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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1406580 | XP_003610259.1 | 88.496 | 113 | 8 | 2 | 1 | 108 | 1 | 113 | 9.97e-62 | 194 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1406580 | G7JFH3 | 88.496 | 113 | 8 | 2 | 1 | 108 | 1 | 113 | 4.76e-62 | 194 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1222360 | Msa1406580 | 0.877297 | 7.038205e-69 | -8.615850e-47 |
| Msa0881080 | Msa1406580 | 0.904028 | 1.882403e-79 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1406580 | MtrunA17_Chr4g0073501 | 88.496 | 113 | 8 | 2 | 1 | 108 | 1 | 113 | 9.17e-66 | 194 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1406580 | AT4G30845.1 | 43.810 | 105 | 55 | 2 | 7 | 107 | 8 | 112 | 3.17e-25 | 92.0 |
Find 35 sgRNAs with CRISPR-Local
Find 49 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGTGCTGCCATTGGAGTCTT+TGG | 0.247529 | tig0023210:+92966 | Msa1406580:CDS |
| CTAGAAAAGCTGCAAGCTTT+AGG | 0.324884 | tig0023210:-93165 | None:intergenic |
| CTTCTTCTTCTTCCGGGTTG+TGG | 0.335625 | tig0023210:+92741 | Msa1406580:five_prime_UTR |
| TGCCATTGGAGTCTTTGGCC+TGG | 0.372344 | tig0023210:+92971 | Msa1406580:CDS |
| AGAAGAAGAAGAAGGAGAAA+GGG | 0.386982 | tig0023210:-92729 | None:intergenic |
| GGCCTGGGATTCATTGATGC+AGG | 0.402836 | tig0023210:+92987 | Msa1406580:CDS |
| GTTGAGAGTCGTTGTTGTCT+TGG | 0.406668 | tig0023210:-92911 | None:intergenic |
| GCCATTGGAGTCTTTGGCCT+GGG | 0.413396 | tig0023210:+92972 | Msa1406580:CDS |
| CTCCTTCTCTTTCAGCAAGA+AGG | 0.432976 | tig0023210:+92853 | Msa1406580:CDS |
| GAAGAAGAAGAAGGAGAAAG+GGG | 0.437328 | tig0023210:-92728 | None:intergenic |
| CTCCTTCCTATGACTTCCAT+TGG | 0.448453 | tig0023210:-92810 | None:intergenic |
| AATCTTGCTCGTGCTGCCAT+TGG | 0.451515 | tig0023210:+92957 | Msa1406580:CDS |
| AGGTAGCCAATGGAAGTCAT+AGG | 0.452523 | tig0023210:+92804 | Msa1406580:exon |
| AGAAGAAGAAGGAGAAAGGG+GGG | 0.471648 | tig0023210:-92726 | None:intergenic |
| AGCGGAGACTGGTCAAGGAT+TGG | 0.490708 | tig0023210:+93096 | Msa1406580:CDS |
| AAAATGAAAAGAACACAAAT+GGG | 0.511180 | tig0023210:-93193 | None:intergenic |
| CTAGTAAGTAGTGTGTGGAC+AGG | 0.511800 | tig0023210:+92774 | Msa1406580:five_prime_UTR |
| AAGAAGAAGAAGGAGAAAGG+GGG | 0.531958 | tig0023210:-92727 | None:intergenic |
| GCCTGGGATTCATTGATGCA+GGG | 0.538269 | tig0023210:+92988 | Msa1406580:CDS |
| AATTCAGGTATAGCGGAGAC+TGG | 0.545848 | tig0023210:+93085 | Msa1406580:intron |
| CTCCTTCTTGCTGAAAGAGA+AGG | 0.546854 | tig0023210:-92855 | None:intergenic |
| CTTCTCTTTCAGCAAGAAGG+AGG | 0.552037 | tig0023210:+92856 | Msa1406580:CDS |
| ACCCTGCATCAATGAATCCC+AGG | 0.559074 | tig0023210:-92989 | None:intergenic |
| AACCCGGAAGAAGAAGAAGA+AGG | 0.566369 | tig0023210:-92737 | None:intergenic |
| GTGTGTGGACAGGGATCAAG+AGG | 0.574763 | tig0023210:+92784 | Msa1406580:five_prime_UTR |
| TCTTGCTGAAAGAGAAGGAG+TGG | 0.583858 | tig0023210:-92850 | None:intergenic |
| AGTTCAAGTGTTCCACAACC+CGG | 0.609005 | tig0023210:-92753 | None:intergenic |
| TAGTAAGTAGTGTGTGGACA+GGG | 0.611943 | tig0023210:+92775 | Msa1406580:five_prime_UTR |
| AGTGATAACACAGCAGAATG+AGG | 0.615143 | tig0023210:+93119 | Msa1406580:CDS |
| AGCCAATGGAAGTCATAGGA+AGG | 0.616908 | tig0023210:+92808 | Msa1406580:exon |
| AGGGATCAAGAGGTAGCCAA+TGG | 0.618216 | tig0023210:+92794 | Msa1406580:exon |
| ATGGTTTAATTCAGGTATAG+CGG | 0.635395 | tig0023210:+93078 | Msa1406580:intron |
| CTTGCTGAAAGAGAAGGAGT+GGG | 0.645900 | tig0023210:-92849 | None:intergenic |
| TCCCAGGCCAAAGACTCCAA+TGG | 0.649279 | tig0023210:-92973 | None:intergenic |
| TTGAACTAGTAAGTAGTGTG+TGG | 0.653707 | tig0023210:+92769 | Msa1406580:five_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAATGAAAAGAACACAAAT+GGG | - | tig0023210:93177-93196 | None:intergenic | 20.0% |
| !! | AAAAATGAAAAGAACACAAA+TGG | - | tig0023210:93178-93197 | None:intergenic | 20.0% |
| !!! | TTTGATTTTGAAACTGTCAA+TGG | - | tig0023210:92939-92958 | None:intergenic | 25.0% |
| !!! | ATTTTGATTCTTCATGTGAA+TGG | + | tig0023210:93059-93078 | Msa1406580:intron | 25.0% |
| !!! | CTGACTAATTTTGATTCTTT+GGG | - | tig0023210:93207-93226 | None:intergenic | 25.0% |
| !!! | TCTGACTAATTTTGATTCTT+TGG | - | tig0023210:93208-93227 | None:intergenic | 25.0% |
| TCATGTGAATGGTTTAATTC+AGG | + | tig0023210:93070-93089 | Msa1406580:intron | 30.0% | |
| ATGGTTTAATTCAGGTATAG+CGG | + | tig0023210:93078-93097 | Msa1406580:intron | 30.0% | |
| AGAAGAAGAAGAAGGAGAAA+GGG | - | tig0023210:92732-92751 | None:intergenic | 35.0% | |
| AAGAAGAAGAAGAAGGAGAA+AGG | - | tig0023210:92733-92752 | None:intergenic | 35.0% | |
| TTGAACTAGTAAGTAGTGTG+TGG | + | tig0023210:92769-92788 | Msa1406580:five_prime_UTR | 35.0% | |
| !! | AAGGAGGTTTTGTACAACAT+TGG | + | tig0023210:92872-92891 | Msa1406580:CDS | 35.0% |
| !!! | CTAATTTTGATTCTTTGGGC+AGG | - | tig0023210:93203-93222 | None:intergenic | 35.0% |
| AAGAAGAAGAAGGAGAAAGG+GGG | - | tig0023210:92730-92749 | None:intergenic | 40.0% | |
| GAAGAAGAAGAAGGAGAAAG+GGG | - | tig0023210:92731-92750 | None:intergenic | 40.0% | |
| TCTCCTTCTTCTTCTTCTTC+CGG | + | tig0023210:92734-92753 | Msa1406580:five_prime_UTR | 40.0% | |
| TAGTAAGTAGTGTGTGGACA+GGG | + | tig0023210:92775-92794 | Msa1406580:five_prime_UTR | 40.0% | |
| AGTGATAACACAGCAGAATG+AGG | + | tig0023210:93119-93138 | Msa1406580:CDS | 40.0% | |
| CTAGAAAAGCTGCAAGCTTT+AGG | - | tig0023210:93149-93168 | None:intergenic | 40.0% | |
| ! | AAAGCTTGCAGCTTTTCTAG+TGG | + | tig0023210:93149-93168 | Msa1406580:CDS | 40.0% |
| AGAAGAAGAAGGAGAAAGGG+GGG | - | tig0023210:92729-92748 | None:intergenic | 45.0% | |
| CTCCTTCTTCTTCTTCTTCC+GGG | + | tig0023210:92735-92754 | Msa1406580:five_prime_UTR | 45.0% | |
| AACCCGGAAGAAGAAGAAGA+AGG | - | tig0023210:92740-92759 | None:intergenic | 45.0% | |
| AGTTCAAGTGTTCCACAACC+CGG | - | tig0023210:92756-92775 | None:intergenic | 45.0% | |
| CTAGTAAGTAGTGTGTGGAC+AGG | + | tig0023210:92774-92793 | Msa1406580:five_prime_UTR | 45.0% | |
| AGGTAGCCAATGGAAGTCAT+AGG | + | tig0023210:92804-92823 | Msa1406580:exon | 45.0% | |
| AGCCAATGGAAGTCATAGGA+AGG | + | tig0023210:92808-92827 | Msa1406580:exon | 45.0% | |
| CTCCTTCCTATGACTTCCAT+TGG | - | tig0023210:92813-92832 | None:intergenic | 45.0% | |
| CTTGCTGAAAGAGAAGGAGT+GGG | - | tig0023210:92852-92871 | None:intergenic | 45.0% | |
| TCTTGCTGAAAGAGAAGGAG+TGG | - | tig0023210:92853-92872 | None:intergenic | 45.0% | |
| CTCCTTCTCTTTCAGCAAGA+AGG | + | tig0023210:92853-92872 | Msa1406580:CDS | 45.0% | |
| CTCCTTCTTGCTGAAAGAGA+AGG | - | tig0023210:92858-92877 | None:intergenic | 45.0% | |
| CTTCTCTTTCAGCAAGAAGG+AGG | + | tig0023210:92856-92875 | Msa1406580:CDS | 45.0% | |
| GTTGAGAGTCGTTGTTGTCT+TGG | - | tig0023210:92914-92933 | None:intergenic | 45.0% | |
| ! | AATTCAGGTATAGCGGAGAC+TGG | + | tig0023210:93085-93104 | Msa1406580:intron | 45.0% |
| CTTCTTCTTCTTCCGGGTTG+TGG | + | tig0023210:92741-92760 | Msa1406580:five_prime_UTR | 50.0% | |
| AGGGATCAAGAGGTAGCCAA+TGG | + | tig0023210:92794-92813 | Msa1406580:exon | 50.0% | |
| AATCTTGCTCGTGCTGCCAT+TGG | + | tig0023210:92957-92976 | Msa1406580:CDS | 50.0% | |
| GCCTGGGATTCATTGATGCA+GGG | + | tig0023210:92988-93007 | Msa1406580:CDS | 50.0% | |
| ACCCTGCATCAATGAATCCC+AGG | - | tig0023210:92992-93011 | None:intergenic | 50.0% | |
| GGGATTCATTGATGCAGGGT+AGG | + | tig0023210:92992-93011 | Msa1406580:intron | 50.0% | |
| GTGTGTGGACAGGGATCAAG+AGG | + | tig0023210:92784-92803 | Msa1406580:five_prime_UTR | 55.0% | |
| CGTGCTGCCATTGGAGTCTT+TGG | + | tig0023210:92966-92985 | Msa1406580:CDS | 55.0% | |
| TGCCATTGGAGTCTTTGGCC+TGG | + | tig0023210:92971-92990 | Msa1406580:CDS | 55.0% | |
| GCCATTGGAGTCTTTGGCCT+GGG | + | tig0023210:92972-92991 | Msa1406580:CDS | 55.0% | |
| TCCCAGGCCAAAGACTCCAA+TGG | - | tig0023210:92976-92995 | None:intergenic | 55.0% | |
| GGCCTGGGATTCATTGATGC+AGG | + | tig0023210:92987-93006 | Msa1406580:CDS | 55.0% | |
| ! | GGTATAGCGGAGACTGGTCA+AGG | + | tig0023210:93091-93110 | Msa1406580:intron | 55.0% |
| ! | AGCGGAGACTGGTCAAGGAT+TGG | + | tig0023210:93096-93115 | Msa1406580:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0023210 | gene | 92722 | 93262 | 92722 | ID=Msa1406580;Name=Msa1406580 |
| tig0023210 | mRNA | 92722 | 93262 | 92722 | ID=Msa1406580-mRNA-1;Parent=Msa1406580;Name=Msa1406580-mRNA-1;_AED=0.00;_eAED=0.00;_QI=91|1|1|1|1|1|2|14|117 |
| tig0023210 | exon | 92722 | 93009 | 92722 | ID=Msa1406580-mRNA-1:exon:24599;Parent=Msa1406580-mRNA-1 |
| tig0023210 | exon | 93092 | 93262 | 93092 | ID=Msa1406580-mRNA-1:exon:24600;Parent=Msa1406580-mRNA-1 |
| tig0023210 | five_prime_UTR | 92722 | 92812 | 92722 | ID=Msa1406580-mRNA-1:five_prime_utr;Parent=Msa1406580-mRNA-1 |
| tig0023210 | CDS | 92813 | 93009 | 92813 | ID=Msa1406580-mRNA-1:cds;Parent=Msa1406580-mRNA-1 |
| tig0023210 | CDS | 93092 | 93248 | 93092 | ID=Msa1406580-mRNA-1:cds;Parent=Msa1406580-mRNA-1 |
| tig0023210 | three_prime_UTR | 93249 | 93262 | 93249 | ID=Msa1406580-mRNA-1:three_prime_utr;Parent=Msa1406580-mRNA-1 |
| Gene Sequence |
| Protein sequence |
