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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0354840 | XP_013459365.1 | 96.053 | 456 | 16 | 1 | 1 | 454 | 1 | 456 | 0.0 | 914 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0354840 | sp|Q9FLK4|GSXL8_ARATH | 68.293 | 451 | 136 | 5 | 6 | 452 | 11 | 458 | 0.0 | 647 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0354840 | A0A072UVJ0 | 96.053 | 456 | 16 | 1 | 1 | 454 | 1 | 456 | 0.0 | 914 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000370 | Msa0354840 | 0.859027 | 5.492827e-63 | -8.615850e-47 |
| Msa0001800 | Msa0354840 | 0.828640 | 8.036519e-55 | -8.615850e-47 |
| Msa0006080 | Msa0354840 | 0.830116 | 3.520781e-55 | -8.615850e-47 |
| Msa0013270 | Msa0354840 | 0.885558 | 7.328678e-72 | -8.615850e-47 |
| Msa0013970 | Msa0354840 | 0.806001 | 1.016693e-49 | -8.615850e-47 |
| Msa0022260 | Msa0354840 | 0.816688 | 4.859823e-52 | -8.615850e-47 |
| Msa0022400 | Msa0354840 | 0.801309 | 9.568979e-49 | -8.615850e-47 |
| Msa0025160 | Msa0354840 | 0.837782 | 4.241828e-57 | -8.615850e-47 |
| Msa0025570 | Msa0354840 | 0.811514 | 6.739739e-51 | -8.615850e-47 |
| Msa0030070 | Msa0354840 | 0.812094 | 5.039158e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0354840 | MtrunA17_Chr3g0091441 | 96.053 | 456 | 16 | 1 | 1 | 454 | 1 | 456 | 0.0 | 914 |
| Msa0354840 | MtrunA17_Chr5g0399001 | 48.322 | 447 | 202 | 10 | 9 | 441 | 31 | 462 | 8.01e-139 | 406 |
| Msa0354840 | MtrunA17_Chr8g0352461 | 42.697 | 445 | 228 | 9 | 11 | 444 | 4 | 432 | 1.19e-116 | 348 |
| Msa0354840 | MtrunA17_Chr8g0352481 | 42.459 | 431 | 227 | 8 | 11 | 435 | 4 | 419 | 1.19e-115 | 346 |
| Msa0354840 | MtrunA17_Chr3g0139441 | 25.229 | 218 | 126 | 5 | 13 | 228 | 41 | 223 | 2.97e-16 | 80.5 |
| Msa0354840 | MtrunA17_Chr7g0268621 | 25.214 | 234 | 137 | 5 | 11 | 241 | 6 | 204 | 1.42e-15 | 78.2 |
| Msa0354840 | MtrunA17_Chr7g0268611 | 25.506 | 247 | 137 | 6 | 7 | 242 | 4 | 214 | 1.86e-14 | 74.7 |
| Msa0354840 | MtrunA17_Chr2g0305211 | 27.572 | 243 | 127 | 8 | 9 | 227 | 3 | 220 | 2.88e-14 | 74.7 |
| Msa0354840 | MtrunA17_Chr2g0305231 | 27.572 | 243 | 127 | 8 | 9 | 227 | 3 | 220 | 2.88e-14 | 74.7 |
| Msa0354840 | MtrunA17_Chr2g0304651 | 27.099 | 262 | 140 | 10 | 9 | 245 | 3 | 238 | 3.25e-14 | 74.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0354840 | AT5G61290.1 | 68.293 | 451 | 136 | 5 | 6 | 452 | 11 | 458 | 0.0 | 647 |
| Msa0354840 | AT5G07800.1 | 66.886 | 456 | 138 | 5 | 3 | 450 | 8 | 458 | 0.0 | 641 |
| Msa0354840 | AT1G62620.1 | 46.429 | 448 | 219 | 9 | 6 | 443 | 8 | 444 | 2.03e-136 | 400 |
| Msa0354840 | AT1G63370.1 | 46.205 | 448 | 220 | 9 | 6 | 443 | 8 | 444 | 8.09e-136 | 398 |
| Msa0354840 | AT1G62560.1 | 45.133 | 452 | 225 | 9 | 1 | 441 | 1 | 440 | 1.38e-129 | 383 |
| Msa0354840 | AT1G65860.1 | 45.393 | 445 | 221 | 8 | 8 | 443 | 10 | 441 | 2.58e-128 | 379 |
| Msa0354840 | AT1G12200.1 | 47.523 | 444 | 214 | 10 | 8 | 441 | 11 | 445 | 2.65e-126 | 375 |
| Msa0354840 | AT1G62620.2 | 47.595 | 395 | 188 | 8 | 6 | 392 | 8 | 391 | 7.21e-123 | 363 |
| Msa0354840 | AT1G12140.1 | 45.638 | 447 | 219 | 9 | 7 | 443 | 9 | 441 | 1.79e-121 | 362 |
| Msa0354840 | AT1G12140.3 | 45.638 | 447 | 219 | 9 | 7 | 443 | 9 | 441 | 1.79e-121 | 362 |
Find 134 sgRNAs with CRISPR-Local
Find 328 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGTATTGCCATCATGGG+AGG | 0.610259 | 3_1:-28011417 | Msa0354840:CDS |
| AAATATACCTCATTGTGGAA+TGG | 0.585498 | 3_1:+28014320 | None:intergenic |
| AAATCTCCAATATCATGAGT+AGG | 0.603660 | 3_1:+28011341 | None:intergenic |
| AAATGCATAGTCACATTTAC+AGG | 0.376176 | 3_1:-28014352 | Msa0354840:CDS |
| AAGGACTTTGAAGGGCCTCT+TGG | 0.444012 | 3_1:+28010029 | None:intergenic |
| AAGGGATATAGTTGAAATGA+GGG | 0.489177 | 3_1:+28015552 | None:intergenic |
| AATACTAGGGTTAATTATGT+TGG | 0.420112 | 3_1:-28014894 | Msa0354840:CDS |
| AATCTCCAAGAGAAGTCATG+GGG | 0.726188 | 3_1:-28015043 | Msa0354840:CDS |
| AATGCTCAGGAATGGATACA+TGG | 0.580865 | 3_1:-28014385 | Msa0354840:intron |
| AATGTGTGTGTAATCGGTGC+TGG | 0.528554 | 3_1:-28015251 | Msa0354840:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAGGGATATAGTTGAAATGA+GGG | + | chr3_1:28009720-28009739 | None:intergenic | 30.0% | |
| TAAGGGATATAGTTGAAATG+AGG | + | chr3_1:28009721-28009740 | None:intergenic | 30.0% | |
| GATTAGGTCAGAGAAAATAA+GGG | + | chr3_1:28009822-28009841 | None:intergenic | 30.0% | |
| TTTAAGCTACAAATAGAGAG+TGG | + | chr3_1:28009921-28009940 | None:intergenic | 30.0% | |
| GAAAAGAGTTTCTACCTAAA+GGG | + | chr3_1:28010167-28010186 | None:intergenic | 30.0% | |
| AGAAAAGAGTTTCTACCTAA+AGG | + | chr3_1:28010168-28010187 | None:intergenic | 30.0% | |
| AGATGATAAGGTTCAATACT+AGG | - | chr3_1:28010361-28010380 | Msa0354840:intron | 30.0% | |
| GATGATAAGGTTCAATACTA+GGG | - | chr3_1:28010362-28010381 | Msa0354840:intron | 30.0% | |
| ATCATGTTACCTTTAATGGA+TGG | + | chr3_1:28010540-28010559 | None:intergenic | 30.0% | |
| TAGCAAAACCCATTAACTAT+TGG | - | chr3_1:28010686-28010705 | Msa0354840:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 28009693 | 28015598 | 28009693 | ID=Msa0354840;Name=Msa0354840 |
| chr3_1 | mRNA | 28009693 | 28015598 | 28009693 | ID=Msa0354840-mRNA-1;Parent=Msa0354840;Name=Msa0354840-mRNA-1;_AED=0.04;_eAED=0.04;_QI=268|1|1|1|0.85|0.75|8|307|454 |
| chr3_1 | exon | 28009693 | 28010188 | 28009693 | ID=Msa0354840-mRNA-1:exon:5888;Parent=Msa0354840-mRNA-1 |
| chr3_1 | exon | 28011337 | 28011501 | 28011337 | ID=Msa0354840-mRNA-1:exon:5887;Parent=Msa0354840-mRNA-1 |
| chr3_1 | exon | 28011988 | 28012123 | 28011988 | ID=Msa0354840-mRNA-1:exon:5886;Parent=Msa0354840-mRNA-1 |
| chr3_1 | exon | 28012680 | 28012762 | 28012680 | ID=Msa0354840-mRNA-1:exon:5885;Parent=Msa0354840-mRNA-1 |
| chr3_1 | exon | 28013839 | 28014000 | 28013839 | ID=Msa0354840-mRNA-1:exon:5884;Parent=Msa0354840-mRNA-1 |
| chr3_1 | exon | 28014328 | 28014398 | 28014328 | ID=Msa0354840-mRNA-1:exon:5883;Parent=Msa0354840-mRNA-1 |
| chr3_1 | exon | 28014742 | 28015383 | 28014742 | ID=Msa0354840-mRNA-1:exon:5882;Parent=Msa0354840-mRNA-1 |
| chr3_1 | exon | 28015414 | 28015598 | 28015414 | ID=Msa0354840-mRNA-1:exon:5881;Parent=Msa0354840-mRNA-1 |
| chr3_1 | five_prime_UTR | 28015414 | 28015598 | 28015414 | ID=Msa0354840-mRNA-1:five_prime_utr;Parent=Msa0354840-mRNA-1 |
| chr3_1 | five_prime_UTR | 28015301 | 28015383 | 28015301 | ID=Msa0354840-mRNA-1:five_prime_utr;Parent=Msa0354840-mRNA-1 |
| chr3_1 | CDS | 28014742 | 28015300 | 28014742 | ID=Msa0354840-mRNA-1:cds;Parent=Msa0354840-mRNA-1 |
| chr3_1 | CDS | 28014328 | 28014398 | 28014328 | ID=Msa0354840-mRNA-1:cds;Parent=Msa0354840-mRNA-1 |
| chr3_1 | CDS | 28013839 | 28014000 | 28013839 | ID=Msa0354840-mRNA-1:cds;Parent=Msa0354840-mRNA-1 |
| chr3_1 | CDS | 28012680 | 28012762 | 28012680 | ID=Msa0354840-mRNA-1:cds;Parent=Msa0354840-mRNA-1 |
| chr3_1 | CDS | 28011988 | 28012123 | 28011988 | ID=Msa0354840-mRNA-1:cds;Parent=Msa0354840-mRNA-1 |
| chr3_1 | CDS | 28011337 | 28011501 | 28011337 | ID=Msa0354840-mRNA-1:cds;Parent=Msa0354840-mRNA-1 |
| chr3_1 | CDS | 28010000 | 28010188 | 28010000 | ID=Msa0354840-mRNA-1:cds;Parent=Msa0354840-mRNA-1 |
| chr3_1 | three_prime_UTR | 28009693 | 28009999 | 28009693 | ID=Msa0354840-mRNA-1:three_prime_utr;Parent=Msa0354840-mRNA-1 |
| Gene Sequence |
>Msa0354840 ATGGTTTCCGAGACGAACCAATCGAAGAATGTGTGTGTAATCGGTGCTGGACCAGCAGGCCTAGTAGCAGCAAGAGAGATAAGAAAAGAAGGTCACAAAGTAATTGTGCTAGAACAGAATCATGACATTGGAGGACAATGGTTATATGATGATAAAAATATAGAAGGTGAAGACCCTTTAGGTAGAAACTCTTTTCTAAAAGTTCATAGCAGTATCTATAACTCTTTAAGAACACAATCTCCAAGAGAAGTCATGGGGTTCACAGATTTTCCATTTTCTACCAAGAAAGGTAGAGACATGAGGAGGTTCCCTGGCCATGTTGAAATACTTATGTATCTAAAAGATTTTTGTGAATGGTTTGGGTTAAGAGAGATGATAAGGTTCAATACTAGGGTTAATTATGTTGGAATGCTTGATGATTATGGTGTTTGTGGAAATAATTTGAAGTGGATTGTTAGAAGCAAAGAGAAGGATTGTGATAAGGTTGTGGAAGAGGTTTTTGATGCAGTGGTTGTTGCCACTGGTCATTACGCTCAACCAAAATTGCCATCCATTAAAGGAATGGATACATGGAAAAGAAAACAAATGCATAGTCACATTTACAGGACTCCAGAACCATTCCACAATGAGGTTGTGGTGGTGGTTGGAAATTCCTATAGTGGCCAAGATATAGCAATAGAACTAGTGGGAATAGCAAAGGAAGTTCATATAAGTTCAAGATCTCTTGATACTATAACTGAGGGATTTTCTAAAGTCATATCAAAACATGAGACCTTACACCTTCATCCACAGATAGACGCCCTTGAAGAGGATGGAAGGGTAATTTTCATAGATGGTTCTTGCGTTAAAGCAGACTCTATTGTGTATTGTACAGGGTACTCCTATAGCTTCCCTTTTCTTGACACCAAAGGAATGGTGGTTATAGAAGATGACAGAGTGGGGCCTTTGTATGAGCACACTTTCCACCCTTTACTTTCTCCATCTCTTACTTTTATAGGCATCCCTAAAAAGATTTTAGGATTCCCTTTCTTTGAGTCCCAAGCAATGTGGATAGCTCAATTGCTTTCTGGGAAAAAAGTATTGCCATCATGGGAGGAAATGATGAAATCCATCGAGGAGTTCTACCATGAAAGAGAAGTAGCAGGCATTCCTACTCATGATATTGGAGATTTTGAGTATTGTGACAAATATGGTGAGAATGTAGGACTCCCACCATTACAAGAATGGAGAAAAGTGCTTTGTGTTTCAGCCATAATTAACTCCATTGTTAACTTGGAGACATATCGAGACTCATGGGATGATGATGAGGTGCTCCAAGAGGCCCTTCAAAGTCCTTACTTCACTCAACTTGGACTTGAAGATTGA |
| Protein sequence |
>Msa0354840 MVSETNQSKNVCVIGAGPAGLVAAREIRKEGHKVIVLEQNHDIGGQWLYDDKNIEGEDPLGRNSFLKVHSSIYNSLRTQSPREVMGFTDFPFSTKKGRDMRRFPGHVEILMYLKDFCEWFGLREMIRFNTRVNYVGMLDDYGVCGNNLKWIVRSKEKDCDKVVEEVFDAVVVATGHYAQPKLPSIKGMDTWKRKQMHSHIYRTPEPFHNEVVVVVGNSYSGQDIAIELVGIAKEVHISSRSLDTITEGFSKVISKHETLHLHPQIDALEEDGRVIFIDGSCVKADSIVYCTGYSYSFPFLDTKGMVVIEDDRVGPLYEHTFHPLLSPSLTFIGIPKKILGFPFFESQAMWIAQLLSGKKVLPSWEEMMKSIEEFYHEREVAGIPTHDIGDFEYCDKYGENVGLPPLQEWRKVLCVSAIINSIVNLETYRDSWDDDEVLQEALQSPYFTQLGLED* |
