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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0666010 | RHN58630.1 | 86.290 | 124 | 17 | 0 | 1 | 124 | 8 | 131 | 2.10e-61 | 194 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0666010 | A0A396HZ59 | 86.290 | 124 | 17 | 0 | 1 | 124 | 8 | 131 | 1.00e-61 | 194 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0037880 | Msa0666010 | 0.801134 | 1.038970e-48 | -8.615850e-47 |
| Msa0666010 | Msa0890550 | 0.815486 | 9.019063e-52 | -8.615850e-47 |
| Msa0666010 | Msa0962840 | 0.807489 | 4.930066e-50 | -8.615850e-47 |
| Msa0666010 | Msa1109680 | 0.806732 | 7.131993e-50 | -8.615850e-47 |
| Msa0666010 | Msa1123710 | -0.802655 | 5.061714e-49 | -8.615850e-47 |
| Msa0666010 | Msa1254730 | 0.809058 | 2.282859e-50 | -8.615850e-47 |
| Msa0666010 | Msa1458750 | 0.803809 | 2.920164e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0666010 | MtrunA17_Chr4g0004431 | 86.290 | 124 | 17 | 0 | 1 | 124 | 8 | 131 | 1.93e-65 | 194 |
| Msa0666010 | MtrunA17_Chr4g0004441 | 81.197 | 117 | 22 | 0 | 1 | 117 | 11 | 127 | 8.02e-60 | 180 |
| Msa0666010 | MtrunA17_Chr4g0004371 | 79.839 | 124 | 24 | 1 | 1 | 124 | 23 | 145 | 5.96e-56 | 171 |
| Msa0666010 | MtrunA17_Chr4g0004361 | 76.613 | 124 | 27 | 2 | 1 | 124 | 8 | 129 | 3.35e-54 | 166 |
| Msa0666010 | MtrunA17_Chr4g0004411 | 66.129 | 124 | 39 | 2 | 1 | 124 | 11 | 131 | 4.54e-54 | 166 |
| Msa0666010 | MtrunA17_Chr4g0004381 | 70.536 | 112 | 31 | 1 | 1 | 112 | 11 | 120 | 1.62e-51 | 159 |
| Msa0666010 | MtrunA17_Chr4g0004401 | 80.000 | 80 | 16 | 0 | 1 | 80 | 23 | 102 | 1.90e-37 | 123 |
| Msa0666010 | MtrunA17_Chr4g0004421 | 56.989 | 93 | 36 | 3 | 35 | 124 | 1 | 92 | 2.21e-13 | 61.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 8 sgRNAs with CRISPR-Local
Find 20 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTATGTGTCAATGAATTTA+TGG | 0.167610 | 4_4:-5890476 | Msa0666010:CDS |
| GCTCAAGAAACAACTGCATT+TGG | 0.397067 | 4_4:-5890531 | Msa0666010:CDS |
| TTAGACAGTTGCAATCTTCA+AGG | 0.409483 | 4_4:+5890554 | None:intergenic |
| ATTCATTGACACATACAATA+AGG | 0.439209 | 4_4:+5890482 | None:intergenic |
| TGGTCAAGTTATGAGAGAAT+TGG | 0.445817 | 4_4:-5890511 | Msa0666010:CDS |
| GATCGACGATGAAGAGATAT+CGG | 0.483916 | 4_4:-5890227 | Msa0666010:CDS |
| AGATAAAGAAAGCAAAGAAG+AGG | 0.509945 | 4_4:-5890414 | Msa0666010:CDS |
| GTTGCAATCTTCAAGGTCCA+TGG | 0.582936 | 4_4:+5890561 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAATTTTGTAAATAAGAGTT+AGG | + | chr4_4:5890417-5890436 | None:intergenic | 15.0% |
| !!! | TATTTACAAAATTTTGATGA+TGG | - | chr4_4:5890423-5890442 | Msa0666010:CDS | 15.0% |
| !! | TAGAAAGCTTAAAAAAATTG+TGG | - | chr4_4:5890325-5890344 | Msa0666010:CDS | 20.0% |
| !! | TTAGGATCATATAAAAACAT+GGG | + | chr4_4:5890399-5890418 | None:intergenic | 20.0% |
| ! | ATTCATTGACACATACAATA+AGG | + | chr4_4:5890287-5890306 | None:intergenic | 25.0% |
| ! | TGTATGTGTCAATGAATTTA+TGG | - | chr4_4:5890290-5890309 | Msa0666010:CDS | 25.0% |
| ! | GTTAGGATCATATAAAAACA+TGG | + | chr4_4:5890400-5890419 | None:intergenic | 25.0% |
| ! | ATGACCTTGAAAAATTATCA+GGG | + | chr4_4:5890464-5890483 | None:intergenic | 25.0% |
| ! | AATGACCTTGAAAAATTATC+AGG | + | chr4_4:5890465-5890484 | None:intergenic | 25.0% |
| ! | AACATTCTTCTCAAAAATCT+TGG | + | chr4_4:5890514-5890533 | None:intergenic | 25.0% |
| AGATAAAGAAAGCAAAGAAG+AGG | - | chr4_4:5890352-5890371 | Msa0666010:CDS | 30.0% | |
| TTCTTCTCAAAAATCTTGGA+GGG | + | chr4_4:5890510-5890529 | None:intergenic | 30.0% | |
| ATTCTTCTCAAAAATCTTGG+AGG | + | chr4_4:5890511-5890530 | None:intergenic | 30.0% | |
| TTAGACAGTTGCAATCTTCA+AGG | + | chr4_4:5890215-5890234 | None:intergenic | 35.0% | |
| TGGTCAAGTTATGAGAGAAT+TGG | - | chr4_4:5890255-5890274 | Msa0666010:CDS | 35.0% | |
| TGAAAAATTATCAGGGTCAG+TGG | + | chr4_4:5890457-5890476 | None:intergenic | 35.0% | |
| ! | CTGACCCTGATAATTTTTCA+AGG | - | chr4_4:5890457-5890476 | Msa0666010:CDS | 35.0% |
| GCTCAAGAAACAACTGCATT+TGG | - | chr4_4:5890235-5890254 | Msa0666010:CDS | 40.0% | |
| TTCTCAAAAATCTTGGAGGG+TGG | + | chr4_4:5890507-5890526 | None:intergenic | 40.0% | |
| GATCGACGATGAAGAGATAT+CGG | - | chr4_4:5890539-5890558 | Msa0666010:CDS | 40.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 5890207 | 5890581 | 5890207 | ID=Msa0666010;Name=Msa0666010 |
| chr4_4 | mRNA | 5890207 | 5890581 | 5890207 | ID=Msa0666010-mRNA-1;Parent=Msa0666010;Name=Msa0666010-mRNA-1;_AED=0.43;_eAED=0.43;_QI=0|-1|0|1|-1|1|1|0|124 |
| chr4_4 | exon | 5890207 | 5890581 | 5890207 | ID=Msa0666010-mRNA-1:exon:1943;Parent=Msa0666010-mRNA-1 |
| chr4_4 | CDS | 5890207 | 5890581 | 5890207 | ID=Msa0666010-mRNA-1:cds;Parent=Msa0666010-mRNA-1 |
| Gene Sequence |
| Protein sequence |
