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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0095010 | A0A072UHD3 | 98.529 | 136 | 2 | 0 | 1 | 136 | 1 | 136 | 5.78e-93 | 275 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000490 | Msa0095010 | -0.823663 | 1.226674e-53 | -8.615850e-47 |
| Msa0004920 | Msa0095010 | 0.801897 | 7.247325e-49 | -8.615850e-47 |
| Msa0006550 | Msa0095010 | 0.808267 | 3.368186e-50 | -8.615850e-47 |
| Msa0008410 | Msa0095010 | 0.818856 | 1.575291e-52 | -8.615850e-47 |
| Msa0013050 | Msa0095010 | -0.823364 | 1.441632e-53 | -8.615850e-47 |
| Msa0023830 | Msa0095010 | -0.801984 | 6.957952e-49 | -8.615850e-47 |
| Msa0025730 | Msa0095010 | 0.832913 | 7.205607e-56 | -8.615850e-47 |
| Msa0028660 | Msa0095010 | 0.809845 | 1.547295e-50 | -8.615850e-47 |
| Msa0030380 | Msa0095010 | 0.820462 | 6.773451e-53 | -8.615850e-47 |
| Msa0032260 | Msa0095010 | 0.824489 | 7.850355e-54 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0095010 | MtrunA17_Chr4g0000361 | 98.529 | 136 | 2 | 0 | 1 | 136 | 1 | 136 | 1.11e-96 | 275 |
| Msa0095010 | MtrunA17_Chr3g0138861 | 63.014 | 73 | 27 | 0 | 64 | 136 | 1 | 73 | 1.05e-30 | 105 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0095010 | AT1G16810.3 | 61.111 | 144 | 48 | 2 | 1 | 136 | 1 | 144 | 7.85e-47 | 149 |
| Msa0095010 | AT1G16810.2 | 61.111 | 144 | 48 | 2 | 1 | 136 | 1 | 144 | 7.85e-47 | 149 |
| Msa0095010 | AT1G16810.1 | 61.111 | 144 | 48 | 2 | 1 | 136 | 1 | 144 | 7.85e-47 | 149 |
Find 39 sgRNAs with CRISPR-Local
Find 289 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGCATTGGATGTTGCTGG+CGG | 0.694873 | 1_2:-78430839 | Msa0095010:CDS |
| AACAAACAAATACAAATGAC+AGG | 0.476276 | 1_2:+78429512 | None:intergenic |
| AACCCAAAGAATAACTGAAT+TGG | 0.374907 | 1_2:+78429259 | None:intergenic |
| AAGTTGGTCCTGGTGATTCA+AGG | 0.477994 | 1_2:-78429563 | Msa0095010:CDS |
| AATGATCAAGAAGTAAATGA+TGG | 0.482714 | 1_2:-78429780 | Msa0095010:CDS |
| ACAAACAAATACAAATGACA+GGG | 0.651390 | 1_2:+78429513 | None:intergenic |
| ACTGAAGATGAAATCTCAGC+AGG | 0.540124 | 1_2:-78430761 | Msa0095010:intron |
| AGAGCTATTGTGCAAGCATA+TGG | 0.470832 | 1_2:+78429478 | None:intergenic |
| AGATGATCATCATAATGAGC+AGG | 0.545898 | 1_2:+78429732 | None:intergenic |
| ATCATCTTACACCAGCAGAG+AGG | 0.709383 | 1_2:-78429716 | Msa0095010:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GTCTTTCATTCAATTCACAA+AGG | - | chr1_2:78429325-78429344 | Msa0095010:three_prime_UTR | 30.0% | |
| TAAACCCTAACATGACAATT+AGG | + | chr1_2:78429454-78429473 | None:intergenic | 30.0% | |
| TAGCCAAGTAAAACATCTTA+TGG | - | chr1_2:78429875-78429894 | Msa0095010:intron | 30.0% | |
| AGTAAAACATCTTATGGTGT+TGG | - | chr1_2:78429881-78429900 | Msa0095010:intron | 30.0% | |
| GTATGATGTAACAAGAATCA+AGG | + | chr1_2:78429932-78429951 | None:intergenic | 30.0% | |
| GAAGGACTCAAAAAATGTAT+TGG | + | chr1_2:78430548-78430567 | None:intergenic | 30.0% | |
| CCACCTACATTAAATACAAA+TGG | + | chr1_2:78430772-78430791 | None:intergenic | 30.0% | |
| CCATTTGTATTTAATGTAGG+TGG | - | chr1_2:78430769-78430788 | Msa0095010:CDS | 30.0% | |
| CAAACAAATACAAATGACAG+GGG | + | chr1_2:78431086-78431105 | None:intergenic | 30.0% | |
| TTGACTTAGATTCTGTTGAT+GGG | - | chr1_2:78431198-78431217 | Msa0095010:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 78429274 | 78431345 | 78429274 | ID=Msa0095010;Name=Msa0095010 |
| chr1_2 | mRNA | 78429274 | 78431345 | 78429274 | ID=Msa0095010-mRNA-1;Parent=Msa0095010;Name=Msa0095010-mRNA-1;_AED=0.01;_eAED=0.01;_QI=75|1|1|1|0.5|0.33|3|235|156 |
| chr1_2 | exon | 78429274 | 78429831 | 78429274 | ID=Msa0095010-mRNA-1:exon:27988;Parent=Msa0095010-mRNA-1 |
| chr1_2 | exon | 78430762 | 78430911 | 78430762 | ID=Msa0095010-mRNA-1:exon:27987;Parent=Msa0095010-mRNA-1 |
| chr1_2 | exon | 78431273 | 78431345 | 78431273 | ID=Msa0095010-mRNA-1:exon:27986;Parent=Msa0095010-mRNA-1 |
| chr1_2 | five_prime_UTR | 78431273 | 78431345 | 78431273 | ID=Msa0095010-mRNA-1:five_prime_utr;Parent=Msa0095010-mRNA-1 |
| chr1_2 | five_prime_UTR | 78430910 | 78430911 | 78430910 | ID=Msa0095010-mRNA-1:five_prime_utr;Parent=Msa0095010-mRNA-1 |
| chr1_2 | CDS | 78430762 | 78430909 | 78430762 | ID=Msa0095010-mRNA-1:cds;Parent=Msa0095010-mRNA-1 |
| chr1_2 | CDS | 78429509 | 78429831 | 78429509 | ID=Msa0095010-mRNA-1:cds;Parent=Msa0095010-mRNA-1 |
| chr1_2 | three_prime_UTR | 78429274 | 78429508 | 78429274 | ID=Msa0095010-mRNA-1:three_prime_utr;Parent=Msa0095010-mRNA-1 |
| Gene Sequence |
>Msa0095010 ATGTCGGCATATGAGAATGTTGTTGGTGGTAAACTGAAGCTGAAGGGAAAAGCATTGGATGTTGCTGGCGGAATCAAGAAGAAGAAAAAGAAGAACAAAAGAAATCAACAACAGTTTTTGCAAGCAACTGAAGATGAAATCTCAGCAGGTGGAAGTACAGAACAAGCTAAAGATCCTAATGATCAAGAAGTAAATGATGGGAGTGAATTGAGCAGGGAAGAGAAGCCTGCTCATTATGATGATCATCTTACACCAGCAGAGAGGCGGTACATAGAACAGAGAGAGCAACTTGATGTTCATAGATTGGCCAAGATTTCTAATAAATCTCACCGCGATAGAATCCAGGATTTCAACCAATATCTCGCAAACATGAGCGAGCATTATGATATTCCTAAAGTTGGTCCTGGTGATTCAAGGAGTTGTTCAAGTATGAAGAAGGCAAACCCCTGTCATTTGTATTTGTTTGTTTAG |
| Protein sequence |
>Msa0095010 MSAYENVVGGKLKLKGKALDVAGGIKKKKKKNKRNQQQFLQATEDEISAGGSTEQAKDPNDQEVNDGSELSREEKPAHYDDHLTPAERRYIEQREQLDVHRLAKISNKSHRDRIQDFNQYLANMSEHYDIPKVGPGDSRSCSSMKKANPCHLYLFV* |
