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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0365840 | AES69555.1 | 95.946 | 370 | 11 | 1 | 1 | 370 | 108 | 473 | 0.0 | 731 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0365840 | sp|O64732|U87A1_ARATH | 45.198 | 354 | 177 | 5 | 4 | 348 | 93 | 438 | 2.64e-102 | 311 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0227500 | Msa0365840 | 0.805153 | 1.531318e-49 | -8.615850e-47 |
| Msa0320540 | Msa0365840 | 0.814412 | 1.561175e-51 | -8.615850e-47 |
| Msa0344070 | Msa0365840 | 0.812474 | 4.163172e-51 | -8.615850e-47 |
| Msa0365840 | Msa0458830 | 0.896905 | 2.354949e-76 | -8.615850e-47 |
| Msa0365840 | Msa0575250 | 0.811386 | 7.183679e-51 | -8.615850e-47 |
| Msa0365840 | Msa0576420 | 0.810985 | 8.780228e-51 | -8.615850e-47 |
| Msa0365840 | Msa0707780 | 0.805478 | 1.309144e-49 | -8.615850e-47 |
| Msa0365840 | Msa0792510 | 0.803772 | 2.972430e-49 | -8.615850e-47 |
| Msa0365840 | Msa1226600 | 0.807078 | 6.024939e-50 | -8.615850e-47 |
| Msa0365840 | Msa1226640 | 0.836853 | 7.336339e-57 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0365840 | MtrunA17_Chr3g0106231 | 88.828 | 367 | 41 | 0 | 4 | 370 | 109 | 475 | 0.0 | 688 |
| Msa0365840 | MtrunA17_Chr3g0106251 | 95.268 | 317 | 11 | 1 | 54 | 370 | 5 | 317 | 0.0 | 617 |
| Msa0365840 | MtrunA17_Chr5g0431441 | 53.652 | 356 | 145 | 4 | 5 | 347 | 118 | 466 | 4.45e-134 | 391 |
| Msa0365840 | MtrunA17_Chr5g0432731 | 55.369 | 298 | 126 | 3 | 54 | 347 | 3 | 297 | 2.61e-113 | 332 |
| Msa0365840 | MtrunA17_Chr5g0431361 | 49.435 | 354 | 159 | 7 | 4 | 346 | 109 | 453 | 1.41e-109 | 328 |
| Msa0365840 | MtrunA17_Chr5g0431371 | 46.532 | 346 | 177 | 4 | 4 | 346 | 108 | 448 | 9.52e-104 | 313 |
| Msa0365840 | MtrunA17_Chr5g0431401 | 46.243 | 346 | 178 | 4 | 4 | 346 | 108 | 448 | 1.12e-103 | 313 |
| Msa0365840 | MtrunA17_Chr5g0431421 | 45.665 | 346 | 180 | 4 | 4 | 346 | 108 | 448 | 3.74e-101 | 306 |
| Msa0365840 | MtrunA17_Chr5g0431431 | 51.986 | 277 | 113 | 6 | 29 | 300 | 82 | 343 | 3.66e-86 | 265 |
| Msa0365840 | MtrunA17_Chr8g0377921 | 30.159 | 378 | 214 | 10 | 4 | 347 | 103 | 464 | 4.35e-48 | 169 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0365840 | AT2G30150.1 | 45.198 | 354 | 177 | 5 | 4 | 348 | 93 | 438 | 2.69e-103 | 311 |
| Msa0365840 | AT2G30150.2 | 45.198 | 354 | 177 | 5 | 4 | 348 | 109 | 454 | 4.50e-103 | 311 |
| Msa0365840 | AT2G30140.2 | 44.886 | 352 | 180 | 5 | 4 | 349 | 110 | 453 | 1.01e-102 | 311 |
| Msa0365840 | AT2G30140.1 | 44.476 | 353 | 181 | 5 | 4 | 349 | 110 | 454 | 3.81e-101 | 306 |
| Msa0365840 | AT2G36970.1 | 29.921 | 381 | 224 | 11 | 4 | 359 | 122 | 484 | 3.56e-49 | 172 |
| Msa0365840 | AT2G28080.1 | 31.892 | 370 | 201 | 11 | 8 | 359 | 130 | 466 | 7.66e-49 | 172 |
| Msa0365840 | AT2G31750.2 | 32.500 | 360 | 218 | 12 | 5 | 349 | 108 | 457 | 3.66e-47 | 167 |
| Msa0365840 | AT2G31750.1 | 32.402 | 358 | 217 | 12 | 5 | 347 | 108 | 455 | 6.08e-47 | 166 |
| Msa0365840 | AT1G05675.1 | 30.704 | 355 | 224 | 8 | 4 | 343 | 102 | 449 | 1.03e-46 | 165 |
| Msa0365840 | AT1G05680.1 | 30.508 | 354 | 226 | 8 | 4 | 343 | 102 | 449 | 1.03e-46 | 165 |
Find 89 sgRNAs with CRISPR-Local
Find 268 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATAAGAGGGTACACCGT+TGG | 0.542121 | 3_1:-60101458 | None:intergenic |
| AAACATATGTGTGGGAAAAT+GGG | 0.397297 | 3_1:+60100763 | Msa0365840:CDS |
| AAACCGGAGGAATATTCCGG+TGG | 0.703022 | 3_1:+60096284 | Msa0365840:CDS |
| AAATGGGGTTTGTTGTGACA+TGG | 0.574943 | 3_1:+60100779 | Msa0365840:CDS |
| AAATGTACAAAACGGAACCA+TGG | 0.586510 | 3_1:-60100627 | None:intergenic |
| AACATACCTTACTTTAATCT+TGG | 0.291719 | 3_1:+60100529 | Msa0365840:CDS |
| AACATATGTGTGGGAAAATG+GGG | 0.586799 | 3_1:+60100764 | Msa0365840:CDS |
| AACTCTATGGTTGTTGGTGT+CGG | 0.496128 | 3_1:+60101364 | Msa0365840:three_prime_UTR |
| AAGAGGGTACACCGTTGGAC+CGG | 0.495298 | 3_1:-60101453 | None:intergenic |
| AATGTACAAAACGGAACCAT+GGG | 0.545806 | 3_1:-60100626 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTATCGCAGATGATAAATGT+TGG | - | chr3_1:60096237-60096256 | Msa0365830:CDS | 30.0% | |
| TAAATTCTCTTGATGTGCTT+GGG | - | chr3_1:60097012-60097031 | None:intergenic | 30.0% | |
| TTTCTCCCACTAAAAAATCA+AGG | + | chr3_1:60098139-60098158 | Msa0365840:intron | 30.0% | |
| TTGGTTAAAGAATGTGGAAA+AGG | + | chr3_1:60098357-60098376 | Msa0365840:intron | 30.0% | |
| CAGATGGTGATACAAATAAT+CGG | + | chr3_1:60098526-60098545 | Msa0365840:intron | 30.0% | |
| TAGTGATCAAAGTTGTGTAT+TGG | + | chr3_1:60098854-60098873 | Msa0365840:intron | 30.0% | |
| AAAAGATAGCAACAAATGAG+GGG | - | chr3_1:60099275-60099294 | None:intergenic | 30.0% | |
| CAAAAGATAGCAACAAATGA+GGG | - | chr3_1:60099276-60099295 | None:intergenic | 30.0% | |
| GTTGACAAGTACCTAAATTT+GGG | - | chr3_1:60099305-60099324 | None:intergenic | 30.0% | |
| CTATCATATTTAAGTCTAGG+AGG | + | chr3_1:60099384-60099403 | Msa0365840:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 60096222 | 60101467 | 60096222 | ID=Msa0365840;Name=Msa0365840 |
| chr3_1 | mRNA | 60096222 | 60101467 | 60096222 | ID=Msa0365840-mRNA-1;Parent=Msa0365840;Name=Msa0365840-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|1|0.5|1|1|1|2|216|370 |
| chr3_1 | exon | 60096222 | 60096381 | 60096222 | ID=Msa0365840-mRNA-1:exon:11545;Parent=Msa0365840-mRNA-1 |
| chr3_1 | exon | 60100299 | 60101467 | 60100299 | ID=Msa0365840-mRNA-1:exon:11546;Parent=Msa0365840-mRNA-1 |
| chr3_1 | CDS | 60096222 | 60096381 | 60096222 | ID=Msa0365840-mRNA-1:cds;Parent=Msa0365840-mRNA-1 |
| chr3_1 | CDS | 60100299 | 60101251 | 60100299 | ID=Msa0365840-mRNA-1:cds;Parent=Msa0365840-mRNA-1 |
| chr3_1 | three_prime_UTR | 60101252 | 60101467 | 60101252 | ID=Msa0365840-mRNA-1:three_prime_utr;Parent=Msa0365840-mRNA-1 |
| Gene Sequence |
>Msa0365840 CAGCCGTGGCCGCCAACATTTATCATCTGCGATAATTTTCTCTTTTGGGCAGTTCGTGTTGGAAACCGGAGGAATATTCCGGTGGCTGCGTTCTGGACATCGTCCACGTCGAAGCTGTGGGTGCAATTTTTCCATATTTTCCTACAACGCAAGCATTTAGAAGATGGTGAAAATTTTATAGATTATATTCCATCAAATTCTTGGATTCATCTAGCAGATATTCCTCTTCTTGATAAGAACAACCAACAAATTTTGCAATGGTCTCTCAAAAGTTGTCAATGGATTCTCAAAGCACAATATCTATTACTACCTTCAATTTATGAGCTTGAACCTCAAGTAATTGATGCCTTAAAATCAAAGCTCACAATTCCCATTTACTCAATTGGTCCAAACATACCTTACTTTAATCTTGGACACAACTCAAATTCTCTAAATGCTACTAATAATGGTGCTGCCCAAAGTTACATAGATTGGCTAAATCTCCAACCCCATGGTTCCGTTTTGTACATTTCATATGGCAGTTATCTATCGGTTTCAAGAACACAAATGGATGAAATTGCATCTGCATTGCACGATAGCGGTGTTCGGTTCTTGTGGGTAGCGCGCGACGAGACTCATAGATTGAAACATATGTGTGGGAAAATGGGGTTTGTTGTGACATGGTGTGACCAATTGAGGGTATTGTTACATCCTTCTATAGGTGGTTATTGGACACATTGTGGTTGGAATTCCGTTATTGAAGGTGTTTTTTCTGGGGTTCCTTTTTTAACATTTCCACTTGTTTTGGATCAACCACTAATTAGTAAGATTATAGTTGAGGATTGGAAAATTGGGTGGAGAGTGAAAAAGGATGATAAGTTTGATACTTTGGTTAGAAGAGAGAACATTGTTGTGTTGATAAAGAAATTCATGGATTTGGATTTTGATTTAGGAAGGGATTTGAGAAAAAGAGCAAAGGAGCTTCAGCTTATATGTCAACTAGCAATAAAGAAAGGTGGATCATCAGAAATCAATGTCAAAGCATTTTTGAAGAATATAATGGAGAGTGGTTTGACACATGAAGCATCAAATGGACTACATGAAGTTCAAGTTGCTATTGAGAATTTCAATTAA |
| Protein sequence |
>Msa0365840 QPWPPTFIICDNFLFWAVRVGNRRNIPVAAFWTSSTSKLWVQFFHIFLQRKHLEDGENFIDYIPSNSWIHLADIPLLDKNNQQILQWSLKSCQWILKAQYLLLPSIYELEPQVIDALKSKLTIPIYSIGPNIPYFNLGHNSNSLNATNNGAAQSYIDWLNLQPHGSVLYISYGSYLSVSRTQMDEIASALHDSGVRFLWVARDETHRLKHMCGKMGFVVTWCDQLRVLLHPSIGGYWTHCGWNSVIEGVFSGVPFLTFPLVLDQPLISKIIVEDWKIGWRVKKDDKFDTLVRRENIVVLIKKFMDLDFDLGRDLRKRAKELQLICQLAIKKGGSSEINVKAFLKNIMESGLTHEASNGLHEVQVAIENFN* |
