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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0466760 | GAU48222.1 | 69.182 | 159 | 20 | 1 | 20 | 149 | 114 | 272 | 2.55e-69 | 225 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0466760 | A0A2Z6PEX1 | 69.182 | 159 | 20 | 1 | 20 | 149 | 114 | 272 | 1.22e-69 | 225 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0100800 | Msa0466760 | 0.801953 | 7.057856e-49 | -8.615850e-47 |
| Msa0238230 | Msa0466760 | 0.809441 | 1.889018e-50 | -8.615850e-47 |
| Msa0446000 | Msa0466760 | 0.807078 | 6.024339e-50 | -8.615850e-47 |
| Msa0446010 | Msa0466760 | 0.871966 | 4.568486e-67 | -8.615850e-47 |
| Msa0466750 | Msa0466760 | 0.819404 | 1.182550e-52 | -8.615850e-47 |
| Msa0466760 | Msa0826760 | 0.804138 | 2.493927e-49 | -8.615850e-47 |
| Msa0466760 | Msa0909010 | 0.800202 | 1.609663e-48 | -8.615850e-47 |
| Msa0466760 | Msa0977310 | 0.806045 | 9.951902e-50 | -8.615850e-47 |
| Msa0466760 | Msa1000930 | 0.807265 | 5.499477e-50 | -8.615850e-47 |
| Msa0466760 | Msa1390230 | 0.810705 | 1.009293e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0466760 | MtrunA17_Chr5g0414621 | 71.523 | 151 | 21 | 1 | 20 | 148 | 773 | 923 | 3.44e-68 | 223 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 40 sgRNAs with CRISPR-Local
Find 52 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GATGAAGGATGAGTTATTTA+AGG | 0.188373 | 3_3:-67751856 | Msa0466760:CDS |
| TCTGACTTCTTCCTCCATTC+TGG | 0.224365 | 3_3:+67751515 | None:intergenic |
| TACTTCTGTCTTCATTCCTT+TGG | 0.256359 | 3_3:+67751568 | None:intergenic |
| TGAGTTATTTAAGGAATTTA+TGG | 0.280166 | 3_3:-67751847 | Msa0466760:intron |
| AATATCTCGGGTTACACTTT+GGG | 0.283988 | 3_3:+67751941 | None:intergenic |
| GTAACCCGAGATATTATATC+TGG | 0.318686 | 3_3:-67751933 | Msa0466760:CDS |
| ACTTCTGTCTTCATTCCTTT+GGG | 0.322275 | 3_3:+67751569 | None:intergenic |
| AAGGAATGAAGACAGAAGTA+TGG | 0.343317 | 3_3:-67751565 | Msa0466760:CDS |
| TGTTGAGTTCACTTGTCTTA+AGG | 0.376477 | 3_3:+67751619 | None:intergenic |
| TAATATCTCGGGTTACACTT+TGG | 0.393910 | 3_3:+67751940 | None:intergenic |
| AACAAATTTGCTCGACACTA+AGG | 0.398046 | 3_3:-67751600 | Msa0466760:CDS |
| TAATCTTTCCACTTCTCAGC+TGG | 0.414586 | 3_3:+67751888 | None:intergenic |
| GGGATGGCTTGGTCGACATT+TGG | 0.420534 | 3_3:-67751544 | Msa0466760:CDS |
| TCTTCATTCCTTTGGGACCA+TGG | 0.421977 | 3_3:+67751576 | None:intergenic |
| CCAGTGTGCAATACTGCATC+AGG | 0.443322 | 3_3:+67751464 | None:intergenic |
| GACAGAAGTATGGGATGGCT+TGG | 0.489800 | 3_3:-67751555 | Msa0466760:CDS |
| CACCCCAGATATAATATCTC+GGG | 0.490647 | 3_3:+67751929 | None:intergenic |
| ACAAATTTGCTCGACACTAA+GGG | 0.523362 | 3_3:-67751599 | Msa0466760:CDS |
| AGATTACAATGCTGAGATGA+AGG | 0.528777 | 3_3:-67751871 | Msa0466760:CDS |
| TCACCCCAGATATAATATCT+CGG | 0.535988 | 3_3:+67751928 | None:intergenic |
| GTGCAATACTGCATCAGGTA+AGG | 0.537765 | 3_3:+67751469 | None:intergenic |
| ATATCTCGGGTTACACTTTG+GGG | 0.542876 | 3_3:+67751942 | None:intergenic |
| AGGAATGAAGACAGAAGTAT+GGG | 0.548649 | 3_3:-67751564 | Msa0466760:CDS |
| ACATTTGGTTGAAACCAGAA+TGG | 0.549163 | 3_3:-67751529 | Msa0466760:CDS |
| AACAAACCTCCTCCTACAGA+TGG | 0.550860 | 3_3:+67751965 | None:intergenic |
| TAACCCGAGATATTATATCT+GGG | 0.561322 | 3_3:-67751932 | Msa0466760:CDS |
| TAAATCCCATCTGTAGGAGG+AGG | 0.562555 | 3_3:-67751971 | Msa0466760:CDS |
| TGCCTACTCCAGCTGAGAAG+TGG | 0.566811 | 3_3:-67751896 | Msa0466760:CDS |
| CATTAAATCCCATCTGTAGG+AGG | 0.576972 | 3_3:-67751974 | Msa0466760:CDS |
| TTCCACTTCTCAGCTGGAGT+AGG | 0.583500 | 3_3:+67751894 | None:intergenic |
| TTGCATTAAATCCCATCTGT+AGG | 0.596226 | 3_3:-67751977 | Msa0466760:CDS |
| TTGCTCGACACTAAGGGCCA+TGG | 0.609906 | 3_3:-67751593 | Msa0466760:CDS |
| ACTAAGGGCCATGGTCCCAA+AGG | 0.614121 | 3_3:-67751584 | Msa0466760:CDS |
| TTTGGTTGAAACCAGAATGG+AGG | 0.619563 | 3_3:-67751526 | Msa0466760:CDS |
| ACAAACCTCCTCCTACAGAT+GGG | 0.629992 | 3_3:+67751966 | None:intergenic |
| ATGAAGACAGAAGTATGGGA+TGG | 0.652799 | 3_3:-67751560 | Msa0466760:CDS |
| AACCCGAGATATTATATCTG+GGG | 0.654847 | 3_3:-67751931 | Msa0466760:CDS |
| TTATATCTGGGGTGATAACG+AGG | 0.660392 | 3_3:-67751920 | Msa0466760:CDS |
| CCTGATGCAGTATTGCACAC+TGG | 0.670209 | 3_3:-67751464 | Msa0466760:CDS |
| GATGCAGTATTGCACACTGG+AGG | 0.691912 | 3_3:-67751461 | Msa0466760:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TGAGTTATTTAAGGAATTTA+TGG | - | chr3_3:67751579-67751598 | Msa0466760:CDS | 20.0% |
| !! | AAACTAAAATATAAGACTAG+AGG | + | chr3_3:67751619-67751638 | None:intergenic | 20.0% |
| !!! | TTTTTAAATGATCAGGATAT+CGG | + | chr3_3:67751772-67751791 | None:intergenic | 20.0% |
| ! | ATGATATACTATAACAACGT+AGG | - | chr3_3:67751676-67751695 | Msa0466760:intron | 25.0% |
| ! | TGATATACTATAACAACGTA+GGG | - | chr3_3:67751677-67751696 | Msa0466760:intron | 25.0% |
| !!! | CTTGCATTTTTTAAATGATC+AGG | + | chr3_3:67751779-67751798 | None:intergenic | 25.0% |
| TAACCCGAGATATTATATCT+GGG | - | chr3_3:67751494-67751513 | Msa0466760:CDS | 30.0% | |
| GATGAAGGATGAGTTATTTA+AGG | - | chr3_3:67751570-67751589 | Msa0466760:CDS | 30.0% | |
| ATATTTCGATCATAGTCTGA+TGG | + | chr3_3:67751716-67751735 | None:intergenic | 30.0% | |
| ATCAGACTATGATCGAAATA+TGG | - | chr3_3:67751715-67751734 | Msa0466760:intron | 30.0% | |
| GCTTCATTGAACATAAAAAG+AGG | - | chr3_3:67751996-67752015 | Msa0466760:CDS | 30.0% | |
| CATTGAACATAAAAAGAGGA+TGG | - | chr3_3:67752000-67752019 | Msa0466760:CDS | 30.0% | |
| TTGCATTAAATCCCATCTGT+AGG | - | chr3_3:67751449-67751468 | Msa0466760:CDS | 35.0% | |
| AATATCTCGGGTTACACTTT+GGG | + | chr3_3:67751488-67751507 | None:intergenic | 35.0% | |
| TAATATCTCGGGTTACACTT+TGG | + | chr3_3:67751489-67751508 | None:intergenic | 35.0% | |
| GTAACCCGAGATATTATATC+TGG | - | chr3_3:67751493-67751512 | Msa0466760:CDS | 35.0% | |
| AACCCGAGATATTATATCTG+GGG | - | chr3_3:67751495-67751514 | Msa0466760:CDS | 35.0% | |
| TCACCCCAGATATAATATCT+CGG | + | chr3_3:67751501-67751520 | None:intergenic | 35.0% | |
| AGATTACAATGCTGAGATGA+AGG | - | chr3_3:67751555-67751574 | Msa0466760:CDS | 35.0% | |
| AAATATGGCAAGAACTGTGT+GGG | - | chr3_3:67751730-67751749 | Msa0466760:intron | 35.0% | |
| TGTTGAGTTCACTTGTCTTA+AGG | + | chr3_3:67751810-67751829 | None:intergenic | 35.0% | |
| ! | AACAAATTTGCTCGACACTA+AGG | - | chr3_3:67751826-67751845 | Msa0466760:intron | 35.0% |
| ! | ACAAATTTGCTCGACACTAA+GGG | - | chr3_3:67751827-67751846 | Msa0466760:intron | 35.0% |
| ACTTCTGTCTTCATTCCTTT+GGG | + | chr3_3:67751860-67751879 | None:intergenic | 35.0% | |
| TACTTCTGTCTTCATTCCTT+TGG | + | chr3_3:67751861-67751880 | None:intergenic | 35.0% | |
| AAGGAATGAAGACAGAAGTA+TGG | - | chr3_3:67751861-67751880 | Msa0466760:CDS | 35.0% | |
| ! | AGGAATGAAGACAGAAGTAT+GGG | - | chr3_3:67751862-67751881 | Msa0466760:CDS | 35.0% |
| ACATTTGGTTGAAACCAGAA+TGG | - | chr3_3:67751897-67751916 | Msa0466760:CDS | 35.0% | |
| CATTAAATCCCATCTGTAGG+AGG | - | chr3_3:67751452-67751471 | Msa0466760:CDS | 40.0% | |
| ATATCTCGGGTTACACTTTG+GGG | + | chr3_3:67751487-67751506 | None:intergenic | 40.0% | |
| CACCCCAGATATAATATCTC+GGG | + | chr3_3:67751500-67751519 | None:intergenic | 40.0% | |
| ! | TTATATCTGGGGTGATAACG+AGG | - | chr3_3:67751506-67751525 | Msa0466760:CDS | 40.0% |
| TAATCTTTCCACTTCTCAGC+TGG | + | chr3_3:67751541-67751560 | None:intergenic | 40.0% | |
| GAAATATGGCAAGAACTGTG+TGG | - | chr3_3:67751729-67751748 | Msa0466760:intron | 40.0% | |
| TGTGTGGGAAAGAACATAGT+TGG | - | chr3_3:67751745-67751764 | Msa0466760:intron | 40.0% | |
| ! | ATGAAGACAGAAGTATGGGA+TGG | - | chr3_3:67751866-67751885 | Msa0466760:CDS | 40.0% |
| TTTGGTTGAAACCAGAATGG+AGG | - | chr3_3:67751900-67751919 | Msa0466760:CDS | 40.0% | |
| TAAATCCCATCTGTAGGAGG+AGG | - | chr3_3:67751455-67751474 | Msa0466760:CDS | 45.0% | |
| ACAAACCTCCTCCTACAGAT+GGG | + | chr3_3:67751463-67751482 | None:intergenic | 45.0% | |
| AACAAACCTCCTCCTACAGA+TGG | + | chr3_3:67751464-67751483 | None:intergenic | 45.0% | |
| !! | TCTTCATTCCTTTGGGACCA+TGG | + | chr3_3:67751853-67751872 | None:intergenic | 45.0% |
| TCTGACTTCTTCCTCCATTC+TGG | + | chr3_3:67751914-67751933 | None:intergenic | 45.0% | |
| GTGCAATACTGCATCAGGTA+AGG | + | chr3_3:67751960-67751979 | None:intergenic | 45.0% | |
| TTCCACTTCTCAGCTGGAGT+AGG | + | chr3_3:67751535-67751554 | None:intergenic | 50.0% | |
| ! | GACAGAAGTATGGGATGGCT+TGG | - | chr3_3:67751871-67751890 | Msa0466760:CDS | 50.0% |
| CCAGTGTGCAATACTGCATC+AGG | + | chr3_3:67751965-67751984 | None:intergenic | 50.0% | |
| CCTGATGCAGTATTGCACAC+TGG | - | chr3_3:67751962-67751981 | Msa0466760:CDS | 50.0% | |
| GATGCAGTATTGCACACTGG+AGG | - | chr3_3:67751965-67751984 | Msa0466760:CDS | 50.0% | |
| TGCCTACTCCAGCTGAGAAG+TGG | - | chr3_3:67751530-67751549 | Msa0466760:CDS | 55.0% | |
| TTGCTCGACACTAAGGGCCA+TGG | - | chr3_3:67751833-67751852 | Msa0466760:intron | 55.0% | |
| ACTAAGGGCCATGGTCCCAA+AGG | - | chr3_3:67751842-67751861 | Msa0466760:intron | 55.0% | |
| !! | GGGATGGCTTGGTCGACATT+TGG | - | chr3_3:67751882-67751901 | Msa0466760:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 67751415 | 67752033 | 67751415 | ID=Msa0466760;Name=Msa0466760 |
| chr3_3 | mRNA | 67751415 | 67752033 | 67751415 | ID=Msa0466760-mRNA-1;Parent=Msa0466760;Name=Msa0466760-mRNA-1;_AED=0.69;_eAED=0.69;_QI=0|0|0|0.5|0|0.5|2|0|151 |
| chr3_3 | exon | 67751848 | 67752033 | 67751848 | ID=Msa0466760-mRNA-1:exon:15633;Parent=Msa0466760-mRNA-1 |
| chr3_3 | exon | 67751415 | 67751684 | 67751415 | ID=Msa0466760-mRNA-1:exon:15632;Parent=Msa0466760-mRNA-1 |
| chr3_3 | CDS | 67751848 | 67752033 | 67751848 | ID=Msa0466760-mRNA-1:cds;Parent=Msa0466760-mRNA-1 |
| chr3_3 | CDS | 67751415 | 67751684 | 67751415 | ID=Msa0466760-mRNA-1:cds;Parent=Msa0466760-mRNA-1 |
| Gene Sequence |
| Protein sequence |
