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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0257120 | XP_003596596.2 | 99.317 | 439 | 3 | 0 | 1 | 439 | 1 | 439 | 0.0 | 906 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0257120 | sp|Q9FIU5|CRLK1_ARATH | 77.294 | 436 | 93 | 4 | 1 | 433 | 1 | 433 | 0.0 | 682 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0217290 | Msa0257120 | 0.890851 | 6.775768e-74 | -8.615850e-47 |
| Msa0257120 | Msa1274560 | 0.801770 | 7.696413e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0257120 | MtrunA17_Chr2g0319101 | 99.317 | 439 | 3 | 0 | 1 | 439 | 1 | 439 | 0.0 | 906 |
| Msa0257120 | MtrunA17_Chr4g0048951 | 58.561 | 403 | 163 | 4 | 8 | 408 | 13 | 413 | 4.98e-167 | 476 |
| Msa0257120 | MtrunA17_Chr6g0455651 | 53.351 | 388 | 172 | 5 | 1 | 383 | 1 | 384 | 3.71e-144 | 418 |
| Msa0257120 | MtrunA17_Chr3g0123141 | 40.483 | 373 | 187 | 8 | 8 | 371 | 529 | 875 | 2.94e-73 | 247 |
| Msa0257120 | MtrunA17_Chr4g0044691 | 41.100 | 309 | 171 | 2 | 95 | 397 | 308 | 611 | 5.09e-72 | 239 |
| Msa0257120 | MtrunA17_Chr1g0181731 | 45.230 | 283 | 141 | 5 | 102 | 372 | 588 | 868 | 2.84e-71 | 241 |
| Msa0257120 | MtrunA17_Chr8g0341111 | 42.517 | 294 | 157 | 5 | 102 | 385 | 470 | 761 | 3.75e-71 | 239 |
| Msa0257120 | MtrunA17_Chr7g0237401 | 43.403 | 288 | 149 | 5 | 102 | 375 | 81 | 368 | 9.33e-71 | 230 |
| Msa0257120 | MtrunA17_Chr2g0320111 | 40.385 | 312 | 164 | 6 | 88 | 379 | 66 | 375 | 1.24e-70 | 229 |
| Msa0257120 | MtrunA17_Chr7g0251771 | 43.878 | 294 | 152 | 6 | 102 | 382 | 39 | 332 | 3.27e-70 | 227 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0257120 | AT5G54590.3 | 77.294 | 436 | 93 | 4 | 1 | 433 | 1 | 433 | 0.0 | 682 |
| Msa0257120 | AT5G54590.4 | 77.294 | 436 | 93 | 4 | 1 | 433 | 1 | 433 | 0.0 | 682 |
| Msa0257120 | AT5G54590.2 | 77.294 | 436 | 93 | 4 | 1 | 433 | 1 | 433 | 0.0 | 682 |
| Msa0257120 | AT5G54590.1 | 76.923 | 247 | 52 | 2 | 1 | 242 | 1 | 247 | 5.12e-136 | 391 |
| Msa0257120 | AT5G15730.3 | 46.500 | 400 | 202 | 7 | 1 | 394 | 1 | 394 | 2.14e-119 | 355 |
| Msa0257120 | AT5G15730.2 | 46.500 | 400 | 202 | 7 | 1 | 394 | 1 | 394 | 2.14e-119 | 355 |
| Msa0257120 | AT5G15730.1 | 46.366 | 399 | 202 | 7 | 1 | 394 | 1 | 392 | 2.21e-118 | 353 |
| Msa0257120 | AT5G28680.1 | 39.426 | 383 | 202 | 11 | 9 | 379 | 432 | 796 | 2.04e-73 | 247 |
| Msa0257120 | AT5G28680.2 | 39.426 | 383 | 202 | 11 | 9 | 379 | 432 | 796 | 2.04e-73 | 247 |
| Msa0257120 | AT3G07070.1 | 39.730 | 370 | 187 | 10 | 24 | 374 | 1 | 353 | 3.23e-72 | 233 |
Find 112 sgRNAs with CRISPR-Local
Find 304 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGTGATGTCTACAGTTT+TGG | 0.271096 | 2_2:+52861787 | Msa0257120:CDS |
| AAACCCTCAGCAGGGTCTTA+TGG | 0.334012 | 2_2:+52861840 | Msa0257120:CDS |
| AACTTGGAGAAGTGAAGTAG+TGG | 0.601807 | 2_2:-52857451 | None:intergenic |
| AAGAGAATGGGAATCTGGGC+TGG | 0.424441 | 2_2:+52860923 | Msa0257120:CDS |
| AAGAGGAAAGTATTTGAGAT+TGG | 0.366616 | 2_2:-52857422 | None:intergenic |
| AAGGAAGCGTCCTTCGATGA+GGG | 0.595094 | 2_2:+52862700 | Msa0257120:CDS |
| AAGGACGCTTCCTTGGGGAA+CGG | 0.629063 | 2_2:-52862691 | None:intergenic |
| AAGGTTACACCATAGAAACT+TGG | 0.604514 | 2_2:+52859723 | Msa0257120:CDS |
| AATGGATTATATAATCAATA+AGG | 0.349507 | 2_2:+52858241 | Msa0257120:five_prime_UTR |
| AATTGCAACTTCATCTGTCG+TGG | 0.610962 | 2_2:-52862795 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TAAAAACATGGAATGGAACT+TGG | - | chr2_2:52857470-52857489 | None:intergenic | 30.0% | |
| TGAAAACGTTGCTAAAAACA+TGG | - | chr2_2:52857482-52857501 | None:intergenic | 30.0% | |
| GCAAATATGGTTGACTAAAA+AGG | - | chr2_2:52857630-52857649 | None:intergenic | 30.0% | |
| CAAAACATAGACAGCAAATA+TGG | - | chr2_2:52857643-52857662 | None:intergenic | 30.0% | |
| TTATTCTCAGCAACCAAAAA+GGG | - | chr2_2:52857781-52857800 | None:intergenic | 30.0% | |
| TTTATTCTCAGCAACCAAAA+AGG | - | chr2_2:52857782-52857801 | None:intergenic | 30.0% | |
| CTTACTTGAGATTTCATTGA+TGG | + | chr2_2:52857847-52857866 | Msa0257120:intron | 30.0% | |
| GAATCAACAGGATTAATCAT+TGG | + | chr2_2:52858297-52858316 | Msa0257120:CDS | 30.0% | |
| TTGTATCGTGTTTGCTTTAA+AGG | + | chr2_2:52858623-52858642 | Msa0257120:intron | 30.0% | |
| ATCATAACCAATCGAATGTT+TGG | + | chr2_2:52858777-52858796 | Msa0257120:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 52857226 | 52862937 | 52857226 | ID=Msa0257120;Name=Msa0257120 |
| chr2_2 | mRNA | 52857226 | 52862937 | 52857226 | ID=Msa0257120-mRNA-1;Parent=Msa0257120;Name=Msa0257120-mRNA-1;_AED=0.09;_eAED=0.09;_QI=356|1|0.88|1|0.75|0.66|9|0|439 |
| chr2_2 | exon | 52857226 | 52857361 | 52857226 | ID=Msa0257120-mRNA-1:exon:15830;Parent=Msa0257120-mRNA-1 |
| chr2_2 | exon | 52857398 | 52857563 | 52857398 | ID=Msa0257120-mRNA-1:exon:15831;Parent=Msa0257120-mRNA-1 |
| chr2_2 | exon | 52858234 | 52858601 | 52858234 | ID=Msa0257120-mRNA-1:exon:15832;Parent=Msa0257120-mRNA-1 |
| chr2_2 | exon | 52859294 | 52859447 | 52859294 | ID=Msa0257120-mRNA-1:exon:15833;Parent=Msa0257120-mRNA-1 |
| chr2_2 | exon | 52859709 | 52859835 | 52859709 | ID=Msa0257120-mRNA-1:exon:15834;Parent=Msa0257120-mRNA-1 |
| chr2_2 | exon | 52860920 | 52861005 | 52860920 | ID=Msa0257120-mRNA-1:exon:15835;Parent=Msa0257120-mRNA-1 |
| chr2_2 | exon | 52861086 | 52861157 | 52861086 | ID=Msa0257120-mRNA-1:exon:15836;Parent=Msa0257120-mRNA-1 |
| chr2_2 | exon | 52861676 | 52861876 | 52861676 | ID=Msa0257120-mRNA-1:exon:15837;Parent=Msa0257120-mRNA-1 |
| chr2_2 | exon | 52862572 | 52862937 | 52862572 | ID=Msa0257120-mRNA-1:exon:15838;Parent=Msa0257120-mRNA-1 |
| chr2_2 | five_prime_UTR | 52857226 | 52857361 | 52857226 | ID=Msa0257120-mRNA-1:five_prime_utr;Parent=Msa0257120-mRNA-1 |
| chr2_2 | five_prime_UTR | 52857398 | 52857563 | 52857398 | ID=Msa0257120-mRNA-1:five_prime_utr;Parent=Msa0257120-mRNA-1 |
| chr2_2 | five_prime_UTR | 52858234 | 52858287 | 52858234 | ID=Msa0257120-mRNA-1:five_prime_utr;Parent=Msa0257120-mRNA-1 |
| chr2_2 | CDS | 52858288 | 52858601 | 52858288 | ID=Msa0257120-mRNA-1:cds;Parent=Msa0257120-mRNA-1 |
| chr2_2 | CDS | 52859294 | 52859447 | 52859294 | ID=Msa0257120-mRNA-1:cds;Parent=Msa0257120-mRNA-1 |
| chr2_2 | CDS | 52859709 | 52859835 | 52859709 | ID=Msa0257120-mRNA-1:cds;Parent=Msa0257120-mRNA-1 |
| chr2_2 | CDS | 52860920 | 52861005 | 52860920 | ID=Msa0257120-mRNA-1:cds;Parent=Msa0257120-mRNA-1 |
| chr2_2 | CDS | 52861086 | 52861157 | 52861086 | ID=Msa0257120-mRNA-1:cds;Parent=Msa0257120-mRNA-1 |
| chr2_2 | CDS | 52861676 | 52861876 | 52861676 | ID=Msa0257120-mRNA-1:cds;Parent=Msa0257120-mRNA-1 |
| chr2_2 | CDS | 52862572 | 52862937 | 52862572 | ID=Msa0257120-mRNA-1:cds;Parent=Msa0257120-mRNA-1 |
| Gene Sequence |
>Msa0257120 ATGAAAGACGAATCAACAGGATTAATCATTGGAATTTCTATAGGTGTTGTAATTGGAGTTGTTTTAGCAATTTCTGCATTGATCTGTTTTAGATATCATAGGAAGAGATCACAGATAGGGAATAGTAGTTCTCGGAGAGCGGCTGCAATACCGATTCGCACAAATGGTGCTGATTCTTGTACTATTTTATCAGATTCAACCTTAGGTCCTGAATCACCTGTAAGGTCTGGTAGAAATGGCATGAACTTCTGGATTGATGGTTTCAAGAAAAGTAACATGATTTCTGCATCTGGAATACTTGAATATTCATACAAGGACTTGCAAAAGGCAACATATAATTTTACAACACTAATAGGACAAGGTGCATTTGGTCCTGTATATAAAGCTCAAATGTCTACTGGTGAGACTGTTGCAGTTAAAGTTCTTGCAACCAATTCTAAACAAGGGGAGAAAGAATTTCACACAGAGGTTATGTTGTTGGGAAGGTTACACCATAGAAACTTGGTCAATTTGGTTGGATATTGTGCAGAAAAGGGTCAACATATGCTTGTTTATGTTTACATGAGTAAAGGCAACTTGGCTTCCCACTTGTACAGTGAAGAGAATGGGAATCTGGGCTGGGATTTGAGGGTTCATATAGCTTTAGATGTAGCAAGAGGCTTGGAGTATCTTCATGATGGGGCAGTTCCTCCTGTCATCCATCGTGACATCAAATCTAACAATATTCTCTTGGATCAGTCCATGCGAGCCCGGGTTGCTGATTTTGGACTTTCAAGAGAAGAGATGGTTGATAAACATGCTGCTATTCGTGGCACCTTTGGCTATCTGGATCCTGAATATATATCATCCGGGACATTCACCAAAAAAAGTGATGTCTACAGTTTTGGAGTGTTGCTATTTGAACTTATAGCTGGCCGAAACCCTCAGCAGGGTCTTATGGAACATGTGGAACTCGCAGCGATGAACTCTGAGGGAAAAGTTGGTTGGGAGGAGATTGTTGATTCAAAGCTTGAAGGAAAATGTGATTTACAAGAGGTGAATGAAGTGGCTGCACTTGCATACAGATGCATCAACCGTTCCCCAAGGAAGCGTCCTTCGATGAGGGACATAGTTCAAGTATTGACTCGAATCCTTAAAGCAAGGTATCAGAGGAATCATCACAAGAAGTCTCTTTCGGCCACGACAGATGAAGTTGCAATTGATGTTGATGAGCCAGAAAATAAGGGTCATGTTACTGACCACAGAAGAGATGAATCTATAGATAGTCGCCACAGAAGAGATGAATCTATAGATAGTGCAACTGACATGTATGATTTGTAA |
| Protein sequence |
>Msa0257120 MKDESTGLIIGISIGVVIGVVLAISALICFRYHRKRSQIGNSSSRRAAAIPIRTNGADSCTILSDSTLGPESPVRSGRNGMNFWIDGFKKSNMISASGILEYSYKDLQKATYNFTTLIGQGAFGPVYKAQMSTGETVAVKVLATNSKQGEKEFHTEVMLLGRLHHRNLVNLVGYCAEKGQHMLVYVYMSKGNLASHLYSEENGNLGWDLRVHIALDVARGLEYLHDGAVPPVIHRDIKSNNILLDQSMRARVADFGLSREEMVDKHAAIRGTFGYLDPEYISSGTFTKKSDVYSFGVLLFELIAGRNPQQGLMEHVELAAMNSEGKVGWEEIVDSKLEGKCDLQEVNEVAALAYRCINRSPRKRPSMRDIVQVLTRILKARYQRNHHKKSLSATTDEVAIDVDEPENKGHVTDHRRDESIDSRHRRDESIDSATDMYDL* |
