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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0687180 | PNY11578.1 | 79.675 | 123 | 19 | 1 | 1 | 117 | 1 | 123 | 2.07e-59 | 193 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0687180 | A0A2K3P8H3 | 79.675 | 123 | 19 | 1 | 1 | 117 | 1 | 123 | 9.89e-60 | 193 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0687180 | Msa1246700 | 0.840455 | 8.604729e-58 | -8.615850e-47 |
| Msa0687180 | Msa1365270 | 0.825643 | 4.191633e-54 | -8.615850e-47 |
| Msa0687180 | Msa1376450 | 0.832116 | 1.135937e-55 | -8.615850e-47 |
| Msa0687180 | Msa1391550 | 0.819180 | 1.329980e-52 | -8.615850e-47 |
| Msa0201570 | Msa0687180 | 0.800934 | 1.141901e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0687180 | MtrunA17_Chr4g0037421 | 85.366 | 123 | 12 | 1 | 1 | 117 | 38 | 160 | 3.61e-62 | 206 |
| Msa0687180 | MtrunA17_Chr4g0037451 | 90.541 | 74 | 7 | 0 | 91 | 164 | 1 | 74 | 4.86e-43 | 137 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 34 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTTGTATGATTAGGGTTTC+TGG | 0.120619 | 4_4:-51982970 | Msa0687180:CDS |
| GGTTTCTGGGAGCTTGGGTT+TGG | 0.245229 | 4_4:-51982956 | Msa0687180:CDS |
| CAAATACCCTTGTATGATTA+GGG | 0.256824 | 4_4:-51982977 | Msa0687180:CDS |
| ACAAATACCCTTGTATGATT+AGG | 0.264233 | 4_4:-51982978 | Msa0687180:CDS |
| GTTTCTGGGAGCTTGGGTTT+GGG | 0.292958 | 4_4:-51982955 | Msa0687180:CDS |
| CTTGTATGATTAGGGTTTCT+GGG | 0.331811 | 4_4:-51982969 | Msa0687180:CDS |
| TAGCGTGGTAACCTTCCTTT+TGG | 0.332607 | 4_4:-51983334 | Msa0687180:CDS |
| GATTAGGGTTTCTGGGAGCT+TGG | 0.370584 | 4_4:-51982962 | Msa0687180:CDS |
| ATTAGGGTTTCTGGGAGCTT+GGG | 0.375545 | 4_4:-51982961 | Msa0687180:CDS |
| CACGTTTCTCTTCTTGTACA+TGG | 0.386902 | 4_4:+51983086 | None:intergenic |
| ACCAAAATTGTATAAAATGA+AGG | 0.408321 | 4_4:+51982889 | None:intergenic |
| GCAAAATACAAGGGTATTTG+TGG | 0.420452 | 4_4:+51982912 | None:intergenic |
| ACCTCAAAACTTCCTCTAAA+GGG | 0.434150 | 4_4:-51983212 | Msa0687180:CDS |
| TACCTCAAAACTTCCTCTAA+AGG | 0.451621 | 4_4:-51983213 | Msa0687180:CDS |
| CAACAAAGAAATAGAGCAAA+AGG | 0.458883 | 4_4:-51983178 | Msa0687180:CDS |
| TAGCTTCGCGTTGCAGCAGT+TGG | 0.460029 | 4_4:+51983301 | None:intergenic |
| AGCTTCGCGTTGCAGCAGTT+GGG | 0.474865 | 4_4:+51983302 | None:intergenic |
| CCAGAAACCCTAATCATACA+AGG | 0.496469 | 4_4:+51982970 | None:intergenic |
| GTTGGGATAAATGTTCCAAA+AGG | 0.517599 | 4_4:+51983319 | None:intergenic |
| AAAATGAAGGGCAAAATACA+AGG | 0.528135 | 4_4:+51982902 | None:intergenic |
| CCAAAATTGTATAAAATGAA+GGG | 0.541440 | 4_4:+51982890 | None:intergenic |
| GTACAAGAAGAGAAACGTGC+TGG | 0.545936 | 4_4:-51983082 | Msa0687180:CDS |
| GGATAAATGTTCCAAAAGGA+AGG | 0.545996 | 4_4:+51983323 | None:intergenic |
| TGATTTCGAGTTCATTGTGG+AGG | 0.572111 | 4_4:+51983244 | None:intergenic |
| GATTTCGAGTTCATTGTGGA+GGG | 0.575760 | 4_4:+51983245 | None:intergenic |
| TACAAGAAGAGAAACGTGCT+GGG | 0.590308 | 4_4:-51983081 | Msa0687180:CDS |
| TGGAAACACAGAAAAGATGA+AGG | 0.601771 | 4_4:+51982932 | None:intergenic |
| GAATGTGTCAATGACATCCT+CGG | 0.609588 | 4_4:+51983122 | None:intergenic |
| CTTCTTGTACATGGCAACGT+TGG | 0.611929 | 4_4:+51983095 | None:intergenic |
| TACACATATGGCAGATAGCG+TGG | 0.612339 | 4_4:-51983349 | None:intergenic |
| TTATGATTTCGAGTTCATTG+TGG | 0.632343 | 4_4:+51983241 | None:intergenic |
| AGATGTCGCTCATGTAGCCG+AGG | 0.644407 | 4_4:-51983139 | Msa0687180:CDS |
| AAATGAAGGGCAAAATACAA+GGG | 0.653500 | 4_4:+51982903 | None:intergenic |
| CAGAAACCCTAATCATACAA+GGG | 0.670974 | 4_4:+51982971 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CCAAAATTGTATAAAATGAA+GGG | + | chr4_4:51983304-51983323 | None:intergenic | 20.0% |
| !! | ACCAAAATTGTATAAAATGA+AGG | + | chr4_4:51983305-51983324 | None:intergenic | 20.0% |
| !! | CCCTTCATTTTATACAATTT+TGG | - | chr4_4:51983301-51983320 | Msa0687180:CDS | 25.0% |
| !! | TTATGATTTCGAGTTCATTG+TGG | + | chr4_4:51982953-51982972 | None:intergenic | 30.0% |
| CAACAAAGAAATAGAGCAAA+AGG | - | chr4_4:51983013-51983032 | Msa0687180:CDS | 30.0% | |
| ACAAATACCCTTGTATGATT+AGG | - | chr4_4:51983213-51983232 | Msa0687180:CDS | 30.0% | |
| CAAATACCCTTGTATGATTA+GGG | - | chr4_4:51983214-51983233 | Msa0687180:CDS | 30.0% | |
| AAATGAAGGGCAAAATACAA+GGG | + | chr4_4:51983291-51983310 | None:intergenic | 30.0% | |
| AAAATGAAGGGCAAAATACA+AGG | + | chr4_4:51983292-51983311 | None:intergenic | 30.0% | |
| GGATAAATGTTCCAAAAGGA+AGG | + | chr4_4:51982871-51982890 | None:intergenic | 35.0% | |
| GTTGGGATAAATGTTCCAAA+AGG | + | chr4_4:51982875-51982894 | None:intergenic | 35.0% | |
| TACCTCAAAACTTCCTCTAA+AGG | - | chr4_4:51982978-51982997 | Msa0687180:CDS | 35.0% | |
| ACCTCAAAACTTCCTCTAAA+GGG | - | chr4_4:51982979-51982998 | Msa0687180:CDS | 35.0% | |
| !!! | GTTGTTTTTGTTCCCTTTAG+AGG | + | chr4_4:51982994-51983013 | None:intergenic | 35.0% |
| CAGAAACCCTAATCATACAA+GGG | + | chr4_4:51983223-51983242 | None:intergenic | 35.0% | |
| CTTGTATGATTAGGGTTTCT+GGG | - | chr4_4:51983222-51983241 | Msa0687180:CDS | 35.0% | |
| TGGAAACACAGAAAAGATGA+AGG | + | chr4_4:51983262-51983281 | None:intergenic | 35.0% | |
| !! | GCAAAATACAAGGGTATTTG+TGG | + | chr4_4:51983282-51983301 | None:intergenic | 35.0% |
| !! | GATTTCGAGTTCATTGTGGA+GGG | + | chr4_4:51982949-51982968 | None:intergenic | 40.0% |
| !! | TGATTTCGAGTTCATTGTGG+AGG | + | chr4_4:51982950-51982969 | None:intergenic | 40.0% |
| !! | TCCCTTTAGAGGAAGTTTTG+AGG | + | chr4_4:51982983-51983002 | None:intergenic | 40.0% |
| GAATGTGTCAATGACATCCT+CGG | + | chr4_4:51983072-51983091 | None:intergenic | 40.0% | |
| CACGTTTCTCTTCTTGTACA+TGG | + | chr4_4:51983108-51983127 | None:intergenic | 40.0% | |
| TACAAGAAGAGAAACGTGCT+GGG | - | chr4_4:51983110-51983129 | Msa0687180:CDS | 40.0% | |
| CCAGAAACCCTAATCATACA+AGG | + | chr4_4:51983224-51983243 | None:intergenic | 40.0% | |
| CCTTGTATGATTAGGGTTTC+TGG | - | chr4_4:51983221-51983240 | Msa0687180:CDS | 40.0% | |
| ! | TAGCGTGGTAACCTTCCTTT+TGG | - | chr4_4:51982857-51982876 | Msa0687180:CDS | 45.0% |
| !! | AGCTAATTTGCTGTGAGGAG+TGG | - | chr4_4:51982908-51982927 | Msa0687180:CDS | 45.0% |
| CTTCTTGTACATGGCAACGT+TGG | + | chr4_4:51983099-51983118 | None:intergenic | 45.0% | |
| GTACAAGAAGAGAAACGTGC+TGG | - | chr4_4:51983109-51983128 | Msa0687180:CDS | 45.0% | |
| ! | ATTAGGGTTTCTGGGAGCTT+GGG | - | chr4_4:51983230-51983249 | Msa0687180:CDS | 45.0% |
| !! | CGCGAAGCTAATTTGCTGTG+AGG | - | chr4_4:51982903-51982922 | Msa0687180:CDS | 50.0% |
| ! | GATTAGGGTTTCTGGGAGCT+TGG | - | chr4_4:51983229-51983248 | Msa0687180:CDS | 50.0% |
| ! | GTTTCTGGGAGCTTGGGTTT+GGG | - | chr4_4:51983236-51983255 | Msa0687180:CDS | 50.0% |
| AGCTTCGCGTTGCAGCAGTT+GGG | + | chr4_4:51982892-51982911 | None:intergenic | 55.0% | |
| TAGCTTCGCGTTGCAGCAGT+TGG | + | chr4_4:51982893-51982912 | None:intergenic | 55.0% | |
| AGATGTCGCTCATGTAGCCG+AGG | - | chr4_4:51983052-51983071 | Msa0687180:CDS | 55.0% | |
| ! | GGTTTCTGGGAGCTTGGGTT+TGG | - | chr4_4:51983235-51983254 | Msa0687180:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 51982849 | 51983364 | 51982849 | ID=Msa0687180;Name=Msa0687180 |
| chr4_4 | mRNA | 51982849 | 51983364 | 51982849 | ID=Msa0687180-mRNA-1;Parent=Msa0687180;Name=Msa0687180-mRNA-1;_AED=0.59;_eAED=0.59;_QI=0|0|0|1|0|0|2|0|165 |
| chr4_4 | exon | 51983294 | 51983364 | 51983294 | ID=Msa0687180-mRNA-1:exon:13556;Parent=Msa0687180-mRNA-1 |
| chr4_4 | exon | 51982849 | 51983275 | 51982849 | ID=Msa0687180-mRNA-1:exon:13555;Parent=Msa0687180-mRNA-1 |
| chr4_4 | CDS | 51983294 | 51983364 | 51983294 | ID=Msa0687180-mRNA-1:cds;Parent=Msa0687180-mRNA-1 |
| chr4_4 | CDS | 51982849 | 51983275 | 51982849 | ID=Msa0687180-mRNA-1:cds;Parent=Msa0687180-mRNA-1 |
| Gene Sequence |
| Protein sequence |
