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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1042470 | KAG2307367.1 | 73.684 | 57 | 13 | 1 | 2 | 58 | 113 | 167 | 1.36e-14 | 74.3 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1042470 | sp|Q6ICZ8|NACA3_ARATH | 83.333 | 36 | 6 | 0 | 23 | 58 | 168 | 203 | 3.08e-12 | 60.8 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1042470 | B7FMV4 | 97.297 | 37 | 1 | 0 | 23 | 59 | 167 | 203 | 2.67e-14 | 73.2 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0802010 | Msa1042470 | 0.803226 | 3.856086e-49 | -8.615850e-47 |
| Msa1042470 | Msa1452240 | 0.802103 | 6.576319e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1042470 | MtrunA17_Chr7g0255421 | 97.297 | 37 | 1 | 0 | 23 | 59 | 167 | 203 | 5.37e-18 | 73.2 |
| Msa1042470 | MtrunA17_Chr3g0128571 | 83.333 | 36 | 6 | 0 | 24 | 59 | 28 | 63 | 5.61e-15 | 63.2 |
| Msa1042470 | MtrunA17_Chr3g0128051 | 75.000 | 36 | 9 | 0 | 24 | 59 | 183 | 218 | 9.27e-12 | 57.0 |
| Msa1042470 | MtrunA17_Chr3g0128041 | 77.143 | 35 | 8 | 0 | 24 | 58 | 192 | 226 | 1.85e-11 | 56.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1042470 | AT5G13850.1 | 83.333 | 36 | 6 | 0 | 23 | 58 | 168 | 203 | 3.14e-13 | 60.8 |
| Msa1042470 | AT3G12390.1 | 83.333 | 36 | 6 | 0 | 23 | 58 | 167 | 202 | 4.61e-13 | 60.5 |
| Msa1042470 | AT4G10480.2 | 77.778 | 36 | 8 | 0 | 23 | 58 | 175 | 210 | 2.05e-12 | 58.9 |
| Msa1042470 | AT4G10480.1 | 77.778 | 36 | 8 | 0 | 23 | 58 | 176 | 211 | 2.18e-12 | 58.9 |
| Msa1042470 | AT3G49470.1 | 71.429 | 42 | 9 | 1 | 17 | 58 | 178 | 216 | 5.41e-12 | 57.8 |
Find 13 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCTTTAACAGCTCTTGATCT+TGG | 0.356165 | 7_1:+80421683 | None:intergenic |
| AGACATTGTTGCTGCCATTA+TGG | 0.359211 | 7_1:-80421642 | Msa1042470:CDS |
| CCACCAACTCAATATCCTTA+AGG | 0.438427 | 7_1:+80421723 | None:intergenic |
| AAGTGAAGCTAGAATCCTTA+AGG | 0.461679 | 7_1:-80421738 | Msa1042470:CDS |
| TTAATCTGTTAGCTCCATAA+TGG | 0.466381 | 7_1:+80421628 | None:intergenic |
| CCTTAAGGATATTGAGTTGG+TGG | 0.483475 | 7_1:-80421723 | Msa1042470:CDS |
| CGCAAGGCCATGCATAAACT+CGG | 0.521099 | 7_1:-80422042 | Msa1042470:CDS |
| GGCAGCAACAATGTCTCCAT+TGG | 0.548006 | 7_1:+80421649 | None:intergenic |
| AATCCTTAAGGATATTGAGT+TGG | 0.549808 | 7_1:-80421726 | Msa1042470:CDS |
| GAGTTGGTGGTGACTCAAGC+TGG | 0.556994 | 7_1:-80421710 | Msa1042470:CDS |
| AAAGCTCTCAAAGCTGCCAA+TGG | 0.592851 | 7_1:-80421665 | Msa1042470:CDS |
| CATCGCTCCGAGTTTATGCA+TGG | 0.636819 | 7_1:+80422035 | None:intergenic |
| AAGTGAAAAGAAGAGTCGCA+AGG | 0.645070 | 7_1:-80422058 | Msa1042470:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTCTAAATATTGATACAAC+AGG | + | chr7_1:80421760-80421779 | None:intergenic | 20.0% |
| TTTGCTTTCTATTTGATCGT+CGG | - | chr7_1:80421796-80421815 | Msa1042470:intron | 30.0% | |
| TCTGACACCTACATTATATT+TGG | - | chr7_1:80421864-80421883 | Msa1042470:intron | 30.0% | |
| CTGACACCTACATTATATTT+GGG | - | chr7_1:80421865-80421884 | Msa1042470:intron | 30.0% | |
| TGACACCTACATTATATTTG+GGG | - | chr7_1:80421866-80421885 | Msa1042470:intron | 30.0% | |
| AATCCTTAAGGATATTGAGT+TGG | - | chr7_1:80421965-80421984 | Msa1042470:intron | 30.0% | |
| TTAATCTGTTAGCTCCATAA+TGG | + | chr7_1:80422066-80422085 | None:intergenic | 30.0% | |
| TAATGTAGGTGTCAGAAGTT+GGG | + | chr7_1:80421860-80421879 | None:intergenic | 35.0% | |
| ATAATGTAGGTGTCAGAAGT+TGG | + | chr7_1:80421861-80421880 | None:intergenic | 35.0% | |
| AGCTTCCCCAAATATAATGT+AGG | + | chr7_1:80421874-80421893 | None:intergenic | 35.0% | |
| AAGTGAAGCTAGAATCCTTA+AGG | - | chr7_1:80421953-80421972 | Msa1042470:intron | 35.0% | |
| AAGTGAAAAGAAGAGTCGCA+AGG | - | chr7_1:80421633-80421652 | Msa1042470:CDS | 40.0% | |
| ! | ACTTCCGCATTGGTCAAATT+AGG | + | chr7_1:80421937-80421956 | None:intergenic | 40.0% |
| CCACCAACTCAATATCCTTA+AGG | + | chr7_1:80421971-80421990 | None:intergenic | 40.0% | |
| !! | CCTTAAGGATATTGAGTTGG+TGG | - | chr7_1:80421968-80421987 | Msa1042470:intron | 40.0% |
| GCTTTAACAGCTCTTGATCT+TGG | + | chr7_1:80422011-80422030 | None:intergenic | 40.0% | |
| AGACATTGTTGCTGCCATTA+TGG | - | chr7_1:80422049-80422068 | Msa1042470:CDS | 40.0% | |
| TAAACTCGGAGCGATGTTAG+TGG | - | chr7_1:80421663-80421682 | Msa1042470:CDS | 45.0% | |
| GTTGGGCTCTTGAAAACATC+TGG | + | chr7_1:80421843-80421862 | None:intergenic | 45.0% | |
| GATCGAAGACTTGAGCTCAA+AGG | - | chr7_1:80421896-80421915 | Msa1042470:intron | 45.0% | |
| ! | AGCTCAAAGGTACAAACTCG+AGG | - | chr7_1:80421909-80421928 | Msa1042470:intron | 45.0% |
| GGCTCCTAATTTGACCAATG+CGG | - | chr7_1:80421930-80421949 | Msa1042470:intron | 45.0% | |
| !! | TTCTAGCTTCACTTCCGCAT+TGG | + | chr7_1:80421947-80421966 | None:intergenic | 45.0% |
| AAAGCTCTCAAAGCTGCCAA+TGG | - | chr7_1:80422026-80422045 | Msa1042470:intron | 45.0% | |
| CGCAAGGCCATGCATAAACT+CGG | - | chr7_1:80421649-80421668 | Msa1042470:CDS | 50.0% | |
| CATCGCTCCGAGTTTATGCA+TGG | + | chr7_1:80421659-80421678 | None:intergenic | 50.0% | |
| GGCAGCAACAATGTCTCCAT+TGG | + | chr7_1:80422045-80422064 | None:intergenic | 50.0% | |
| !! | GAGTTGGTGGTGACTCAAGC+TGG | - | chr7_1:80421981-80422000 | Msa1042470:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_1 | gene | 80421628 | 80422085 | 80421628 | ID=Msa1042470;Name=Msa1042470 |
| chr7_1 | mRNA | 80421628 | 80422085 | 80421628 | ID=Msa1042470-mRNA-1;Parent=Msa1042470;Name=Msa1042470-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|0|0|1|0|0|2|0|59 |
| chr7_1 | exon | 80422036 | 80422085 | 80422036 | ID=Msa1042470-mRNA-1:exon:21962;Parent=Msa1042470-mRNA-1 |
| chr7_1 | exon | 80421628 | 80421757 | 80421628 | ID=Msa1042470-mRNA-1:exon:21961;Parent=Msa1042470-mRNA-1 |
| chr7_1 | CDS | 80422036 | 80422085 | 80422036 | ID=Msa1042470-mRNA-1:cds;Parent=Msa1042470-mRNA-1 |
| chr7_1 | CDS | 80421628 | 80421757 | 80421628 | ID=Msa1042470-mRNA-1:cds;Parent=Msa1042470-mRNA-1 |
| Gene Sequence |
| Protein sequence |
