | 30.0% | |
| TTAATCCATGGAATAGCATA+AGG | - | chr3_2:67448808-67448827 | None:intergenic | 30.0% | |
| AATTAGGGTTTCCTCTTTAA+GGG | + | chr3_2:67447114-67447133 | Msa0419400:five_prime_UTR | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 67447028 | 67448900 | 67447028 | ID=Msa0419400;Name=Msa0419400 |
| chr3_2 | mRNA | 67447028 | 67448900 | 67447028 | ID=Msa0419400-mRNA-1;Parent=Msa0419400;Name=Msa0419400-mRNA-1;_AED=0.01;_eAED=0.01;_QI=193|1|0.66|1|0|0|3|0|193 |
| chr3_2 | exon | 67447028 | 67447135 | 67447028 | ID=Msa0419400-mRNA-1:exon:15683;Parent=Msa0419400-mRNA-1 |
| chr3_2 | exon | 67447214 | 67447290 | 67447214 | ID=Msa0419400-mRNA-1:exon:15684;Parent=Msa0419400-mRNA-1 |
| chr3_2 | exon | 67448314 | 67448900 | 67448314 | ID=Msa0419400-mRNA-1:exon:15685;Parent=Msa0419400-mRNA-1 |
| chr3_2 | five_prime_UTR | 67447028 | 67447135 | 67447028 | ID=Msa0419400-mRNA-1:five_prime_utr;Parent=Msa0419400-mRNA-1 |
| chr3_2 | five_prime_UTR | 67447214 | 67447290 | 67447214 | ID=Msa0419400-mRNA-1:five_prime_utr;Parent=Msa0419400-mRNA-1 |
| chr3_2 | five_prime_UTR | 67448314 | 67448321 | 67448314 | ID=Msa0419400-mRNA-1:five_prime_utr;Parent=Msa0419400-mRNA-1 |
| chr3_2 | CDS | 67448322 | 67448900 | 67448322 | ID=Msa0419400-mRNA-1:cds;Parent=Msa0419400-mRNA-1 |
| Gene Sequence |
>Msa0419400 ATGGCATCATCAAGCTCATACAATTCACCATGTGCAGCCTGCAAATTCCTTCGTCGAAAATGCATGCCAGGCTGCATCTTTGCACCATACTTTCCACCAGAAGAACCTCAAAAATTCGCCAACGTTCACAAGATCTTCGGCGCAAGCAACGTCACGAAGATCCTCAACGAACTCCTCCCTCACCAGAGAGAAGATGCAGTGAATTCCCTTGCTTATGAAGCCGAGGCACGTGTGAGAGATCCTGTTTATGGTTGTGTTGGTGCCATCTCTTTCCTTCAGAGACAAGTTCAGAGGCTTCAAAAGGAACTTGATTCTGCTAATGCTGATCTTCTTCGCTTTGCTTACAATGAAATCTCTCCTAATTCCTCTCTTCCACCTCTCCCTCCTCTTGTTGTTCCGGCTTCGTTTCATCAATCTCAAAGACAGTTTAGTTCAAGATTTGGTAATGGAAATGTTGATGGAAATGGATTTTACTCTTCTTTTCCTTATGCTATTCCATGGATTAATGATACCTCTTCTGAGGATATAAGTGGAGGTGTAGGAGGAAGAGGAGGAGGTGTAGGAGGAGGTAATAATTTG |
| Protein sequence |
>Msa0419400 MASSSSYNSPCAACKFLRRKCMPGCIFAPYFPPEEPQKFANVHKIFGASNVTKILNELLPHQREDAVNSLAYEAEARVRDPVYGCVGAISFLQRQVQRLQKELDSANADLLRFAYNEISPNSSLPPLPPLVVPASFHQSQRQFSSRFGNGNVDGNGFYSSFPYAIPWINDTSSEDISGGVGGRGGGVGGGNNL |
