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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0421820 | MCI33390.1 | 83.051 | 59 | 10 | 0 | 1 | 59 | 27 | 85 | 1.12e-26 | 102 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0421820 | sp|Q4VYC8|NSP1_MEDTR | 82.540 | 63 | 7 | 2 | 1 | 60 | 492 | 553 | 1.31e-25 | 100 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0421820 | A0A392RC75 | 83.051 | 59 | 10 | 0 | 1 | 59 | 27 | 85 | 5.33e-27 | 102 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0421820 | TF | GRAS |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0421820 | MtrunA17_Chr8g0344101 | 82.540 | 63 | 7 | 2 | 1 | 60 | 544 | 605 | 1.35e-26 | 99.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0421820 | AT3G13840.1 | 55.357 | 56 | 24 | 1 | 1 | 56 | 454 | 508 | 9.00e-14 | 63.9 |
Find 17 sgRNAs with CRISPR-Local
Find 15 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGGTTTGCAGGGGAAGTATT+TGG | 0.246526 | 3_2:-70850107 | Msa0421820:CDS |
| ACCTGTTTCTTTGTTGAAAC+TGG | 0.256543 | 3_2:-70849973 | Msa0421820:CDS |
| TGAGGATGTATGATAATAAT+TGG | 0.276293 | 3_2:-70850052 | Msa0421820:CDS |
| AGAAGATAACAGTACAAGTA+TGG | 0.296127 | 3_2:-70850015 | Msa0421820:CDS |
| TCCAGTTTCAACAAAGAAAC+AGG | 0.371221 | 3_2:+70849972 | None:intergenic |
| ATGAAAGAAGCAGGGTTTGC+AGG | 0.378552 | 3_2:-70850119 | Msa0421820:CDS |
| TTTGGAGAAGATGCAATTGA+TGG | 0.438152 | 3_2:-70850089 | Msa0421820:CDS |
| ACAGTACAAGTATGGGACTA+TGG | 0.445901 | 3_2:-70850007 | Msa0421820:CDS |
| TGTGGAAGAATGAAAGAAGC+AGG | 0.479878 | 3_2:-70850128 | None:intergenic |
| TGAAAGAAGCAGGGTTTGCA+GGG | 0.503859 | 3_2:-70850118 | Msa0421820:CDS |
| GAGGATGTATGATAATAATT+GGG | 0.513135 | 3_2:-70850051 | Msa0421820:CDS |
| TAATAATTGGGAGATGAAAG+TGG | 0.541152 | 3_2:-70850039 | Msa0421820:CDS |
| GAAGATAACAGTACAAGTAT+GGG | 0.566917 | 3_2:-70850014 | Msa0421820:CDS |
| ATGGACGTCGAGCTTTGTTG+AGG | 0.632927 | 3_2:-70850070 | Msa0421820:CDS |
| GTGGAAGAATGAAAGAAGCA+GGG | 0.634215 | 3_2:-70850127 | None:intergenic |
| GTACAAGTATGGGACTATGG+TGG | 0.679622 | 3_2:-70850004 | Msa0421820:CDS |
| GAAAGAAGCAGGGTTTGCAG+GGG | 0.689170 | 3_2:-70850117 | Msa0421820:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TGAGGATGTATGATAATAAT+TGG | - | chr3_2:70850026-70850045 | Msa0421820:CDS | 25.0% |
| ! | GAGGATGTATGATAATAATT+GGG | - | chr3_2:70850027-70850046 | Msa0421820:CDS | 25.0% |
| TAATAATTGGGAGATGAAAG+TGG | - | chr3_2:70850039-70850058 | Msa0421820:CDS | 30.0% | |
| AGAAGATAACAGTACAAGTA+TGG | - | chr3_2:70850063-70850082 | Msa0421820:CDS | 30.0% | |
| GAAGATAACAGTACAAGTAT+GGG | - | chr3_2:70850064-70850083 | Msa0421820:CDS | 30.0% | |
| TTTGGAGAAGATGCAATTGA+TGG | - | chr3_2:70849989-70850008 | Msa0421820:CDS | 35.0% | |
| ! | ACCTGTTTCTTTGTTGAAAC+TGG | - | chr3_2:70850105-70850124 | Msa0421820:CDS | 35.0% |
| TCCAGTTTCAACAAAGAAAC+AGG | + | chr3_2:70850109-70850128 | None:intergenic | 35.0% | |
| ACAGTACAAGTATGGGACTA+TGG | - | chr3_2:70850071-70850090 | Msa0421820:CDS | 40.0% | |
| ATGAAAGAAGCAGGGTTTGC+AGG | - | chr3_2:70849959-70849978 | Msa0421820:CDS | 45.0% | |
| TGAAAGAAGCAGGGTTTGCA+GGG | - | chr3_2:70849960-70849979 | Msa0421820:CDS | 45.0% | |
| GTACAAGTATGGGACTATGG+TGG | - | chr3_2:70850074-70850093 | Msa0421820:CDS | 45.0% | |
| GAAAGAAGCAGGGTTTGCAG+GGG | - | chr3_2:70849961-70849980 | Msa0421820:CDS | 50.0% | |
| !! | GGGTTTGCAGGGGAAGTATT+TGG | - | chr3_2:70849971-70849990 | Msa0421820:CDS | 50.0% |
| !! | ATGGACGTCGAGCTTTGTTG+AGG | - | chr3_2:70850008-70850027 | Msa0421820:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 70849959 | 70850141 | 70849959 | ID=Msa0421820;Name=Msa0421820 |
| chr3_2 | mRNA | 70849959 | 70850141 | 70849959 | ID=Msa0421820-mRNA-1;Parent=Msa0421820;Name=Msa0421820-mRNA-1;_AED=0.19;_eAED=0.59;_QI=0|-1|0|1|-1|1|1|0|60 |
| chr3_2 | exon | 70849959 | 70850141 | 70849959 | ID=Msa0421820-mRNA-1:exon:17142;Parent=Msa0421820-mRNA-1 |
| chr3_2 | CDS | 70849959 | 70850141 | 70849959 | ID=Msa0421820-mRNA-1:cds;Parent=Msa0421820-mRNA-1 |
| Gene Sequence |
| Protein sequence |
