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 |
|---|
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0167700 | G7JIE8 | 98.571 | 70 | 1 | 0 | 4 | 73 | 1 | 70 | 2.66e-44 | 146 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0167700 | Msa0304270 | 0.815272 | 1.006636e-51 | -8.615850e-47 |
| Msa0167700 | Msa1068310 | 0.802759 | 4.816961e-49 | -8.615850e-47 |
| Msa0167700 | Msa1145460 | 0.810584 | 1.071937e-50 | -8.615850e-47 |
| Msa0167700 | Msa1375210 | 0.837169 | 6.092366e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0167700 | MtrunA17_Chr4g0026341 | 98.571 | 70 | 1 | 0 | 4 | 73 | 1 | 70 | 5.12e-48 | 146 |
| Msa0167700 | MtrunA17_Chr4g0056721 | 95.714 | 70 | 3 | 0 | 4 | 73 | 1 | 70 | 4.68e-46 | 141 |
| Msa0167700 | MtrunA17_Chr2g0321091 | 78.462 | 65 | 14 | 0 | 9 | 73 | 5 | 69 | 2.15e-34 | 111 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0167700 | AT4G21105.1 | 75.758 | 66 | 16 | 0 | 8 | 73 | 3 | 68 | 1.44e-33 | 110 |
| Msa0167700 | AT4G21105.3 | 75.758 | 66 | 16 | 0 | 8 | 73 | 3 | 68 | 1.44e-33 | 110 |
| Msa0167700 | AT4G21105.2 | 70.000 | 40 | 12 | 0 | 8 | 47 | 3 | 42 | 1.04e-15 | 64.3 |
Find 35 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTTATAACTTGAGTTAAAA+TGG | 0.289749 | 1_4:+49646143 | Msa0167700:three_prime_UTR |
| CGAACAGAACCTCCTCATTA+TGG | 0.325538 | 1_4:+49646045 | Msa0167700:three_prime_UTR |
| TATAATATGTCGCATGGAAT+AGG | 0.329548 | 1_4:+49645964 | Msa0167700:CDS |
| TAAACTGTTCCTTCTAGTTA+TGG | 0.355570 | 1_4:+49646241 | Msa0167700:three_prime_UTR |
| AGGGCCCTTTCAAGTGAGTA+TGG | 0.384581 | 1_4:-49645752 | None:intergenic |
| AACAGACGTAATCTTATCAT+AGG | 0.410999 | 1_4:-49645772 | None:intergenic |
| AATCAAGAACCATAACTAGA+AGG | 0.459313 | 1_4:-49646250 | None:intergenic |
| CAGAGTTTGACCACCATTGT+GGG | 0.474697 | 1_4:+49646121 | Msa0167700:three_prime_UTR |
| AGCTTCTCTCGTGGTCTGAA+TGG | 0.478089 | 1_4:-49645693 | None:intergenic |
| TATGCATTTGTTCAGGGACG+AGG | 0.478227 | 1_4:+49645937 | Msa0167700:intron |
| GACTTGACTATTTCTGATGC+AGG | 0.480831 | 1_4:+49645998 | Msa0167700:exon |
| GGTCTGAATGGTGCTTCTGT+TGG | 0.499882 | 1_4:-49645681 | None:intergenic |
| GAGTATGGTTACGCATATGC+TGG | 0.507736 | 1_4:-49645737 | None:intergenic |
| CGTAACCATACTCACTTGAA+AGG | 0.509853 | 1_4:+49645747 | Msa0167700:CDS |
| ACATTTCAACTGTCTCATAG+TGG | 0.524035 | 1_4:+49646327 | Msa0167700:three_prime_UTR |
| TGGTTCTGCCATCCTGCACA+AGG | 0.530946 | 1_4:-49645661 | None:intergenic |
| CAATTGATGACTCAAACTAC+TGG | 0.535565 | 1_4:+49646187 | Msa0167700:three_prime_UTR |
| GTCGCATGGAATAGGAAAGA+AGG | 0.540132 | 1_4:+49645972 | Msa0167700:CDS |
| CATAATGAGGAGGTTCTGTT+CGG | 0.543796 | 1_4:-49646044 | None:intergenic |
| GATAATTGTTGGCCTTGTGC+AGG | 0.559216 | 1_4:+49645649 | None:intergenic |
| GCAGAGTTTGACCACCATTG+TGG | 0.565633 | 1_4:+49646120 | Msa0167700:three_prime_UTR |
| GGGATCTATAATATGTCGCA+TGG | 0.571320 | 1_4:+49645958 | Msa0167700:CDS |
| ACAGACGTAATCTTATCATA+GGG | 0.596059 | 1_4:-49645771 | None:intergenic |
| GTAACCATACTCACTTGAAA+GGG | 0.598233 | 1_4:+49645748 | Msa0167700:CDS |
| ATGCATTTGTTCAGGGACGA+GGG | 0.613696 | 1_4:+49645938 | Msa0167700:intron |
| ATTGTTGGCCTTGTGCAGGA+TGG | 0.618822 | 1_4:+49645653 | None:intergenic |
| TTTCAACTGTCTCATAGTGG+TGG | 0.619470 | 1_4:+49646330 | Msa0167700:three_prime_UTR |
| GAAGCTGCAGTCAAAGCAAG+TGG | 0.624309 | 1_4:-49645801 | None:intergenic |
| AAAATCTCGAGTCCATAATG+AGG | 0.630429 | 1_4:-49646057 | None:intergenic |
| ATCTCGAGTCCATAATGAGG+AGG | 0.632319 | 1_4:-49646054 | None:intergenic |
| CTCAAGTTATAAACCCACAA+TGG | 0.646319 | 1_4:-49646134 | None:intergenic |
| TTCTCAATAAGCTTCTCTCG+TGG | 0.647709 | 1_4:-49645702 | None:intergenic |
| TATGGTTCTTGATTTGCATG+CGG | 0.672326 | 1_4:+49646259 | Msa0167700:three_prime_UTR |
| TTGACTATTTCTGATGCAGG+AGG | 0.679686 | 1_4:+49646001 | Msa0167700:three_prime_UTR |
| AAGTTATAAACCCACAATGG+TGG | 0.687611 | 1_4:-49646131 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTTATTAAGAGAAAAGAA+TGG | - | chr1_4:49646091-49646110 | None:intergenic | 15.0% |
| !!! | AAGTATTGTTTATAAGGATA+TGG | - | chr1_4:49645917-49645936 | None:intergenic | 20.0% |
| !!! | TGCATAAAGTATTGTTTATA+AGG | - | chr1_4:49645923-49645942 | None:intergenic | 20.0% |
| !! | GTTTATAACTTGAGTTAAAA+TGG | + | chr1_4:49646143-49646162 | Msa0167700:three_prime_UTR | 20.0% |
| !!! | AAACTACTGGTTTTTTATTT+GGG | + | chr1_4:49646200-49646219 | Msa0167700:three_prime_UTR | 20.0% |
| ! | AATACTTTATGCATTTGTTC+AGG | + | chr1_4:49645930-49645949 | Msa0167700:intron | 25.0% |
| ! | ATACTTTATGCATTTGTTCA+GGG | + | chr1_4:49645931-49645950 | Msa0167700:intron | 25.0% |
| !!! | CAAACTACTGGTTTTTTATT+TGG | + | chr1_4:49646199-49646218 | Msa0167700:three_prime_UTR | 25.0% |
| ACAGACGTAATCTTATCATA+GGG | - | chr1_4:49645774-49645793 | None:intergenic | 30.0% | |
| AACAGACGTAATCTTATCAT+AGG | - | chr1_4:49645775-49645794 | None:intergenic | 30.0% | |
| TATGGCTATAAAGAAACAAG+TGG | - | chr1_4:49645899-49645918 | None:intergenic | 30.0% | |
| TATAATATGTCGCATGGAAT+AGG | + | chr1_4:49645964-49645983 | Msa0167700:CDS | 30.0% | |
| ! | TAAACTGTTCCTTCTAGTTA+TGG | + | chr1_4:49646241-49646260 | Msa0167700:three_prime_UTR | 30.0% |
| AATCAAGAACCATAACTAGA+AGG | - | chr1_4:49646253-49646272 | None:intergenic | 30.0% | |
| GTAACCATACTCACTTGAAA+GGG | + | chr1_4:49645748-49645767 | Msa0167700:CDS | 35.0% | |
| AAAATCTCGAGTCCATAATG+AGG | - | chr1_4:49646060-49646079 | None:intergenic | 35.0% | |
| AAGTTATAAACCCACAATGG+TGG | - | chr1_4:49646134-49646153 | None:intergenic | 35.0% | |
| CTCAAGTTATAAACCCACAA+TGG | - | chr1_4:49646137-49646156 | None:intergenic | 35.0% | |
| ! | CAATTGATGACTCAAACTAC+TGG | + | chr1_4:49646187-49646206 | Msa0167700:three_prime_UTR | 35.0% |
| !! | TATGGTTCTTGATTTGCATG+CGG | + | chr1_4:49646259-49646278 | Msa0167700:three_prime_UTR | 35.0% |
| ACATTTCAACTGTCTCATAG+TGG | + | chr1_4:49646327-49646346 | Msa0167700:three_prime_UTR | 35.0% | |
| TTCTCAATAAGCTTCTCTCG+TGG | - | chr1_4:49645705-49645724 | None:intergenic | 40.0% | |
| CGTAACCATACTCACTTGAA+AGG | + | chr1_4:49645747-49645766 | Msa0167700:CDS | 40.0% | |
| GGGATCTATAATATGTCGCA+TGG | + | chr1_4:49645958-49645977 | Msa0167700:CDS | 40.0% | |
| !! | GACTTGACTATTTCTGATGC+AGG | + | chr1_4:49645998-49646017 | Msa0167700:exon | 40.0% |
| !! | TTGACTATTTCTGATGCAGG+AGG | + | chr1_4:49646001-49646020 | Msa0167700:three_prime_UTR | 40.0% |
| CATAATGAGGAGGTTCTGTT+CGG | - | chr1_4:49646047-49646066 | None:intergenic | 40.0% | |
| !! | TTGGGTCTCTTGCTTGTTTT+TGG | + | chr1_4:49646218-49646237 | Msa0167700:three_prime_UTR | 40.0% |
| GAGTATGGTTACGCATATGC+TGG | - | chr1_4:49645740-49645759 | None:intergenic | 45.0% | |
| TATGCATTTGTTCAGGGACG+AGG | + | chr1_4:49645937-49645956 | Msa0167700:intron | 45.0% | |
| ATGCATTTGTTCAGGGACGA+GGG | + | chr1_4:49645938-49645957 | Msa0167700:intron | 45.0% | |
| GTCGCATGGAATAGGAAAGA+AGG | + | chr1_4:49645972-49645991 | Msa0167700:CDS | 45.0% | |
| CGAACAGAACCTCCTCATTA+TGG | + | chr1_4:49646045-49646064 | Msa0167700:three_prime_UTR | 45.0% | |
| ATCTCGAGTCCATAATGAGG+AGG | - | chr1_4:49646057-49646076 | None:intergenic | 45.0% | |
| CAGAGTTTGACCACCATTGT+GGG | + | chr1_4:49646121-49646140 | Msa0167700:three_prime_UTR | 45.0% | |
| GGTCTGAATGGTGCTTCTGT+TGG | - | chr1_4:49645684-49645703 | None:intergenic | 50.0% | |
| AGCTTCTCTCGTGGTCTGAA+TGG | - | chr1_4:49645696-49645715 | None:intergenic | 50.0% | |
| ! | AGGGCCCTTTCAAGTGAGTA+TGG | - | chr1_4:49645755-49645774 | None:intergenic | 50.0% |
| GAAGCTGCAGTCAAAGCAAG+TGG | - | chr1_4:49645804-49645823 | None:intergenic | 50.0% | |
| GCAGAGTTTGACCACCATTG+TGG | + | chr1_4:49646120-49646139 | Msa0167700:three_prime_UTR | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 49645663 | 49646351 | 49645663 | ID=Msa0167700;Name=Msa0167700 |
| chr1_4 | mRNA | 49645663 | 49646351 | 49645663 | ID=Msa0167700-mRNA-1;Parent=Msa0167700;Name=Msa0167700-mRNA-1;_AED=0.24;_eAED=0.24;_QI=0|1|0.5|1|1|1|2|352|73 |
| chr1_4 | exon | 49645663 | 49645836 | 49645663 | ID=Msa0167700-mRNA-1:exon:14636;Parent=Msa0167700-mRNA-1 |
| chr1_4 | exon | 49645952 | 49646351 | 49645952 | ID=Msa0167700-mRNA-1:exon:14637;Parent=Msa0167700-mRNA-1 |
| chr1_4 | CDS | 49645663 | 49645836 | 49645663 | ID=Msa0167700-mRNA-1:cds;Parent=Msa0167700-mRNA-1 |
| chr1_4 | CDS | 49645952 | 49645999 | 49645952 | ID=Msa0167700-mRNA-1:cds;Parent=Msa0167700-mRNA-1 |
| chr1_4 | three_prime_UTR | 49646000 | 49646351 | 49646000 | ID=Msa0167700-mRNA-1:three_prime_utr;Parent=Msa0167700-mRNA-1 |
| Gene Sequence |
| Protein sequence |
