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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0737250 | XP_003616359.1 | 96.014 | 276 | 11 | 0 | 1 | 276 | 1 | 276 | 0.0 | 548 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0737250 | sp|Q9FNV9|MY113_ARATH | 52.995 | 217 | 75 | 5 | 19 | 221 | 6 | 209 | 7.04e-63 | 201 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0737250 | Msa0778940 | 0.876005 | 1.968520e-68 | -8.615850e-47 |
| Msa0737250 | Msa0816340 | 0.849639 | 2.841128e-60 | -8.615850e-47 |
| Msa0737250 | Msa0856540 | 0.853089 | 3.007749e-61 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0737250 | MtrunA17_Chr5g0434911 | 96.014 | 276 | 11 | 0 | 1 | 276 | 1 | 276 | 0.0 | 548 |
| Msa0737250 | MtrunA17_Chr5g0434931 | 65.517 | 261 | 72 | 6 | 18 | 270 | 32 | 282 | 4.21e-107 | 311 |
| Msa0737250 | MtrunA17_Chr5g0434841 | 56.289 | 318 | 84 | 10 | 1 | 268 | 1 | 313 | 3.73e-102 | 300 |
| Msa0737250 | MtrunA17_Chr7g0228991 | 63.320 | 259 | 79 | 7 | 19 | 272 | 27 | 274 | 5.37e-102 | 298 |
| Msa0737250 | MtrunA17_Chr7g0220341 | 58.545 | 275 | 90 | 7 | 9 | 272 | 13 | 274 | 1.95e-101 | 297 |
| Msa0737250 | MtrunA17_Chr5g0434831 | 74.033 | 181 | 41 | 3 | 17 | 192 | 3 | 182 | 1.78e-85 | 253 |
| Msa0737250 | MtrunA17_Chr8g0360111 | 56.410 | 273 | 87 | 6 | 8 | 272 | 12 | 260 | 5.76e-84 | 252 |
| Msa0737250 | MtrunA17_Chr7g0229101 | 53.333 | 225 | 80 | 6 | 53 | 272 | 4 | 208 | 3.95e-59 | 187 |
| Msa0737250 | MtrunA17_Chr7g0240821 | 63.235 | 136 | 46 | 1 | 25 | 160 | 5 | 136 | 6.74e-58 | 184 |
| Msa0737250 | MtrunA17_Chr5g0434901 | 79.279 | 111 | 22 | 1 | 55 | 165 | 7 | 116 | 2.47e-51 | 164 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0737250 | AT1G66370.1 | 52.995 | 217 | 75 | 5 | 19 | 221 | 6 | 209 | 7.16e-64 | 201 |
| Msa0737250 | AT1G66390.1 | 52.679 | 224 | 75 | 6 | 13 | 221 | 1 | 208 | 2.59e-55 | 179 |
| Msa0737250 | AT1G56650.1 | 49.367 | 237 | 90 | 7 | 13 | 237 | 1 | 219 | 1.63e-54 | 177 |
| Msa0737250 | AT1G66380.1 | 79.464 | 112 | 22 | 1 | 13 | 124 | 1 | 111 | 9.39e-53 | 169 |
| Msa0737250 | AT3G13540.1 | 45.405 | 185 | 85 | 4 | 3 | 183 | 1 | 173 | 8.73e-49 | 162 |
| Msa0737250 | AT5G14750.1 | 56.637 | 113 | 49 | 0 | 22 | 134 | 17 | 129 | 1.06e-43 | 147 |
| Msa0737250 | AT5G40330.1 | 60.577 | 104 | 41 | 0 | 22 | 125 | 13 | 116 | 1.32e-43 | 148 |
| Msa0737250 | AT1G22640.1 | 61.321 | 106 | 41 | 0 | 23 | 128 | 14 | 119 | 2.50e-43 | 148 |
| Msa0737250 | AT4G38620.1 | 53.226 | 124 | 58 | 0 | 23 | 146 | 14 | 137 | 7.59e-43 | 148 |
| Msa0737250 | AT4G09460.1 | 42.938 | 177 | 95 | 2 | 23 | 198 | 14 | 185 | 9.42e-43 | 146 |
Find 52 sgRNAs with CRISPR-Local
Find 176 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTTTCTCTATTGATGG+TGG | 0.518195 | 5_1:-54346411 | None:intergenic |
| AAAAGGTGCATGGACATATG+AGG | 0.529512 | 5_1:+54346119 | Msa0737250:CDS |
| AAACTTTCTCTATTGATGGT+GGG | 0.522978 | 5_1:-54346410 | None:intergenic |
| AAAGTTCTCAACATTTAATT+TGG | 0.173284 | 5_1:-54347669 | None:intergenic |
| AACACTGTCTTCCATGTGGT+GGG | 0.581039 | 5_1:+54347580 | Msa0737250:CDS |
| AACGTGAGCAATGACAAAAT+TGG | 0.485163 | 5_1:+54347614 | Msa0737250:CDS |
| AAGACTAGAGGTGTGAGAAA+AGG | 0.510939 | 5_1:+54346102 | Msa0737250:CDS |
| AAGAGAGTCAAATTCACAAA+TGG | 0.496518 | 5_1:-54347738 | None:intergenic |
| AAGCAATCACCGACAGTACT+GGG | 0.544779 | 5_1:-54347704 | None:intergenic |
| AAGGCTTGTATACAGAAGTA+TGG | 0.446225 | 5_1:+54346156 | Msa0737250:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATGTACTTGCAGGATTAAAT+AGG | + | chr5_1:54346345-54346364 | Msa0737250:intron | 30.0% | |
| AAAACTTTCTCTATTGATGG+TGG | - | chr5_1:54346414-54346433 | None:intergenic | 30.0% | |
| AGGACAAGTGTCTTAAAATA+TGG | + | chr5_1:54346889-54346908 | Msa0737250:intron | 30.0% | |
| GGACAAGTGTCTTAAAATAT+GGG | + | chr5_1:54346890-54346909 | Msa0737250:intron | 30.0% | |
| GACAAGTGTCTTAAAATATG+GGG | + | chr5_1:54346891-54346910 | Msa0737250:intron | 30.0% | |
| ACAAGTGTCTTAAAATATGG+GGG | + | chr5_1:54346892-54346911 | Msa0737250:intron | 30.0% | |
| CATCAACATATTACATCGAT+CGG | - | chr5_1:54347009-54347028 | None:intergenic | 30.0% | |
| TCTCATTCAACATGGTTAAA+TGG | + | chr5_1:54347419-54347438 | Msa0737250:CDS | 30.0% | |
| CTCATTCAACATGGTTAAAT+GGG | + | chr5_1:54347420-54347439 | Msa0737250:CDS | 30.0% | |
| ATTCTACCAATTAATGGTGA+TGG | + | chr5_1:54347524-54347543 | Msa0737250:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_1 | gene | 54346054 | 54347781 | 54346054 | ID=Msa0737250;Name=Msa0737250 |
| chr5_1 | mRNA | 54346054 | 54347781 | 54346054 | ID=Msa0737250-mRNA-1;Parent=Msa0737250;Name=Msa0737250-mRNA-1;_AED=0.07;_eAED=0.07;_QI=0|0|0|1|1|1|3|0|276 |
| chr5_1 | exon | 54346054 | 54346213 | 54346054 | ID=Msa0737250-mRNA-1:exon:15258;Parent=Msa0737250-mRNA-1 |
| chr5_1 | exon | 54346357 | 54346486 | 54346357 | ID=Msa0737250-mRNA-1:exon:15259;Parent=Msa0737250-mRNA-1 |
| chr5_1 | exon | 54347241 | 54347781 | 54347241 | ID=Msa0737250-mRNA-1:exon:15260;Parent=Msa0737250-mRNA-1 |
| chr5_1 | CDS | 54346054 | 54346213 | 54346054 | ID=Msa0737250-mRNA-1:cds;Parent=Msa0737250-mRNA-1 |
| chr5_1 | CDS | 54346357 | 54346486 | 54346357 | ID=Msa0737250-mRNA-1:cds;Parent=Msa0737250-mRNA-1 |
| chr5_1 | CDS | 54347241 | 54347781 | 54347241 | ID=Msa0737250-mRNA-1:cds;Parent=Msa0737250-mRNA-1 |
| Gene Sequence |
>Msa0737250 ATGCCTTTGTTTGTCTGTGGACAAAAGCAAGTGCATATGGAGAAGAGTAAGACTAGAGGTGTGAGAAAAGGTGCATGGACATATGAGGAAGACAAGCTACTCAAGGCTTGTATACAGAAGTATGGTGAAGGAAAATGGCATTTAGTTCCACAAAGAGCAGGATTAAATAGGTGTCGGAAAAGTTGTAGATTGAGGTGGTTAAATTATTTAAATCCCACCATCAATAGAGAAAGTTTTTCTGAGGATGAAGTTGATATGATTCTAAGGTTACACAAGCTCCTAGGAAACAGATGGTCATTGATTGCTGCAAGACTTCCGGGTAGAACAGCTAATGATGTGAAGAATTATTGGCACACACATTTGAGAAAGAAGATGGTTTCAAGAAAAGAAGAAAAGAAAGAAAATGAGAAGCCTAAAGAAAGCATGCAAACTCATGAAGTGATTAAACCTCAACCTCGAACTTTTTCATCTCATTCAACATGGTTAAATGGGAAATATAATAAATTTGTGACACCAATAGTGACGGTTTCAACAAATGATGGTACTGTTGCAAAAGATAGTGAAGTAGATACTATTCTACCAATTAATGGTGATGGAGATTGTGCTGCACAACCATATCTTGAAAATTCAACACTGTCTTCCATGTGGTGGGAGAGTTTGTTGAACGTGAGCAATGACAAAATTGGATCATGCTCTTTACTATTACCAGAGGAATATTCCAAATTAAATGTTGAGAACTTTCTTACTGAAGGACCCAGTACTGTCGGTGATTGCTTCTGGGATTCTACCATTTGTGAATTTGACTCTCTTTTAGATGATATCTTAAATTAG |
| Protein sequence |
>Msa0737250 MPLFVCGQKQVHMEKSKTRGVRKGAWTYEEDKLLKACIQKYGEGKWHLVPQRAGLNRCRKSCRLRWLNYLNPTINRESFSEDEVDMILRLHKLLGNRWSLIAARLPGRTANDVKNYWHTHLRKKMVSRKEEKKENEKPKESMQTHEVIKPQPRTFSSHSTWLNGKYNKFVTPIVTVSTNDGTVAKDSEVDTILPINGDGDCAAQPYLENSTLSSMWWESLLNVSNDKIGSCSLLLPEEYSKLNVENFLTEGPSTVGDCFWDSTICEFDSLLDDILN* |
