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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0345670 | XP_013450457.1 | 92.523 | 107 | 8 | 0 | 2 | 108 | 87 | 193 | 6.44e-65 | 204 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0345670 | sp|O04834|SAR1A_ARATH | 87.850 | 107 | 13 | 0 | 2 | 108 | 87 | 193 | 2.09e-65 | 198 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0345670 | A0A072UFB5 | 92.523 | 107 | 8 | 0 | 2 | 108 | 87 | 193 | 3.08e-65 | 204 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0017510 | Msa0345670 | 0.804018 | 2.642444e-49 | -8.615850e-47 |
| Msa0157290 | Msa0345670 | 0.803117 | 4.063168e-49 | -8.615850e-47 |
| Msa0182690 | Msa0345670 | 0.804059 | 2.590218e-49 | -8.615850e-47 |
| Msa0345670 | Msa0359030 | 0.804657 | 1.944644e-49 | -8.615850e-47 |
| Msa0345670 | Msa0402290 | 0.804348 | 2.255721e-49 | -8.615850e-47 |
| Msa0345670 | Msa0973100 | 0.802154 | 6.417112e-49 | -8.615850e-47 |
| Msa0345670 | Msa1014540 | 0.804204 | 2.416654e-49 | -8.615850e-47 |
| Msa0345670 | Msa1284680 | 0.806221 | 9.139429e-50 | -8.615850e-47 |
| Msa0345670 | Msa1353470 | 0.801045 | 1.083443e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0345670 | MtrunA17_Chr7g0271761 | 92.523 | 107 | 8 | 0 | 2 | 108 | 87 | 193 | 5.92e-69 | 204 |
| Msa0345670 | MtrunA17_Chr2g0294701 | 86.916 | 107 | 14 | 0 | 2 | 108 | 87 | 193 | 1.58e-66 | 198 |
| Msa0345670 | MtrunA17_Chr4g0068171 | 85.047 | 107 | 16 | 0 | 2 | 108 | 87 | 193 | 1.25e-65 | 196 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0345670 | AT4G02080.1 | 87.850 | 107 | 13 | 0 | 2 | 108 | 87 | 193 | 2.13e-66 | 198 |
| Msa0345670 | AT1G02620.1 | 85.047 | 107 | 16 | 0 | 2 | 108 | 16 | 122 | 4.22e-66 | 195 |
| Msa0345670 | AT3G62560.1 | 84.906 | 106 | 16 | 0 | 2 | 107 | 87 | 192 | 4.49e-64 | 192 |
| Msa0345670 | AT1G56330.1 | 82.075 | 106 | 19 | 0 | 2 | 107 | 87 | 192 | 3.14e-62 | 188 |
| Msa0345670 | AT1G09180.1 | 78.505 | 107 | 23 | 0 | 2 | 108 | 87 | 193 | 2.74e-59 | 180 |
| Msa0345670 | AT3G49870.2 | 47.692 | 65 | 34 | 0 | 3 | 67 | 69 | 133 | 1.02e-12 | 61.2 |
| Msa0345670 | AT3G49870.1 | 47.692 | 65 | 34 | 0 | 3 | 67 | 88 | 152 | 2.23e-12 | 60.5 |
| Msa0345670 | AT3G49860.1 | 46.970 | 66 | 35 | 0 | 3 | 68 | 80 | 145 | 2.53e-12 | 60.1 |
| Msa0345670 | AT5G67560.1 | 46.970 | 66 | 35 | 0 | 2 | 67 | 87 | 152 | 3.81e-12 | 60.1 |
Find 31 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTGCAGTATTGTGAAGAAAA+TGG | 0.290748 | 3_1:+5159075 | Msa0345670:CDS |
| AGACGAATTGCGTTACCATT+TGG | 0.332275 | 3_1:+5158976 | Msa0345670:CDS |
| GTTATGGTGATGGTTTCATA+TGG | 0.337418 | 3_1:+5159098 | Msa0345670:CDS |
| TCTCCTTTCTGATGAATCAT+TGG | 0.342855 | 3_1:+5158895 | Msa0345670:CDS |
| GACGAATTGCGTTACCATTT+GGG | 0.348316 | 3_1:+5158977 | Msa0345670:CDS |
| AATGTCCCTTTCCTTGTCCT+TGG | 0.407599 | 3_1:+5158920 | Msa0345670:CDS |
| CTCCTTTCTGATGAATCATT+GGG | 0.412647 | 3_1:+5158896 | Msa0345670:CDS |
| TCGTCTTCTGAGGCAGCATA+TGG | 0.429799 | 3_1:-5158959 | None:intergenic |
| TTATGGTGATGGTTTCATAT+GGG | 0.455567 | 3_1:+5159099 | Msa0345670:CDS |
| GGCTTGAGCAACTTCACCAC+TGG | 0.494395 | 3_1:+5158998 | Msa0345670:CDS |
| GGTAGATGCAGTGGTCTACT+TGG | 0.495776 | 3_1:+5158820 | Msa0345670:CDS |
| TGCAGTATTGTGAAGAAAAT+GGG | 0.501905 | 3_1:+5159076 | Msa0345670:CDS |
| ATGGGTCGGACATTTGAGTC+TGG | 0.503815 | 3_1:-5159040 | None:intergenic |
| TGAAGTTGCTCAAGCCCAAA+TGG | 0.508916 | 3_1:-5158991 | None:intergenic |
| TGTTTCCAAGGACAAGGAAA+GGG | 0.516162 | 3_1:-5158925 | None:intergenic |
| TTCCCAATGATTCATCAGAA+AGG | 0.526650 | 3_1:-5158898 | None:intergenic |
| CTTCACCACTGGCAAGGGTA+AGG | 0.533342 | 3_1:+5159009 | Msa0345670:CDS |
| TTGTTTCCAAGGACAAGGAA+AGG | 0.535849 | 3_1:-5158926 | None:intergenic |
| AAGAAAATGGGTTATGGTGA+TGG | 0.542914 | 3_1:+5159088 | Msa0345670:CDS |
| GAGCAACTTCACCACTGGCA+AGG | 0.556603 | 3_1:+5159003 | Msa0345670:CDS |
| AGCAACTTCACCACTGGCAA+GGG | 0.561923 | 3_1:+5159004 | Msa0345670:CDS |
| ATTGTGAAGAAAATGGGTTA+TGG | 0.564263 | 3_1:+5159082 | Msa0345670:CDS |
| AGACTCAAATGTCCGACCCA+TGG | 0.577020 | 3_1:+5159042 | Msa0345670:CDS |
| CTTGGTTAATGCTTATGACA+AGG | 0.580833 | 3_1:+5158838 | Msa0345670:CDS |
| ACTGCACATGAATACCTCCA+TGG | 0.596081 | 3_1:-5159059 | None:intergenic |
| CTGCACATGAATACCTCCAT+GGG | 0.601771 | 3_1:-5159058 | None:intergenic |
| ATTTACCTTACCCTTGCCAG+TGG | 0.623563 | 3_1:-5159014 | None:intergenic |
| GTAACGCAATTCGTCTTCTG+AGG | 0.630635 | 3_1:-5158969 | None:intergenic |
| TGCAATGCAGGTAGATGCAG+TGG | 0.654691 | 3_1:+5158811 | None:intergenic |
| CTCAAATGTCCGACCCATGG+AGG | 0.662910 | 3_1:+5159045 | Msa0345670:CDS |
| ACATGAATACCTCCATGGGT+CGG | 0.682919 | 3_1:-5159054 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAGATTTGATGAGTCAAAAA+AGG | + | chr3_1:5158862-5158881 | Msa0345670:CDS | 25.0% |
| !!! | GAATATCAATTTTGTTTCCA+AGG | - | chr3_1:5158940-5158959 | None:intergenic | 25.0% |
| TGCAGTATTGTGAAGAAAAT+GGG | + | chr3_1:5159076-5159095 | Msa0345670:CDS | 30.0% | |
| !! | ATTGTGAAGAAAATGGGTTA+TGG | + | chr3_1:5159082-5159101 | Msa0345670:CDS | 30.0% |
| !! | TTATGGTGATGGTTTCATAT+GGG | + | chr3_1:5159099-5159118 | Msa0345670:CDS | 30.0% |
| CTTGGTTAATGCTTATGACA+AGG | + | chr3_1:5158838-5158857 | Msa0345670:CDS | 35.0% | |
| TCTCCTTTCTGATGAATCAT+TGG | + | chr3_1:5158895-5158914 | Msa0345670:CDS | 35.0% | |
| CTCCTTTCTGATGAATCATT+GGG | + | chr3_1:5158896-5158915 | Msa0345670:CDS | 35.0% | |
| TTCCCAATGATTCATCAGAA+AGG | - | chr3_1:5158901-5158920 | None:intergenic | 35.0% | |
| !! | CAATTTTGTTTCCAAGGACA+AGG | - | chr3_1:5158934-5158953 | None:intergenic | 35.0% |
| GTGCAGTATTGTGAAGAAAA+TGG | + | chr3_1:5159075-5159094 | Msa0345670:CDS | 35.0% | |
| !! | AAGAAAATGGGTTATGGTGA+TGG | + | chr3_1:5159088-5159107 | Msa0345670:CDS | 35.0% |
| !! | GTTATGGTGATGGTTTCATA+TGG | + | chr3_1:5159098-5159117 | Msa0345670:CDS | 35.0% |
| TGTTTCCAAGGACAAGGAAA+GGG | - | chr3_1:5158928-5158947 | None:intergenic | 40.0% | |
| TTGTTTCCAAGGACAAGGAA+AGG | - | chr3_1:5158929-5158948 | None:intergenic | 40.0% | |
| AGACGAATTGCGTTACCATT+TGG | + | chr3_1:5158976-5158995 | Msa0345670:CDS | 40.0% | |
| GACGAATTGCGTTACCATTT+GGG | + | chr3_1:5158977-5158996 | Msa0345670:CDS | 40.0% | |
| AATGTCCCTTTCCTTGTCCT+TGG | + | chr3_1:5158920-5158939 | Msa0345670:CDS | 45.0% | |
| GTAACGCAATTCGTCTTCTG+AGG | - | chr3_1:5158972-5158991 | None:intergenic | 45.0% | |
| TGAAGTTGCTCAAGCCCAAA+TGG | - | chr3_1:5158994-5159013 | None:intergenic | 45.0% | |
| ATTTACCTTACCCTTGCCAG+TGG | - | chr3_1:5159017-5159036 | None:intergenic | 45.0% | |
| ACATGAATACCTCCATGGGT+CGG | - | chr3_1:5159057-5159076 | None:intergenic | 45.0% | |
| CTGCACATGAATACCTCCAT+GGG | - | chr3_1:5159061-5159080 | None:intergenic | 45.0% | |
| ACTGCACATGAATACCTCCA+TGG | - | chr3_1:5159062-5159081 | None:intergenic | 45.0% | |
| GGTAGATGCAGTGGTCTACT+TGG | + | chr3_1:5158820-5158839 | Msa0345670:CDS | 50.0% | |
| !! | TCGTCTTCTGAGGCAGCATA+TGG | - | chr3_1:5158962-5158981 | None:intergenic | 50.0% |
| AGCAACTTCACCACTGGCAA+GGG | + | chr3_1:5159004-5159023 | Msa0345670:CDS | 50.0% | |
| ATGGGTCGGACATTTGAGTC+TGG | - | chr3_1:5159043-5159062 | None:intergenic | 50.0% | |
| AGACTCAAATGTCCGACCCA+TGG | + | chr3_1:5159042-5159061 | Msa0345670:CDS | 50.0% | |
| GGCTTGAGCAACTTCACCAC+TGG | + | chr3_1:5158998-5159017 | Msa0345670:CDS | 55.0% | |
| GAGCAACTTCACCACTGGCA+AGG | + | chr3_1:5159003-5159022 | Msa0345670:CDS | 55.0% | |
| CTTCACCACTGGCAAGGGTA+AGG | + | chr3_1:5159009-5159028 | Msa0345670:CDS | 55.0% | |
| CTCAAATGTCCGACCCATGG+AGG | + | chr3_1:5159045-5159064 | Msa0345670:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 5158815 | 5159141 | 5158815 | ID=Msa0345670;Name=Msa0345670 |
| chr3_1 | mRNA | 5158815 | 5159141 | 5158815 | ID=Msa0345670-mRNA-1;Parent=Msa0345670;Name=Msa0345670-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|108 |
| chr3_1 | exon | 5158815 | 5159141 | 5158815 | ID=Msa0345670-mRNA-1:exon:1564;Parent=Msa0345670-mRNA-1 |
| chr3_1 | CDS | 5158815 | 5159141 | 5158815 | ID=Msa0345670-mRNA-1:cds;Parent=Msa0345670-mRNA-1 |
| Gene Sequence |
| Protein sequence |
