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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0459810 | XP_039687286.1 | 89.773 | 88 | 9 | 0 | 1 | 88 | 1 | 88 | 7.04e-46 | 167 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0459810 | sp|C0LGD7|Y1684_ARATH | 57.895 | 57 | 24 | 0 | 32 | 88 | 31 | 87 | 4.14e-16 | 74.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0459810 | G7IV54 | 89.773 | 88 | 9 | 0 | 1 | 88 | 1 | 88 | 3.36e-46 | 167 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0459810 | Msa0459830 | 0.802707 | 4.937592e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0459810 | MtrunA17_Chr3g0108351 | 89.773 | 88 | 9 | 0 | 1 | 88 | 1 | 88 | 6.47e-50 | 167 |
| Msa0459810 | MtrunA17_Chr3g0108361 | 56.818 | 88 | 35 | 3 | 1 | 88 | 6 | 90 | 9.88e-25 | 95.9 |
| Msa0459810 | MtrunA17_Chr5g0432871 | 60.000 | 55 | 22 | 0 | 34 | 88 | 30 | 84 | 3.32e-16 | 71.6 |
| Msa0459810 | MtrunA17_Chr7g0245221 | 43.038 | 79 | 41 | 2 | 10 | 88 | 7 | 81 | 1.08e-14 | 67.4 |
| Msa0459810 | MtrunA17_Chr7g0221711 | 39.241 | 79 | 44 | 1 | 10 | 88 | 7 | 81 | 1.07e-13 | 64.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0459810 | AT5G01950.7 | 53.623 | 69 | 29 | 1 | 20 | 88 | 17 | 82 | 6.43e-18 | 77.0 |
| Msa0459810 | AT5G01950.3 | 53.623 | 69 | 29 | 1 | 20 | 88 | 17 | 82 | 6.55e-18 | 77.0 |
| Msa0459810 | AT5G01950.1 | 53.623 | 69 | 29 | 1 | 20 | 88 | 17 | 82 | 6.55e-18 | 77.0 |
| Msa0459810 | AT5G01950.4 | 53.623 | 69 | 29 | 1 | 20 | 88 | 17 | 82 | 6.55e-18 | 77.0 |
| Msa0459810 | AT5G01950.8 | 53.623 | 69 | 29 | 1 | 20 | 88 | 17 | 82 | 6.55e-18 | 77.0 |
| Msa0459810 | AT1G06840.1 | 57.895 | 57 | 24 | 0 | 32 | 88 | 31 | 87 | 4.21e-17 | 74.7 |
| Msa0459810 | AT5G01950.6 | 53.623 | 69 | 29 | 1 | 20 | 88 | 17 | 82 | 1.22e-16 | 73.6 |
| Msa0459810 | AT5G01950.5 | 53.623 | 69 | 29 | 1 | 20 | 88 | 17 | 82 | 1.38e-16 | 73.2 |
| Msa0459810 | AT5G37450.1 | 39.744 | 78 | 42 | 2 | 11 | 88 | 9 | 81 | 1.10e-13 | 65.1 |
| Msa0459810 | AT5G37450.3 | 39.744 | 78 | 42 | 2 | 11 | 88 | 9 | 81 | 1.11e-13 | 65.1 |
| Msa0459810 | AT5G37450.2 | 39.744 | 78 | 42 | 2 | 11 | 88 | 9 | 81 | 1.11e-13 | 65.1 |
| Msa0459810 | AT3G53590.1 | 45.333 | 75 | 38 | 2 | 14 | 88 | 19 | 90 | 2.71e-13 | 63.9 |
Find 24 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGGTTATCTTCATCATCTTA+TGG | 0.273518 | 3_3:+56668000 | Msa0459810:CDS |
| CAAATGGACATTTGAGCAAT+TGG | 0.316902 | 3_3:+56668330 | Msa0459810:CDS |
| CAATTGCTCAAATGTCCATT+TGG | 0.349943 | 3_3:-56668329 | None:intergenic |
| GAGGAGCATATATGAAAGTT+TGG | 0.364731 | 3_3:+56668301 | Msa0459810:CDS |
| CTACTCCTGTCCAGCTAGAT+AGG | 0.384222 | 3_3:-56668370 | None:intergenic |
| CAAAGGGTTGTTGCAAGCAT+GGG | 0.415133 | 3_3:+56667979 | Msa0459810:CDS |
| CTTAGGAATGAGTCTTTCAA+AGG | 0.467131 | 3_3:+56667962 | None:intergenic |
| TCAAAGGGTTGTTGCAAGCA+TGG | 0.471844 | 3_3:+56667978 | Msa0459810:CDS |
| CATTTGAGCAATTGGAATGA+TGG | 0.476911 | 3_3:+56668338 | Msa0459810:CDS |
| GTTCTGCCGCTGTTTGATAC+CGG | 0.479166 | 3_3:+56668022 | Msa0459810:CDS |
| GAAAGTTTGGATGATCCAAA+TGG | 0.493995 | 3_3:+56668314 | Msa0459810:CDS |
| GTGCTCTAATGAAACAATAG+AGG | 0.502544 | 3_3:+56668394 | Msa0459810:CDS |
| GAGACCCATGCCTATCTAGC+TGG | 0.512517 | 3_3:+56668360 | Msa0459810:CDS |
| CCATGCCTATCTAGCTGGAC+AGG | 0.516460 | 3_3:+56668365 | Msa0459810:CDS |
| TTGATAACTTGCGCAGTAGC+CGG | 0.537838 | 3_3:-56668041 | None:intergenic |
| TTAGGAATGAGTCTTTCAAA+GGG | 0.551353 | 3_3:+56667963 | None:intergenic |
| CCTGTCCAGCTAGATAGGCA+TGG | 0.568379 | 3_3:-56668365 | None:intergenic |
| CTGTCCAGCTAGATAGGCAT+GGG | 0.569505 | 3_3:-56668364 | None:intergenic |
| TATGCGCAGTCTTAGCATTG+AGG | 0.575204 | 3_3:+56668282 | Msa0459810:intron |
| CAAACATACAGACCTTCAGT+AGG | 0.595373 | 3_3:-56668074 | None:intergenic |
| AAAGGGTTGTTGCAAGCATG+GGG | 0.610990 | 3_3:+56667980 | Msa0459810:CDS |
| AATGTCACTGACCCTACTGA+AGG | 0.649376 | 3_3:+56668062 | Msa0459810:CDS |
| AAACATACAGACCTTCAGTA+GGG | 0.651394 | 3_3:-56668073 | None:intergenic |
| CAGTAGCCGGTATCAAACAG+CGG | 0.695673 | 3_3:-56668028 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAAAATGTTTTAATTTGAAT+TGG | + | chr3_3:56668259-56668278 | Msa0459810:intron | 10.0% |
| !!! | AAAACATTTTAGTGTATGTT+TGG | - | chr3_3:56668250-56668269 | None:intergenic | 20.0% |
| !! | TTGATCTCTTTTTCTTTTGT+AGG | + | chr3_3:56668094-56668113 | Msa0459810:intron | 25.0% |
| !! | TTTCTTTTGTAGGTATTTCA+TGG | + | chr3_3:56668104-56668123 | Msa0459810:intron | 25.0% |
| ! | TAAGTGAATGTTTAGATTCA+CGG | + | chr3_3:56668160-56668179 | Msa0459810:intron | 25.0% |
| ! | GTGTATGTTTGGAATTATGT+TGG | - | chr3_3:56668239-56668258 | None:intergenic | 30.0% |
| GGGTTATCTTCATCATCTTA+TGG | + | chr3_3:56668000-56668019 | Msa0459810:CDS | 35.0% | |
| AAACATACAGACCTTCAGTA+GGG | - | chr3_3:56668076-56668095 | None:intergenic | 35.0% | |
| GTAGGTATTTCATGGTTGTT+TGG | + | chr3_3:56668112-56668131 | Msa0459810:intron | 35.0% | |
| ! | ATGGTTGTTTGGTTTCTACT+TGG | + | chr3_3:56668123-56668142 | Msa0459810:intron | 35.0% |
| ! | TGGTTGTTTGGTTTCTACTT+GGG | + | chr3_3:56668124-56668143 | Msa0459810:intron | 35.0% |
| AATATCAAAATCCACGACGA+TGG | - | chr3_3:56668210-56668229 | None:intergenic | 35.0% | |
| ! | GAGGAGCATATATGAAAGTT+TGG | + | chr3_3:56668301-56668320 | Msa0459810:CDS | 35.0% |
| GAAAGTTTGGATGATCCAAA+TGG | + | chr3_3:56668314-56668333 | Msa0459810:CDS | 35.0% | |
| CAATTGCTCAAATGTCCATT+TGG | - | chr3_3:56668332-56668351 | None:intergenic | 35.0% | |
| CAAATGGACATTTGAGCAAT+TGG | + | chr3_3:56668330-56668349 | Msa0459810:CDS | 35.0% | |
| CATTTGAGCAATTGGAATGA+TGG | + | chr3_3:56668338-56668357 | Msa0459810:CDS | 35.0% | |
| GTGCTCTAATGAAACAATAG+AGG | + | chr3_3:56668394-56668413 | Msa0459810:CDS | 35.0% | |
| CAAACATACAGACCTTCAGT+AGG | - | chr3_3:56668077-56668096 | None:intergenic | 40.0% | |
| ATTGTGATAAACCATCGTCG+TGG | + | chr3_3:56668196-56668215 | Msa0459810:intron | 40.0% | |
| TCAAAGGGTTGTTGCAAGCA+TGG | + | chr3_3:56667978-56667997 | Msa0459810:CDS | 45.0% | |
| CAAAGGGTTGTTGCAAGCAT+GGG | + | chr3_3:56667979-56667998 | Msa0459810:CDS | 45.0% | |
| AAAGGGTTGTTGCAAGCATG+GGG | + | chr3_3:56667980-56667999 | Msa0459810:CDS | 45.0% | |
| ! | TTGATAACTTGCGCAGTAGC+CGG | - | chr3_3:56668044-56668063 | None:intergenic | 45.0% |
| AATGTCACTGACCCTACTGA+AGG | + | chr3_3:56668062-56668081 | Msa0459810:CDS | 45.0% | |
| ! | GTTTGGTTTCTACTTGGGAC+AGG | + | chr3_3:56668129-56668148 | Msa0459810:intron | 45.0% |
| TATGCGCAGTCTTAGCATTG+AGG | + | chr3_3:56668282-56668301 | Msa0459810:intron | 45.0% | |
| GTTCTGCCGCTGTTTGATAC+CGG | + | chr3_3:56668022-56668041 | Msa0459810:CDS | 50.0% | |
| CAGTAGCCGGTATCAAACAG+CGG | - | chr3_3:56668031-56668050 | None:intergenic | 50.0% | |
| CTGTCCAGCTAGATAGGCAT+GGG | - | chr3_3:56668367-56668386 | None:intergenic | 50.0% | |
| CTACTCCTGTCCAGCTAGAT+AGG | - | chr3_3:56668373-56668392 | None:intergenic | 50.0% | |
| GAGACCCATGCCTATCTAGC+TGG | + | chr3_3:56668360-56668379 | Msa0459810:CDS | 55.0% | |
| CCTGTCCAGCTAGATAGGCA+TGG | - | chr3_3:56668368-56668387 | None:intergenic | 55.0% | |
| CCATGCCTATCTAGCTGGAC+AGG | + | chr3_3:56668365-56668384 | Msa0459810:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 56667969 | 56668439 | 56667969 | ID=Msa0459810;Name=Msa0459810 |
| chr3_3 | mRNA | 56667969 | 56668439 | 56667969 | ID=Msa0459810-mRNA-1;Parent=Msa0459810;Name=Msa0459810-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0|0|0|1|0|0|2|0|88 |
| chr3_3 | exon | 56667969 | 56668083 | 56667969 | ID=Msa0459810-mRNA-1:exon:11366;Parent=Msa0459810-mRNA-1 |
| chr3_3 | exon | 56668291 | 56668439 | 56668291 | ID=Msa0459810-mRNA-1:exon:11367;Parent=Msa0459810-mRNA-1 |
| chr3_3 | CDS | 56667969 | 56668083 | 56667969 | ID=Msa0459810-mRNA-1:cds;Parent=Msa0459810-mRNA-1 |
| chr3_3 | CDS | 56668291 | 56668439 | 56668291 | ID=Msa0459810-mRNA-1:cds;Parent=Msa0459810-mRNA-1 |
| Gene Sequence |
| Protein sequence |
