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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0815080 | AES99078.2 | 80.597 | 67 | 13 | 0 | 3 | 69 | 814 | 880 | 4.33e-29 | 119 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0815080 | G7KFP1 | 80.597 | 67 | 13 | 0 | 3 | 69 | 814 | 880 | 2.07e-29 | 119 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0736000 | Msa0815080 | 0.849877 | 2.438615e-60 | -8.615850e-47 |
| Msa0777790 | Msa0815080 | 0.876708 | 1.126260e-68 | -8.615850e-47 |
| Msa0777850 | Msa0815080 | 0.872491 | 3.054287e-67 | -8.615850e-47 |
| Msa0814940 | Msa0815080 | 0.818234 | 2.179923e-52 | -8.615850e-47 |
| Msa0815080 | Msa0815140 | 0.943880 | 5.409097e-103 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0815080 | MtrunA17_Chr5g0433361 | 80.597 | 67 | 13 | 0 | 3 | 69 | 814 | 880 | 3.99e-33 | 119 |
| Msa0815080 | MtrunA17_Chr5g0433331 | 79.688 | 64 | 13 | 0 | 3 | 66 | 86 | 149 | 1.02e-32 | 110 |
| Msa0815080 | MtrunA17_Chr5g0433421 | 79.688 | 64 | 13 | 0 | 3 | 66 | 928 | 991 | 1.32e-30 | 111 |
| Msa0815080 | MtrunA17_Chr5g0433511 | 76.562 | 64 | 15 | 0 | 3 | 66 | 843 | 906 | 2.17e-25 | 97.1 |
| Msa0815080 | MtrunA17_Chr3g0109541 | 64.062 | 64 | 23 | 0 | 3 | 66 | 844 | 907 | 1.94e-24 | 94.4 |
| Msa0815080 | MtrunA17_Chr5g0433321 | 62.687 | 67 | 25 | 0 | 3 | 69 | 820 | 886 | 3.87e-24 | 93.6 |
| Msa0815080 | MtrunA17_Chr5g0433371 | 59.701 | 67 | 27 | 0 | 3 | 69 | 844 | 910 | 1.95e-23 | 91.3 |
| Msa0815080 | MtrunA17_Chr5g0433471 | 71.875 | 64 | 18 | 0 | 3 | 66 | 843 | 906 | 2.66e-23 | 90.9 |
| Msa0815080 | MtrunA17_Chr3g0109551 | 43.103 | 58 | 33 | 0 | 3 | 60 | 879 | 936 | 1.88e-14 | 65.9 |
| Msa0815080 | MtrunA17_Chr8g0375151 | 48.276 | 58 | 30 | 0 | 3 | 60 | 787 | 844 | 2.15e-14 | 65.9 |
| Msa0815080 | MtrunA17_Chr8g0375191 | 46.552 | 58 | 31 | 0 | 3 | 60 | 818 | 875 | 3.58e-14 | 65.1 |
| Msa0815080 | MtrunA17_Chr5g0435821 | 46.552 | 58 | 31 | 0 | 3 | 60 | 56 | 113 | 4.85e-14 | 64.7 |
| Msa0815080 | MtrunA17_Chr8g0375181 | 43.103 | 58 | 33 | 0 | 3 | 60 | 895 | 952 | 1.23e-12 | 60.8 |
| Msa0815080 | MtrunA17_Chr3g0094211 | 48.889 | 45 | 23 | 0 | 3 | 47 | 811 | 855 | 1.48e-11 | 57.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0815080 | AT1G65780.1 | 50.000 | 70 | 29 | 1 | 3 | 66 | 807 | 876 | 5.28e-17 | 73.6 |
| Msa0815080 | AT1G65810.2 | 67.391 | 46 | 15 | 0 | 3 | 48 | 792 | 837 | 2.71e-16 | 71.6 |
| Msa0815080 | AT1G65810.3 | 67.391 | 46 | 15 | 0 | 3 | 48 | 792 | 837 | 3.05e-16 | 71.2 |
| Msa0815080 | AT1G65810.1 | 67.391 | 46 | 15 | 0 | 3 | 48 | 792 | 837 | 3.05e-16 | 71.2 |
| Msa0815080 | AT5G37030.1 | 47.917 | 48 | 25 | 0 | 3 | 50 | 589 | 636 | 8.04e-12 | 58.9 |
Find 11 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTCTTCCAGTCGTTGAATC+TGG | 0.301086 | 5_3:+47998902 | None:intergenic |
| AGATACTGTCTTTGGATATT+AGG | 0.305787 | 5_3:-47999054 | Msa0815080:CDS |
| TAATCAACAGTGACTCTGTT+TGG | 0.369827 | 5_3:-47999017 | Msa0815080:CDS |
| CCTAAACGCCGTTTCTTGAA+TGG | 0.370619 | 5_3:+47998871 | None:intergenic |
| AGTTATTGATGCTAAGAATA+GGG | 0.406528 | 5_3:-47998986 | Msa0815080:CDS |
| TAGTTATTGATGCTAAGAAT+AGG | 0.429708 | 5_3:-47998987 | Msa0815080:CDS |
| TTGAGTCACCATTCAAGAAA+CGG | 0.508950 | 5_3:-47998879 | Msa0815080:CDS |
| TCTGTTCCAGATTCAACGAC+TGG | 0.536252 | 5_3:-47998908 | Msa0815080:CDS |
| ACAGAACATTCTTAATAGCC+CGG | 0.537690 | 5_3:+47998926 | None:intergenic |
| TTGTTTCCACAATGCTGAAG+AGG | 0.550324 | 5_3:-47998962 | Msa0815080:CDS |
| CAGAACATTCTTAATAGCCC+GGG | 0.595796 | 5_3:+47998927 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATAGTTCTTATTTAAATGCA+TGG | + | chr5_3:47999039-47999058 | None:intergenic | 20.0% |
| ! | TAGTTATTGATGCTAAGAAT+AGG | - | chr5_3:47998587-47998606 | Msa0815080:intron | 25.0% |
| ! | AGTTATTGATGCTAAGAATA+GGG | - | chr5_3:47998588-47998607 | Msa0815080:intron | 25.0% |
| ! | AACATTCACACATGTTAATT+TGG | + | chr5_3:47998781-47998800 | None:intergenic | 25.0% |
| ! | AATTAACATGTGTGAATGTT+TGG | - | chr5_3:47998781-47998800 | Msa0815080:intron | 25.0% |
| !! | TTTTGACAAAAACTACACTT+CGG | + | chr5_3:47998859-47998878 | None:intergenic | 25.0% |
| !! | AGTTTTTGTCAAAATTGTGA+TGG | - | chr5_3:47998865-47998884 | Msa0815080:intron | 25.0% |
| ! | TAACGTGTTTATGTTAGAAA+TGG | - | chr5_3:47998890-47998909 | Msa0815080:CDS | 25.0% |
| !!! | GTCTTATTTGTTAACTTTTG+TGG | - | chr5_3:47998974-47998993 | Msa0815080:CDS | 25.0% |
| !! | ATTTAAAATTGTAGAGTGCT+TGG | + | chr5_3:47999103-47999122 | None:intergenic | 25.0% |
| AGATACTGTCTTTGGATATT+AGG | - | chr5_3:47998520-47998539 | Msa0815080:intron | 30.0% | |
| ACATATCAACTACTTTCTCT+AGG | - | chr5_3:47998746-47998765 | Msa0815080:intron | 30.0% | |
| ! | GAGCTTAAACAAAAGTACAT+TGG | + | chr5_3:47998837-47998856 | None:intergenic | 30.0% |
| TGGTTAATCAAGTTTCATGT+AGG | - | chr5_3:47998910-47998929 | Msa0815080:CDS | 30.0% | |
| GGTTAATCAAGTTTCATGTA+GGG | - | chr5_3:47998911-47998930 | Msa0815080:CDS | 30.0% | |
| ! | TTTTGTGCAGATACTGTCTT+TGG | - | chr5_3:47998512-47998531 | Msa0815080:intron | 35.0% |
| TAATCAACAGTGACTCTGTT+TGG | - | chr5_3:47998557-47998576 | Msa0815080:intron | 35.0% | |
| TGCTGAAGAGGACAAAAAAT+TGG | - | chr5_3:47998624-47998643 | Msa0815080:intron | 35.0% | |
| ACAGAACATTCTTAATAGCC+CGG | + | chr5_3:47998651-47998670 | None:intergenic | 35.0% | |
| TTGAGTCACCATTCAAGAAA+CGG | - | chr5_3:47998695-47998714 | Msa0815080:intron | 35.0% | |
| TAATCAAGTTTCATGTAGGG+TGG | - | chr5_3:47998914-47998933 | Msa0815080:CDS | 35.0% | |
| AATCAAGTTTCATGTAGGGT+GGG | - | chr5_3:47998915-47998934 | Msa0815080:CDS | 35.0% | |
| !!! | CATCTTGTGAGACTTTTTTG+AGG | - | chr5_3:47998940-47998959 | Msa0815080:CDS | 35.0% |
| TTGTTTCCACAATGCTGAAG+AGG | - | chr5_3:47998612-47998631 | Msa0815080:intron | 40.0% | |
| ! | TTTTGTCCTCTTCAGCATTG+TGG | + | chr5_3:47998621-47998640 | None:intergenic | 40.0% |
| AAGAGGACAAAAAATTGGCC+CGG | - | chr5_3:47998629-47998648 | Msa0815080:intron | 40.0% | |
| CAGAACATTCTTAATAGCCC+GGG | + | chr5_3:47998650-47998669 | None:intergenic | 40.0% | |
| ATTCTTCCAGTCGTTGAATC+TGG | + | chr5_3:47998675-47998694 | None:intergenic | 40.0% | |
| TGAATGTTTGGATGAGCGAT+GGG | - | chr5_3:47998793-47998812 | Msa0815080:intron | 40.0% | |
| ! | ACAAAAGTACATTGGCACCA+TGG | + | chr5_3:47998829-47998848 | None:intergenic | 40.0% |
| ATCAAGTTTCATGTAGGGTG+GGG | - | chr5_3:47998916-47998935 | Msa0815080:CDS | 40.0% | |
| AGAGGACAAAAAATTGGCCC+GGG | - | chr5_3:47998630-47998649 | Msa0815080:intron | 45.0% | |
| TCTGTTCCAGATTCAACGAC+TGG | - | chr5_3:47998666-47998685 | Msa0815080:intron | 45.0% | |
| CCTAAACGCCGTTTCTTGAA+TGG | + | chr5_3:47998706-47998725 | None:intergenic | 45.0% | |
| CCATTCAAGAAACGGCGTTT+AGG | - | chr5_3:47998703-47998722 | Msa0815080:intron | 45.0% | |
| TTCAAGAAACGGCGTTTAGG+AGG | - | chr5_3:47998706-47998725 | Msa0815080:intron | 45.0% | |
| TCAAGAAACGGCGTTTAGGA+GGG | - | chr5_3:47998707-47998726 | Msa0815080:intron | 45.0% | |
| AACTACTTTCTCTAGGCGAG+TGG | - | chr5_3:47998753-47998772 | Msa0815080:intron | 45.0% | |
| GTGAATGTTTGGATGAGCGA+TGG | - | chr5_3:47998792-47998811 | Msa0815080:intron | 45.0% | |
| ! | CGATGGGTTTCTCTAAACCA+TGG | - | chr5_3:47998809-47998828 | Msa0815080:intron | 45.0% |
| ACGGCGTTTAGGAGGGAAAA+TGG | - | chr5_3:47998714-47998733 | Msa0815080:intron | 50.0% | |
| CGGCGTTTAGGAGGGAAAAT+GGG | - | chr5_3:47998715-47998734 | Msa0815080:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 47998452 | 47999144 | 47998452 | ID=Msa0815080;Name=Msa0815080 |
| chr5_3 | mRNA | 47998452 | 47999144 | 47998452 | ID=Msa0815080-mRNA-1;Parent=Msa0815080;Name=Msa0815080-mRNA-1;_AED=0.51;_eAED=0.52;_QI=0|0|0|0.66|1|1|3|0|69 |
| chr5_3 | exon | 47999140 | 47999144 | 47999140 | ID=Msa0815080-mRNA-1:exon:14571;Parent=Msa0815080-mRNA-1 |
| chr5_3 | exon | 47998878 | 47999074 | 47998878 | ID=Msa0815080-mRNA-1:exon:14570;Parent=Msa0815080-mRNA-1 |
| chr5_3 | exon | 47998452 | 47998459 | 47998452 | ID=Msa0815080-mRNA-1:exon:14569;Parent=Msa0815080-mRNA-1 |
| chr5_3 | CDS | 47999140 | 47999144 | 47999140 | ID=Msa0815080-mRNA-1:cds;Parent=Msa0815080-mRNA-1 |
| chr5_3 | CDS | 47998878 | 47999074 | 47998878 | ID=Msa0815080-mRNA-1:cds;Parent=Msa0815080-mRNA-1 |
| chr5_3 | CDS | 47998452 | 47998459 | 47998452 | ID=Msa0815080-mRNA-1:cds;Parent=Msa0815080-mRNA-1 |
| Gene Sequence |
| Protein sequence |
