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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0572680 | KEH21226.1 | 96.032 | 126 | 5 | 0 | 1 | 126 | 1 | 126 | 2.35e-79 | 239 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0572680 | A0A072TVL9 | 96.032 | 126 | 5 | 0 | 1 | 126 | 1 | 126 | 1.12e-79 | 239 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001380 | Msa0572680 | 0.819877 | 9.218204e-53 | -8.615850e-47 |
| Msa0064140 | Msa0572680 | 0.800511 | 1.392772e-48 | -8.615850e-47 |
| Msa0172080 | Msa0572680 | 0.803241 | 3.829706e-49 | -8.615850e-47 |
| Msa0386010 | Msa0572680 | 0.814084 | 1.844592e-51 | -8.615850e-47 |
| Msa0243480 | Msa0572680 | 0.818759 | 1.657770e-52 | -8.615850e-47 |
| Msa0244140 | Msa0572680 | 0.800100 | 1.688237e-48 | -8.615850e-47 |
| Msa0321080 | Msa0572680 | 0.823613 | 1.260254e-53 | -8.615850e-47 |
| Msa0329680 | Msa0572680 | 0.810251 | 1.264886e-50 | -8.615850e-47 |
| Msa0524440 | Msa0572680 | 0.808765 | 2.636771e-50 | -8.615850e-47 |
| Msa0572680 | Msa0613340 | 0.801525 | 8.641127e-49 | -8.615850e-47 |
| Msa0572680 | Msa1200250 | 0.800498 | 1.401367e-48 | -8.615850e-47 |
| Msa0572680 | Msa1246700 | 0.805473 | 1.312281e-49 | -8.615850e-47 |
| Msa0572680 | Msa1279480 | 0.814839 | 1.255714e-51 | -8.615850e-47 |
| Msa0572680 | Msa1355890 | 0.812778 | 3.571851e-51 | -8.615850e-47 |
| Msa0572680 | Msa1365270 | 0.803142 | 4.014920e-49 | -8.615850e-47 |
| Msa0572680 | Msa1378040 | 0.882532 | 9.626871e-71 | -8.615850e-47 |
| Msa0572680 | Msa1408340 | 0.877944 | 4.185071e-69 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0572680 | MtrunA17_Chr8g0388181 | 96.032 | 126 | 5 | 0 | 1 | 126 | 1 | 126 | 2.16e-83 | 239 |
| Msa0572680 | MtrunA17_Chr8g0388191 | 75.397 | 126 | 28 | 3 | 1 | 125 | 5 | 128 | 1.13e-59 | 179 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 16 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGACTCCGAACCAACCATTT+TGG | 0.233655 | 4_1:+75623595 | Msa0572680:CDS |
| TCTTGCATGCAGTTTGCTTT+TGG | 0.234778 | 4_1:-75623550 | None:intergenic |
| TTCTCCCAAAATGGTTGGTT+CGG | 0.347396 | 4_1:-75623600 | None:intergenic |
| CGTGAGTTACTTTCTATTCA+AGG | 0.359033 | 4_1:+75623782 | Msa0572680:CDS |
| AAAGAAAAGGGTCCGGTTTG+TGG | 0.426219 | 4_1:+75623574 | Msa0572680:CDS |
| CTGCATGCAAGACAAAGAAA+AGG | 0.503875 | 4_1:+75623561 | Msa0572680:CDS |
| GTGAGTTACTTTCTATTCAA+GGG | 0.520035 | 4_1:+75623783 | Msa0572680:CDS |
| TGGAAGTGTTCTTGAATTGA+AGG | 0.537857 | 4_1:+75623751 | Msa0572680:CDS |
| TGCATGCAAGACAAAGAAAA+GGG | 0.550595 | 4_1:+75623562 | Msa0572680:CDS |
| TTGGTTCGGAGTCCACAAAC+CGG | 0.562721 | 4_1:-75623586 | None:intergenic |
| GCAAGACAAAGAAAAGGGTC+CGG | 0.569438 | 4_1:+75623567 | Msa0572680:CDS |
| TTTGTACAAATGCTCCCTCA+CGG | 0.598040 | 4_1:-75623808 | None:intergenic |
| TCTATTCAAGGGAACCGTGA+GGG | 0.615406 | 4_1:+75623794 | Msa0572680:CDS |
| GAGTTGCTATCAAGATGCAA+TGG | 0.620407 | 4_1:+75623731 | Msa0572680:CDS |
| AGTGACGATTAGATTAACAA+AGG | 0.646753 | 4_1:+75623697 | Msa0572680:CDS |
| TTCTATTCAAGGGAACCGTG+AGG | 0.687443 | 4_1:+75623793 | Msa0572680:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTTGTGATATTTTTTTA+AGG | - | chr4_1:75623478-75623497 | None:intergenic | 10.0% |
| !! | TAATGATTTAGTAGAAAAAG+AGG | + | chr4_1:75623667-75623686 | Msa0572680:CDS | 20.0% |
| !! | AATGATTTAGTAGAAAAAGA+GGG | + | chr4_1:75623668-75623687 | Msa0572680:CDS | 20.0% |
| AGTGACGATTAGATTAACAA+AGG | + | chr4_1:75623697-75623716 | Msa0572680:CDS | 30.0% | |
| ! | GTGAGTTACTTTCTATTCAA+GGG | + | chr4_1:75623783-75623802 | Msa0572680:CDS | 30.0% |
| TGCATGCAAGACAAAGAAAA+GGG | + | chr4_1:75623562-75623581 | Msa0572680:CDS | 35.0% | |
| ! | TTTTCTTCTCCCAAAATGGT+TGG | - | chr4_1:75623608-75623627 | None:intergenic | 35.0% |
| !! | GTTGTTTTCTTCTCCCAAAA+TGG | - | chr4_1:75623612-75623631 | None:intergenic | 35.0% |
| !! | TGGAAGTGTTCTTGAATTGA+AGG | + | chr4_1:75623751-75623770 | Msa0572680:CDS | 35.0% |
| ! | CGTGAGTTACTTTCTATTCA+AGG | + | chr4_1:75623782-75623801 | Msa0572680:CDS | 35.0% |
| !! | CTTGCATGCAGTTTGCTTTT+GGG | - | chr4_1:75623552-75623571 | None:intergenic | 40.0% |
| !! | TCTTGCATGCAGTTTGCTTT+TGG | - | chr4_1:75623553-75623572 | None:intergenic | 40.0% |
| CTGCATGCAAGACAAAGAAA+AGG | + | chr4_1:75623561-75623580 | Msa0572680:CDS | 40.0% | |
| ! | TTCTCCCAAAATGGTTGGTT+CGG | - | chr4_1:75623603-75623622 | None:intergenic | 40.0% |
| GAGTTGCTATCAAGATGCAA+TGG | + | chr4_1:75623731-75623750 | Msa0572680:CDS | 40.0% | |
| TTTGTACAAATGCTCCCTCA+CGG | - | chr4_1:75623811-75623830 | None:intergenic | 40.0% | |
| GCAAGACAAAGAAAAGGGTC+CGG | + | chr4_1:75623567-75623586 | Msa0572680:CDS | 45.0% | |
| ! | AAAGAAAAGGGTCCGGTTTG+TGG | + | chr4_1:75623574-75623593 | Msa0572680:CDS | 45.0% |
| ! | GACTCCGAACCAACCATTTT+GGG | + | chr4_1:75623596-75623615 | Msa0572680:CDS | 45.0% |
| TTCTATTCAAGGGAACCGTG+AGG | + | chr4_1:75623793-75623812 | Msa0572680:CDS | 45.0% | |
| TCTATTCAAGGGAACCGTGA+GGG | + | chr4_1:75623794-75623813 | Msa0572680:CDS | 45.0% | |
| !! | TTGGTTCGGAGTCCACAAAC+CGG | - | chr4_1:75623589-75623608 | None:intergenic | 50.0% |
| ! | GGACTCCGAACCAACCATTT+TGG | + | chr4_1:75623595-75623614 | Msa0572680:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 75623464 | 75623844 | 75623464 | ID=Msa0572680;Name=Msa0572680 |
| chr4_1 | mRNA | 75623464 | 75623844 | 75623464 | ID=Msa0572680-mRNA-1;Parent=Msa0572680;Name=Msa0572680-mRNA-1;_AED=0.26;_eAED=0.26;_QI=0|-1|0|1|-1|1|1|0|126 |
| chr4_1 | exon | 75623464 | 75623844 | 75623464 | ID=Msa0572680-mRNA-1:exon:26244;Parent=Msa0572680-mRNA-1 |
| chr4_1 | CDS | 75623464 | 75623844 | 75623464 | ID=Msa0572680-mRNA-1:cds;Parent=Msa0572680-mRNA-1 |
| Gene Sequence |
| Protein sequence |
