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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0734790 | AES98853.1 | 87.500 | 40 | 4 | 1 | 2 | 41 | 286 | 324 | 3.45e-15 | 79.0 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0734790 | G7JZS7 | 87.500 | 40 | 4 | 1 | 2 | 41 | 286 | 324 | 1.65e-15 | 79.0 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0734790 | Msa0734800 | 0.900268 | 8.678442e-78 | -8.615850e-47 |
| Msa0734790 | Msa0854620 | 0.840165 | 1.024916e-57 | -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 |
|---|
| 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 114 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAGTAGTGGTTGAGAATCAT+TGG | 0.375942 | 5_1:+49555181 | None:intergenic |
| GAAGTTGAAGGAGGAGGAGG+AGG | 0.400436 | 5_1:-49553912 | Msa0734790:CDS |
| TTGTGAGCATCCTCAATGTT+GGG | 0.433245 | 5_1:+49555257 | None:intergenic |
| TAAGAAGTTGAAGGAGGAGG+AGG | 0.459660 | 5_1:-49553915 | Msa0734790:CDS |
| AGAAGAAGATAAGAAGTTGA+AGG | 0.486835 | 5_1:-49553924 | Msa0734790:CDS |
| GTTGTGAGCATCCTCAATGT+TGG | 0.501123 | 5_1:+49555256 | None:intergenic |
| GCATCCTCAATGTTGGGCTT+CGG | 0.503908 | 5_1:+49555263 | None:intergenic |
| AGATAAGAAGTTGAAGGAGG+AGG | 0.508437 | 5_1:-49553918 | Msa0734790:CDS |
| AAGAGTGCGTATATGATACT+CGG | 0.545627 | 5_1:-49555290 | None:intergenic |
| AGAAGATAAGAAGTTGAAGG+AGG | 0.577438 | 5_1:-49553921 | Msa0734790:CDS |
| TCGTCATCAAGATCCTTCCA+TGG | 0.584798 | 5_1:+49555227 | None:intergenic |
| ATGCTCACAACAATAGTCCA+TGG | 0.587188 | 5_1:-49555244 | Msa0734790:CDS |
| AGAGTGCGTATATGATACTC+GGG | 0.620165 | 5_1:-49555289 | None:intergenic |
| GTTACCGAAGCCCAACATTG+AGG | 0.621381 | 5_1:-49555267 | Msa0734790:CDS |
| GCTCGCGATAAAATCAGTAG+TGG | 0.624074 | 5_1:+49555167 | None:intergenic |
| TCACAACAATAGTCCATGGA+AGG | 0.638513 | 5_1:-49555240 | Msa0734790:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAATTGAAATTCAAAAATTT+TGG | + | chr5_1:49554886-49554905 | None:intergenic | 10.0% |
| !!! | AAATTGAAATTCAAAAATTT+TGG | + | chr5_1:49554886-49554905 | None:intergenic | 10.0% |
| !!! | TGATATATTTGTTATATTGT+TGG | + | chr5_1:49554328-49554347 | None:intergenic | 15.0% |
| !! | AAAATATTAGTAAATGATTG+TGG | - | chr5_1:49555079-49555098 | Msa0734790:intron | 15.0% |
| !! | ATAATGAAAGAAATAATCAT+TGG | - | chr5_1:49555140-49555159 | Msa0734790:intron | 15.0% |
| !!! | TGATATATTTGTTATATTGT+TGG | + | chr5_1:49554328-49554347 | None:intergenic | 15.0% |
| !! | AAAATATTAGTAAATGATTG+TGG | - | chr5_1:49555079-49555098 | Msa0734790:intron | 15.0% |
| !! | ATAATGAAAGAAATAATCAT+TGG | - | chr5_1:49555140-49555159 | Msa0734790:intron | 15.0% |
| ! | AAAAGATAAACATGGTCAAT+TGG | + | chr5_1:49554296-49554315 | None:intergenic | 25.0% |
| ! | GTCATTGAAAAAGATAAACA+TGG | + | chr5_1:49554304-49554323 | None:intergenic | 25.0% |
| ! | AAATCACGAAAAAACAGAAA+AGG | + | chr5_1:49554358-49554377 | None:intergenic | 25.0% |
| !!! | CTAAGTATGAATTTTGATGA+TGG | - | chr5_1:49555111-49555130 | Msa0734790:intron | 25.0% |
| ! | AAAAGATAAACATGGTCAAT+TGG | + | chr5_1:49554296-49554315 | None:intergenic | 25.0% |
| ! | GTCATTGAAAAAGATAAACA+TGG | + | chr5_1:49554304-49554323 | None:intergenic | 25.0% |
| ! | AAATCACGAAAAAACAGAAA+AGG | + | chr5_1:49554358-49554377 | None:intergenic | 25.0% |
| !!! | CTAAGTATGAATTTTGATGA+TGG | - | chr5_1:49555111-49555130 | Msa0734790:intron | 25.0% |
| !! | TTGATGACGAGATTGAAAAA+TGG | - | chr5_1:49553968-49553987 | Msa0734790:intron | 30.0% |
| TAATAGATGTGTATGCTGAA+TGG | + | chr5_1:49554117-49554136 | None:intergenic | 30.0% | |
| !! | TTTTATTTCGCTTCTTGTTG+CGG | - | chr5_1:49554426-49554445 | Msa0734790:intron | 30.0% |
| TGATTGAATATGTGATTGAC+TGG | + | chr5_1:49554483-49554502 | None:intergenic | 30.0% | |
| AAGAAACCATTGAAATATCG+AGG | - | chr5_1:49554511-49554530 | Msa0734790:intron | 30.0% | |
| ATATCGAGGCACAAAATTTA+TGG | - | chr5_1:49554525-49554544 | Msa0734790:intron | 30.0% | |
| TATCGAGGCACAAAATTTAT+GGG | - | chr5_1:49554526-49554545 | Msa0734790:intron | 30.0% | |
| ! | CTTTGGAAACAACATTTCTT+CGG | + | chr5_1:49554645-49554664 | None:intergenic | 30.0% |
| ATTCTGATGACATGTTTCTT+TGG | + | chr5_1:49554662-49554681 | None:intergenic | 30.0% | |
| AGAAACATGTCATCAGAATA+AGG | - | chr5_1:49554663-49554682 | Msa0734790:intron | 30.0% | |
| ATTCCAATGACAAAGTTCTT+CGG | + | chr5_1:49554818-49554837 | None:intergenic | 30.0% | |
| AGAAGAAGATAAGAAGTTGA+AGG | - | chr5_1:49555258-49555277 | Msa0734790:CDS | 30.0% | |
| !! | TTGATGACGAGATTGAAAAA+TGG | - | chr5_1:49553968-49553987 | Msa0734790:intron | 30.0% |
| TAATAGATGTGTATGCTGAA+TGG | + | chr5_1:49554117-49554136 | None:intergenic | 30.0% | |
| !! | TTTTATTTCGCTTCTTGTTG+CGG | - | chr5_1:49554426-49554445 | Msa0734790:intron | 30.0% |
| TGATTGAATATGTGATTGAC+TGG | + | chr5_1:49554483-49554502 | None:intergenic | 30.0% | |
| AAGAAACCATTGAAATATCG+AGG | - | chr5_1:49554511-49554530 | Msa0734790:intron | 30.0% | |
| ATATCGAGGCACAAAATTTA+TGG | - | chr5_1:49554525-49554544 | Msa0734790:intron | 30.0% | |
| TATCGAGGCACAAAATTTAT+GGG | - | chr5_1:49554526-49554545 | Msa0734790:intron | 30.0% | |
| ! | CTTTGGAAACAACATTTCTT+CGG | + | chr5_1:49554645-49554664 | None:intergenic | 30.0% |
| ATTCTGATGACATGTTTCTT+TGG | + | chr5_1:49554662-49554681 | None:intergenic | 30.0% | |
| AGAAACATGTCATCAGAATA+AGG | - | chr5_1:49554663-49554682 | Msa0734790:intron | 30.0% | |
| ATTCCAATGACAAAGTTCTT+CGG | + | chr5_1:49554818-49554837 | None:intergenic | 30.0% | |
| AGAAGAAGATAAGAAGTTGA+AGG | - | chr5_1:49555258-49555277 | Msa0734790:CDS | 30.0% | |
| TTTGTGCCTCGATATTTCAA+TGG | + | chr5_1:49554520-49554539 | None:intergenic | 35.0% | |
| CGGTAAAAATTGACATTCTG+AGG | + | chr5_1:49554567-49554586 | None:intergenic | 35.0% | |
| ! | CAGAATGTCAATTTTTACCG+TGG | - | chr5_1:49554567-49554586 | Msa0734790:intron | 35.0% |
| TTGCAACCAACTATATTTCG+AGG | + | chr5_1:49554602-49554621 | None:intergenic | 35.0% | |
| TTCGGAAAATTCCTCAGAAA+TGG | + | chr5_1:49554627-49554646 | None:intergenic | 35.0% | |
| TTTCCGAAGAACTTTGTCAT+TGG | - | chr5_1:49554812-49554831 | Msa0734790:intron | 35.0% | |
| AGAAGATAAGAAGTTGAAGG+AGG | - | chr5_1:49555261-49555280 | Msa0734790:CDS | 35.0% | |
| TTTGTGCCTCGATATTTCAA+TGG | + | chr5_1:49554520-49554539 | None:intergenic | 35.0% | |
| CGGTAAAAATTGACATTCTG+AGG | + | chr5_1:49554567-49554586 | None:intergenic | 35.0% | |
| ! | CAGAATGTCAATTTTTACCG+TGG | - | chr5_1:49554567-49554586 | Msa0734790:intron | 35.0% |
| TTGCAACCAACTATATTTCG+AGG | + | chr5_1:49554602-49554621 | None:intergenic | 35.0% | |
| TTCGGAAAATTCCTCAGAAA+TGG | + | chr5_1:49554627-49554646 | None:intergenic | 35.0% | |
| TTTCCGAAGAACTTTGTCAT+TGG | - | chr5_1:49554812-49554831 | Msa0734790:intron | 35.0% | |
| AGAAGATAAGAAGTTGAAGG+AGG | - | chr5_1:49555261-49555280 | Msa0734790:CDS | 35.0% | |
| TTGTGAGCATCCTCAATGTT+GGG | + | chr5_1:49553928-49553947 | None:intergenic | 40.0% | |
| ATGCTCACAACAATAGTCCA+TGG | - | chr5_1:49553938-49553957 | Msa0734790:CDS | 40.0% | |
| TCACAACAATAGTCCATGGA+AGG | - | chr5_1:49553942-49553961 | Msa0734790:CDS | 40.0% | |
| CAGTAGTGGTTGAGAATCAT+TGG | + | chr5_1:49554004-49554023 | None:intergenic | 40.0% | |
| CTGATTTCTGTCATGGAGAT+TGG | - | chr5_1:49554080-49554099 | Msa0734790:intron | 40.0% | |
| TAGATGTGTATGCTGAATGG+TGG | + | chr5_1:49554114-49554133 | None:intergenic | 40.0% | |
| TTCTTGTTGCGGTGTTTGTT+TGG | - | chr5_1:49554437-49554456 | Msa0734790:intron | 40.0% | |
| TGACGTCCTCGAAATATAGT+TGG | - | chr5_1:49554593-49554612 | Msa0734790:intron | 40.0% | |
| TGGTTGCAAATCCATTTCTG+AGG | - | chr5_1:49554613-49554632 | Msa0734790:intron | 40.0% | |
| !! | GAAAGTGTCTAACGTTTCTG+AGG | - | chr5_1:49554731-49554750 | Msa0734790:intron | 40.0% |
| ATAACGATTTGACAGGTGAG+TGG | - | chr5_1:49554769-49554788 | Msa0734790:intron | 40.0% | |
| AGATAAGAAGTTGAAGGAGG+AGG | - | chr5_1:49555264-49555283 | Msa0734790:CDS | 40.0% | |
| TTGTGAGCATCCTCAATGTT+GGG | + | chr5_1:49553928-49553947 | None:intergenic | 40.0% | |
| ATGCTCACAACAATAGTCCA+TGG | - | chr5_1:49553938-49553957 | Msa0734790:CDS | 40.0% | |
| TCACAACAATAGTCCATGGA+AGG | - | chr5_1:49553942-49553961 | Msa0734790:CDS | 40.0% | |
| CAGTAGTGGTTGAGAATCAT+TGG | + | chr5_1:49554004-49554023 | None:intergenic | 40.0% | |
| CTGATTTCTGTCATGGAGAT+TGG | - | chr5_1:49554080-49554099 | Msa0734790:intron | 40.0% | |
| TAGATGTGTATGCTGAATGG+TGG | + | chr5_1:49554114-49554133 | None:intergenic | 40.0% | |
| TTCTTGTTGCGGTGTTTGTT+TGG | - | chr5_1:49554437-49554456 | Msa0734790:intron | 40.0% | |
| TGACGTCCTCGAAATATAGT+TGG | - | chr5_1:49554593-49554612 | Msa0734790:intron | 40.0% | |
| TGGTTGCAAATCCATTTCTG+AGG | - | chr5_1:49554613-49554632 | Msa0734790:intron | 40.0% | |
| !! | GAAAGTGTCTAACGTTTCTG+AGG | - | chr5_1:49554731-49554750 | Msa0734790:intron | 40.0% |
| ATAACGATTTGACAGGTGAG+TGG | - | chr5_1:49554769-49554788 | Msa0734790:intron | 40.0% | |
| AGATAAGAAGTTGAAGGAGG+AGG | - | chr5_1:49555264-49555283 | Msa0734790:CDS | 40.0% | |
| GTTGTGAGCATCCTCAATGT+TGG | + | chr5_1:49553929-49553948 | None:intergenic | 45.0% | |
| TCGTCATCAAGATCCTTCCA+TGG | + | chr5_1:49553958-49553977 | None:intergenic | 45.0% | |
| GCTCGCGATAAAATCAGTAG+TGG | + | chr5_1:49554018-49554037 | None:intergenic | 45.0% | |
| !! | ACCACTGCTGATTTCTGTCA+TGG | - | chr5_1:49554073-49554092 | Msa0734790:intron | 45.0% |
| TCCATGACAGAAATCAGCAG+TGG | + | chr5_1:49554077-49554096 | None:intergenic | 45.0% | |
| TTTCTGTCATGGAGATTGGC+AGG | - | chr5_1:49554084-49554103 | Msa0734790:intron | 45.0% | |
| TTCTGTCATGGAGATTGGCA+GGG | - | chr5_1:49554085-49554104 | Msa0734790:intron | 45.0% | |
| TTTGACAGCTGAGCACATAC+TGG | - | chr5_1:49554687-49554706 | Msa0734790:intron | 45.0% | |
| CCTGTCAAATCGTTATGCTG+AGG | + | chr5_1:49554765-49554784 | None:intergenic | 45.0% | |
| CCTCAGCATAACGATTTGAC+AGG | - | chr5_1:49554762-49554781 | Msa0734790:intron | 45.0% | |
| TAAGAAGTTGAAGGAGGAGG+AGG | - | chr5_1:49555267-49555286 | Msa0734790:CDS | 45.0% | |
| GTTGTGAGCATCCTCAATGT+TGG | + | chr5_1:49553929-49553948 | None:intergenic | 45.0% | |
| TCGTCATCAAGATCCTTCCA+TGG | + | chr5_1:49553958-49553977 | None:intergenic | 45.0% | |
| GCTCGCGATAAAATCAGTAG+TGG | + | chr5_1:49554018-49554037 | None:intergenic | 45.0% | |
| !! | ACCACTGCTGATTTCTGTCA+TGG | - | chr5_1:49554073-49554092 | Msa0734790:intron | 45.0% |
| TCCATGACAGAAATCAGCAG+TGG | + | chr5_1:49554077-49554096 | None:intergenic | 45.0% | |
| TTTCTGTCATGGAGATTGGC+AGG | - | chr5_1:49554084-49554103 | Msa0734790:intron | 45.0% | |
| TTCTGTCATGGAGATTGGCA+GGG | - | chr5_1:49554085-49554104 | Msa0734790:intron | 45.0% | |
| TTTGACAGCTGAGCACATAC+TGG | - | chr5_1:49554687-49554706 | Msa0734790:intron | 45.0% | |
| CCTGTCAAATCGTTATGCTG+AGG | + | chr5_1:49554765-49554784 | None:intergenic | 45.0% | |
| CCTCAGCATAACGATTTGAC+AGG | - | chr5_1:49554762-49554781 | Msa0734790:intron | 45.0% | |
| TAAGAAGTTGAAGGAGGAGG+AGG | - | chr5_1:49555267-49555286 | Msa0734790:CDS | 45.0% | |
| GTTACCGAAGCCCAACATTG+AGG | - | chr5_1:49553915-49553934 | Msa0734790:CDS | 50.0% | |
| GCATCCTCAATGTTGGGCTT+CGG | + | chr5_1:49553922-49553941 | None:intergenic | 50.0% | |
| TCTGTCATGGAGATTGGCAG+GGG | - | chr5_1:49554086-49554105 | Msa0734790:intron | 50.0% | |
| TTTCGAGGACGTCAGTTCCA+CGG | + | chr5_1:49554587-49554606 | None:intergenic | 50.0% | |
| ACATACTGGCGCATCTGTGA+TGG | - | chr5_1:49554701-49554720 | Msa0734790:intron | 50.0% | |
| GTTACCGAAGCCCAACATTG+AGG | - | chr5_1:49553915-49553934 | Msa0734790:CDS | 50.0% | |
| GCATCCTCAATGTTGGGCTT+CGG | + | chr5_1:49553922-49553941 | None:intergenic | 50.0% | |
| TCTGTCATGGAGATTGGCAG+GGG | - | chr5_1:49554086-49554105 | Msa0734790:intron | 50.0% | |
| TTTCGAGGACGTCAGTTCCA+CGG | + | chr5_1:49554587-49554606 | None:intergenic | 50.0% | |
| ACATACTGGCGCATCTGTGA+TGG | - | chr5_1:49554701-49554720 | Msa0734790:intron | 50.0% | |
| GAAGTTGAAGGAGGAGGAGG+AGG | - | chr5_1:49555270-49555289 | Msa0734790:CDS | 55.0% | |
| GAAGTTGAAGGAGGAGGAGG+AGG | - | chr5_1:49555270-49555289 | Msa0734790:CDS | 55.0% | |
| GTTGAAGGAGGAGGAGGAGG+AGG | - | chr5_1:49555273-49555292 | Msa0734790:CDS | 60.0% | |
| GTTGAAGGAGGAGGAGGAGG+AGG | - | chr5_1:49555273-49555292 | Msa0734790:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_1 | gene | 49553904 | 49555300 | 49553904 | ID=Msa0734790;Name=Msa0734790 |
| chr5_1 | mRNA | 49553904 | 49555300 | 49553904 | ID=Msa0734790-mRNA-1;Parent=Msa0734790;Name=Msa0734790-mRNA-1;_AED=0.64;_eAED=0.64;_QI=0|0|0|0.5|1|1|2|0|72 |
| chr5_1 | exon | 49555158 | 49555300 | 49555158 | ID=Msa0734790-mRNA-1:exon:14042;Parent=Msa0734790-mRNA-1 |
| chr5_1 | exon | 49553904 | 49553979 | 49553904 | ID=Msa0734790-mRNA-1:exon:14041;Parent=Msa0734790-mRNA-1 |
| chr5_1 | CDS | 49555158 | 49555300 | 49555158 | ID=Msa0734790-mRNA-1:cds;Parent=Msa0734790-mRNA-1 |
| chr5_1 | CDS | 49553904 | 49553979 | 49553904 | ID=Msa0734790-mRNA-1:cds;Parent=Msa0734790-mRNA-1 |
| Gene Sequence |
| Protein sequence |
