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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0350100 | KEH33681.1 | 53.097 | 113 | 13 | 2 | 26 | 98 | 38 | 150 | 1.81e-16 | 82.8 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0350100 | A0A072UW75 | 53.097 | 113 | 13 | 2 | 26 | 98 | 38 | 150 | 8.66e-17 | 82.8 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0350100 | Msa1466540 | 0.809632 | 1.718670e-50 | -8.615850e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0350100 | MtrunA17_Chr3g0095771 | 83.333 | 42 | 7 | 0 | 57 | 98 | 12 | 53 | 6.14e-19 | 74.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 16 sgRNAs with CRISPR-Local
Find 45 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGGGGTCTCTTTAGCATTT+AGG | 0.126537 | 3_1:-14653606 | None:intergenic |
| TGGGGTCTCTTTAGCATTTA+GGG | 0.182283 | 3_1:-14653605 | None:intergenic |
| GCTGACACCTTATGTGTTAA+AGG | 0.281092 | 3_1:-14653477 | Msa0350100:CDS |
| TATCTGTTGGTGTGTTGTTT+TGG | 0.290757 | 3_1:-14653579 | Msa0350100:CDS |
| ACTTTCAGCTCAGGCTGCTT+TGG | 0.357433 | 3_1:-14653008 | Msa0350100:CDS |
| CTGACACCTTATGTGTTAAA+GGG | 0.360844 | 3_1:-14653476 | Msa0350100:CDS |
| GCCTGAGCTGAAAGTTTATC+AGG | 0.364367 | 3_1:+14653016 | None:intergenic |
| AAAGCACAAGGTAAACTGTT+AGG | 0.438519 | 3_1:+14652962 | None:intergenic |
| GCATTTAGGGGTTTATCTGT+TGG | 0.440341 | 3_1:-14653592 | Msa0350100:CDS |
| TAAAACCCCTTTAACACATA+AGG | 0.459835 | 3_1:+14653470 | None:intergenic |
| ACCTGATAAACTTTCAGCTC+AGG | 0.465411 | 3_1:-14653017 | Msa0350100:CDS |
| GTAACAACACATAAATTGAC+AGG | 0.553672 | 3_1:+14653534 | None:intergenic |
| GGGGTCTCTTTAGCATTTAG+GGG | 0.559577 | 3_1:-14653604 | None:intergenic |
| ATTTATGTGTTGTTACAGCT+AGG | 0.560781 | 3_1:-14653527 | Msa0350100:CDS |
| TGACACCTTATGTGTTAAAG+GGG | 0.596297 | 3_1:-14653475 | Msa0350100:intron |
| CAGGCTGCTTTGGCTATCAG+AGG | 0.612905 | 3_1:-14652998 | Msa0350100:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TCAATCATAAACAATTAATA+TGG | + | chr3_1:14653316-14653335 | None:intergenic | 15.0% |
| !! | ATTAATTGTTTATGATTGAA+TGG | - | chr3_1:14653317-14653336 | Msa0350100:intron | 15.0% |
| !! | TTAATTGTTTATGATTGAAT+GGG | - | chr3_1:14653318-14653337 | Msa0350100:intron | 15.0% |
| !!! | TTTTACAAGTTGATATTATA+GGG | - | chr3_1:14653407-14653426 | Msa0350100:intron | 15.0% |
| !!! | TTTATTTTTCAATTGTATTC+CGG | - | chr3_1:14653550-14653569 | Msa0350100:CDS | 15.0% |
| !!! | CTTTTACAAGTTGATATTAT+AGG | - | chr3_1:14653406-14653425 | Msa0350100:intron | 20.0% |
| ! | ATTTCTACTTTCATTGCTAA+AGG | - | chr3_1:14653354-14653373 | Msa0350100:intron | 25.0% |
| ! | TTTCTACTTTCATTGCTAAA+GGG | - | chr3_1:14653355-14653374 | Msa0350100:intron | 25.0% |
| GTAACAACACATAAATTGAC+AGG | + | chr3_1:14652928-14652947 | None:intergenic | 30.0% | |
| ! | ATTTATGTGTTGTTACAGCT+AGG | - | chr3_1:14652932-14652951 | Msa0350100:CDS | 30.0% |
| TAAAACCCCTTTAACACATA+AGG | + | chr3_1:14652992-14653011 | None:intergenic | 30.0% | |
| AAACGGCTAAACTTTATTGA+AGG | + | chr3_1:14653068-14653087 | None:intergenic | 30.0% | |
| TTTCCTGCTTATATTTGAGA+TGG | - | chr3_1:14653115-14653134 | Msa0350100:intron | 30.0% | |
| !!! | TATCTGTTGGTGTGTTGTTT+TGG | - | chr3_1:14652880-14652899 | Msa0350100:CDS | 35.0% |
| CTGACACCTTATGTGTTAAA+GGG | - | chr3_1:14652983-14653002 | Msa0350100:CDS | 35.0% | |
| TGACACCTTATGTGTTAAAG+GGG | - | chr3_1:14652984-14653003 | Msa0350100:CDS | 35.0% | |
| CTTCCATCTCAAATATAAGC+AGG | + | chr3_1:14653121-14653140 | None:intergenic | 35.0% | |
| ! | CTGCTTATATTTGAGATGGA+AGG | - | chr3_1:14653119-14653138 | Msa0350100:intron | 35.0% |
| TACTTTCATTGCTAAAGGGA+AGG | - | chr3_1:14653359-14653378 | Msa0350100:intron | 35.0% | |
| ACTTTCATTGCTAAAGGGAA+GGG | - | chr3_1:14653360-14653379 | Msa0350100:intron | 35.0% | |
| AAAGCACAAGGTAAACTGTT+AGG | + | chr3_1:14653500-14653519 | None:intergenic | 35.0% | |
| ! | ACAAGAACACAAAAAGCACA+AGG | + | chr3_1:14653512-14653531 | None:intergenic | 35.0% |
| !! | TGCTTTTTGTGTTCTTGTAG+TGG | - | chr3_1:14653514-14653533 | Msa0350100:CDS | 35.0% |
| TGTATTCCGGTGAAAAAGTT+AGG | - | chr3_1:14653563-14653582 | Msa0350100:CDS | 35.0% | |
| !!! | ATTCCTCCTAACTTTTTCAC+CGG | + | chr3_1:14653572-14653591 | None:intergenic | 35.0% |
| ! | TTAGGAGGAATGTTTTCGAT+TGG | - | chr3_1:14653581-14653600 | Msa0350100:CDS | 35.0% |
| ! | TAGGAGGAATGTTTTCGATT+GGG | - | chr3_1:14653582-14653601 | Msa0350100:CDS | 35.0% |
| !!! | TTGGTGTGTTGTTTTGGCTT+GGG | - | chr3_1:14652886-14652905 | Msa0350100:CDS | 40.0% |
| GCTGACACCTTATGTGTTAA+AGG | - | chr3_1:14652982-14653001 | Msa0350100:CDS | 40.0% | |
| !!! | GTACCTTTTAGCTTCTGTTC+TGG | - | chr3_1:14653144-14653163 | Msa0350100:intron | 40.0% |
| GATCCAGAACAGAAGCTAAA+AGG | + | chr3_1:14653150-14653169 | None:intergenic | 40.0% | |
| ! | TAGCTTCTGTTCTGGATCTT+TGG | - | chr3_1:14653152-14653171 | Msa0350100:intron | 40.0% |
| GATTGAATGGGTCACAATAG+TGG | - | chr3_1:14653330-14653349 | Msa0350100:intron | 40.0% | |
| ACCTGATAAACTTTCAGCTC+AGG | - | chr3_1:14653442-14653461 | Msa0350100:intron | 40.0% | |
| ATTCCGGTGAAAAAGTTAGG+AGG | - | chr3_1:14653566-14653585 | Msa0350100:CDS | 40.0% | |
| !!! | GTTGGTGTGTTGTTTTGGCT+TGG | - | chr3_1:14652885-14652904 | Msa0350100:CDS | 45.0% |
| !!! | TGTGTTGTTTTGGCTTGGGT+GGG | - | chr3_1:14652890-14652909 | Msa0350100:CDS | 45.0% |
| GCCTGAGCTGAAAGTTTATC+AGG | + | chr3_1:14653446-14653465 | None:intergenic | 45.0% | |
| !!! | AAATATATATTTTTTTGAAA+CGG | + | chr3_1:14653085-14653104 | None:intergenic | 5.0% |
| !!! | GTGTGTTGTTTTGGCTTGGG+TGG | - | chr3_1:14652889-14652908 | Msa0350100:CDS | 50.0% |
| !!! | GTGTTGTTTTGGCTTGGGTG+GGG | - | chr3_1:14652891-14652910 | Msa0350100:CDS | 50.0% |
| ACTTTCAGCTCAGGCTGCTT+TGG | - | chr3_1:14653451-14653470 | Msa0350100:intron | 50.0% | |
| GACCAAGCACAAGACGAGCT+AGG | + | chr3_1:14653040-14653059 | None:intergenic | 55.0% | |
| ! | CAGGCTGCTTTGGCTATCAG+AGG | - | chr3_1:14653461-14653480 | Msa0350100:intron | 55.0% |
| CGCCTAGCTCGTCTTGTGCT+TGG | - | chr3_1:14653035-14653054 | Msa0350100:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 14652868 | 14653613 | 14652868 | ID=Msa0350100;Name=Msa0350100 |
| chr3_1 | mRNA | 14652868 | 14653613 | 14652868 | ID=Msa0350100-mRNA-1;Parent=Msa0350100;Name=Msa0350100-mRNA-1;_AED=0.31;_eAED=0.58;_QI=0|0|0|1|0|0|2|0|107 |
| chr3_1 | exon | 14653476 | 14653613 | 14653476 | ID=Msa0350100-mRNA-1:exon:3655;Parent=Msa0350100-mRNA-1 |
| chr3_1 | exon | 14652868 | 14653053 | 14652868 | ID=Msa0350100-mRNA-1:exon:3654;Parent=Msa0350100-mRNA-1 |
| chr3_1 | CDS | 14653476 | 14653613 | 14653476 | ID=Msa0350100-mRNA-1:cds;Parent=Msa0350100-mRNA-1 |
| chr3_1 | CDS | 14652868 | 14653053 | 14652868 | ID=Msa0350100-mRNA-1:cds;Parent=Msa0350100-mRNA-1 |
| Gene Sequence |
| Protein sequence |
