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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0662890 | XP_003594704.1 | 96.396 | 222 | 8 | 0 | 1 | 222 | 1 | 222 | 7.88e-152 | 431 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0012940 | Msa0662890 | 0.801039 | 1.086726e-48 | -8.615850e-47 |
| Msa0029630 | Msa0662890 | 0.808557 | 2.921378e-50 | -8.615850e-47 |
| Msa0033880 | Msa0662890 | 0.801613 | 8.288210e-49 | -8.615850e-47 |
| Msa0041690 | Msa0662890 | 0.834094 | 3.656933e-56 | -8.615850e-47 |
| Msa0046560 | Msa0662890 | 0.804887 | 1.740921e-49 | -8.615850e-47 |
| Msa0077900 | Msa0662890 | 0.804225 | 2.392447e-49 | -8.615850e-47 |
| Msa0079920 | Msa0662890 | 0.814055 | 1.871714e-51 | -8.615850e-47 |
| Msa0080730 | Msa0662890 | 0.832489 | 9.181720e-56 | -8.615850e-47 |
| Msa0105520 | Msa0662890 | 0.816691 | 4.852231e-52 | -8.615850e-47 |
| Msa0106620 | Msa0662890 | 0.856362 | 3.385798e-62 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0662890 | MtrunA17_Chr2g0294131 | 96.396 | 222 | 8 | 0 | 1 | 222 | 1 | 222 | 7.25e-156 | 431 |
| Msa0662890 | MtrunA17_Chr4g0068671 | 52.439 | 246 | 88 | 7 | 1 | 222 | 1 | 241 | 6.53e-46 | 152 |
| Msa0662890 | MtrunA17_Chr1g0194401 | 46.104 | 154 | 80 | 3 | 51 | 203 | 29 | 180 | 5.33e-36 | 126 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0662890 | AT3G17120.4 | 39.316 | 234 | 104 | 7 | 6 | 220 | 2 | 216 | 3.61e-32 | 117 |
| Msa0662890 | AT3G17120.2 | 39.316 | 234 | 104 | 7 | 6 | 220 | 2 | 216 | 3.61e-32 | 117 |
| Msa0662890 | AT3G17120.1 | 39.316 | 234 | 104 | 7 | 6 | 220 | 2 | 216 | 3.61e-32 | 117 |
| Msa0662890 | AT3G17120.5 | 39.316 | 234 | 104 | 7 | 6 | 220 | 2 | 216 | 3.61e-32 | 117 |
| Msa0662890 | AT3G17120.3 | 39.316 | 234 | 104 | 7 | 6 | 220 | 2 | 216 | 3.61e-32 | 117 |
| Msa0662890 | AT1G02380.1 | 36.957 | 230 | 129 | 9 | 1 | 219 | 1 | 225 | 6.62e-31 | 114 |
| Msa0662890 | AT4G01960.1 | 44.361 | 133 | 66 | 5 | 92 | 222 | 106 | 232 | 2.42e-22 | 91.7 |
| Msa0662890 | AT4G01960.2 | 44.361 | 133 | 66 | 5 | 92 | 222 | 106 | 232 | 2.42e-22 | 91.7 |
| Msa0662890 | AT4G01960.3 | 38.857 | 175 | 86 | 6 | 1 | 159 | 1 | 170 | 7.76e-18 | 79.0 |
Find 90 sgRNAs with CRISPR-Local
Find 230 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACCTCCGCGACCTCCACA+AGG | 0.611809 | 4_4:+800682 | Msa0662890:CDS |
| AACAGAAGAGGGTTTGATTT+CGG | 0.331881 | 4_4:+801595 | Msa0662890:CDS |
| AAGATAGGAAAGAGGTGTGA+CGG | 0.553834 | 4_4:-799005 | None:intergenic |
| AATCACTTGATGGATTGAGT+TGG | 0.614440 | 4_4:-801625 | None:intergenic |
| ACCTCCACAAGGCCCGTCCT+TGG | 0.439286 | 4_4:+800693 | Msa0662890:CDS |
| ACTAACAAGGTGGGAGAATT+TGG | 0.197160 | 4_4:+800383 | Msa0662890:five_prime_UTR |
| AGAATCTCTATGATTTCTGG+TGG | 0.557872 | 4_4:+800508 | Msa0662890:CDS |
| AGATTTGATTGAGAAAAGAT+AGG | 0.439239 | 4_4:-799020 | None:intergenic |
| AGCAGATCATAAACTAATAA+AGG | 0.356004 | 4_4:+800720 | Msa0662890:CDS |
| AGCTCAGTGTCAAGTTTCCA+AGG | 0.545861 | 4_4:+801551 | Msa0662890:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGTATCTATGACATTACAGT+TGG | - | chr4_4:798980-798999 | None:intergenic | 30.0% | |
| ATTGAGAAAAGATAGGAAAG+AGG | - | chr4_4:799016-799035 | None:intergenic | 30.0% | |
| AACCCTCAAATGATGATAAT+GGG | - | chr4_4:799303-799322 | None:intergenic | 30.0% | |
| TAACCCTCAAATGATGATAA+TGG | - | chr4_4:799304-799323 | None:intergenic | 30.0% | |
| ATACCCCAAATGAAGATAAT+GGG | - | chr4_4:799464-799483 | None:intergenic | 30.0% | |
| AATACCCCAAATGAAGATAA+TGG | - | chr4_4:799465-799484 | None:intergenic | 30.0% | |
| CCAAAGATAAAACCCATTAA+AGG | + | chr4_4:799972-799991 | Msa0662890:intron | 30.0% | |
| TGATGGTTTATGATCGATTA+AGG | + | chr4_4:800259-800278 | Msa0662890:five_prime_UTR | 30.0% | |
| TTCTGTGAATATGATGAAAG+TGG | + | chr4_4:800603-800622 | Msa0662890:CDS | 30.0% | |
| TATGATGAAAGTGGTGAATA+AGG | + | chr4_4:800612-800631 | Msa0662890:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 798965 | 802293 | 798965 | ID=Msa0662890;Name=Msa0662890 |
| chr4_4 | mRNA | 798965 | 802293 | 798965 | ID=Msa0662890-mRNA-1;Parent=Msa0662890;Name=Msa0662890-mRNA-1;_AED=0.13;_eAED=0.13;_QI=494|1|1|1|0.66|0.75|4|365|224 |
| chr4_4 | exon | 798965 | 799247 | 798965 | ID=Msa0662890-mRNA-1:exon:349;Parent=Msa0662890-mRNA-1 |
| chr4_4 | exon | 800216 | 800901 | 800216 | ID=Msa0662890-mRNA-1:exon:350;Parent=Msa0662890-mRNA-1 |
| chr4_4 | exon | 801531 | 801675 | 801531 | ID=Msa0662890-mRNA-1:exon:351;Parent=Msa0662890-mRNA-1 |
| chr4_4 | exon | 801874 | 802293 | 801874 | ID=Msa0662890-mRNA-1:exon:352;Parent=Msa0662890-mRNA-1 |
| chr4_4 | five_prime_UTR | 798965 | 799247 | 798965 | ID=Msa0662890-mRNA-1:five_prime_utr;Parent=Msa0662890-mRNA-1 |
| chr4_4 | five_prime_UTR | 800216 | 800426 | 800216 | ID=Msa0662890-mRNA-1:five_prime_utr;Parent=Msa0662890-mRNA-1 |
| chr4_4 | CDS | 800427 | 800901 | 800427 | ID=Msa0662890-mRNA-1:cds;Parent=Msa0662890-mRNA-1 |
| chr4_4 | CDS | 801531 | 801675 | 801531 | ID=Msa0662890-mRNA-1:cds;Parent=Msa0662890-mRNA-1 |
| chr4_4 | CDS | 801874 | 801928 | 801874 | ID=Msa0662890-mRNA-1:cds;Parent=Msa0662890-mRNA-1 |
| chr4_4 | three_prime_UTR | 801929 | 802293 | 801929 | ID=Msa0662890-mRNA-1:three_prime_utr;Parent=Msa0662890-mRNA-1 |
| Gene Sequence |
>Msa0662890 ATGGATCAAAGAAATGGAAGGGAGAAAGATATTGAAGTTGATATTGAAAGTGGATTGCCACTTATCGAAGATAACTCAAGGAGAATCTCTATGATTTCTGGTGGATTTCTTGGAGGTTCTGTTAATGGCGAAGCCAGGCCAAGTTCTTATTTGAATGAATCAAATTTAAGTGAAGTTTCTGTGAATATGATGAAAGTGGTGAATAAGGCTCCAGCAAAAGAAAAACGGAAAAAGGCGTCGGGTAAAAAGGCTGCCAAACCTCCGCGACCTCCACAAGGCCCGTCCTTGGACGCAGCAGATCATAAACTAATAAAGGAGATGTCTGAACTTGCGATGTTGAAGCGTGCAAGGATAGAGCGTATGAAAGCATTGAAGAAAATGAGAACTGCGAAATCGTCATCGCCGTCATCTAATAGCAGCAGCATTGTGGCTATGATTTTCACTGTTATCTTCTTCATTGTGATAATCTGCCAAGGCATGTCGTCAACTGGAAAAAGCTCAGTGTCAAGTTTCCAAGGATCTCCTGTATCAGCAGGAGGAACAGAAGAGGGTTTGATTTCGGTTCAGTACCAACTCAATCCATCAAGTGATTCAAATGCGCCAGGGTCGGAGTCCATCAATTTTGTACAGCGGGTGTCAGGTTCAGATTCGCAAGAAAAACTGAGGACAGGTTGA |
| Protein sequence |
>Msa0662890 MDQRNGREKDIEVDIESGLPLIEDNSRRISMISGGFLGGSVNGEARPSSYLNESNLSEVSVNMMKVVNKAPAKEKRKKASGKKAAKPPRPPQGPSLDAADHKLIKEMSELAMLKRARIERMKALKKMRTAKSSSPSSNSSSIVAMIFTVIFFIVIICQGMSSTGKSSVSSFQGSPVSAGGTEEGLISVQYQLNPSSDSNAPGSESINFVQRVSGSDSQEKLRTG* |
