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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1123430 | XP_013461666.1 | 94.231 | 52 | 1 | 1 | 2 | 51 | 86 | 137 | 1.67e-22 | 97.1 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1123430 | A0A072V1Y3 | 94.231 | 52 | 1 | 1 | 2 | 51 | 86 | 137 | 7.95e-23 | 97.1 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0636170 | Msa1123430 | 0.806714 | 7.194452e-50 | -8.615850e-47 |
| Msa1024240 | Msa1123430 | 0.801874 | 7.326851e-49 | -8.615850e-47 |
| Msa1123420 | Msa1123430 | 0.871312 | 7.520583e-67 | -8.615850e-47 |
| Msa1123430 | Msa1136090 | 0.815694 | 8.108430e-52 | -8.615850e-47 |
| Msa0885280 | Msa1123430 | 0.804393 | 2.207475e-49 | -8.615850e-47 |
| Msa0907260 | Msa1123430 | 0.808774 | 2.624875e-50 | -8.615850e-47 |
| Msa0954910 | Msa1123430 | 0.808127 | 3.607542e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1123430 | MtrunA17_Chr3g0131781 | 94.231 | 52 | 1 | 1 | 2 | 51 | 86 | 137 | 1.53e-26 | 97.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 20 sgRNAs with CRISPR-Local
Find 45 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGTTCAAACCAAATACAATT+AGG | 0.178192 | 7_3:-74273688 | None:intergenic |
| CCAATTCGATCTTGGTCTTT+TGG | 0.187350 | 7_3:-74273337 | None:intergenic |
| TGAACACCCCTAATTGTATT+TGG | 0.203872 | 7_3:+74273680 | Msa1123430:CDS |
| TGGTAGCTGGAAAGTGAAAA+AGG | 0.224871 | 7_3:+74273311 | Msa1123430:CDS |
| GTTCAAACCAAATACAATTA+GGG | 0.300309 | 7_3:-74273687 | None:intergenic |
| AACACCGACGGTGTAATTAT+TGG | 0.331686 | 7_3:+74273291 | Msa1123430:CDS |
| CAAAAGACCAAGATCGAATT+GGG | 0.359194 | 7_3:+74273338 | Msa1123430:CDS |
| GCCTCTTTCTTGATGTGCAT+TGG | 0.361842 | 7_3:-74273729 | None:intergenic |
| CCAAAAGACCAAGATCGAAT+TGG | 0.364115 | 7_3:+74273337 | Msa1123430:CDS |
| CCTCTTTCTTGATGTGCATT+GGG | 0.389933 | 7_3:-74273728 | None:intergenic |
| TTCATTGTTCTAAACTGCAT+TGG | 0.445305 | 7_3:-74273661 | None:intergenic |
| GAAGAAACCCAATTCGATCT+TGG | 0.472216 | 7_3:-74273345 | None:intergenic |
| CCCAATGCACATCAAGAAAG+AGG | 0.500405 | 7_3:+74273728 | Msa1123430:CDS |
| AATAATTACACCGTCGGTGT+TGG | 0.505458 | 7_3:-74273289 | None:intergenic |
| GTTTCTTCGCGAATTGAAGA+AGG | 0.522515 | 7_3:+74273360 | Msa1123430:CDS |
| ACGGTGTAATTATTGGTAGC+TGG | 0.534282 | 7_3:+74273298 | Msa1123430:CDS |
| GTGCATTGGGACGCAAAAGA+TGG | 0.574946 | 7_3:-74273715 | None:intergenic |
| TTCAAACCAAATACAATTAG+GGG | 0.626752 | 7_3:-74273686 | None:intergenic |
| GCTACCAATAATTACACCGT+CGG | 0.667969 | 7_3:-74273295 | None:intergenic |
| GACGTAGAAACCAACACCGA+CGG | 0.675808 | 7_3:+74273279 | Msa1123430:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTAACCAGTTTTTTTTAAAG+TGG | + | chr7_3:74273599-74273618 | Msa1123430:intron | 20.0% |
| !!! | AAAACCACTTTAAAAAAAAC+TGG | - | chr7_3:74273606-74273625 | None:intergenic | 20.0% |
| !!! | AGATTTTGAAGGTGATAATT+CGG | + | chr7_3:74273416-74273435 | Msa1123430:intron | 25.0% |
| ! | ACCAGTTCAAAAAAAAAATC+TGG | + | chr7_3:74273449-74273468 | Msa1123430:intron | 25.0% |
| !!! | ACCAGATTTTTTTTTTGAAC+TGG | - | chr7_3:74273453-74273472 | None:intergenic | 25.0% |
| ! | CTGGTTAAAAATAAGTAAAC+CGG | + | chr7_3:74273468-74273487 | Msa1123430:intron | 25.0% |
| ! | TTCAAACCAAATACAATTAG+GGG | - | chr7_3:74273689-74273708 | None:intergenic | 25.0% |
| ! | GTTCAAACCAAATACAATTA+GGG | - | chr7_3:74273690-74273709 | None:intergenic | 25.0% |
| ! | GATTTGTATCGAGATTTTGA+AGG | + | chr7_3:74273405-74273424 | Msa1123430:CDS | 30.0% |
| !! | GATTTTGAAGGTGATAATTC+GGG | + | chr7_3:74273417-74273436 | Msa1123430:intron | 30.0% |
| ! | ACCGGTTTAAAACTATAAAC+CGG | + | chr7_3:74273486-74273505 | Msa1123430:intron | 30.0% |
| !!! | ACCGGTTTATAGTTTTAAAC+CGG | - | chr7_3:74273490-74273509 | None:intergenic | 30.0% |
| !!! | CCGGTTTATTTATTTTGAAC+CGG | - | chr7_3:74273519-74273538 | None:intergenic | 30.0% |
| CCGGTTCAAAATAAATAAAC+CGG | + | chr7_3:74273516-74273535 | Msa1123430:intron | 30.0% | |
| ! | TTTTTAAACCACTTCCAGTT+CGG | - | chr7_3:74273578-74273597 | None:intergenic | 30.0% |
| CTGAATTGTATCCATTAATG+TGG | + | chr7_3:74273631-74273650 | Msa1123430:intron | 30.0% | |
| ! | TTCATTGTTCTAAACTGCAT+TGG | - | chr7_3:74273664-74273683 | None:intergenic | 30.0% |
| CGTTCAAACCAAATACAATT+AGG | - | chr7_3:74273691-74273710 | None:intergenic | 30.0% | |
| CAAAAGACCAAGATCGAATT+GGG | + | chr7_3:74273338-74273357 | Msa1123430:CDS | 35.0% | |
| TTGGAACTGAACCACATTAA+TGG | - | chr7_3:74273645-74273664 | None:intergenic | 35.0% | |
| TGAACACCCCTAATTGTATT+TGG | + | chr7_3:74273680-74273699 | Msa1123430:CDS | 35.0% | |
| AATAATTACACCGTCGGTGT+TGG | - | chr7_3:74273292-74273311 | None:intergenic | 40.0% | |
| AACACCGACGGTGTAATTAT+TGG | + | chr7_3:74273291-74273310 | Msa1123430:CDS | 40.0% | |
| GCTACCAATAATTACACCGT+CGG | - | chr7_3:74273298-74273317 | None:intergenic | 40.0% | |
| ! | ACGGTGTAATTATTGGTAGC+TGG | + | chr7_3:74273298-74273317 | Msa1123430:CDS | 40.0% |
| TGGTAGCTGGAAAGTGAAAA+AGG | + | chr7_3:74273311-74273330 | Msa1123430:CDS | 40.0% | |
| GGTAGCTGGAAAGTGAAAAA+GGG | + | chr7_3:74273312-74273331 | Msa1123430:CDS | 40.0% | |
| !! | CCAATTCGATCTTGGTCTTT+TGG | - | chr7_3:74273340-74273359 | None:intergenic | 40.0% |
| CCAAAAGACCAAGATCGAAT+TGG | + | chr7_3:74273337-74273356 | Msa1123430:CDS | 40.0% | |
| GAAGAAACCCAATTCGATCT+TGG | - | chr7_3:74273348-74273367 | None:intergenic | 40.0% | |
| GTTTCTTCGCGAATTGAAGA+AGG | + | chr7_3:74273360-74273379 | Msa1123430:CDS | 40.0% | |
| !! | ACTATAAACCGGTTCGAAAC+CGG | + | chr7_3:74273497-74273516 | Msa1123430:intron | 40.0% |
| !! | ATTTTGAACCGGTTTCGAAC+CGG | - | chr7_3:74273508-74273527 | None:intergenic | 40.0% |
| ! | ACCGGTTCAAAACTGTAAAC+CGG | + | chr7_3:74273534-74273553 | Msa1123430:intron | 40.0% |
| !!! | ACCGGTTTACAGTTTTGAAC+CGG | - | chr7_3:74273538-74273557 | None:intergenic | 40.0% |
| CCTCTTTCTTGATGTGCATT+GGG | - | chr7_3:74273731-74273750 | None:intergenic | 40.0% | |
| !! | ACTGTAAACCGGTTCTGAAC+CGG | + | chr7_3:74273545-74273564 | Msa1123430:intron | 45.0% |
| ! | GTTTAGAACCGGTTCAGAAC+CGG | - | chr7_3:74273556-74273575 | None:intergenic | 45.0% |
| ! | CTTCCAGTTCGGTTTAGAAC+CGG | - | chr7_3:74273567-74273586 | None:intergenic | 45.0% |
| ! | GTTCTAAACCGAACTGGAAG+TGG | + | chr7_3:74273567-74273586 | Msa1123430:intron | 45.0% |
| CCCAATGCACATCAAGAAAG+AGG | + | chr7_3:74273728-74273747 | Msa1123430:CDS | 45.0% | |
| GCCTCTTTCTTGATGTGCAT+TGG | - | chr7_3:74273732-74273751 | None:intergenic | 45.0% | |
| GACGTAGAAACCAACACCGA+CGG | + | chr7_3:74273279-74273298 | Msa1123430:CDS | 50.0% | |
| !! | GAACCGGTTCTAAACCGAAC+TGG | + | chr7_3:74273561-74273580 | Msa1123430:intron | 50.0% |
| GTGCATTGGGACGCAAAAGA+TGG | - | chr7_3:74273718-74273737 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 74273273 | 74273759 | 74273273 | ID=Msa1123430;Name=Msa1123430 |
| chr7_3 | mRNA | 74273273 | 74273759 | 74273273 | ID=Msa1123430-mRNA-1;Parent=Msa1123430;Name=Msa1123430-mRNA-1;_AED=0.52;_eAED=0.53;_QI=0|0|0|0.5|1|1|2|0|84 |
| chr7_3 | exon | 74273273 | 74273426 | 74273273 | ID=Msa1123430-mRNA-1:exon:19742;Parent=Msa1123430-mRNA-1 |
| chr7_3 | exon | 74273659 | 74273759 | 74273659 | ID=Msa1123430-mRNA-1:exon:19743;Parent=Msa1123430-mRNA-1 |
| chr7_3 | CDS | 74273273 | 74273426 | 74273273 | ID=Msa1123430-mRNA-1:cds;Parent=Msa1123430-mRNA-1 |
| chr7_3 | CDS | 74273659 | 74273759 | 74273659 | ID=Msa1123430-mRNA-1:cds;Parent=Msa1123430-mRNA-1 |
| Gene Sequence |
| Protein sequence |
