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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1348270 | RHN77851.1 | 87.619 | 105 | 10 | 1 | 1 | 102 | 1 | 105 | 4.22e-52 | 169 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1348270 | sp|Q8LGD5|MKS1_ARATH | 45.455 | 88 | 37 | 2 | 8 | 85 | 10 | 96 | 1.13e-11 | 61.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1348270 | A0A396JMF5 | 87.619 | 105 | 10 | 1 | 1 | 102 | 1 | 105 | 2.02e-52 | 169 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0132550 | Msa1348270 | 0.813246 | 2.819953e-51 | -8.615850e-47 |
| Msa0579940 | Msa1348270 | 0.830890 | 2.276134e-55 | -8.615850e-47 |
| Msa0887620 | Msa1348270 | 0.808537 | 2.950699e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1348270 | MtrunA17_Chr1g0159191 | 87.619 | 105 | 10 | 1 | 1 | 102 | 1 | 105 | 3.88e-56 | 169 |
| Msa1348270 | MtrunA17_Chr1g0159171 | 72.000 | 100 | 26 | 2 | 4 | 102 | 1 | 99 | 1.87e-30 | 107 |
| Msa1348270 | MtrunA17_Chr8g0384091 | 41.667 | 96 | 44 | 3 | 1 | 85 | 1 | 95 | 4.00e-16 | 70.5 |
| Msa1348270 | MtrunA17_Chr3g0126211 | 55.952 | 84 | 25 | 3 | 6 | 81 | 4 | 83 | 3.99e-14 | 65.5 |
| Msa1348270 | MtrunA17_Chr1g0209721 | 44.828 | 87 | 26 | 3 | 26 | 100 | 21 | 97 | 1.05e-11 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1348270 | AT3G18690.1 | 45.455 | 88 | 37 | 2 | 8 | 85 | 10 | 96 | 1.15e-12 | 61.6 |
Find 29 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGATAACCGGTTGGTGAATT+TGG | 0.087469 | tig0010268:+16453 | Msa1348270:intergenic |
| ATTCAACATTGATACCTTCT+TGG | 0.260252 | tig0010268:+16340 | Msa1348270:intergenic |
| CTTTCATTAGCAATATTGTT+AGG | 0.271010 | tig0010268:+16581 | Msa1348270:intergenic |
| TCTTTGGAGATTCGGTATAA+AGG | 0.340286 | tig0010268:+16432 | Msa1348270:intergenic |
| GATAACCGGTTGGTGAATTT+GGG | 0.344242 | tig0010268:+16454 | Msa1348270:intergenic |
| GGTGATGTGTGGATTATCTT+TGG | 0.357094 | tig0010268:+16416 | Msa1348270:intergenic |
| ACAAGGCTCATGAATTCATT+TGG | 0.386627 | tig0010268:+16395 | Msa1348270:intergenic |
| GTGGATTATCTTTGGAGATT+CGG | 0.409873 | tig0010268:+16424 | Msa1348270:intergenic |
| TTGTTTATGGTTAGAGGTGA+AGG | 0.438874 | tig0010268:+16518 | Msa1348270:intergenic |
| GATTCGGTATAAAGGATAAC+CGG | 0.478615 | tig0010268:+16440 | Msa1348270:intergenic |
| TTTCATTAGCAATATTGTTA+GGG | 0.482797 | tig0010268:+16582 | Msa1348270:intergenic |
| ATGGTTAGAGGTGAAGGGCG+AGG | 0.490665 | tig0010268:+16524 | Msa1348270:intergenic |
| GGCGAGGAGGTCCTTGTAGT+TGG | 0.496118 | tig0010268:+16540 | Msa1348270:intergenic |
| GGTTGGTGAATTTGGGTTTG+TGG | 0.510365 | tig0010268:+16461 | Msa1348270:intergenic |
| AGCCTTGTTCAAAGCCTCAC+TGG | 0.514744 | tig0010268:-16380 | Msa1348270:CDS |
| ACAAACCCAAATTCACCAAC+CGG | 0.515182 | tig0010268:-16459 | Msa1348270:CDS |
| AAGATCAAGAAACCACCGTT+GGG | 0.539164 | tig0010268:-16485 | Msa1348270:CDS |
| TTCTTCTTCCTCGTCCAAGA+AGG | 0.553589 | tig0010268:-16354 | Msa1348270:CDS |
| TGTTTATGGTTAGAGGTGAA+GGG | 0.554119 | tig0010268:+16519 | Msa1348270:intergenic |
| CATTGATACCTTCTTGGACG+AGG | 0.566460 | tig0010268:+16346 | Msa1348270:intergenic |
| AAAAGAGAACTCCAACTACA+AGG | 0.568320 | tig0010268:-16551 | Msa1348270:CDS |
| TGAATTCATTTGGTGATGTG+TGG | 0.570440 | tig0010268:+16405 | Msa1348270:intergenic |
| CGGTATAAAGGATAACCGGT+TGG | 0.577434 | tig0010268:+16444 | Msa1348270:intergenic |
| AACCAGTGAGGCTTTGAACA+AGG | 0.591922 | tig0010268:+16378 | Msa1348270:intergenic |
| TAAGATCAAGAAACCACCGT+TGG | 0.629632 | tig0010268:-16486 | Msa1348270:CDS |
| ATTTGGGTTTGTGGACCCAA+CGG | 0.634478 | tig0010268:+16470 | Msa1348260:intergenic |
| TGGGTTTGTGGACCCAACGG+TGG | 0.635760 | tig0010268:+16473 | Msa1348260:intergenic |
| GTTAGAGGTGAAGGGCGAGG+AGG | 0.700825 | tig0010268:+16527 | Msa1348260:intergenic |
| AGGAAGAAGAAGAACCAGTG+AGG | 0.725633 | tig0010268:+16366 | Msa1348260:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTCATTAGCAATATTGTTA+GGG | + | tig0010268:16333-16352 | None:intergenic | 20.0% |
| ! | CTTTCATTAGCAATATTGTT+AGG | + | tig0010268:16334-16353 | None:intergenic | 25.0% |
| !!! | CTTATGAGAGTTTTTGTTTA+TGG | + | tig0010268:16410-16429 | Msa1348270:intergenic | 25.0% |
| !! | GAGTTTTTGTTTATGGTTAG+AGG | + | tig0010268:16403-16422 | Msa1348270:intergenic | 30.0% |
| ATTCAACATTGATACCTTCT+TGG | + | tig0010268:16575-16594 | Msa1348270:intergenic | 30.0% | |
| AAAAGAGAACTCCAACTACA+AGG | - | tig0010268:16361-16380 | Msa1348270:CDS | 35.0% | |
| TGTTTATGGTTAGAGGTGAA+GGG | + | tig0010268:16396-16415 | Msa1348270:intergenic | 35.0% | |
| TTGTTTATGGTTAGAGGTGA+AGG | + | tig0010268:16397-16416 | Msa1348270:intergenic | 35.0% | |
| ! | GATTCGGTATAAAGGATAAC+CGG | + | tig0010268:16475-16494 | Msa1348270:intergenic | 35.0% |
| ! | TCTTTGGAGATTCGGTATAA+AGG | + | tig0010268:16483-16502 | Msa1348270:intergenic | 35.0% |
| ! | GTGGATTATCTTTGGAGATT+CGG | + | tig0010268:16491-16510 | Msa1348270:intergenic | 35.0% |
| !! | TGAATTCATTTGGTGATGTG+TGG | + | tig0010268:16510-16529 | Msa1348270:intergenic | 35.0% |
| ACAAGGCTCATGAATTCATT+TGG | + | tig0010268:16520-16539 | Msa1348270:intergenic | 35.0% | |
| TAAGATCAAGAAACCACCGT+TGG | - | tig0010268:16426-16445 | Msa1348270:CDS | 40.0% | |
| AAGATCAAGAAACCACCGTT+GGG | - | tig0010268:16427-16446 | Msa1348270:CDS | 40.0% | |
| ACAAACCCAAATTCACCAAC+CGG | - | tig0010268:16453-16472 | Msa1348270:CDS | 40.0% | |
| !! | GATAACCGGTTGGTGAATTT+GGG | + | tig0010268:16461-16480 | Msa1348270:intergenic | 40.0% |
| ! | GGTGATGTGTGGATTATCTT+TGG | + | tig0010268:16499-16518 | Msa1348270:intergenic | 40.0% |
| ! | ATTTGGGTTTGTGGACCCAA+CGG | + | tig0010268:16445-16464 | Msa1348270:intergenic | 45.0% |
| !! | GGTTGGTGAATTTGGGTTTG+TGG | + | tig0010268:16454-16473 | Msa1348270:intergenic | 45.0% |
| !! | GGATAACCGGTTGGTGAATT+TGG | + | tig0010268:16462-16481 | Msa1348270:intergenic | 45.0% |
| CGGTATAAAGGATAACCGGT+TGG | + | tig0010268:16471-16490 | Msa1348270:intergenic | 45.0% | |
| !! | AACCAGTGAGGCTTTGAACA+AGG | + | tig0010268:16537-16556 | Msa1348270:intergenic | 45.0% |
| AGGAAGAAGAAGAACCAGTG+AGG | + | tig0010268:16549-16568 | Msa1348270:intergenic | 45.0% | |
| TTCTTCTTCCTCGTCCAAGA+AGG | - | tig0010268:16558-16577 | Msa1348270:CDS | 45.0% | |
| CATTGATACCTTCTTGGACG+AGG | + | tig0010268:16569-16588 | Msa1348270:intergenic | 45.0% | |
| !! | AGCCTTGTTCAAAGCCTCAC+TGG | - | tig0010268:16532-16551 | Msa1348270:CDS | 50.0% |
| ATGGTTAGAGGTGAAGGGCG+AGG | + | tig0010268:16391-16410 | Msa1348270:intergenic | 55.0% | |
| GGCGAGGAGGTCCTTGTAGT+TGG | + | tig0010268:16375-16394 | Msa1348270:intergenic | 60.0% | |
| GTTAGAGGTGAAGGGCGAGG+AGG | + | tig0010268:16388-16407 | Msa1348270:intergenic | 60.0% | |
| TGGGTTTGTGGACCCAACGG+TGG | + | tig0010268:16442-16461 | Msa1348270:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0010268 | gene | 16313 | 16621 | 16313 | ID=Msa1348270;Name=Msa1348270 |
| tig0010268 | mRNA | 16313 | 16621 | 16313 | ID=Msa1348270-mRNA-1;Parent=Msa1348270;Name=Msa1348270-mRNA-1;_AED=0.14;_eAED=0.15;_QI=0|-1|0|1|-1|1|1|0|102 |
| tig0010268 | exon | 16313 | 16621 | 16313 | ID=Msa1348270-mRNA-1:exon:6328;Parent=Msa1348270-mRNA-1 |
| tig0010268 | CDS | 16313 | 16621 | 16313 | ID=Msa1348270-mRNA-1:cds;Parent=Msa1348270-mRNA-1 |
| Gene Sequence |
| Protein sequence |
