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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0740760 | XP_039685914.1 | 87.156 | 109 | 14 | 0 | 1 | 109 | 113 | 221 | 5.18e-66 | 208 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0740760 | A0A072W0Z9 | 87.156 | 109 | 14 | 0 | 1 | 109 | 166 | 274 | 5.79e-66 | 209 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0740760 | Msa0863890 | 0.816027 | 6.831614e-52 | -8.615850e-47 |
| Msa0502160 | Msa0740760 | 0.804992 | 1.655306e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0740760 | MtrunA17_Chr1g0206471 | 87.156 | 109 | 14 | 0 | 1 | 109 | 166 | 274 | 1.24e-69 | 209 |
| Msa0740760 | MtrunA17_Chr3g0123031 | 55.046 | 109 | 31 | 2 | 1 | 109 | 1 | 91 | 3.42e-34 | 113 |
| Msa0740760 | MtrunA17_Chr7g0270401 | 46.789 | 109 | 58 | 0 | 1 | 109 | 165 | 273 | 2.47e-29 | 106 |
| Msa0740760 | MtrunA17_Chr7g0234161 | 61.644 | 73 | 28 | 0 | 1 | 73 | 51 | 123 | 9.45e-29 | 100 |
| Msa0740760 | MtrunA17_Chr8g0359311 | 48.193 | 83 | 43 | 0 | 26 | 108 | 17 | 99 | 2.64e-25 | 91.3 |
| Msa0740760 | MtrunA17_Chr7g0237161 | 38.272 | 81 | 50 | 0 | 9 | 89 | 3 | 83 | 9.76e-15 | 63.9 |
| Msa0740760 | MtrunA17_Chr8g0361581 | 37.662 | 77 | 48 | 0 | 31 | 107 | 92 | 168 | 5.92e-14 | 63.9 |
| Msa0740760 | MtrunA17_Chr1g0207921 | 38.961 | 77 | 47 | 0 | 31 | 107 | 121 | 197 | 4.06e-13 | 62.4 |
| Msa0740760 | MtrunA17_Chr1g0151111 | 37.838 | 74 | 46 | 0 | 31 | 104 | 22 | 95 | 3.58e-12 | 59.3 |
| Msa0740760 | MtrunA17_Chr1g0178231 | 36.986 | 73 | 46 | 0 | 31 | 103 | 21 | 93 | 8.00e-12 | 57.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 26 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGGAGGTGGTTGGGAGCTTA+TGG | 0.295437 | 5_1:+59894637 | Msa0740760:CDS |
| ATAGATGTGGTGGACGAAAA+TGG | 0.317650 | 5_1:+59894557 | Msa0740760:CDS |
| GTTAAATTCAGGCCAATTGC+AGG | 0.344120 | 5_1:-59894707 | None:intergenic |
| TTTCAGGAACTTGCTGATAT+TGG | 0.344335 | 5_1:+59894497 | Msa0740760:intron |
| GTGATTGGTGCTCCTGCAAT+TGG | 0.381103 | 5_1:+59894695 | Msa0740760:CDS |
| CTTCAAGATTGGAGGTGGTT+GGG | 0.406849 | 5_1:+59894628 | Msa0740760:CDS |
| AGCTTATGGTCAAGGCTAGA+AGG | 0.433486 | 5_1:+59894651 | Msa0740760:CDS |
| CCTGCTCCGAACTTCAAGAT+TGG | 0.452748 | 5_1:+59894617 | Msa0740760:CDS |
| GCTGTTGCTGATGTTGAAAG+TGG | 0.476443 | 5_1:+59894381 | Msa0740760:CDS |
| CCACCTCCAATCTTGAAGTT+CGG | 0.488502 | 5_1:-59894623 | None:intergenic |
| TGGACGAAAATGGCAACATA+TGG | 0.496896 | 5_1:+59894567 | Msa0740760:CDS |
| CCAATCTTGAAGTTCGGAGC+AGG | 0.499020 | 5_1:-59894617 | None:intergenic |
| ACTTCAAGATTGGAGGTGGT+TGG | 0.500102 | 5_1:+59894627 | Msa0740760:CDS |
| GAGGGTGCACGTGTGGTGAT+TGG | 0.520385 | 5_1:+59894680 | Msa0740760:CDS |
| GCTCCGAACTTCAAGATTGG+AGG | 0.532341 | 5_1:+59894620 | Msa0740760:CDS |
| CCGAACTTCAAGATTGGAGG+TGG | 0.541295 | 5_1:+59894623 | Msa0740760:CDS |
| AGAAGTAGAGGGTTAAATTC+AGG | 0.545060 | 5_1:-59894718 | None:intergenic |
| AACTTCGATAATAGATGTGG+TGG | 0.581319 | 5_1:+59894547 | Msa0740760:CDS |
| GTTCACAGAGGGTGCACGTG+TGG | 0.592341 | 5_1:+59894673 | Msa0740760:CDS |
| TGGTTGGGAGCTTATGGTCA+AGG | 0.599583 | 5_1:+59894643 | Msa0740760:CDS |
| GACGAATCACACAGAAGTAG+AGG | 0.600845 | 5_1:-59894730 | None:intergenic |
| AGAAACTTCGATAATAGATG+TGG | 0.635713 | 5_1:+59894544 | Msa0740760:CDS |
| ACGAATCACACAGAAGTAGA+GGG | 0.671018 | 5_1:-59894729 | None:intergenic |
| AAGGCTAGAAGGTTCACAGA+GGG | 0.686944 | 5_1:+59894662 | Msa0740760:CDS |
| AAGGCCATTCATGCATGACG+AGG | 0.690981 | 5_1:+59894326 | None:intergenic |
| CAAGGCTAGAAGGTTCACAG+AGG | 0.784898 | 5_1:+59894661 | Msa0740760:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ACATTTTTTTATGTTTTTTC+AGG | + | chr5_1:59894481-59894500 | Msa0740760:intron | 15.0% |
| !! | TGATGTTGAAAGTGGATTTT+TGG | + | chr5_1:59894389-59894408 | Msa0740760:CDS | 30.0% |
| ! | TGTTGTGTGTTTTGTGAATA+AGG | + | chr5_1:59894453-59894472 | Msa0740760:intron | 30.0% |
| !!! | TGATATTGGTTTTGCTCAAA+TGG | + | chr5_1:59894511-59894530 | Msa0740760:CDS | 30.0% |
| AGAAACTTCGATAATAGATG+TGG | + | chr5_1:59894544-59894563 | Msa0740760:CDS | 30.0% | |
| !! | TTTCAGGAACTTGCTGATAT+TGG | + | chr5_1:59894497-59894516 | Msa0740760:intron | 35.0% |
| AACTTCGATAATAGATGTGG+TGG | + | chr5_1:59894547-59894566 | Msa0740760:CDS | 35.0% | |
| AGGATCCATCGAAAAACTAA+GGG | - | chr5_1:59894600-59894619 | None:intergenic | 35.0% | |
| AGAAGTAGAGGGTTAAATTC+AGG | - | chr5_1:59894721-59894740 | None:intergenic | 35.0% | |
| !! | TGGTTTTGCTCAAATGGCTT+TGG | + | chr5_1:59894517-59894536 | Msa0740760:CDS | 40.0% |
| !! | ATAGATGTGGTGGACGAAAA+TGG | + | chr5_1:59894557-59894576 | Msa0740760:CDS | 40.0% |
| TGGACGAAAATGGCAACATA+TGG | + | chr5_1:59894567-59894586 | Msa0740760:CDS | 40.0% | |
| CAGGATCCATCGAAAAACTA+AGG | - | chr5_1:59894601-59894620 | None:intergenic | 40.0% | |
| GTTAAATTCAGGCCAATTGC+AGG | - | chr5_1:59894710-59894729 | None:intergenic | 40.0% | |
| ACGAATCACACAGAAGTAGA+GGG | - | chr5_1:59894732-59894751 | None:intergenic | 40.0% | |
| GCTGTTGCTGATGTTGAAAG+TGG | + | chr5_1:59894381-59894400 | Msa0740760:CDS | 45.0% | |
| !! | CTGCACCCTTAGTTTTTCGA+TGG | + | chr5_1:59894592-59894611 | Msa0740760:CDS | 45.0% |
| CCACCTCCAATCTTGAAGTT+CGG | - | chr5_1:59894626-59894645 | None:intergenic | 45.0% | |
| ACTTCAAGATTGGAGGTGGT+TGG | + | chr5_1:59894627-59894646 | Msa0740760:CDS | 45.0% | |
| CTTCAAGATTGGAGGTGGTT+GGG | + | chr5_1:59894628-59894647 | Msa0740760:CDS | 45.0% | |
| AGCTTATGGTCAAGGCTAGA+AGG | + | chr5_1:59894651-59894670 | Msa0740760:CDS | 45.0% | |
| AAGGCTAGAAGGTTCACAGA+GGG | + | chr5_1:59894662-59894681 | Msa0740760:CDS | 45.0% | |
| GACGAATCACACAGAAGTAG+AGG | - | chr5_1:59894733-59894752 | None:intergenic | 45.0% | |
| CCAATCTTGAAGTTCGGAGC+AGG | - | chr5_1:59894620-59894639 | None:intergenic | 50.0% | |
| CCTGCTCCGAACTTCAAGAT+TGG | + | chr5_1:59894617-59894636 | Msa0740760:CDS | 50.0% | |
| GCTCCGAACTTCAAGATTGG+AGG | + | chr5_1:59894620-59894639 | Msa0740760:CDS | 50.0% | |
| CCGAACTTCAAGATTGGAGG+TGG | + | chr5_1:59894623-59894642 | Msa0740760:CDS | 50.0% | |
| TGGTTGGGAGCTTATGGTCA+AGG | + | chr5_1:59894643-59894662 | Msa0740760:CDS | 50.0% | |
| CAAGGCTAGAAGGTTCACAG+AGG | + | chr5_1:59894661-59894680 | Msa0740760:CDS | 50.0% | |
| ! | GTGATTGGTGCTCCTGCAAT+TGG | + | chr5_1:59894695-59894714 | Msa0740760:CDS | 50.0% |
| TGGAGGTGGTTGGGAGCTTA+TGG | + | chr5_1:59894637-59894656 | Msa0740760:CDS | 55.0% | |
| ! | GTTCACAGAGGGTGCACGTG+TGG | + | chr5_1:59894673-59894692 | Msa0740760:CDS | 60.0% |
| ! | GAGGGTGCACGTGTGGTGAT+TGG | + | chr5_1:59894680-59894699 | Msa0740760:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_1 | gene | 59894336 | 59894757 | 59894336 | ID=Msa0740760;Name=Msa0740760 |
| chr5_1 | mRNA | 59894336 | 59894757 | 59894336 | ID=Msa0740760-mRNA-1;Parent=Msa0740760;Name=Msa0740760-mRNA-1;_AED=0.28;_eAED=0.28;_QI=0|0|0|1|1|1|2|0|109 |
| chr5_1 | exon | 59894336 | 59894410 | 59894336 | ID=Msa0740760-mRNA-1:exon:17300;Parent=Msa0740760-mRNA-1 |
| chr5_1 | exon | 59894503 | 59894757 | 59894503 | ID=Msa0740760-mRNA-1:exon:17301;Parent=Msa0740760-mRNA-1 |
| chr5_1 | CDS | 59894336 | 59894410 | 59894336 | ID=Msa0740760-mRNA-1:cds;Parent=Msa0740760-mRNA-1 |
| chr5_1 | CDS | 59894503 | 59894757 | 59894503 | ID=Msa0740760-mRNA-1:cds;Parent=Msa0740760-mRNA-1 |
| Gene Sequence |
| Protein sequence |
