Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25631.t1 | XP_013445572.1 | 99.1 | 109 | 1 | 0 | 1 | 109 | 1 | 109 | 1.90E-54 | 221.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25631.t1 | O96860 | 56.2 | 89 | 37 | 1 | 1 | 89 | 1 | 87 | 4.6e-20 | 98.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25631.t1 | A0A072TRW8 | 99.1 | 109 | 1 | 0 | 1 | 109 | 1 | 109 | 1.4e-54 | 221.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene052077 | MS.gene25631 | 0.803243 | 3.83E-49 | -1.69E-46 |
| MS.gene059894 | MS.gene25631 | 0.817361 | 3.43E-52 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene25631 | MS.gene041598 | PPI |
| MS.gene041599 | MS.gene25631 | PPI |
| MS.gene035363 | MS.gene25631 | PPI |
| MS.gene77822 | MS.gene25631 | PPI |
| MS.gene035362 | MS.gene25631 | PPI |
| MS.gene78481 | MS.gene25631 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25631.t1 | MTR_8g464690 | 99.083 | 109 | 1 | 0 | 1 | 109 | 1 | 109 | 3.04e-77 | 223 |
| MS.gene25631.t1 | MTR_6g087770 | 51.087 | 92 | 45 | 0 | 1 | 92 | 1 | 92 | 3.67e-30 | 103 |
| MS.gene25631.t1 | MTR_2g101850 | 55.556 | 90 | 40 | 0 | 1 | 90 | 1 | 90 | 1.25e-29 | 102 |
| MS.gene25631.t1 | MTR_4g120150 | 48.837 | 86 | 42 | 1 | 5 | 90 | 46 | 129 | 3.04e-26 | 94.7 |
| MS.gene25631.t1 | MTR_4g114060 | 49.367 | 79 | 40 | 0 | 11 | 89 | 159 | 237 | 5.08e-22 | 87.0 |
| MS.gene25631.t1 | MTR_8g104900 | 45.882 | 85 | 44 | 1 | 12 | 94 | 45 | 129 | 1.54e-19 | 77.8 |
| MS.gene25631.t1 | MTR_1g031880 | 43.529 | 85 | 46 | 1 | 12 | 94 | 59 | 143 | 2.62e-19 | 77.4 |
| MS.gene25631.t1 | MTR_4g107350 | 50.633 | 79 | 38 | 1 | 12 | 89 | 222 | 300 | 1.74e-18 | 78.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25631.t1 | AT4G27360 | 71.845 | 103 | 29 | 0 | 1 | 103 | 1 | 103 | 1.64e-50 | 155 |
| MS.gene25631.t1 | AT3G16120 | 55.435 | 92 | 41 | 0 | 1 | 92 | 1 | 92 | 4.74e-33 | 110 |
| MS.gene25631.t1 | AT3G16120 | 55.435 | 92 | 41 | 0 | 1 | 92 | 1 | 92 | 4.74e-33 | 110 |
| MS.gene25631.t1 | AT1G52245 | 51.064 | 94 | 46 | 0 | 1 | 94 | 1 | 94 | 3.18e-30 | 103 |
| MS.gene25631.t1 | AT4G15930 | 49.412 | 85 | 41 | 1 | 5 | 89 | 39 | 121 | 3.46e-24 | 89.4 |
| MS.gene25631.t1 | AT5G20110 | 46.988 | 83 | 44 | 0 | 12 | 94 | 123 | 205 | 2.69e-21 | 84.3 |
| MS.gene25631.t1 | AT1G23220 | 39.773 | 88 | 52 | 1 | 8 | 94 | 38 | 125 | 3.98e-18 | 74.3 |
| MS.gene25631.t1 | AT4G15930 | 49.180 | 61 | 29 | 1 | 5 | 65 | 39 | 97 | 1.30e-13 | 61.6 |
Find 21 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGCATTGTAGGCACTGATTT+TGG | 0.221609 | 8.1:-48943790 | MS.gene25631:CDS |
| CAGGAATTTGATAGGGTTCA+TGG | 0.298316 | 8.1:-48943826 | MS.gene25631:CDS |
| CAGTTACATCATAGAAATCT+AGG | 0.300776 | 8.1:+48943970 | None:intergenic |
| AATTATTGCAGGAATTTGAT+AGG | 0.304941 | 8.1:-48943834 | MS.gene25631:intron |
| ATCATAGAAATCTAGGGCTT+TGG | 0.353606 | 8.1:+48943977 | None:intergenic |
| CTTCAATTCATCATGCTAGA+AGG | 0.354098 | 8.1:-48944065 | None:intergenic |
| TTGCTCTTTAAGGGATCTGC+TGG | 0.420352 | 8.1:-48943706 | MS.gene25631:CDS |
| CCTGGTTGGCAATGCATTGT+AGG | 0.440795 | 8.1:-48943802 | MS.gene25631:CDS |
| CTAGAAGGCAAGGCAGTGAT+TGG | 0.481296 | 8.1:-48944050 | MS.gene25631:CDS |
| CCTACAATGCATTGCCAACC+AGG | 0.504627 | 8.1:+48943802 | None:intergenic |
| AAATCAGTTCTCAGCAATAG+AGG | 0.512873 | 8.1:-48943668 | MS.gene25631:CDS |
| TATAGCTCGATTTATAAAGA+AGG | 0.514762 | 8.1:-48943937 | MS.gene25631:intron |
| TTTGATAGGGTTCATGGACC+TGG | 0.522418 | 8.1:-48943820 | MS.gene25631:CDS |
| ATTATTGCAGGAATTTGATA+GGG | 0.524356 | 8.1:-48943833 | MS.gene25631:intron |
| TATAAATCGAGCTATATCAA+TGG | 0.561045 | 8.1:+48943944 | None:intergenic |
| ATTCATCATGCTAGAAGGCA+AGG | 0.581622 | 8.1:-48944060 | None:intergenic |
| TCCTTTGTGACACATTGTAG+TGG | 0.583602 | 8.1:-48943766 | MS.gene25631:CDS |
| AGTTACATCATAGAAATCTA+GGG | 0.585718 | 8.1:+48943971 | None:intergenic |
| ATAGGGTTCATGGACCTGGT+TGG | 0.594187 | 8.1:-48943816 | MS.gene25631:CDS |
| GCCACTACAATGTGTCACAA+AGG | 0.659746 | 8.1:+48943765 | None:intergenic |
| AGATTTCTATGATGTAACTG+AGG | 0.680263 | 8.1:-48943967 | MS.gene25631:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GGTAATAAATTAAAACTAAG+AGG | - | chr8.1:48943791-48943810 | MS.gene25631:CDS | 20.0% |
| ! | AAACTAAGAGGATTGTTTAT+TGG | - | chr8.1:48943803-48943822 | MS.gene25631:CDS | 25.0% |
| ! | AATTATTGCAGGAATTTGAT+AGG | - | chr8.1:48943873-48943892 | MS.gene25631:intron | 25.0% |
| ! | AGTTACATCATAGAAATCTA+GGG | + | chr8.1:48943739-48943758 | None:intergenic | 25.0% |
| ! | ATGTGTTAGTTAATTATTGC+AGG | - | chr8.1:48943862-48943881 | MS.gene25631:intron | 25.0% |
| ! | ATTATTGCAGGAATTTGATA+GGG | - | chr8.1:48943874-48943893 | MS.gene25631:intron | 25.0% |
| ! | TATAAATCGAGCTATATCAA+TGG | + | chr8.1:48943766-48943785 | None:intergenic | 25.0% |
| ! | TATAGCTCGATTTATAAAGA+AGG | - | chr8.1:48943770-48943789 | MS.gene25631:CDS | 25.0% |
| !!! | TGCTTCATCTATTTTTGTAT+AGG | - | chr8.1:48943965-48943984 | MS.gene25631:CDS | 25.0% |
| AGATTTCTATGATGTAACTG+AGG | - | chr8.1:48943740-48943759 | MS.gene25631:CDS | 30.0% | |
| CAGTTACATCATAGAAATCT+AGG | + | chr8.1:48943740-48943759 | None:intergenic | 30.0% | |
| ! | ATGGCAATTTTGCTCTTTAA+GGG | - | chr8.1:48943992-48944011 | MS.gene25631:CDS | 30.0% |
| !!! | CTATTTTTGTATAGGTAGCA+TGG | - | chr8.1:48943973-48943992 | MS.gene25631:CDS | 30.0% |
| AAATCAGTTCTCAGCAATAG+AGG | - | chr8.1:48944039-48944058 | MS.gene25631:CDS | 35.0% | |
| ! | ATCATAGAAATCTAGGGCTT+TGG | + | chr8.1:48943733-48943752 | None:intergenic | 35.0% |
| ! | CATGGCAATTTTGCTCTTTA+AGG | - | chr8.1:48943991-48944010 | MS.gene25631:CDS | 35.0% |
| !! | AACTGATTTTCTTCTGCTTG+TGG | + | chr8.1:48944028-48944047 | None:intergenic | 35.0% |
| CAGGAATTTGATAGGGTTCA+TGG | - | chr8.1:48943881-48943900 | MS.gene25631:intron | 40.0% | |
| TCCTTTGTGACACATTGTAG+TGG | - | chr8.1:48943941-48943960 | MS.gene25631:CDS | 40.0% | |
| !!! | TGCATTGTAGGCACTGATTT+TGG | - | chr8.1:48943917-48943936 | MS.gene25631:intron | 40.0% |
| GCCACTACAATGTGTCACAA+AGG | + | chr8.1:48943945-48943964 | None:intergenic | 45.0% | |
| TTTGATAGGGTTCATGGACC+TGG | - | chr8.1:48943887-48943906 | MS.gene25631:intron | 45.0% | |
| ! | TTGCTCTTTAAGGGATCTGC+TGG | - | chr8.1:48944001-48944020 | MS.gene25631:CDS | 45.0% |
| !!! | TTTTAATGTAATTTTTTTTA+TGG | - | chr8.1:48943829-48943848 | MS.gene25631:intron | 5.0% |
| ATAGGGTTCATGGACCTGGT+TGG | - | chr8.1:48943891-48943910 | MS.gene25631:intron | 50.0% | |
| CCTACAATGCATTGCCAACC+AGG | + | chr8.1:48943908-48943927 | None:intergenic | 50.0% | |
| CCTGGTTGGCAATGCATTGT+AGG | - | chr8.1:48943905-48943924 | MS.gene25631:intron | 50.0% | |
| CTAGAAGGCAAGGCAGTGAT+TGG | - | chr8.1:48943657-48943676 | MS.gene25631:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8.1 | gene | 48943654 | 48944075 | 48943654 | ID=MS.gene25631 |
| chr8.1 | mRNA | 48943654 | 48944075 | 48943654 | ID=MS.gene25631.t1;Parent=MS.gene25631 |
| chr8.1 | exon | 48943938 | 48944075 | 48943938 | ID=MS.gene25631.t1.exon1;Parent=MS.gene25631.t1 |
| chr8.1 | CDS | 48943938 | 48944075 | 48943938 | ID=cds.MS.gene25631.t1;Parent=MS.gene25631.t1 |
| chr8.1 | exon | 48943654 | 48943845 | 48943654 | ID=MS.gene25631.t1.exon2;Parent=MS.gene25631.t1 |
| chr8.1 | CDS | 48943654 | 48943845 | 48943654 | ID=cds.MS.gene25631.t1;Parent=MS.gene25631.t1 |
| Gene Sequence |
| Protein sequence |
