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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0361140 | XP_003629262.1 | 94.400 | 125 | 7 | 0 | 1 | 125 | 1 | 125 | 1.72e-77 | 245 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0361140 | sp|Q8L7E9|MCAC1_ARATH | 81.600 | 125 | 23 | 0 | 1 | 125 | 1 | 125 | 4.49e-69 | 216 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0361140 | G7LB65 | 94.400 | 125 | 7 | 0 | 1 | 125 | 1 | 125 | 8.23e-78 | 245 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0015140 | Msa0361140 | 0.804645 | 1.955520e-49 | -8.615850e-47 |
| Msa0033980 | Msa0361140 | 0.812802 | 3.529964e-51 | -8.615850e-47 |
| Msa0070170 | Msa0361140 | 0.817479 | 3.228960e-52 | -8.615850e-47 |
| Msa0217290 | Msa0361140 | 0.804116 | 2.521250e-49 | -8.615850e-47 |
| Msa0265380 | Msa0361140 | 0.814292 | 1.659523e-51 | -8.615850e-47 |
| Msa0279240 | Msa0361140 | 0.806239 | 9.057954e-50 | -8.615850e-47 |
| Msa0303360 | Msa0361140 | 0.825861 | 3.720378e-54 | -8.615850e-47 |
| Msa0309770 | Msa0361140 | 0.817996 | 2.467565e-52 | -8.615850e-47 |
| Msa0318980 | Msa0361140 | 0.812924 | 3.318173e-51 | -8.615850e-47 |
| Msa0361130 | Msa0361140 | 0.807543 | 4.800838e-50 | -8.615850e-47 |
| Msa0361140 | Msa0386920 | 0.800068 | 1.713925e-48 | -8.615850e-47 |
| Msa0361140 | Msa0481750 | 0.802595 | 5.207806e-49 | -8.615850e-47 |
| Msa0361140 | Msa0546570 | 0.814441 | 1.538619e-51 | -8.615850e-47 |
| Msa0361140 | Msa0584860 | 0.802932 | 4.437158e-49 | -8.615850e-47 |
| Msa0361140 | Msa0629650 | 0.803144 | 4.010732e-49 | -8.615850e-47 |
| Msa0361140 | Msa0638350 | 0.830064 | 3.623556e-55 | -8.615850e-47 |
| Msa0361140 | Msa0682090 | 0.811253 | 7.677878e-51 | -8.615850e-47 |
| Msa0361140 | Msa0682140 | 0.809088 | 2.249519e-50 | -8.615850e-47 |
| Msa0361140 | Msa0688390 | 0.813641 | 2.309793e-51 | -8.615850e-47 |
| Msa0361140 | Msa0698400 | 0.807752 | 4.334765e-50 | -8.615850e-47 |
| Msa0361140 | Msa0706400 | 0.800668 | 1.293512e-48 | -8.615850e-47 |
| Msa0361140 | Msa0901320 | 0.800065 | 1.716453e-48 | -8.615850e-47 |
| Msa0361140 | Msa1005210 | 0.811763 | 5.949923e-51 | -8.615850e-47 |
| Msa0361140 | Msa1064250 | 0.835413 | 1.702105e-56 | -8.615850e-47 |
| Msa0361140 | Msa1080640 | 0.808128 | 3.605256e-50 | -8.615850e-47 |
| Msa0361140 | Msa1126450 | 0.817007 | 4.122345e-52 | -8.615850e-47 |
| Msa0361140 | Msa1128060 | 0.811360 | 7.280211e-51 | -8.615850e-47 |
| Msa0361140 | Msa1163540 | 0.827701 | 1.352844e-54 | -8.615850e-47 |
| Msa0361140 | Msa1306560 | 0.830820 | 2.367717e-55 | -8.615850e-47 |
| Msa0361140 | Msa1375380 | 0.807955 | 3.925862e-50 | -8.615850e-47 |
| Msa0361140 | Msa1389510 | 0.809435 | 1.895367e-50 | -8.615850e-47 |
| Msa0361140 | Msa1389880 | 0.805298 | 1.428374e-49 | -8.615850e-47 |
| Msa0361140 | Msa1411100 | 0.961130 | 2.400454e-119 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0361140 | MtrunA17_Chr8g0371431 | 94.400 | 125 | 7 | 0 | 1 | 125 | 1 | 125 | 1.58e-81 | 245 |
| Msa0361140 | MtrunA17_Chr5g0405841 | 82.927 | 123 | 21 | 0 | 3 | 125 | 2 | 124 | 1.61e-71 | 219 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0361140 | AT4G35920.1 | 81.600 | 125 | 23 | 0 | 1 | 125 | 1 | 125 | 4.56e-70 | 216 |
| Msa0361140 | AT4G35920.5 | 81.600 | 125 | 23 | 0 | 1 | 125 | 1 | 125 | 4.56e-70 | 216 |
| Msa0361140 | AT4G35920.4 | 81.600 | 125 | 23 | 0 | 1 | 125 | 1 | 125 | 4.56e-70 | 216 |
| Msa0361140 | AT4G35920.2 | 81.600 | 125 | 23 | 0 | 1 | 125 | 1 | 125 | 4.56e-70 | 216 |
| Msa0361140 | AT4G35920.3 | 81.600 | 125 | 23 | 0 | 1 | 125 | 1 | 125 | 4.56e-70 | 216 |
| Msa0361140 | AT2G17780.4 | 71.200 | 125 | 36 | 0 | 1 | 125 | 1 | 125 | 8.16e-59 | 184 |
| Msa0361140 | AT2G17780.8 | 71.200 | 125 | 36 | 0 | 1 | 125 | 1 | 125 | 4.03e-58 | 184 |
| Msa0361140 | AT2G17780.7 | 71.200 | 125 | 36 | 0 | 1 | 125 | 1 | 125 | 6.93e-58 | 184 |
| Msa0361140 | AT2G17780.6 | 71.200 | 125 | 36 | 0 | 1 | 125 | 1 | 125 | 6.93e-58 | 184 |
| Msa0361140 | AT2G17780.10 | 71.200 | 125 | 36 | 0 | 1 | 125 | 1 | 125 | 6.93e-58 | 184 |
| Msa0361140 | AT2G17780.5 | 71.200 | 125 | 36 | 0 | 1 | 125 | 1 | 125 | 6.93e-58 | 184 |
| Msa0361140 | AT2G17780.1 | 71.200 | 125 | 36 | 0 | 1 | 125 | 1 | 125 | 6.93e-58 | 184 |
| Msa0361140 | AT2G17780.3 | 71.200 | 125 | 36 | 0 | 1 | 125 | 1 | 125 | 7.64e-58 | 184 |
| Msa0361140 | AT2G17780.9 | 71.200 | 125 | 36 | 0 | 1 | 125 | 1 | 125 | 7.64e-58 | 184 |
| Msa0361140 | AT2G17780.2 | 71.200 | 125 | 36 | 0 | 1 | 125 | 1 | 125 | 8.29e-58 | 184 |
Find 23 sgRNAs with CRISPR-Local
Find 22 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTAGAGGCTCTCGGGTTTC+AGG | 0.140533 | 3_1:-51345691 | None:intergenic |
| CTGCATCTAAGCCTATTAAT+TGG | 0.182088 | 3_1:-51345531 | None:intergenic |
| TTTGAGAAGGTCTTCTATTT+TGG | 0.212238 | 3_1:+51345729 | Msa0361140:CDS |
| GGAACATTGTTTATCAATTT+AGG | 0.249469 | 3_1:+51345800 | Msa0361140:CDS |
| GCAAATGTAGCCCAATTAAT+AGG | 0.272486 | 3_1:+51345520 | Msa0361140:CDS |
| GCATCTTCATGGGAACAATT+TGG | 0.278027 | 3_1:+51345490 | Msa0361140:CDS |
| GCACAACATCTTAAGTTGAT+TGG | 0.319124 | 3_1:+51345625 | Msa0361140:CDS |
| TAGATGCAGTAAAGTTGATT+AGG | 0.362979 | 3_1:+51345545 | Msa0361140:CDS |
| CACAACATCTTAAGTTGATT+GGG | 0.378407 | 3_1:+51345626 | Msa0361140:CDS |
| CTAGTTGTTCTAGAGGCTCT+CGG | 0.379192 | 3_1:-51345699 | None:intergenic |
| GATATAGAATGGCATCTTCA+TGG | 0.416346 | 3_1:+51345479 | None:intergenic |
| TGCATCTAAGCCTATTAATT+GGG | 0.419039 | 3_1:-51345530 | None:intergenic |
| CTAGAGGCTCTCGGGTTTCA+GGG | 0.434211 | 3_1:-51345690 | None:intergenic |
| CTATCTTTATTTGCTCGCCA+TGG | 0.439513 | 3_1:+51345774 | Msa0361140:CDS |
| TATCTTTATTTGCTCGCCAT+GGG | 0.488601 | 3_1:+51345775 | Msa0361140:CDS |
| TAGTTGTTCTAGAGGCTCTC+GGG | 0.496041 | 3_1:-51345698 | None:intergenic |
| TTTATTTGCTCGCCATGGGA+TGG | 0.519477 | 3_1:+51345779 | Msa0361140:CDS |
| ATATAGAATGGCATCTTCAT+GGG | 0.542232 | 3_1:+51345480 | None:intergenic |
| GCATCTTCTAGTTGTTCTAG+AGG | 0.556880 | 3_1:-51345706 | None:intergenic |
| CATTGTTTATCAATTTAGGA+AGG | 0.567874 | 3_1:+51345804 | Msa0361140:CDS |
| ATAAACAATGTTCCATCCCA+TGG | 0.583807 | 3_1:-51345791 | None:intergenic |
| AACTAGAAGATGCTTTGAGA+AGG | 0.613004 | 3_1:+51345716 | Msa0361140:CDS |
| CGAAAGCAGCAAATACAGCA+AGG | 0.638455 | 3_1:+51345575 | Msa0361140:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | GGAACATTGTTTATCAATTT+AGG | + | chr3_1:51345800-51345819 | Msa0361140:CDS | 25.0% |
| ! | CATTGTTTATCAATTTAGGA+AGG | + | chr3_1:51345804-51345823 | Msa0361140:CDS | 25.0% |
| TGCATCTAAGCCTATTAATT+GGG | - | chr3_1:51345533-51345552 | None:intergenic | 30.0% | |
| ! | TAGATGCAGTAAAGTTGATT+AGG | + | chr3_1:51345545-51345564 | Msa0361140:CDS | 30.0% |
| !! | CACAACATCTTAAGTTGATT+GGG | + | chr3_1:51345626-51345645 | Msa0361140:CDS | 30.0% |
| ! | TTTGAGAAGGTCTTCTATTT+TGG | + | chr3_1:51345729-51345748 | Msa0361140:CDS | 30.0% |
| !!! | TATTTTGGTCAATAGTTGTC+AGG | + | chr3_1:51345744-51345763 | Msa0361140:CDS | 30.0% |
| GCAAATGTAGCCCAATTAAT+AGG | + | chr3_1:51345520-51345539 | Msa0361140:CDS | 35.0% | |
| CTGCATCTAAGCCTATTAAT+TGG | - | chr3_1:51345534-51345553 | None:intergenic | 35.0% | |
| !! | GCACAACATCTTAAGTTGAT+TGG | + | chr3_1:51345625-51345644 | Msa0361140:CDS | 35.0% |
| !! | AACTAGAAGATGCTTTGAGA+AGG | + | chr3_1:51345716-51345735 | Msa0361140:CDS | 35.0% |
| ! | TATCTTTATTTGCTCGCCAT+GGG | + | chr3_1:51345775-51345794 | Msa0361140:CDS | 35.0% |
| ATAAACAATGTTCCATCCCA+TGG | - | chr3_1:51345794-51345813 | None:intergenic | 35.0% | |
| GCATCTTCATGGGAACAATT+TGG | + | chr3_1:51345490-51345509 | Msa0361140:CDS | 40.0% | |
| ! | GCATCTTCTAGTTGTTCTAG+AGG | - | chr3_1:51345709-51345728 | None:intergenic | 40.0% |
| ! | CTATCTTTATTTGCTCGCCA+TGG | + | chr3_1:51345774-51345793 | Msa0361140:CDS | 40.0% |
| CGAAAGCAGCAAATACAGCA+AGG | + | chr3_1:51345575-51345594 | Msa0361140:CDS | 45.0% | |
| !! | TAGTTGTTCTAGAGGCTCTC+GGG | - | chr3_1:51345701-51345720 | None:intergenic | 45.0% |
| !! | CTAGTTGTTCTAGAGGCTCT+CGG | - | chr3_1:51345702-51345721 | None:intergenic | 45.0% |
| TTTATTTGCTCGCCATGGGA+TGG | + | chr3_1:51345779-51345798 | Msa0361140:CDS | 45.0% | |
| CTAGAGGCTCTCGGGTTTCA+GGG | - | chr3_1:51345693-51345712 | None:intergenic | 55.0% | |
| TCTAGAGGCTCTCGGGTTTC+AGG | - | chr3_1:51345694-51345713 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 51345487 | 51345867 | 51345487 | ID=Msa0361140;Name=Msa0361140 |
| chr3_1 | mRNA | 51345487 | 51345867 | 51345487 | ID=Msa0361140-mRNA-1;Parent=Msa0361140;Name=Msa0361140-mRNA-1;_AED=0.46;_eAED=1.00;_QI=0|-1|0|1|-1|1|1|0|126 |
| chr3_1 | exon | 51345487 | 51345867 | 51345487 | ID=Msa0361140-mRNA-1:exon:9140;Parent=Msa0361140-mRNA-1 |
| chr3_1 | CDS | 51345487 | 51345867 | 51345487 | ID=Msa0361140-mRNA-1:cds;Parent=Msa0361140-mRNA-1 |
| Gene Sequence |
| Protein sequence |
