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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0164310 | XP_013467673.1 | 97.627 | 295 | 7 | 0 | 1 | 295 | 3 | 297 | 0.0 | 590 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0164310 | sp|Q8S9M1|PAP13_ARATH | 67.986 | 278 | 82 | 4 | 23 | 295 | 24 | 299 | 2.43e-131 | 377 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000180 | Msa0164310 | 0.816198 | 6.259080e-52 | -8.615850e-47 |
| Msa0000610 | Msa0164310 | 0.868335 | 7.049756e-66 | -8.615850e-47 |
| Msa0000800 | Msa0164310 | -0.831369 | 1.735999e-55 | -8.615850e-47 |
| Msa0001510 | Msa0164310 | 0.877342 | 6.784543e-69 | -8.615850e-47 |
| Msa0002110 | Msa0164310 | 0.853093 | 2.999850e-61 | -8.615850e-47 |
| Msa0002690 | Msa0164310 | 0.889280 | 2.789490e-73 | -8.615850e-47 |
| Msa0002700 | Msa0164310 | 0.886410 | 3.504901e-72 | -8.615850e-47 |
| Msa0003340 | Msa0164310 | 0.886500 | 3.240734e-72 | -8.615850e-47 |
| Msa0003370 | Msa0164310 | 0.828531 | 8.534689e-55 | -8.615850e-47 |
| Msa0003840 | Msa0164310 | -0.815480 | 9.050033e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0164310 | MtrunA17_Chr1g0175321 | 97.627 | 295 | 7 | 0 | 1 | 295 | 3 | 297 | 0.0 | 590 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0164310 | AT2G42130.4 | 67.986 | 278 | 82 | 4 | 23 | 295 | 24 | 299 | 2.47e-132 | 377 |
| Msa0164310 | AT3G58010.1 | 68.852 | 244 | 73 | 2 | 39 | 280 | 48 | 290 | 5.19e-126 | 362 |
| Msa0164310 | AT3G58010.2 | 68.852 | 244 | 73 | 2 | 39 | 280 | 48 | 290 | 5.19e-126 | 362 |
| Msa0164310 | AT2G42130.3 | 66.667 | 273 | 66 | 4 | 46 | 295 | 1 | 271 | 2.47e-125 | 358 |
| Msa0164310 | AT2G42130.2 | 70.445 | 247 | 67 | 3 | 23 | 264 | 24 | 269 | 9.09e-122 | 350 |
| Msa0164310 | AT2G42130.1 | 67.227 | 238 | 72 | 3 | 23 | 255 | 24 | 260 | 2.02e-109 | 318 |
| Msa0164310 | AT2G42130.5 | 71.569 | 204 | 57 | 1 | 92 | 295 | 2 | 204 | 9.33e-106 | 306 |
Find 81 sgRNAs with CRISPR-Local
Find 261 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGAATTGATGTGAATGAA+AGG | 0.540601 | 1_4:+43496421 | Msa0164310:CDS |
| AAAGGATAACGGGTCTTGAG+CGG | 0.639206 | 1_4:+43496439 | Msa0164310:CDS |
| AAAGTGTTGTTGTTCAACTT+AGG | 0.480579 | 1_4:-43495130 | None:intergenic |
| AAATTGGTTTCAGTTCAACA+TGG | 0.623997 | 1_4:-43495162 | None:intergenic |
| AACACCTAGCTTTCATAATC+TGG | 0.372388 | 1_4:-43499054 | None:intergenic |
| AACTTTGAGTGGTTTGGTCC+CGG | 0.448840 | 1_4:+43496591 | Msa0164310:CDS |
| AAGGTAGATGGAACTTTGAG+TGG | 0.542411 | 1_4:+43496580 | Msa0164310:CDS |
| AAGTCCAGATTATGAAAGCT+AGG | 0.531868 | 1_4:+43499050 | Msa0164310:CDS |
| AATCTGGACTTGATTCTCCC+AGG | 0.529092 | 1_4:-43499038 | None:intergenic |
| ACTCTGTCTTCCAAGACTGT+TGG | 0.591239 | 1_4:-43497312 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GTGAAGCAAATAATGAGAAA+AGG | + | chr1_4:43495494-43495513 | Msa0164310:intron | 30.0% | |
| GAAGCAAATAATGAGAAAAG+GGG | + | chr1_4:43495496-43495515 | Msa0164310:intron | 30.0% | |
| CGAGTTAGAATCAGTTATAA+AGG | - | chr1_4:43495720-43495739 | None:intergenic | 30.0% | |
| CAATTGTAGAAGCAAAATGA+CGG | - | chr1_4:43495784-43495803 | None:intergenic | 30.0% | |
| ATATTCAACTCGCTTTCAAT+CGG | + | chr1_4:43495869-43495888 | Msa0164310:intron | 30.0% | |
| GAACTAACTACACAAATTGT+TGG | + | chr1_4:43496063-43496082 | Msa0164310:intron | 30.0% | |
| TGATGTGAATGAAAGGATAA+CGG | + | chr1_4:43496428-43496447 | Msa0164310:CDS | 30.0% | |
| CTGCAAATATATATAGCACA+TGG | - | chr1_4:43496763-43496782 | None:intergenic | 30.0% | |
| CATGTGCTATATATATTTGC+AGG | + | chr1_4:43496761-43496780 | Msa0164310:intron | 30.0% | |
| GACAAATTAGCTAAACTTGA+AGG | - | chr1_4:43496793-43496812 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 43495078 | 43499371 | 43495078 | ID=Msa0164310;Name=Msa0164310 |
| chr1_4 | mRNA | 43495078 | 43499371 | 43495078 | ID=Msa0164310-mRNA-1;Parent=Msa0164310;Name=Msa0164310-mRNA-1;_AED=0.13;_eAED=0.13;_QI=110|1|1|1|1|1|7|300|295 |
| chr1_4 | exon | 43495078 | 43495406 | 43495078 | ID=Msa0164310-mRNA-1:exon:12488;Parent=Msa0164310-mRNA-1 |
| chr1_4 | exon | 43496366 | 43496487 | 43496366 | ID=Msa0164310-mRNA-1:exon:12489;Parent=Msa0164310-mRNA-1 |
| chr1_4 | exon | 43496566 | 43496649 | 43496566 | ID=Msa0164310-mRNA-1:exon:12490;Parent=Msa0164310-mRNA-1 |
| chr1_4 | exon | 43496783 | 43496879 | 43496783 | ID=Msa0164310-mRNA-1:exon:12491;Parent=Msa0164310-mRNA-1 |
| chr1_4 | exon | 43497222 | 43497438 | 43497222 | ID=Msa0164310-mRNA-1:exon:12492;Parent=Msa0164310-mRNA-1 |
| chr1_4 | exon | 43498038 | 43498090 | 43498038 | ID=Msa0164310-mRNA-1:exon:12493;Parent=Msa0164310-mRNA-1 |
| chr1_4 | exon | 43498976 | 43499371 | 43498976 | ID=Msa0164310-mRNA-1:exon:12494;Parent=Msa0164310-mRNA-1 |
| chr1_4 | five_prime_UTR | 43495078 | 43495187 | 43495078 | ID=Msa0164310-mRNA-1:five_prime_utr;Parent=Msa0164310-mRNA-1 |
| chr1_4 | CDS | 43495188 | 43495406 | 43495188 | ID=Msa0164310-mRNA-1:cds;Parent=Msa0164310-mRNA-1 |
| chr1_4 | CDS | 43496366 | 43496487 | 43496366 | ID=Msa0164310-mRNA-1:cds;Parent=Msa0164310-mRNA-1 |
| chr1_4 | CDS | 43496566 | 43496649 | 43496566 | ID=Msa0164310-mRNA-1:cds;Parent=Msa0164310-mRNA-1 |
| chr1_4 | CDS | 43496783 | 43496879 | 43496783 | ID=Msa0164310-mRNA-1:cds;Parent=Msa0164310-mRNA-1 |
| chr1_4 | CDS | 43497222 | 43497438 | 43497222 | ID=Msa0164310-mRNA-1:cds;Parent=Msa0164310-mRNA-1 |
| chr1_4 | CDS | 43498038 | 43498090 | 43498038 | ID=Msa0164310-mRNA-1:cds;Parent=Msa0164310-mRNA-1 |
| chr1_4 | CDS | 43498976 | 43499071 | 43498976 | ID=Msa0164310-mRNA-1:cds;Parent=Msa0164310-mRNA-1 |
| chr1_4 | three_prime_UTR | 43499072 | 43499371 | 43499072 | ID=Msa0164310-mRNA-1:three_prime_utr;Parent=Msa0164310-mRNA-1 |
| Gene Sequence |
>Msa0164310 ATGGCTGTTTCTGTATCTATTTCTGCTTCTCATCCTTGTATTTCAACAATCACAAATTGTTCAATTCCTTCATCTTCTTCATGGAAAGTTTCAACTTCACGCATCACATGGCAGAAGCGTGGTTGCTGTAGAGCTATGGTTCAAGTTCAAACTGGTGCACCTGCTGCTTATGCTAAGGAAATGGAACGCCTTTCTGCTAAAGAATCGCTTCTTCTTGCTTTTAAGGATGCAGGTGGTTTTGAGAGCTTAGTCTCTGGGAAGACAACTGAATATCAAAGAATTGATGTGAATGAAAGGATAACGGGTCTTGAGCGGCTCAATCCAACACCTCGGCCCACGACGTCACCCTTTCTAGAAGGTAGATGGAACTTTGAGTGGTTTGGTCCCGGATCTCCAGGGTTGTTTGCGGCTAGGATGATATTTGAGAATTTTCCTTCAAGTTTAGCTAATTTGTCAAAAATGGATGTCTTTATCAAGGATGGAAATGCAAAGATTACCGCAAACACATTATTTTTAAACTCGATAGAAAGCAGAATTATTCTCTCAACCAAGTTAACTGTGGAGGGGCCACTTAGAATGAAAGAGGAGTATGTGGAAGGGATTATTGTGTCACCAACAGTCTTGGAAGACAGAGTACCAGATCAGCTTAAAGGTGCACTTGGGCAGGCAGTTAATGTTTTACAACAGCTTCCCGTACCTTTACGTGATGCTCTCGCCGATGGGCTAAAAGTTCCACTAAGTGGAAGCTTTCAAAGACTCTTCATGATCTCTTATCTCGATGAGGAGATACTTATAATAAGGAACACAGCTGGGATACCAGAAGTTTTAACGAGACTCGATGCATCGCCGTCATCCCTGGGAGAATCAAGTCCAGATTATGAAAGCTAG |
| Protein sequence |
>Msa0164310 MAVSVSISASHPCISTITNCSIPSSSSWKVSTSRITWQKRGCCRAMVQVQTGAPAAYAKEMERLSAKESLLLAFKDAGGFESLVSGKTTEYQRIDVNERITGLERLNPTPRPTTSPFLEGRWNFEWFGPGSPGLFAARMIFENFPSSLANLSKMDVFIKDGNAKITANTLFLNSIESRIILSTKLTVEGPLRMKEEYVEGIIVSPTVLEDRVPDQLKGALGQAVNVLQQLPVPLRDALADGLKVPLSGSFQRLFMISYLDEEILIIRNTAGIPEVLTRLDASPSSLGESSPDYES* |
