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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0039750 | XP_003592350.1 | 93.413 | 334 | 4 | 2 | 1 | 317 | 1 | 333 | 0.0 | 622 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0039750 | sp|Q9FLH8|SCRK7_ARATH | 73.585 | 318 | 67 | 1 | 19 | 319 | 18 | 335 | 3.80e-171 | 481 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0002110 | Msa0039750 | -0.825073 | 5.718936e-54 | -8.615850e-47 |
| Msa0006080 | Msa0039750 | 0.819844 | 9.382310e-53 | -8.615850e-47 |
| Msa0006480 | Msa0039750 | 0.805691 | 1.181313e-49 | -8.615850e-47 |
| Msa0007810 | Msa0039750 | -0.845167 | 4.806886e-59 | -8.615850e-47 |
| Msa0011060 | Msa0039750 | -0.829154 | 6.031521e-55 | -8.615850e-47 |
| Msa0011100 | Msa0039750 | -0.843443 | 1.396486e-58 | -8.615850e-47 |
| Msa0013270 | Msa0039750 | 0.834551 | 2.807797e-56 | -8.615850e-47 |
| Msa0016380 | Msa0039750 | -0.835351 | 1.764928e-56 | -8.615850e-47 |
| Msa0017300 | Msa0039750 | -0.837332 | 5.532106e-57 | -8.615850e-47 |
| Msa0017710 | Msa0039750 | 0.834591 | 2.743652e-56 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0039750 | MtrunA17_Chr1g0204101 | 93.413 | 334 | 4 | 2 | 1 | 317 | 1 | 333 | 0.0 | 622 |
| Msa0039750 | MtrunA17_Chr6g0474331 | 80.180 | 333 | 46 | 2 | 5 | 317 | 6 | 338 | 0.0 | 541 |
| Msa0039750 | MtrunA17_Chr1g0183241 | 74.921 | 315 | 71 | 2 | 6 | 318 | 92 | 400 | 3.60e-161 | 456 |
| Msa0039750 | MtrunA17_Chr5g0434971 | 69.876 | 322 | 78 | 3 | 13 | 316 | 55 | 375 | 1.05e-153 | 436 |
| Msa0039750 | MtrunA17_Chr2g0329451 | 60.938 | 320 | 106 | 2 | 14 | 316 | 4 | 321 | 1.21e-135 | 388 |
| Msa0039750 | MtrunA17_Chr1g0188291 | 60.383 | 313 | 105 | 3 | 24 | 319 | 8 | 318 | 1.68e-135 | 387 |
| Msa0039750 | MtrunA17_Chr4g0033631 | 63.023 | 311 | 96 | 2 | 22 | 315 | 13 | 321 | 2.78e-135 | 387 |
| Msa0039750 | MtrunA17_Chr1g0183661 | 67.832 | 286 | 63 | 3 | 39 | 307 | 3 | 276 | 1.51e-131 | 376 |
| Msa0039750 | MtrunA17_Chr1g0177771 | 66.038 | 318 | 91 | 4 | 9 | 316 | 238 | 548 | 1.54e-131 | 385 |
| Msa0039750 | MtrunA17_Chr1g0171921 | 64.220 | 327 | 101 | 6 | 6 | 316 | 165 | 491 | 8.21e-129 | 378 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0039750 | AT5G51830.2 | 73.585 | 318 | 67 | 1 | 19 | 319 | 18 | 335 | 3.86e-172 | 481 |
| Msa0039750 | AT5G51830.1 | 73.585 | 318 | 67 | 1 | 19 | 319 | 18 | 335 | 3.86e-172 | 481 |
| Msa0039750 | AT1G66430.1 | 68.671 | 316 | 81 | 2 | 19 | 317 | 60 | 374 | 2.51e-155 | 440 |
| Msa0039750 | AT4G10260.1 | 62.013 | 308 | 98 | 3 | 24 | 314 | 6 | 311 | 3.48e-134 | 384 |
| Msa0039750 | AT2G31390.1 | 60.815 | 319 | 106 | 3 | 19 | 320 | 4 | 320 | 4.19e-134 | 384 |
| Msa0039750 | AT1G06030.1 | 60.897 | 312 | 103 | 3 | 20 | 314 | 7 | 316 | 2.07e-132 | 380 |
| Msa0039750 | AT3G59480.1 | 58.716 | 327 | 112 | 4 | 14 | 323 | 4 | 324 | 4.23e-132 | 379 |
| Msa0039750 | AT1G06020.1 | 60.194 | 309 | 104 | 2 | 23 | 314 | 9 | 315 | 3.83e-130 | 375 |
| Msa0039750 | AT1G50390.1 | 50.307 | 163 | 50 | 1 | 152 | 314 | 1 | 132 | 1.93e-46 | 154 |
| Msa0039750 | AT3G54090.1 | 30.278 | 360 | 184 | 9 | 24 | 319 | 103 | 459 | 2.92e-41 | 150 |
Find 175 sgRNAs with CRISPR-Local
Find 678 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGAAGAACAAGCCCGGA+AGG | 0.610621 | 1_1:-69697121 | Msa0039750:intron |
| AAAATTTACCTTTATGACAT+CGG | 0.508019 | 1_1:+69703701 | None:intergenic |
| AAACTTCTAATTGTTACTGA+AGG | 0.493747 | 1_1:-69703478 | Msa0039750:CDS |
| AAAGGTGTGTGTGACGATGA+CGG | 0.689654 | 1_1:+69698331 | None:intergenic |
| AAAGTCAACTTCCAATTAAA+AGG | 0.301201 | 1_1:-69695530 | Msa0039750:three_prime_UTR |
| AAATCTGATGATCCCACAAA+CGG | 0.569926 | 1_1:-69705108 | Msa0039750:CDS |
| AACAAAAGCCAATGCGGTTC+TGG | 0.313707 | 1_1:+69704099 | None:intergenic |
| AACATATCAATATGTTGAGT+TGG | 0.450138 | 1_1:-69695163 | Msa0039750:three_prime_UTR |
| AACGCAAGGGAATCAAGTGG+GGG | 0.669401 | 1_1:-69695656 | Msa0039750:three_prime_UTR |
| AACTAGTTTCGTGTTTGGAT+AGG | 0.545318 | 1_1:-69695000 | Msa0039750:three_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTACACAAAGAAAGAAGGAA+GGG | + | chr1_1:69694985-69695004 | None:intergenic | 30.0% | |
| ATTACACAAAGAAAGAAGGA+AGG | + | chr1_1:69694986-69695005 | None:intergenic | 30.0% | |
| CACAATTACACAAAGAAAGA+AGG | + | chr1_1:69694990-69695009 | None:intergenic | 30.0% | |
| TCGTATATTCGTTCGTTATT+TGG | - | chr1_1:69695174-69695193 | Msa0039750:three_prime_UTR | 30.0% | |
| TATTCGTTCGTTATTTGGAT+TGG | - | chr1_1:69695179-69695198 | Msa0039750:three_prime_UTR | 30.0% | |
| AAGAACAAGCGCTATAAAAA+GGG | + | chr1_1:69695307-69695326 | None:intergenic | 30.0% | |
| TGTATAGAACACTATGGAAA+TGG | + | chr1_1:69695395-69695414 | None:intergenic | 30.0% | |
| AACTACTGTATAGAACACTA+TGG | + | chr1_1:69695401-69695420 | None:intergenic | 30.0% | |
| ACTTTATGAAGTTTGGCTAT+TGG | - | chr1_1:69695911-69695930 | Msa0039750:intron | 30.0% | |
| TTGAACAAATCAAACATGGA+AGG | + | chr1_1:69696464-69696483 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 69694897 | 69706337 | 69694897 | ID=Msa0039750;Name=Msa0039750 |
| chr1_1 | mRNA | 69694897 | 69706337 | 69694897 | ID=Msa0039750-mRNA-1;Parent=Msa0039750;Name=Msa0039750-mRNA-1;_AED=0.12;_eAED=0.12;_QI=208|0.84|0.78|1|0.76|0.78|14|1439|324 |
| chr1_1 | exon | 69694897 | 69695738 | 69694897 | ID=Msa0039750-mRNA-1:exon:22835;Parent=Msa0039750-mRNA-1 |
| chr1_1 | exon | 69696078 | 69696176 | 69696078 | ID=Msa0039750-mRNA-1:exon:22834;Parent=Msa0039750-mRNA-1 |
| chr1_1 | exon | 69696250 | 69696327 | 69696250 | ID=Msa0039750-mRNA-1:exon:22833;Parent=Msa0039750-mRNA-1 |
| chr1_1 | exon | 69697122 | 69697204 | 69697122 | ID=Msa0039750-mRNA-1:exon:22832;Parent=Msa0039750-mRNA-1 |
| chr1_1 | exon | 69697306 | 69697403 | 69697306 | ID=Msa0039750-mRNA-1:exon:22831;Parent=Msa0039750-mRNA-1 |
| chr1_1 | exon | 69698038 | 69698069 | 69698038 | ID=Msa0039750-mRNA-1:exon:22830;Parent=Msa0039750-mRNA-1 |
| chr1_1 | exon | 69698152 | 69698382 | 69698152 | ID=Msa0039750-mRNA-1:exon:22829;Parent=Msa0039750-mRNA-1 |
| chr1_1 | exon | 69702866 | 69702967 | 69702866 | ID=Msa0039750-mRNA-1:exon:22828;Parent=Msa0039750-mRNA-1 |
| chr1_1 | exon | 69703057 | 69703173 | 69703057 | ID=Msa0039750-mRNA-1:exon:22827;Parent=Msa0039750-mRNA-1 |
| chr1_1 | exon | 69703450 | 69703590 | 69703450 | ID=Msa0039750-mRNA-1:exon:22826;Parent=Msa0039750-mRNA-1 |
| chr1_1 | exon | 69703710 | 69703907 | 69703710 | ID=Msa0039750-mRNA-1:exon:22825;Parent=Msa0039750-mRNA-1 |
| chr1_1 | exon | 69703997 | 69704209 | 69703997 | ID=Msa0039750-mRNA-1:exon:22824;Parent=Msa0039750-mRNA-1 |
| chr1_1 | exon | 69704975 | 69705132 | 69704975 | ID=Msa0039750-mRNA-1:exon:22823;Parent=Msa0039750-mRNA-1 |
| chr1_1 | exon | 69706108 | 69706337 | 69706108 | ID=Msa0039750-mRNA-1:exon:22822;Parent=Msa0039750-mRNA-1 |
| chr1_1 | five_prime_UTR | 69706130 | 69706337 | 69706130 | ID=Msa0039750-mRNA-1:five_prime_utr;Parent=Msa0039750-mRNA-1 |
| chr1_1 | CDS | 69706108 | 69706129 | 69706108 | ID=Msa0039750-mRNA-1:cds;Parent=Msa0039750-mRNA-1 |
| chr1_1 | CDS | 69704975 | 69705132 | 69704975 | ID=Msa0039750-mRNA-1:cds;Parent=Msa0039750-mRNA-1 |
| chr1_1 | CDS | 69703997 | 69704209 | 69703997 | ID=Msa0039750-mRNA-1:cds;Parent=Msa0039750-mRNA-1 |
| chr1_1 | CDS | 69703710 | 69703907 | 69703710 | ID=Msa0039750-mRNA-1:cds;Parent=Msa0039750-mRNA-1 |
| chr1_1 | CDS | 69703450 | 69703590 | 69703450 | ID=Msa0039750-mRNA-1:cds;Parent=Msa0039750-mRNA-1 |
| chr1_1 | CDS | 69703057 | 69703173 | 69703057 | ID=Msa0039750-mRNA-1:cds;Parent=Msa0039750-mRNA-1 |
| chr1_1 | CDS | 69702866 | 69702967 | 69702866 | ID=Msa0039750-mRNA-1:cds;Parent=Msa0039750-mRNA-1 |
| chr1_1 | CDS | 69698359 | 69698382 | 69698359 | ID=Msa0039750-mRNA-1:cds;Parent=Msa0039750-mRNA-1 |
| chr1_1 | three_prime_UTR | 69698152 | 69698358 | 69698152 | ID=Msa0039750-mRNA-1:three_prime_utr;Parent=Msa0039750-mRNA-1 |
| chr1_1 | three_prime_UTR | 69698038 | 69698069 | 69698038 | ID=Msa0039750-mRNA-1:three_prime_utr;Parent=Msa0039750-mRNA-1 |
| chr1_1 | three_prime_UTR | 69697306 | 69697403 | 69697306 | ID=Msa0039750-mRNA-1:three_prime_utr;Parent=Msa0039750-mRNA-1 |
| chr1_1 | three_prime_UTR | 69697122 | 69697204 | 69697122 | ID=Msa0039750-mRNA-1:three_prime_utr;Parent=Msa0039750-mRNA-1 |
| chr1_1 | three_prime_UTR | 69696250 | 69696327 | 69696250 | ID=Msa0039750-mRNA-1:three_prime_utr;Parent=Msa0039750-mRNA-1 |
| chr1_1 | three_prime_UTR | 69696078 | 69696176 | 69696078 | ID=Msa0039750-mRNA-1:three_prime_utr;Parent=Msa0039750-mRNA-1 |
| chr1_1 | three_prime_UTR | 69694897 | 69695738 | 69694897 | ID=Msa0039750-mRNA-1:three_prime_utr;Parent=Msa0039750-mRNA-1 |
| Gene Sequence |
>Msa0039750 ATGGCACAGTTTACCCCCTCAGGTAAATCTGATGATCCCACAAACGGAGAGTACAACGAAACAAGTGGACTGGTTGTTTGTTTTGGTGAGTTGTTAATAGATTTTGTGCCTACAGTGGGTGGAGTGTCTCTAGCCGAAGCACCTGCTTTCAAGAAAGCTCCTGGTGGTGCTCCCGCTAACGTTGGATCAGATGAATTTGGGTATATGTTGGCTGATATTTTAAAGCAAAATAATGTTGATACATCTGGCATGCGGTTTGATTCTGATGCCAGAACCGCATTGGCTTTTGTTACACTTAGAGCTGATGGCGAACGCGAGTTCTTGTTTTTCCGAAATCCTAGTGCTGATATGCTTCTGGATAAGTCAGAGCTTGACCATAACCTCATTGAAAAGGCTAAAATATTCCATTATGGTTCCATCAGTTTGATTGATGAGCCATGCAAGTCAGCTCATCTTGCTGCCTTGAGAATTGCTAAAGACTCTGATTGCATTCTCTCGTATGATCCGAATTTGAGATTGGCACTATGGCCATCAGCTGAGGCTGCTCGGACTGGTATAATGAGCATATGGGATCTAGCCGATGTCATAAAGATCAGTGAAGAGGAGATTACTTTTTTGACTGGTGGTGATGATCCTTATGATGATGATGTTGTATTAAACAAGCTTTTTCACCCTAATCTCAAACTTCTAATTGTTACTGAAGGGTCAGAGGGTTGTAGATATTACACCAAAGATTTTAAGGGCAAAGTTGGAGGTGTCAATGTTAAACCTGTTGACACAACTGGTGCTGGAGATGCATTTGTTAGTGGGATTCTCTACAACATAGCTTCCGACCCAAGTATTTTCGAGAATGAGGAGCATCTCCAGAAAGCGCTATATTTCGCAAATGTATGTGGTGCGATCACCGTGACAGAGAGAGGGGCAATTCCTGCACTACCTACAAAAGATGCTGCACGTGCAAGTTGCAAGCTATAA |
| Protein sequence |
>Msa0039750 MAQFTPSGKSDDPTNGEYNETSGLVVCFGELLIDFVPTVGGVSLAEAPAFKKAPGGAPANVGSDEFGYMLADILKQNNVDTSGMRFDSDARTALAFVTLRADGEREFLFFRNPSADMLLDKSELDHNLIEKAKIFHYGSISLIDEPCKSAHLAALRIAKDSDCILSYDPNLRLALWPSAEAARTGIMSIWDLADVIKISEEEITFLTGGDDPYDDDVVLNKLFHPNLKLLIVTEGSEGCRYYTKDFKGKVGGVNVKPVDTTGAGDAFVSGILYNIASDPSIFENEEHLQKALYFANVCGAITVTERGAIPALPTKDAARASCKL* |
