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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0459830 | XP_039687286.1 | 72.626 | 358 | 25 | 4 | 1 | 286 | 1 | 357 | 2.84e-162 | 485 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0459830 | sp|C0LGD7|Y1684_ARATH | 50.769 | 325 | 87 | 4 | 32 | 284 | 31 | 354 | 2.91e-87 | 282 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0367210 | Msa0459830 | 0.818752 | 1.663307e-52 | -8.615850e-47 |
| Msa0459810 | Msa0459830 | 0.802707 | 4.937592e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0459830 | MtrunA17_Chr3g0108351 | 72.626 | 358 | 25 | 4 | 1 | 286 | 1 | 357 | 2.62e-166 | 485 |
| Msa0459830 | MtrunA17_Chr3g0108361 | 53.501 | 357 | 91 | 7 | 1 | 286 | 6 | 358 | 4.65e-110 | 340 |
| Msa0459830 | MtrunA17_Chr5g0432871 | 53.846 | 325 | 77 | 4 | 34 | 286 | 30 | 353 | 1.96e-92 | 293 |
| Msa0459830 | MtrunA17_Chr7g0245221 | 43.917 | 337 | 113 | 7 | 10 | 275 | 7 | 338 | 1.22e-77 | 253 |
| Msa0459830 | MtrunA17_Chr7g0221711 | 44.214 | 337 | 112 | 7 | 10 | 275 | 7 | 338 | 2.61e-71 | 236 |
| Msa0459830 | MtrunA17_Chr6g0476611 | 36.752 | 234 | 117 | 5 | 37 | 269 | 29 | 232 | 1.57e-36 | 137 |
| Msa0459830 | MtrunA17_Chr4g0013511 | 33.984 | 256 | 156 | 7 | 19 | 272 | 18 | 262 | 1.75e-36 | 131 |
| Msa0459830 | MtrunA17_Chr6g0464211 | 33.591 | 259 | 162 | 5 | 17 | 274 | 25 | 274 | 3.43e-36 | 137 |
| Msa0459830 | MtrunA17_Chr6g0464211 | 37.363 | 182 | 111 | 3 | 95 | 274 | 366 | 546 | 2.68e-23 | 99.8 |
| Msa0459830 | MtrunA17_Chr6g0464211 | 37.952 | 166 | 101 | 2 | 82 | 246 | 450 | 614 | 2.34e-21 | 94.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0459830 | AT1G06840.1 | 50.769 | 325 | 87 | 4 | 32 | 284 | 31 | 354 | 2.96e-88 | 282 |
| Msa0459830 | AT5G01950.5 | 46.608 | 339 | 105 | 5 | 20 | 286 | 17 | 351 | 1.61e-77 | 249 |
| Msa0459830 | AT5G01950.6 | 46.608 | 339 | 105 | 5 | 20 | 286 | 17 | 351 | 3.53e-77 | 250 |
| Msa0459830 | AT5G01950.7 | 46.608 | 339 | 105 | 5 | 20 | 286 | 17 | 351 | 1.48e-76 | 251 |
| Msa0459830 | AT5G01950.3 | 46.608 | 339 | 105 | 5 | 20 | 286 | 17 | 351 | 1.68e-76 | 251 |
| Msa0459830 | AT5G01950.1 | 46.608 | 339 | 105 | 5 | 20 | 286 | 17 | 351 | 1.68e-76 | 251 |
| Msa0459830 | AT5G01950.4 | 46.608 | 339 | 105 | 5 | 20 | 286 | 17 | 351 | 1.68e-76 | 251 |
| Msa0459830 | AT5G01950.8 | 46.608 | 339 | 105 | 5 | 20 | 286 | 17 | 351 | 1.68e-76 | 251 |
| Msa0459830 | AT3G53590.1 | 45.373 | 335 | 107 | 6 | 14 | 276 | 19 | 349 | 2.27e-76 | 250 |
| Msa0459830 | AT5G37450.3 | 42.816 | 348 | 123 | 6 | 11 | 286 | 6 | 349 | 6.64e-75 | 246 |
Find 60 sgRNAs with CRISPR-Local
Find 425 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGGGTTGTTGCAAGCATG+GGG | 0.610990 | 3_3:+56689245 | Msa0459830:CDS |
| AACCTACAAGTGCTTTGTCT+TGG | 0.473542 | 3_3:-56694970 | None:intergenic |
| AATGTCACTGACCCTACTGA+AGG | 0.649376 | 3_3:+56689327 | Msa0459830:CDS |
| AATTGGCAATATCAAATCTT+TGG | 0.255967 | 3_3:+56694433 | Msa0459830:CDS |
| ACACATACAGACCTTCAGTA+GGG | 0.652059 | 3_3:-56689338 | None:intergenic |
| ACGTGGAAGATCAGACAAAT+AGG | 0.423675 | 3_3:-56696614 | None:intergenic |
| ACTAACAATTTCTGGAGACG+TGG | 0.647777 | 3_3:-56696631 | None:intergenic |
| ACTTACATATAAAGCAGATG+TGG | 0.647898 | 3_3:-56696225 | None:intergenic |
| ATCTTGCTAAAATCAGGAAT+GGG | 0.523914 | 3_3:-56696201 | None:intergenic |
| ATTGAACTTGTCCGGAAAAT+TGG | 0.203296 | 3_3:+56694149 | Msa0459830:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GCTCATATAATGTTTAATGC+TGG | + | chr3_3:56689758-56689777 | Msa0459830:intron | 30.0% | |
| GCAAATTTGAATGATCCAAA+TGG | + | chr3_3:56689847-56689866 | Msa0459830:CDS | 30.0% | |
| CAATTGCTTAAATGTCCATT+TGG | - | chr3_3:56689865-56689884 | None:intergenic | 30.0% | |
| CAAATGGACATTTAAGCAAT+TGG | + | chr3_3:56689863-56689882 | Msa0459830:CDS | 30.0% | |
| CATTTAAGCAATTGGAATGA+TGG | + | chr3_3:56689871-56689890 | Msa0459830:CDS | 30.0% | |
| TTAGTACTTCTTGTGTTATG+TGG | - | chr3_3:56690811-56690830 | None:intergenic | 30.0% | |
| TGATAGGATATTTAGCCAAA+AGG | - | chr3_3:56691038-56691057 | None:intergenic | 30.0% | |
| AGTTGGTTAGAAACATATCA+AGG | - | chr3_3:56691526-56691545 | None:intergenic | 30.0% | |
| AAATATGATGTGGTCTAAGT+TGG | - | chr3_3:56691543-56691562 | None:intergenic | 30.0% | |
| TGGATGATTTATGTACAAAC+TGG | - | chr3_3:56691658-56691677 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 56689234 | 56696842 | 56689234 | ID=Msa0459830;Name=Msa0459830 |
| chr3_3 | mRNA | 56689234 | 56696842 | 56689234 | ID=Msa0459830-mRNA-1;Parent=Msa0459830;Name=Msa0459830-mRNA-1;_AED=0.42;_eAED=0.42;_QI=0|0|0|1|0.75|1|9|0|286 |
| chr3_3 | exon | 56689234 | 56689348 | 56689234 | ID=Msa0459830-mRNA-1:exon:11421;Parent=Msa0459830-mRNA-1 |
| chr3_3 | exon | 56689824 | 56689974 | 56689824 | ID=Msa0459830-mRNA-1:exon:11422;Parent=Msa0459830-mRNA-1 |
| chr3_3 | exon | 56694137 | 56694208 | 56694137 | ID=Msa0459830-mRNA-1:exon:11423;Parent=Msa0459830-mRNA-1 |
| chr3_3 | exon | 56694391 | 56694462 | 56694391 | ID=Msa0459830-mRNA-1:exon:11424;Parent=Msa0459830-mRNA-1 |
| chr3_3 | exon | 56694842 | 56694985 | 56694842 | ID=Msa0459830-mRNA-1:exon:11425;Parent=Msa0459830-mRNA-1 |
| chr3_3 | exon | 56695847 | 56695921 | 56695847 | ID=Msa0459830-mRNA-1:exon:11426;Parent=Msa0459830-mRNA-1 |
| chr3_3 | exon | 56696173 | 56696241 | 56696173 | ID=Msa0459830-mRNA-1:exon:11427;Parent=Msa0459830-mRNA-1 |
| chr3_3 | exon | 56696576 | 56696647 | 56696576 | ID=Msa0459830-mRNA-1:exon:11428;Parent=Msa0459830-mRNA-1 |
| chr3_3 | exon | 56696752 | 56696842 | 56696752 | ID=Msa0459830-mRNA-1:exon:11429;Parent=Msa0459830-mRNA-1 |
| chr3_3 | CDS | 56689234 | 56689348 | 56689234 | ID=Msa0459830-mRNA-1:cds;Parent=Msa0459830-mRNA-1 |
| chr3_3 | CDS | 56689824 | 56689974 | 56689824 | ID=Msa0459830-mRNA-1:cds;Parent=Msa0459830-mRNA-1 |
| chr3_3 | CDS | 56694137 | 56694208 | 56694137 | ID=Msa0459830-mRNA-1:cds;Parent=Msa0459830-mRNA-1 |
| chr3_3 | CDS | 56694391 | 56694462 | 56694391 | ID=Msa0459830-mRNA-1:cds;Parent=Msa0459830-mRNA-1 |
| chr3_3 | CDS | 56694842 | 56694985 | 56694842 | ID=Msa0459830-mRNA-1:cds;Parent=Msa0459830-mRNA-1 |
| chr3_3 | CDS | 56695847 | 56695921 | 56695847 | ID=Msa0459830-mRNA-1:cds;Parent=Msa0459830-mRNA-1 |
| chr3_3 | CDS | 56696173 | 56696241 | 56696173 | ID=Msa0459830-mRNA-1:cds;Parent=Msa0459830-mRNA-1 |
| chr3_3 | CDS | 56696576 | 56696647 | 56696576 | ID=Msa0459830-mRNA-1:cds;Parent=Msa0459830-mRNA-1 |
| chr3_3 | CDS | 56696752 | 56696842 | 56696752 | ID=Msa0459830-mRNA-1:cds;Parent=Msa0459830-mRNA-1 |
| Gene Sequence |
>Msa0459830 ATGAGTCTTTCAAAGGGTTGTTGCAAGCATGGGGTTATCTTCATCATCTTATGGTTCTGCTGCTGTTTGATACCGGCTGCTGCGCAAGTTATCAATGTCACTGACCCTACTGAAGTGCAAGCATTGAGGAGCATATATGCAAATTTGAATGATCCAAATGGACATTTAAGCAATTGGAATGATGGAGGAGACCCGTGCTTGTCTCGCTGGACAGGAGTAGTGTGTAATGAAACAATAGAAGAAAACATTCTACATGTTACAGAATTGGAACTACTAAAATTGAACTTGTCCGGAAAATTGGCACCAGAAATCGGCAACTTAACTTATTTGAAAATATTGGATTTCATGTGGAACAACATAAGTGGGACAATTCCTGTGCAAATTGGCAATATCAAATCTTTGGAACTCTTGTTCCTAAGTGGAAATGAATTAACAGGACAAGTGCCAGATGAACTTGGCTTTCTTCCAAATCTACGTATAATGCAAATTGATGAAAACAAATTATCAGGACCTATACCTTCATCATTTGCAAATTTGACCAAGACAAAGCACTTTCAACTTGACAACAATAACTTCGGAGGAAATAGTATTCCAGATTCTTACGCCAACATGTCGAAATTGGTTAAGTTGAGCCTTAGAAATTGCAACTTGCAAGGACCCATTCCTGATTTTAGCAAGATACCACATCTGCTTTATATCATTTTATCAAACAACAATCTTACTGGAACTATTCCGTCCTATTTGTCTGATCTTCCACGTCTCCAGAAATTGTCGCTTGCAAACAATTCATTGAGCGGAAGTGTTCCTTCTGATATTTGGCAGAACAAGGTTTCAAATGCTGCTGAAAGATTGCAATTGTAA |
| Protein sequence |
>Msa0459830 MSLSKGCCKHGVIFIILWFCCCLIPAAAQVINVTDPTEVQALRSIYANLNDPNGHLSNWNDGGDPCLSRWTGVVCNETIEENILHVTELELLKLNLSGKLAPEIGNLTYLKILDFMWNNISGTIPVQIGNIKSLELLFLSGNELTGQVPDELGFLPNLRIMQIDENKLSGPIPSSFANLTKTKHFQLDNNNFGGNSIPDSYANMSKLVKLSLRNCNLQGPIPDFSKIPHLLYIILSNNNLTGTIPSYLSDLPRLQKLSLANNSLSGSVPSDIWQNKVSNAAERLQL* |
