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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1312600 | RHN38877.1 | 85.294 | 34 | 5 | 0 | 14 | 47 | 2 | 35 | 4.89e-11 | 62.8 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1312600 | A0A396GJD0 | 85.294 | 34 | 5 | 0 | 14 | 47 | 2 | 35 | 2.34e-11 | 62.8 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0014710 | Msa1312600 | 0.811709 | 6.112067e-51 | -8.615850e-47 |
| Msa0731940 | Msa1312600 | 0.802963 | 4.370999e-49 | -8.615850e-47 |
| Msa0756460 | Msa1312600 | 0.802623 | 5.139188e-49 | -8.615850e-47 |
| Msa0760130 | Msa1312600 | 0.811717 | 6.087081e-51 | -8.615850e-47 |
| Msa0768290 | Msa1312600 | 0.805729 | 1.159672e-49 | -8.615850e-47 |
| Msa0791880 | Msa1312600 | 0.971220 | 8.027255e-133 | -8.615850e-47 |
| Msa0180500 | Msa1312600 | 0.818332 | 2.071170e-52 | -8.615850e-47 |
| Msa1238930 | Msa1312600 | 0.805986 | 1.024219e-49 | -8.615850e-47 |
| Msa1306850 | Msa1312600 | 0.814124 | 1.807207e-51 | -8.615850e-47 |
| Msa1312600 | Msa1366810 | 0.816323 | 5.867880e-52 | -8.615850e-47 |
| Msa0395790 | Msa1312600 | 0.811731 | 6.046518e-51 | -8.615850e-47 |
| Msa1000860 | Msa1312600 | 0.802897 | 4.510156e-49 | -8.615850e-47 |
| Msa1035660 | Msa1312600 | 0.827692 | 1.359688e-54 | -8.615850e-47 |
| Msa1035670 | Msa1312600 | 0.800982 | 1.116444e-48 | -8.615850e-47 |
| Msa1075540 | Msa1312600 | 0.815606 | 8.482383e-52 | -8.615850e-47 |
| Msa0243460 | Msa1312600 | 0.802525 | 5.383344e-49 | -8.615850e-47 |
| Msa0278110 | Msa1312600 | 0.820850 | 5.515351e-53 | -8.615850e-47 |
| Msa0342750 | Msa1312600 | 0.815455 | 9.162748e-52 | -8.615850e-47 |
| Msa1113170 | Msa1312600 | 0.802095 | 6.600328e-49 | -8.615850e-47 |
| Msa1121490 | Msa1312600 | 0.803180 | 3.942202e-49 | -8.615850e-47 |
| Msa1144750 | Msa1312600 | 0.808210 | 3.464328e-50 | -8.615850e-47 |
| Msa0519000 | Msa1312600 | 0.801551 | 8.537428e-49 | -8.615850e-47 |
| Msa0523940 | Msa1312600 | 0.810416 | 1.165313e-50 | -8.615850e-47 |
| Msa0844490 | Msa1312600 | 0.805726 | 1.161464e-49 | -8.615850e-47 |
| Msa0857640 | Msa1312600 | 0.848908 | 4.539692e-60 | -8.615850e-47 |
| Msa0897330 | Msa1312600 | 0.809562 | 1.780077e-50 | -8.615850e-47 |
| Msa0927380 | Msa1312600 | 0.828609 | 8.172611e-55 | -8.615850e-47 |
| Msa0974080 | Msa1312600 | 0.814247 | 1.697511e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1312600 | MtrunA17_Chr8g0337861 | 85.294 | 34 | 5 | 0 | 14 | 47 | 2 | 35 | 4.50e-15 | 62.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 10 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAAAGAAAGAATTTCTTTAT+TGG | 0.214013 | 8_4:+9674236 | None:intergenic |
| GCTGACAGCAGGCACCTTAA+TGG | 0.317250 | 8_4:+9673905 | None:intergenic |
| ATTTGAAGAGGTAATTCTTA+TGG | 0.332903 | 8_4:-9674036 | Msa1312600:intron |
| TAGAGTGAATAAATCCATTA+AGG | 0.355227 | 8_4:-9673919 | Msa1312600:CDS |
| CAGAATTTGAGGGAGGGGAG+TGG | 0.461437 | 8_4:-9674092 | Msa1312600:CDS |
| GCAAGCTTGTTGCTGACAGC+AGG | 0.508948 | 8_4:+9673894 | None:intergenic |
| CACACAAGGGAGACAGAGAA+AGG | 0.552098 | 8_4:+9674207 | None:intergenic |
| TGCTGTCAGCAACAAGCTTG+CGG | 0.563126 | 8_4:-9673892 | Msa1312600:CDS |
| TGAGAAGGAGAAATTTGAAG+AGG | 0.591853 | 8_4:-9674048 | Msa1312600:CDS |
| AAATCATGTGCAAAATGAGA+AGG | 0.599565 | 8_4:-9674063 | Msa1312600:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTCTATAGTTATCTTTTTT+TGG | - | chr8_4:9673982-9674001 | Msa1312600:intron | 15.0% |
| !! | CAAAGAAAGAATTTCTTTAT+TGG | + | chr8_4:9673879-9673898 | None:intergenic | 20.0% |
| !!! | TATAGTTATCTTTTTTTGGT+AGG | - | chr8_4:9673986-9674005 | Msa1312600:intron | 20.0% |
| !!! | TATTTCTTTTTCAGAATTTG+AGG | - | chr8_4:9674009-9674028 | Msa1312600:intron | 20.0% |
| !!! | ATTTCTTTTTCAGAATTTGA+GGG | - | chr8_4:9674010-9674029 | Msa1312600:intron | 20.0% |
| !!! | GTTATTTTCTGTTACTTTAA+AGG | - | chr8_4:9674113-9674132 | Msa1312600:intron | 20.0% |
| ! | ACATAATTGAATTCACACAA+GGG | + | chr8_4:9673921-9673940 | None:intergenic | 25.0% |
| ! | ATTCAATTATGTCCTTGATT+TGG | - | chr8_4:9673929-9673948 | Msa1312600:intron | 25.0% |
| ! | ATTTGAAGAGGTAATTCTTA+TGG | - | chr8_4:9674076-9674095 | Msa1312600:CDS | 25.0% |
| ! | TAGAGTGAATAAATCCATTA+AGG | - | chr8_4:9674193-9674212 | Msa1312600:intron | 25.0% |
| GACATAATTGAATTCACACA+AGG | + | chr8_4:9673922-9673941 | None:intergenic | 30.0% | |
| AAATGAAATCCACCAAATCA+AGG | + | chr8_4:9673944-9673963 | None:intergenic | 30.0% | |
| !! | ATTTGGTGGATTTCATTTCT+TGG | - | chr8_4:9673946-9673965 | Msa1312600:intron | 30.0% |
| AAATCATGTGCAAAATGAGA+AGG | - | chr8_4:9674049-9674068 | Msa1312600:CDS | 30.0% | |
| !! | CAATTATGTCCTTGATTTGG+TGG | - | chr8_4:9673932-9673951 | Msa1312600:intron | 35.0% |
| !! | CATTTCTTGGTTTGTGACTA+TGG | - | chr8_4:9673959-9673978 | Msa1312600:intron | 35.0% |
| !!! | TCTTTTTCAGAATTTGAGGG+AGG | - | chr8_4:9674013-9674032 | Msa1312600:intron | 35.0% |
| !!! | CTTTTTCAGAATTTGAGGGA+GGG | - | chr8_4:9674014-9674033 | Msa1312600:intron | 35.0% |
| !! | TTTTTCAGAATTTGAGGGAG+GGG | - | chr8_4:9674015-9674034 | Msa1312600:intron | 35.0% |
| ! | CTCATTTTGCACATGATTTG+AGG | + | chr8_4:9674048-9674067 | None:intergenic | 35.0% |
| TGAGAAGGAGAAATTTGAAG+AGG | - | chr8_4:9674064-9674083 | Msa1312600:CDS | 35.0% | |
| TAACTTGACGTGTTCTTGAC+AGG | - | chr8_4:9674165-9674184 | Msa1312600:intron | 40.0% | |
| !! | TTATAAATATCATATTATTA+CGG | + | chr8_4:9674148-9674167 | None:intergenic | 5.0% |
| CACACAAGGGAGACAGAGAA+AGG | + | chr8_4:9673908-9673927 | None:intergenic | 50.0% | |
| TGCTGTCAGCAACAAGCTTG+CGG | - | chr8_4:9674220-9674239 | Msa1312600:CDS | 50.0% | |
| CAGAATTTGAGGGAGGGGAG+TGG | - | chr8_4:9674020-9674039 | Msa1312600:intron | 55.0% | |
| GCTGACAGCAGGCACCTTAA+TGG | + | chr8_4:9674210-9674229 | None:intergenic | 55.0% | |
| !! | GCAAGCTTGTTGCTGACAGC+AGG | + | chr8_4:9674221-9674240 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_4 | gene | 9673872 | 9674262 | 9673872 | ID=Msa1312600;Name=Msa1312600 |
| chr8_4 | mRNA | 9673872 | 9674262 | 9673872 | ID=Msa1312600-mRNA-1;Parent=Msa1312600;Name=Msa1312600-mRNA-1;_AED=0.59;_eAED=0.59;_QI=0|0|0|0.33|0|0|3|0|70 |
| chr8_4 | exon | 9674212 | 9674262 | 9674212 | ID=Msa1312600-mRNA-1:exon:3640;Parent=Msa1312600-mRNA-1 |
| chr8_4 | exon | 9674037 | 9674126 | 9674037 | ID=Msa1312600-mRNA-1:exon:3639;Parent=Msa1312600-mRNA-1 |
| chr8_4 | exon | 9673872 | 9673943 | 9673872 | ID=Msa1312600-mRNA-1:exon:3638;Parent=Msa1312600-mRNA-1 |
| chr8_4 | CDS | 9674212 | 9674262 | 9674212 | ID=Msa1312600-mRNA-1:cds;Parent=Msa1312600-mRNA-1 |
| chr8_4 | CDS | 9674037 | 9674126 | 9674037 | ID=Msa1312600-mRNA-1:cds;Parent=Msa1312600-mRNA-1 |
| chr8_4 | CDS | 9673872 | 9673943 | 9673872 | ID=Msa1312600-mRNA-1:cds;Parent=Msa1312600-mRNA-1 |
| Gene Sequence |
| Protein sequence |
