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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0139050 | XP_024637017.1 | 94.301 | 386 | 12 | 2 | 6 | 391 | 4 | 379 | 0.0 | 749 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0139050 | sp|P51281|YCF45_PORPU | 58.716 | 327 | 132 | 2 | 57 | 382 | 5 | 329 | 8.70e-133 | 395 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0139050 | A0A396JQ65 | 94.301 | 386 | 12 | 2 | 6 | 391 | 4 | 379 | 0.0 | 749 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000220 | Msa0139050 | 0.845821 | 3.197595e-59 | -8.615850e-47 |
| Msa0000780 | Msa0139050 | 0.810282 | 1.245408e-50 | -8.615850e-47 |
| Msa0001460 | Msa0139050 | 0.847609 | 1.037900e-59 | -8.615850e-47 |
| Msa0001540 | Msa0139050 | 0.829193 | 5.901951e-55 | -8.615850e-47 |
| Msa0003470 | Msa0139050 | 0.808372 | 3.199432e-50 | -8.615850e-47 |
| Msa0008850 | Msa0139050 | 0.810917 | 9.083164e-51 | -8.615850e-47 |
| Msa0010460 | Msa0139050 | -0.811165 | 8.023501e-51 | -8.615850e-47 |
| Msa0011610 | Msa0139050 | 0.800003 | 1.767272e-48 | -8.615850e-47 |
| Msa0012460 | Msa0139050 | 0.872220 | 3.760493e-67 | -8.615850e-47 |
| Msa0015370 | Msa0139050 | 0.816175 | 6.331942e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0139050 | MtrunA17_Chr1g0188261 | 94.301 | 386 | 12 | 2 | 6 | 391 | 4 | 379 | 0.0 | 749 |
| Msa0139050 | MtrunA17_Chr1g0210231 | 53.582 | 349 | 148 | 4 | 31 | 375 | 63 | 401 | 1.71e-117 | 357 |
| Msa0139050 | MtrunA17_Chr8g0360481 | 54.747 | 316 | 140 | 2 | 58 | 372 | 67 | 380 | 1.40e-116 | 353 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0139050 | AT1G33290.1 | 72.554 | 368 | 96 | 2 | 23 | 388 | 11 | 375 | 0.0 | 548 |
| Msa0139050 | AT1G33290.3 | 79.734 | 301 | 61 | 0 | 88 | 388 | 1 | 301 | 0.0 | 506 |
| Msa0139050 | AT3G10420.1 | 56.962 | 316 | 133 | 2 | 58 | 372 | 96 | 409 | 1.76e-118 | 355 |
| Msa0139050 | AT3G10420.2 | 56.962 | 316 | 133 | 2 | 58 | 372 | 96 | 409 | 1.99e-117 | 357 |
| Msa0139050 | AT1G73170.1 | 51.622 | 339 | 160 | 3 | 56 | 392 | 78 | 414 | 5.72e-116 | 352 |
| Msa0139050 | AT1G73170.3 | 51.622 | 339 | 160 | 3 | 56 | 392 | 78 | 414 | 6.90e-116 | 352 |
| Msa0139050 | AT1G73170.2 | 56.089 | 271 | 117 | 2 | 124 | 392 | 16 | 286 | 1.39e-100 | 309 |
| Msa0139050 | AT1G33290.2 | 67.299 | 211 | 64 | 2 | 23 | 231 | 11 | 218 | 1.88e-93 | 283 |
| Msa0139050 | AT1G33290.2 | 77.381 | 84 | 19 | 0 | 305 | 388 | 216 | 299 | 4.80e-39 | 142 |
| Msa0139050 | AT1G73170.4 | 47.857 | 140 | 71 | 2 | 255 | 392 | 1 | 140 | 4.89e-33 | 128 |
Find 105 sgRNAs with CRISPR-Local
Find 297 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGGGGAACTGGGGATAA+GGG | 0.412843 | 1_3:+72249489 | Msa0139050:five_prime_UTR |
| AAAGTTGAGGGCGGTTAGGT+TGG | 0.545084 | 1_3:-72249818 | None:intergenic |
| AAATTATATTATGGAAAGGG+AGG | 0.547372 | 1_3:-72254027 | None:intergenic |
| AACACAATTTACAAAATGAA+TGG | 0.363945 | 1_3:-72254056 | None:intergenic |
| AAGAATTACCTCAACCTGTG+GGG | 0.683693 | 1_3:-72253095 | None:intergenic |
| AAGCTGAAGCTCATGCATGC+CGG | 0.588992 | 1_3:+72251600 | Msa0139050:CDS |
| AATATTCCTCATGCAGCAAT+AGG | 0.447097 | 1_3:+72251467 | Msa0139050:CDS |
| AATGATAGCTGCAAATGCAA+TGG | 0.628631 | 1_3:+72249523 | Msa0139050:exon |
| ACACAATTTACAAAATGAAT+GGG | 0.435255 | 1_3:-72254055 | None:intergenic |
| ACACTACTGGGTTACACATC+AGG | 0.473781 | 1_3:+72252352 | Msa0139050:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GAAAGTTGTAAGAAAGGAAA+TGG | - | chr1_3:72249744-72249763 | None:intergenic | 30.0% | |
| TCATCAGGTTATATTGGATT+TGG | + | chr1_3:72250026-72250045 | Msa0139050:intron | 30.0% | |
| CATCAGGTTATATTGGATTT+GGG | + | chr1_3:72250027-72250046 | Msa0139050:intron | 30.0% | |
| CCTCAGAATTTCTTAGATAA+TGG | - | chr1_3:72250092-72250111 | None:intergenic | 30.0% | |
| CCATTATCTAAGAAATTCTG+AGG | + | chr1_3:72250089-72250108 | Msa0139050:CDS | 30.0% | |
| AAAAAGAATGCTCTGTTCAA+AGG | + | chr1_3:72250299-72250318 | Msa0139050:intron | 30.0% | |
| GATCATAAACCATGTCAATA+TGG | - | chr1_3:72250529-72250548 | None:intergenic | 30.0% | |
| GTTTATGATCTGCTTCAATA+TGG | + | chr1_3:72250539-72250558 | Msa0139050:CDS | 30.0% | |
| ATATAGATGTGCATCATTCA+TGG | + | chr1_3:72250590-72250609 | Msa0139050:intron | 30.0% | |
| AGCCCATGATCTATTATAAA+TGG | + | chr1_3:72251090-72251109 | Msa0139050:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 72249439 | 72254271 | 72249439 | ID=Msa0139050;Name=Msa0139050 |
| chr1_3 | mRNA | 72249439 | 72254271 | 72249439 | ID=Msa0139050-mRNA-1;Parent=Msa0139050;Name=Msa0139050-mRNA-1;_AED=0.10;_eAED=0.10;_QI=85|1|1|1|1|1|9|249|392 |
| chr1_3 | exon | 72249439 | 72249715 | 72249439 | ID=Msa0139050-mRNA-1:exon:25210;Parent=Msa0139050-mRNA-1 |
| chr1_3 | exon | 72249783 | 72249845 | 72249783 | ID=Msa0139050-mRNA-1:exon:25211;Parent=Msa0139050-mRNA-1 |
| chr1_3 | exon | 72250033 | 72250110 | 72250033 | ID=Msa0139050-mRNA-1:exon:25212;Parent=Msa0139050-mRNA-1 |
| chr1_3 | exon | 72250365 | 72250585 | 72250365 | ID=Msa0139050-mRNA-1:exon:25213;Parent=Msa0139050-mRNA-1 |
| chr1_3 | exon | 72251259 | 72251331 | 72251259 | ID=Msa0139050-mRNA-1:exon:25214;Parent=Msa0139050-mRNA-1 |
| chr1_3 | exon | 72251428 | 72251712 | 72251428 | ID=Msa0139050-mRNA-1:exon:25215;Parent=Msa0139050-mRNA-1 |
| chr1_3 | exon | 72252230 | 72252373 | 72252230 | ID=Msa0139050-mRNA-1:exon:25216;Parent=Msa0139050-mRNA-1 |
| chr1_3 | exon | 72253058 | 72253108 | 72253058 | ID=Msa0139050-mRNA-1:exon:25217;Parent=Msa0139050-mRNA-1 |
| chr1_3 | exon | 72253951 | 72254271 | 72253951 | ID=Msa0139050-mRNA-1:exon:25218;Parent=Msa0139050-mRNA-1 |
| chr1_3 | five_prime_UTR | 72249439 | 72249523 | 72249439 | ID=Msa0139050-mRNA-1:five_prime_utr;Parent=Msa0139050-mRNA-1 |
| chr1_3 | CDS | 72249524 | 72249715 | 72249524 | ID=Msa0139050-mRNA-1:cds;Parent=Msa0139050-mRNA-1 |
| chr1_3 | CDS | 72249783 | 72249845 | 72249783 | ID=Msa0139050-mRNA-1:cds;Parent=Msa0139050-mRNA-1 |
| chr1_3 | CDS | 72250033 | 72250110 | 72250033 | ID=Msa0139050-mRNA-1:cds;Parent=Msa0139050-mRNA-1 |
| chr1_3 | CDS | 72250365 | 72250585 | 72250365 | ID=Msa0139050-mRNA-1:cds;Parent=Msa0139050-mRNA-1 |
| chr1_3 | CDS | 72251259 | 72251331 | 72251259 | ID=Msa0139050-mRNA-1:cds;Parent=Msa0139050-mRNA-1 |
| chr1_3 | CDS | 72251428 | 72251712 | 72251428 | ID=Msa0139050-mRNA-1:cds;Parent=Msa0139050-mRNA-1 |
| chr1_3 | CDS | 72252230 | 72252373 | 72252230 | ID=Msa0139050-mRNA-1:cds;Parent=Msa0139050-mRNA-1 |
| chr1_3 | CDS | 72253058 | 72253108 | 72253058 | ID=Msa0139050-mRNA-1:cds;Parent=Msa0139050-mRNA-1 |
| chr1_3 | CDS | 72253951 | 72254022 | 72253951 | ID=Msa0139050-mRNA-1:cds;Parent=Msa0139050-mRNA-1 |
| chr1_3 | three_prime_UTR | 72254023 | 72254271 | 72254023 | ID=Msa0139050-mRNA-1:three_prime_utr;Parent=Msa0139050-mRNA-1 |
| Gene Sequence |
>Msa0139050 ATGATAGCTGCAAATGCAATGGCATGTTGGTCATGTTTGATGGCAGCAACAGCAACAGCAACAACAGCAGCATGGAAATTGAAGTCACCACCGACCCTCAAATTCAAATGCTATGCCGCGACTCAGCCACAGCCAGAGTCACAGTCACAGTGTTCTCTTGTGCACAACGACGACCTCCAAGCTCTCTTACAGATTCTTCCTTCAGATTTGCATCACAATCTAATCAACCAACCTAACCGCCCTCAACTTTTGGAGGTTATATTGGATTTGGGCCGTTTTCCTGAAGCGCGGTATCTAGGCAAACACGGAAACCATTATCTAAGAAATTCTGAGGTAACAGTGAGAGAGTTGGAATATGCTGAAGGAGCAGTTGGAGATTTTGGGAAGGATAATAGAGCTGGTATTGAAGGTACTTTGCACAGAATATCAGCAATAAGGAGTAGGAATGGTGGCATTGTTGGTTTGACGTGTCGGATTGGGAGGGCTGTCACTGGCCATATTGACATGGTTTATGATCTGCTTCAATATGGCAAGAGCATTTTATTTCTTGGAAGGCCTGGGGTTGGCAAGACTACTGTTATGAGAGAGATTGCTCGTGTTCTGTCAGATGAATTTCACAAAAGAGTGGTGATTGTTGATACCAGTAATGAAATTGGAGGTGATGGCAATATTCCTCATGCAGCAATAGGTGGTGCACGTAGAATGCAGGTATCCGAGCCATCAATGCAACATAGCGTGATGATTGAGGCAGTAGAAAATCATATGCCTGAGGTGATTATAGTAGATGAGATTGGCACAGAAGCTGAAGCTCATGCATGCCGGTCGATTGCTGAGCGAGGCATCATGCTTATAGGGACTGCTCATGGACAGCAAATTGAGAATGTCATGAAGAATCCTACGCTCTCTGACCTGATTGGTGGAATTGAAAGTGTTACTCTGGGAGACTACGAAGCCAGAGCAAGAAAATGTCAGAAGACTATTCTTGAGAGGAAAGCTCCTCCAACATTTGATTTCTTGATTGAGATGAGAGATAGACACTACTGGGTTACACATCAGACCGACAAAAGCGTAGATATATTGCTTCGAGGCAAGACCCCACAGGTTGAGGTAAGAAAAAGAGATGAGAAATACAAGGTTGTGATCGAAAAATCTAAAGCATATGATAAGTGTCAAATTTGA |
| Protein sequence |
>Msa0139050 MIAANAMACWSCLMAATATATTAAWKLKSPPTLKFKCYAATQPQPESQSQCSLVHNDDLQALLQILPSDLHHNLINQPNRPQLLEVILDLGRFPEARYLGKHGNHYLRNSEVTVRELEYAEGAVGDFGKDNRAGIEGTLHRISAIRSRNGGIVGLTCRIGRAVTGHIDMVYDLLQYGKSILFLGRPGVGKTTVMREIARVLSDEFHKRVVIVDTSNEIGGDGNIPHAAIGGARRMQVSEPSMQHSVMIEAVENHMPEVIIVDEIGTEAEAHACRSIAERGIMLIGTAHGQQIENVMKNPTLSDLIGGIESVTLGDYEARARKCQKTILERKAPPTFDFLIEMRDRHYWVTHQTDKSVDILLRGKTPQVEVRKRDEKYKVVIEKSKAYDKCQI* |
