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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102420 | XP_003591828.2 | 77.612 | 67 | 15 | 0 | 5 | 71 | 161 | 227 | 2.28e-27 | 113 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102420 | sp|Q6NQK2|NAC8_ARATH | 58.209 | 67 | 23 | 1 | 5 | 71 | 161 | 222 | 2.66e-17 | 77.0 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102420 | G7I498 | 77.612 | 67 | 15 | 0 | 5 | 71 | 161 | 227 | 1.09e-27 | 113 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1102420 | TF | NAC |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102420 | MtrunA17_Chr1g0198751 | 77.612 | 67 | 15 | 0 | 5 | 71 | 161 | 227 | 2.10e-31 | 113 |
| Msa1102420 | MtrunA17_Chr5g0422431 | 71.642 | 67 | 19 | 0 | 5 | 71 | 161 | 227 | 1.21e-28 | 105 |
| Msa1102420 | MtrunA17_Chr1g0198741 | 70.149 | 67 | 20 | 0 | 5 | 71 | 56 | 122 | 1.66e-27 | 100 |
| Msa1102420 | MtrunA17_Chr2g0282871 | 57.377 | 61 | 26 | 0 | 7 | 67 | 159 | 219 | 2.55e-17 | 73.6 |
| Msa1102420 | MtrunA17_Chr7g0227071 | 59.259 | 54 | 22 | 0 | 10 | 63 | 165 | 218 | 1.04e-16 | 72.4 |
| Msa1102420 | MtrunA17_Chr4g0046431 | 51.515 | 66 | 31 | 1 | 2 | 67 | 170 | 234 | 1.42e-16 | 71.6 |
| Msa1102420 | MtrunA17_Chr4g0040541 | 54.545 | 66 | 29 | 1 | 2 | 67 | 151 | 215 | 4.89e-16 | 69.7 |
| Msa1102420 | MtrunA17_Chr8g0389661 | 50.746 | 67 | 33 | 0 | 5 | 71 | 158 | 224 | 2.04e-15 | 68.6 |
| Msa1102420 | MtrunA17_Chr8g0367761 | 50.000 | 56 | 28 | 0 | 5 | 60 | 172 | 227 | 3.34e-13 | 61.6 |
| Msa1102420 | MtrunA17_Chr2g0324961 | 54.545 | 66 | 29 | 1 | 2 | 67 | 151 | 215 | 8.79e-12 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1102420 | AT1G25580.1 | 58.209 | 67 | 23 | 1 | 5 | 71 | 161 | 222 | 2.71e-18 | 77.0 |
| Msa1102420 | AT4G28500.1 | 59.649 | 57 | 23 | 0 | 11 | 67 | 170 | 226 | 1.05e-16 | 72.0 |
| Msa1102420 | AT1G28470.1 | 58.929 | 56 | 23 | 0 | 12 | 67 | 188 | 243 | 2.16e-16 | 71.2 |
| Msa1102420 | AT4G29230.2 | 56.897 | 58 | 25 | 0 | 5 | 62 | 159 | 216 | 2.61e-15 | 68.9 |
| Msa1102420 | AT4G29230.1 | 56.897 | 58 | 25 | 0 | 5 | 62 | 160 | 217 | 2.63e-15 | 68.9 |
| Msa1102420 | AT3G01600.1 | 53.731 | 67 | 28 | 2 | 5 | 71 | 160 | 223 | 4.49e-15 | 67.8 |
| Msa1102420 | AT4G29230.3 | 56.897 | 58 | 25 | 0 | 5 | 62 | 160 | 217 | 4.55e-15 | 68.2 |
| Msa1102420 | AT5G56620.1 | 56.897 | 58 | 25 | 0 | 5 | 62 | 158 | 215 | 8.24e-15 | 67.4 |
| Msa1102420 | AT5G56620.2 | 56.897 | 58 | 25 | 0 | 5 | 62 | 158 | 215 | 1.02e-14 | 67.0 |
| Msa1102420 | AT5G56620.3 | 56.897 | 58 | 25 | 0 | 5 | 62 | 158 | 215 | 1.28e-14 | 66.6 |
| Msa1102420 | AT5G14490.2 | 55.932 | 59 | 25 | 1 | 5 | 63 | 160 | 217 | 1.85e-14 | 65.9 |
| Msa1102420 | AT5G14490.4 | 57.143 | 63 | 24 | 2 | 5 | 65 | 160 | 221 | 1.99e-14 | 66.2 |
| Msa1102420 | AT5G14490.1 | 57.143 | 63 | 24 | 2 | 5 | 65 | 163 | 224 | 2.28e-14 | 65.9 |
| Msa1102420 | AT5G14490.3 | 55.932 | 59 | 25 | 1 | 5 | 63 | 163 | 220 | 2.81e-14 | 65.9 |
Find 13 sgRNAs with CRISPR-Local
Find 19 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCAACAGCAGCAAGCTAAAT+TGG | 0.129850 | 7_3:-35275900 | Msa1102420:CDS |
| GAAAAGCTGAGAAAACTAAA+TGG | 0.303802 | 7_3:-35275997 | Msa1102420:CDS |
| CTGCTGTTGGTAAAATGCTT+TGG | 0.316940 | 7_3:+35275913 | None:intergenic |
| TCAAGGCTATAAGAAGATTA+TGG | 0.317388 | 7_3:-35276047 | Msa1102420:CDS |
| CCAATTTAGCTTGCTGCTGT+TGG | 0.465278 | 7_3:+35275900 | None:intergenic |
| CAACAGCAGCAAGCTAAATT+GGG | 0.473881 | 7_3:-35275899 | Msa1102420:CDS |
| AAAAGCTGAGAAAACTAAAT+GGG | 0.482522 | 7_3:-35275996 | Msa1102420:CDS |
| GTCATGCATCAATACCATCT+TGG | 0.512257 | 7_3:-35275974 | Msa1102420:CDS |
| AGTTCGTTTAAGATGTATGT+TGG | 0.527881 | 7_3:+35276073 | None:intergenic |
| AAAAGAGGATGAAAGGGAAG+GGG | 0.532589 | 7_3:-35275948 | Msa1102420:CDS |
| ATCTTAAACGAACTTCATCA+AGG | 0.579941 | 7_3:-35276064 | Msa1102420:CDS |
| CTTTATATGACTTCAGACAA+TGG | 0.602850 | 7_3:-35276022 | Msa1102420:CDS |
| TATATGACTTCAGACAATGG+AGG | 0.711267 | 7_3:-35276019 | Msa1102420:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAAAGCTGAGAAAACTAAAT+GGG | - | chr7_3:35275963-35275982 | Msa1102420:CDS | 25.0% |
| ! | AGTTCGTTTAAGATGTATGT+TGG | + | chr7_3:35275889-35275908 | None:intergenic | 30.0% |
| ATCTTAAACGAACTTCATCA+AGG | - | chr7_3:35275895-35275914 | Msa1102420:CDS | 30.0% | |
| TCAAGGCTATAAGAAGATTA+TGG | - | chr7_3:35275912-35275931 | Msa1102420:CDS | 30.0% | |
| CTTTATATGACTTCAGACAA+TGG | - | chr7_3:35275937-35275956 | Msa1102420:CDS | 30.0% | |
| GAAAAGCTGAGAAAACTAAA+TGG | - | chr7_3:35275962-35275981 | Msa1102420:CDS | 30.0% | |
| ATACCATCTTGGAAAAAAAG+AGG | - | chr7_3:35275996-35276015 | Msa1102420:CDS | 30.0% | |
| TTGGAAAAAAAGAGGATGAA+AGG | - | chr7_3:35276004-35276023 | Msa1102420:CDS | 30.0% | |
| TGGAAAAAAAGAGGATGAAA+GGG | - | chr7_3:35276005-35276024 | Msa1102420:CDS | 30.0% | |
| TATATGACTTCAGACAATGG+AGG | - | chr7_3:35275940-35275959 | Msa1102420:CDS | 35.0% | |
| !!! | CATCCTCTTTTTTTCCAAGA+TGG | + | chr7_3:35276002-35276021 | None:intergenic | 35.0% |
| AAAAAAGAGGATGAAAGGGA+AGG | - | chr7_3:35276009-35276028 | Msa1102420:CDS | 35.0% | |
| AAAAAGAGGATGAAAGGGAA+GGG | - | chr7_3:35276010-35276029 | Msa1102420:CDS | 35.0% | |
| GTCATGCATCAATACCATCT+TGG | - | chr7_3:35275985-35276004 | Msa1102420:CDS | 40.0% | |
| AAAAGAGGATGAAAGGGAAG+GGG | - | chr7_3:35276011-35276030 | Msa1102420:CDS | 40.0% | |
| ! | CTGCTGTTGGTAAAATGCTT+TGG | + | chr7_3:35276049-35276068 | None:intergenic | 40.0% |
| CAACAGCAGCAAGCTAAATT+GGG | - | chr7_3:35276060-35276079 | Msa1102420:CDS | 40.0% | |
| !! | CCAATTTAGCTTGCTGCTGT+TGG | + | chr7_3:35276062-35276081 | None:intergenic | 45.0% |
| CCAACAGCAGCAAGCTAAAT+TGG | - | chr7_3:35276059-35276078 | Msa1102420:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 35275883 | 35276098 | 35275883 | ID=Msa1102420;Name=Msa1102420 |
| chr7_3 | mRNA | 35275883 | 35276098 | 35275883 | ID=Msa1102420-mRNA-1;Parent=Msa1102420;Name=Msa1102420-mRNA-1;_AED=0.41;_eAED=0.41;_QI=0|-1|0|1|-1|1|1|0|71 |
| chr7_3 | exon | 35275883 | 35276098 | 35275883 | ID=Msa1102420-mRNA-1:exon:7438;Parent=Msa1102420-mRNA-1 |
| chr7_3 | CDS | 35275883 | 35276098 | 35275883 | ID=Msa1102420-mRNA-1:cds;Parent=Msa1102420-mRNA-1 |
| Gene Sequence |
| Protein sequence |
