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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0464010 | XP_024637264.1 | 85.065 | 154 | 23 | 0 | 8 | 161 | 11 | 164 | 2.98e-94 | 280 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0464010 | G7JQ00 | 85.065 | 154 | 23 | 0 | 8 | 161 | 71 | 224 | 1.68e-93 | 280 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0464010 | TF | B3 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0464010 | MtrunA17_Chr5g0393501 | 31.288 | 163 | 109 | 1 | 2 | 161 | 79 | 241 | 1.76e-23 | 92.4 |
| Msa0464010 | MtrunA17_Chr4g0034781 | 27.815 | 151 | 101 | 3 | 1 | 147 | 55 | 201 | 2.10e-12 | 62.4 |
| Msa0464010 | MtrunA17_Chr4g0044671 | 27.815 | 151 | 101 | 3 | 1 | 147 | 61 | 207 | 2.61e-12 | 62.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 30 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAGGGACTACCTCATACTTT+TGG | 0.338565 | 3_3:+63558909 | Msa0464010:intron |
| ATCATGTGTTTATCAACTCT+TGG | 0.390108 | 3_3:-63559147 | None:intergenic |
| CGATTGTTCTACGAGTTTAG+TGG | 0.409935 | 3_3:+63558622 | Msa0464010:CDS |
| ACCTTTGAGGTTCCTATCGT+TGG | 0.413727 | 3_3:+63558772 | Msa0464010:CDS |
| TCCGAACATCACATTTGGTA+TGG | 0.417548 | 3_3:-63559024 | None:intergenic |
| ATCTACTTCCACCATGGTAC+TGG | 0.424919 | 3_3:-63558663 | None:intergenic |
| CCGAACATCACATTTGGTAT+GGG | 0.451435 | 3_3:-63559023 | None:intergenic |
| AAGAATTTGCCAAAAGTATG+AGG | 0.469320 | 3_3:-63558918 | None:intergenic |
| TGCCGCACTCATTGAATGAT+AGG | 0.473193 | 3_3:-63558734 | None:intergenic |
| CCAAATGTGATGTTCGGAAA+AGG | 0.475440 | 3_3:+63559029 | Msa0464010:CDS |
| CCCATACCAAATGTGATGTT+CGG | 0.477035 | 3_3:+63559023 | Msa0464010:CDS |
| TTGTGTTGCCAATGGTATTG+AGG | 0.514824 | 3_3:+63559064 | Msa0464010:CDS |
| CGAACATCACATTTGGTATG+GGG | 0.552019 | 3_3:-63559022 | None:intergenic |
| TCTGTATATTTGAGTCTCAC+AGG | 0.555272 | 3_3:-63558996 | None:intergenic |
| GTCTCCGGCCTCAATACCAT+TGG | 0.575295 | 3_3:-63559072 | None:intergenic |
| CTCATAACGTCGTTGACAGA+TGG | 0.587552 | 3_3:+63558586 | Msa0464010:CDS |
| TTTCAAGTGCAAGTGTGTCA+TGG | 0.589305 | 3_3:+63559103 | Msa0464010:CDS |
| TAACGTCGTTGACAGATGGT+TGG | 0.592218 | 3_3:+63558590 | Msa0464010:CDS |
| GTTGCCAATGGTATTGAGGC+CGG | 0.597504 | 3_3:+63559068 | Msa0464010:CDS |
| ATGTGATGTTCGGAAAAGGT+TGG | 0.606400 | 3_3:+63559033 | Msa0464010:CDS |
| GCCGCACTCATTGAATGATA+GGG | 0.616026 | 3_3:-63558733 | None:intergenic |
| TCGATCGACGAAATCACCTA+AGG | 0.628108 | 3_3:+63558798 | Msa0464010:CDS |
| ACCCTATCATTCAATGAGTG+CGG | 0.636716 | 3_3:+63558732 | Msa0464010:CDS |
| GTCGATCGATATCCAACGAT+AGG | 0.637968 | 3_3:-63558784 | None:intergenic |
| CACGATTACGTAATGTTGTG+CGG | 0.649204 | 3_3:+63558954 | Msa0464010:CDS |
| GTCGCTTTCCAGTACCATGG+TGG | 0.664216 | 3_3:+63558655 | Msa0464010:CDS |
| GCACTCATTGAATGATAGGG+TGG | 0.666571 | 3_3:-63558730 | None:intergenic |
| TCCAACGATAGGAACCTCAA+AGG | 0.670850 | 3_3:-63558773 | None:intergenic |
| ATTGTCGCTTTCCAGTACCA+TGG | 0.681766 | 3_3:+63558652 | Msa0464010:CDS |
| TTCGAAATCTACTTCCACCA+TGG | 0.688810 | 3_3:-63558669 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTAGATATATGCTATAATAA+AGG | + | chr3_3:63558850-63558869 | Msa0464010:intron | 15.0% |
| !!! | ACAGTTTTTTTCTTTTTTTT+AGG | + | chr3_3:63558890-63558909 | Msa0464010:intron | 15.0% |
| !!! | CAGTTTTTTTCTTTTTTTTA+GGG | + | chr3_3:63558891-63558910 | Msa0464010:intron | 15.0% |
| !! | AAAAAACAATAAACAACCTT+AGG | - | chr3_3:63558817-63558836 | None:intergenic | 20.0% |
| !! | ATCGTTTTATTGTACCTTTG+AGG | + | chr3_3:63558759-63558778 | Msa0464010:CDS | 30.0% |
| ! | AAGAATTTGCCAAAAGTATG+AGG | - | chr3_3:63558921-63558940 | None:intergenic | 30.0% |
| ! | ACTTTTGGCAAATTCTTTAG+AGG | + | chr3_3:63558924-63558943 | Msa0464010:CDS | 30.0% |
| ! | CTTTTGGCAAATTCTTTAGA+GGG | + | chr3_3:63558925-63558944 | Msa0464010:CDS | 30.0% |
| TCTGTATATTTGAGTCTCAC+AGG | - | chr3_3:63558999-63559018 | None:intergenic | 35.0% | |
| CGATTGTTCTACGAGTTTAG+TGG | + | chr3_3:63558622-63558641 | Msa0464010:CDS | 40.0% | |
| TTCGAAATCTACTTCCACCA+TGG | - | chr3_3:63558672-63558691 | None:intergenic | 40.0% | |
| ACCCTATCATTCAATGAGTG+CGG | + | chr3_3:63558732-63558751 | Msa0464010:CDS | 40.0% | |
| ! | TAGGGACTACCTCATACTTT+TGG | + | chr3_3:63558909-63558928 | Msa0464010:intron | 40.0% |
| CACGATTACGTAATGTTGTG+CGG | + | chr3_3:63558954-63558973 | Msa0464010:CDS | 40.0% | |
| CGAACATCACATTTGGTATG+GGG | - | chr3_3:63559025-63559044 | None:intergenic | 40.0% | |
| CCGAACATCACATTTGGTAT+GGG | - | chr3_3:63559026-63559045 | None:intergenic | 40.0% | |
| CCCATACCAAATGTGATGTT+CGG | + | chr3_3:63559023-63559042 | Msa0464010:CDS | 40.0% | |
| TCCGAACATCACATTTGGTA+TGG | - | chr3_3:63559027-63559046 | None:intergenic | 40.0% | |
| ! | CCTTTTCCGAACATCACATT+TGG | - | chr3_3:63559032-63559051 | None:intergenic | 40.0% |
| CCAAATGTGATGTTCGGAAA+AGG | + | chr3_3:63559029-63559048 | Msa0464010:CDS | 40.0% | |
| ATGTGATGTTCGGAAAAGGT+TGG | + | chr3_3:63559033-63559052 | Msa0464010:CDS | 40.0% | |
| ! | ACGAGTTTTTGTGTTGCCAA+TGG | + | chr3_3:63559056-63559075 | Msa0464010:CDS | 40.0% |
| TTGTGTTGCCAATGGTATTG+AGG | + | chr3_3:63559064-63559083 | Msa0464010:CDS | 40.0% | |
| CTTGAAAAACAACACGTCTC+CGG | - | chr3_3:63559090-63559109 | None:intergenic | 40.0% | |
| ! | TTTCAAGTGCAAGTGTGTCA+TGG | + | chr3_3:63559103-63559122 | Msa0464010:CDS | 40.0% |
| CTCATAACGTCGTTGACAGA+TGG | + | chr3_3:63558586-63558605 | Msa0464010:CDS | 45.0% | |
| TAACGTCGTTGACAGATGGT+TGG | + | chr3_3:63558590-63558609 | Msa0464010:CDS | 45.0% | |
| !! | ATTGTCGCTTTCCAGTACCA+TGG | + | chr3_3:63558652-63558671 | Msa0464010:CDS | 45.0% |
| ATCTACTTCCACCATGGTAC+TGG | - | chr3_3:63558666-63558685 | None:intergenic | 45.0% | |
| GCACTCATTGAATGATAGGG+TGG | - | chr3_3:63558733-63558752 | None:intergenic | 45.0% | |
| GCCGCACTCATTGAATGATA+GGG | - | chr3_3:63558736-63558755 | None:intergenic | 45.0% | |
| TGCCGCACTCATTGAATGAT+AGG | - | chr3_3:63558737-63558756 | None:intergenic | 45.0% | |
| !! | ACCTTTGAGGTTCCTATCGT+TGG | + | chr3_3:63558772-63558791 | Msa0464010:CDS | 45.0% |
| TCCAACGATAGGAACCTCAA+AGG | - | chr3_3:63558776-63558795 | None:intergenic | 45.0% | |
| GTCGATCGATATCCAACGAT+AGG | - | chr3_3:63558787-63558806 | None:intergenic | 45.0% | |
| TCGATCGACGAAATCACCTA+AGG | + | chr3_3:63558798-63558817 | Msa0464010:CDS | 45.0% | |
| ! | GTTGCCAATGGTATTGAGGC+CGG | + | chr3_3:63559068-63559087 | Msa0464010:CDS | 50.0% |
| ! | GTCGCTTTCCAGTACCATGG+TGG | + | chr3_3:63558655-63558674 | Msa0464010:CDS | 55.0% |
| GTCTCCGGCCTCAATACCAT+TGG | - | chr3_3:63559075-63559094 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 63558577 | 63559157 | 63558577 | ID=Msa0464010;Name=Msa0464010 |
| chr3_3 | mRNA | 63558577 | 63559157 | 63558577 | ID=Msa0464010-mRNA-1;Parent=Msa0464010;Name=Msa0464010-mRNA-1;_AED=0.08;_eAED=0.12;_QI=0|0|0|1|1|1|2|0|162 |
| chr3_3 | exon | 63558577 | 63558819 | 63558577 | ID=Msa0464010-mRNA-1:exon:13832;Parent=Msa0464010-mRNA-1 |
| chr3_3 | exon | 63558912 | 63559157 | 63558912 | ID=Msa0464010-mRNA-1:exon:13833;Parent=Msa0464010-mRNA-1 |
| chr3_3 | CDS | 63558577 | 63558819 | 63558577 | ID=Msa0464010-mRNA-1:cds;Parent=Msa0464010-mRNA-1 |
| chr3_3 | CDS | 63558912 | 63559157 | 63558912 | ID=Msa0464010-mRNA-1:cds;Parent=Msa0464010-mRNA-1 |
| Gene Sequence |
| Protein sequence |
