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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0523000 | XP_003603778.1 | 82.682 | 358 | 11 | 1 | 1 | 307 | 1 | 358 | 0.0 | 587 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0523000 | sp|Q94CH6|EXL3_ARATH | 47.701 | 348 | 126 | 5 | 11 | 306 | 20 | 363 | 5.43e-107 | 318 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000190 | Msa0523000 | 0.802616 | 5.155989e-49 | -8.615850e-47 |
| Msa0005890 | Msa0523000 | 0.809539 | 1.799834e-50 | -8.615850e-47 |
| Msa0017510 | Msa0523000 | 0.802480 | 5.498241e-49 | -8.615850e-47 |
| Msa0024550 | Msa0523000 | 0.827830 | 1.259654e-54 | -8.615850e-47 |
| Msa0081520 | Msa0523000 | 0.813654 | 2.294036e-51 | -8.615850e-47 |
| Msa0083810 | Msa0523000 | 0.806839 | 6.767792e-50 | -8.615850e-47 |
| Msa0089630 | Msa0523000 | 0.806227 | 9.113547e-50 | -8.615850e-47 |
| Msa0094850 | Msa0523000 | 0.823091 | 1.669459e-53 | -8.615850e-47 |
| Msa0120400 | Msa0523000 | 0.831669 | 1.464223e-55 | -8.615850e-47 |
| Msa0124130 | Msa0523000 | 0.814057 | 1.869982e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0523000 | MtrunA17_Chr3g0142921 | 82.682 | 358 | 11 | 1 | 1 | 307 | 1 | 358 | 0.0 | 587 |
| Msa0523000 | MtrunA17_Chr1g0156891 | 62.751 | 349 | 76 | 2 | 9 | 306 | 19 | 364 | 1.07e-156 | 442 |
| Msa0523000 | MtrunA17_Chr1g0156901 | 58.310 | 355 | 96 | 2 | 3 | 306 | 17 | 370 | 6.54e-146 | 415 |
| Msa0523000 | MtrunA17_Chr1g0156911 | 59.155 | 355 | 90 | 3 | 3 | 306 | 7 | 357 | 1.47e-142 | 406 |
| Msa0523000 | MtrunA17_Chr1g0156931 | 54.342 | 357 | 107 | 4 | 1 | 306 | 9 | 360 | 1.58e-135 | 388 |
| Msa0523000 | MtrunA17_Chr1g0156921 | 55.650 | 354 | 101 | 4 | 5 | 306 | 14 | 363 | 1.38e-133 | 383 |
| Msa0523000 | MtrunA17_Chr3g0142941 | 55.556 | 342 | 97 | 3 | 16 | 306 | 30 | 367 | 1.02e-130 | 376 |
| Msa0523000 | MtrunA17_Chr8g0371491 | 46.197 | 355 | 136 | 4 | 5 | 307 | 7 | 358 | 7.06e-106 | 313 |
| Msa0523000 | MtrunA17_Chr5g0405821 | 48.348 | 333 | 119 | 3 | 28 | 307 | 35 | 367 | 1.02e-105 | 312 |
| Msa0523000 | MtrunA17_Chr8g0371471 | 45.994 | 337 | 127 | 4 | 24 | 306 | 27 | 362 | 1.16e-103 | 307 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0523000 | AT1G75900.1 | 47.701 | 348 | 126 | 5 | 11 | 306 | 20 | 363 | 5.52e-108 | 318 |
| Msa0523000 | AT1G75890.2 | 45.272 | 349 | 136 | 3 | 7 | 303 | 21 | 366 | 9.76e-105 | 310 |
| Msa0523000 | AT1G75890.3 | 45.272 | 349 | 136 | 3 | 7 | 303 | 50 | 395 | 1.52e-104 | 311 |
| Msa0523000 | AT1G75890.1 | 43.646 | 362 | 136 | 4 | 7 | 303 | 21 | 379 | 5.10e-101 | 301 |
| Msa0523000 | AT1G75880.2 | 45.506 | 356 | 139 | 4 | 4 | 307 | 22 | 374 | 7.50e-101 | 301 |
| Msa0523000 | AT1G75880.1 | 45.378 | 357 | 139 | 5 | 4 | 307 | 22 | 375 | 5.09e-99 | 296 |
| Msa0523000 | AT3G14820.1 | 44.413 | 349 | 135 | 5 | 5 | 302 | 5 | 345 | 1.03e-96 | 289 |
| Msa0523000 | AT5G42170.1 | 44.311 | 334 | 130 | 4 | 25 | 306 | 39 | 368 | 2.77e-96 | 289 |
| Msa0523000 | AT3G43570.1 | 46.000 | 300 | 135 | 4 | 31 | 307 | 25 | 320 | 1.42e-92 | 278 |
| Msa0523000 | AT1G20120.1 | 41.337 | 329 | 140 | 3 | 31 | 307 | 73 | 400 | 2.82e-92 | 280 |
Find 92 sgRNAs with CRISPR-Local
Find 318 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGTTCCATCAGACTATAT+AGG | 0.464467 | 3_4:-76354153 | Msa0523000:intron |
| AAATATATCAACTGGGTGCA+AGG | 0.545098 | 3_4:-76350598 | Msa0523000:CDS |
| AACCACAAGGAAAACACTGT+TGG | 0.579910 | 3_4:+76351587 | None:intergenic |
| AACTTAAATTCAGCTGAAAA+GGG | 0.508152 | 3_4:-76354469 | Msa0523000:five_prime_UTR |
| AAGGAGGCATCCCTACTGGT+CGG | 0.630598 | 3_4:-76354188 | Msa0523000:CDS |
| AATGGCACACACCCAATTGG+TGG | 0.562040 | 3_4:+76350554 | None:intergenic |
| ACACCTGTGACAAGATCGCT+AGG | 0.618279 | 3_4:+76351855 | None:intergenic |
| ACAGGTGTTTGCTTTGCATC+CGG | 0.493934 | 3_4:-76351840 | Msa0523000:CDS |
| ACCATGAGGTCAGTGTAAGA+AGG | 0.580211 | 3_4:+76351498 | None:intergenic |
| ACTGCTGGAAATGAAACATT+TGG | 0.500213 | 3_4:+76354309 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CAACTTAAATTCAGCTGAAA+AGG | - | chr3_4:76349632-76349651 | Msa0523000:three_prime_UTR | 30.0% | |
| AAAGTTCCATCAGACTATAT+AGG | - | chr3_4:76349949-76349968 | Msa0523000:CDS | 30.0% | |
| TATGTACCTATATAGTCTGA+TGG | + | chr3_4:76349958-76349977 | None:intergenic | 30.0% | |
| ATGTGTTGAAGATGTATAAG+TGG | + | chr3_4:76350045-76350064 | None:intergenic | 30.0% | |
| CTTATACATCTTCAACACAT+TGG | - | chr3_4:76350045-76350064 | Msa0523000:CDS | 30.0% | |
| TGATATTGCAACTGAAATTG+TGG | + | chr3_4:76350170-76350189 | None:intergenic | 30.0% | |
| TAGAAAAAACCATCTAAGAG+TGG | - | chr3_4:76350303-76350322 | Msa0523000:intron | 30.0% | |
| TTATAGGGACTAAAAGTTGA+AGG | + | chr3_4:76350867-76350886 | None:intergenic | 30.0% | |
| TTATAGGGACTAAAAGTTGA+AGG | - | chr3_4:76350867-76350886 | Msa0523000:intron | 30.0% | |
| TTATTTGGAAGCTCGTAATA+TGG | + | chr3_4:76351872-76351891 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 76349623 | 76354501 | 76349623 | ID=Msa0523000;Name=Msa0523000 |
| chr3_4 | mRNA | 76349623 | 76354501 | 76349623 | ID=Msa0523000-mRNA-1;Parent=Msa0523000;Name=Msa0523000-mRNA-1;_AED=0.31;_eAED=0.31;_QI=83|0.75|0.8|1|0.5|0.8|5|285|307 |
| chr3_4 | exon | 76349623 | 76350098 | 76349623 | ID=Msa0523000-mRNA-1:exon:22114;Parent=Msa0523000-mRNA-1 |
| chr3_4 | exon | 76350519 | 76350621 | 76350519 | ID=Msa0523000-mRNA-1:exon:22113;Parent=Msa0523000-mRNA-1 |
| chr3_4 | exon | 76351473 | 76351706 | 76351473 | ID=Msa0523000-mRNA-1:exon:22112;Parent=Msa0523000-mRNA-1 |
| chr3_4 | exon | 76351803 | 76351933 | 76351803 | ID=Msa0523000-mRNA-1:exon:22111;Parent=Msa0523000-mRNA-1 |
| chr3_4 | exon | 76354154 | 76354501 | 76354154 | ID=Msa0523000-mRNA-1:exon:22110;Parent=Msa0523000-mRNA-1 |
| chr3_4 | five_prime_UTR | 76354419 | 76354501 | 76354419 | ID=Msa0523000-mRNA-1:five_prime_utr;Parent=Msa0523000-mRNA-1 |
| chr3_4 | CDS | 76354154 | 76354418 | 76354154 | ID=Msa0523000-mRNA-1:cds;Parent=Msa0523000-mRNA-1 |
| chr3_4 | CDS | 76351803 | 76351933 | 76351803 | ID=Msa0523000-mRNA-1:cds;Parent=Msa0523000-mRNA-1 |
| chr3_4 | CDS | 76351473 | 76351706 | 76351473 | ID=Msa0523000-mRNA-1:cds;Parent=Msa0523000-mRNA-1 |
| chr3_4 | CDS | 76350519 | 76350621 | 76350519 | ID=Msa0523000-mRNA-1:cds;Parent=Msa0523000-mRNA-1 |
| chr3_4 | CDS | 76349908 | 76350098 | 76349908 | ID=Msa0523000-mRNA-1:cds;Parent=Msa0523000-mRNA-1 |
| chr3_4 | three_prime_UTR | 76349623 | 76349907 | 76349623 | ID=Msa0523000-mRNA-1:three_prime_utr;Parent=Msa0523000-mRNA-1 |
| Gene Sequence |
>Msa0523000 ATGTGTTCCTTGATGATTTGTTTCTTCATATTATTGGGAGTTATTTCTTACACAACTAAGGCTAGTTTGGCAACACTAGTGCTTCCACCAAATGTTTCATTTCCAGCAGTATTTGTGTTTGGAGATTCAATCATGGATACGGGCAACAACAATAATAACATGAAAACATATGCTAGGTGCAATTTTCTTCCATATGGGAAAGATTTCAAAGGAGGCATCCCTACTGGTCGGTTTTGCAATGGAAAAGTTCCATCAGACTATATAGTTGAAGCATTGGGAATTAAGGAATTTCTGCCGGCGTATTTGGATCCAAATATCCAACCTAGCGATCTTGTCACAGGTGTTTGCTTTGCATCCGGTGGTTCCGGGTATGATCCACTCACATCCAAAACTGCGTCAGCTATATCCTTGTCCGGTCAAATAGATTTGTTCAAAGAATACATAGGAAAGCTCAAAGGAATTGTTGGAGAGGGTAGAAAAAATTTCATCCTAGCCAACAGTGTTTTCCTTGTGGTTCAAGGAAGTAACGACATTTCCAATACATATTTTTTGAGCCATCTTAGAGAACTACAATATGATGTTCCTTCTTACACTGACCTCATGGTCGCCTCTGCTTCCAATTTCTTAAAGGAAATATATCAACTGGGTGCAAGGAGGATAGGAGTATTAAGTGTTCCACCAATTGGGTGTGTGCCATTTCAGAGAACGGTTGTTGGAGGAATTGAAAGAAAATGTTATAAAGTCGTTGACAAAGGATGTTGTGGCACAGGAGCAGTAGAGGTAGCAGTGTTATGCAACCAATTTGCTATCCAATGTGAAGATGTTAGGGACTACGTTTTCTGGGACAGTTTTCATCCCTCGGAGAGTGTTTACAGCAAGCTCTTAAATCCTCTTCTTCGAAAATATATACACCAGTTCTTCTAG |
| Protein sequence |
>Msa0523000 MCSLMICFFILLGVISYTTKASLATLVLPPNVSFPAVFVFGDSIMDTGNNNNNMKTYARCNFLPYGKDFKGGIPTGRFCNGKVPSDYIVEALGIKEFLPAYLDPNIQPSDLVTGVCFASGGSGYDPLTSKTASAISLSGQIDLFKEYIGKLKGIVGEGRKNFILANSVFLVVQGSNDISNTYFLSHLRELQYDVPSYTDLMVASASNFLKEIYQLGARRIGVLSVPPIGCVPFQRTVVGGIERKCYKVVDKGCCGTGAVEVAVLCNQFAIQCEDVRDYVFWDSFHPSESVYSKLLNPLLRKYIHQFF* |
