Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene43474.t1 | XP_024637289.1 | 86.6 | 67 | 9 | 0 | 4 | 70 | 3 | 69 | 2.30E-24 | 120.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene43474.t1 | Q9M9R9 | 76.6 | 47 | 11 | 0 | 8 | 54 | 8 | 54 | 2.8e-15 | 82.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene43474.t1 | I3S7T5 | 86.6 | 67 | 9 | 0 | 4 | 70 | 3 | 69 | 1.7e-24 | 120.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051904 | MS.gene43474 | 0.804415 | 2.18E-49 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene43474.t1 | MTR_4g134550 | 92.308 | 65 | 5 | 0 | 4 | 68 | 3 | 67 | 4.04e-34 | 111 |
| MS.gene43474.t1 | MTR_2g036340 | 60.345 | 58 | 22 | 1 | 8 | 64 | 3 | 60 | 1.70e-18 | 72.0 |
| MS.gene43474.t1 | MTR_8g046930 | 60.345 | 58 | 22 | 1 | 8 | 64 | 3 | 60 | 1.70e-18 | 72.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene43474.t1 | AT1G14450 | 71.186 | 59 | 16 | 1 | 7 | 64 | 7 | 65 | 2.03e-26 | 92.0 |
| MS.gene43474.t1 | AT1G14450 | 71.186 | 59 | 16 | 1 | 7 | 64 | 31 | 89 | 2.93e-26 | 92.4 |
| MS.gene43474.t1 | AT2G02510 | 62.121 | 66 | 23 | 1 | 7 | 70 | 7 | 72 | 1.84e-24 | 87.0 |
Find 20 sgRNAs with CRISPR-Local
Find 44 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGCATCGCTCTTGTCGCTTT+TGG | 0.259915 | 8.4:-304891 | MS.gene43474:CDS |
| GGAAGAGGAATTCATCTTGT+TGG | 0.397407 | 8.4:+304842 | None:intergenic |
| TACTTTCGCAGGTGAAGGCT+GGG | 0.420519 | 8.4:-304477 | MS.gene43474:intron |
| TTACTTTCGCAGGTGAAGGC+TGG | 0.453299 | 8.4:-304478 | MS.gene43474:intron |
| TCTTCAAGAGGAGGGATGAA+TGG | 0.473314 | 8.4:-304965 | MS.gene43474:CDS |
| CGTCATGCCACTCCTGGTCT+CGG | 0.476105 | 8.4:-304912 | MS.gene43474:CDS |
| ATGGTGATGAGAAGAGGAAG+AGG | 0.488621 | 8.4:+304827 | None:intergenic |
| CAGATGCGTCATGCCACTCC+TGG | 0.493267 | 8.4:-304918 | MS.gene43474:CDS |
| ACAAGAGCGATGCCGAGACC+AGG | 0.501831 | 8.4:+304900 | None:intergenic |
| TCGGAAGAAATGGGAGCAGC+AGG | 0.513709 | 8.4:-305005 | None:intergenic |
| TGGAGGAAGCATCCCATGCT+TGG | 0.534788 | 8.4:-304945 | MS.gene43474:CDS |
| CGCATCTGATTACCAAGCAT+GGG | 0.552200 | 8.4:+304933 | None:intergenic |
| AGATACATGGTGATGAGAAG+AGG | 0.553982 | 8.4:+304821 | None:intergenic |
| ACGCATCTGATTACCAAGCA+TGG | 0.557487 | 8.4:+304932 | None:intergenic |
| AGCAGAGTTCTTCAAGAGGA+GGG | 0.574966 | 8.4:-304973 | MS.gene43474:CDS |
| CAGCAGAGTTCTTCAAGAGG+AGG | 0.588158 | 8.4:-304974 | MS.gene43474:CDS |
| ACTTTCGCAGGTGAAGGCTG+GGG | 0.593895 | 8.4:-304476 | MS.gene43474:intron |
| AGCGATGCCGAGACCAGGAG+TGG | 0.620806 | 8.4:+304905 | None:intergenic |
| TCAAGAGGAGGGATGAATGG+AGG | 0.649135 | 8.4:-304962 | MS.gene43474:CDS |
| ATACAGCAGAGTTCTTCAAG+AGG | 0.667371 | 8.4:-304977 | MS.gene43474:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAGCATTGTTATAATTTAAT+GGG | + | chr8.4:304910-304929 | None:intergenic | 15.0% |
| !! | AGCAGTAATAAAATGTAAAT+GGG | + | chr8.4:304746-304765 | None:intergenic | 20.0% |
| !! | TAAGAATAAGAATAGATACA+TGG | + | chr8.4:304659-304678 | None:intergenic | 20.0% |
| !! | TAGCAGTAATAAAATGTAAA+TGG | + | chr8.4:304747-304766 | None:intergenic | 20.0% |
| !! | TATTCTTATTCTTACTCTTA+GGG | - | chr8.4:304665-304684 | MS.gene43474:intron | 20.0% |
| !!! | ATTTACATTTTATTACTGCT+AGG | - | chr8.4:304746-304765 | MS.gene43474:intron | 20.0% |
| !!! | GAAGCATTGTTATAATTTAA+TGG | + | chr8.4:304911-304930 | None:intergenic | 20.0% |
| !!! | TTTACATTTTATTACTGCTA+GGG | - | chr8.4:304747-304766 | MS.gene43474:intron | 20.0% |
| ! | CAGTAATAAAATGTAAATGG+GGG | + | chr8.4:304744-304763 | None:intergenic | 25.0% |
| ! | CTATTCTTATTCTTACTCTT+AGG | - | chr8.4:304664-304683 | MS.gene43474:intron | 25.0% |
| ! | GCAGTAATAAAATGTAAATG+GGG | + | chr8.4:304745-304764 | None:intergenic | 25.0% |
| ATAAAATGTAAATGGGGGAA+TGG | + | chr8.4:304739-304758 | None:intergenic | 30.0% | |
| CTTAATTACATTACTTTCGC+AGG | - | chr8.4:304976-304995 | MS.gene43474:CDS | 30.0% | |
| TAAAATGTAAATGGGGGAAT+GGG | + | chr8.4:304738-304757 | None:intergenic | 30.0% | |
| ! | AAAGAATAGAGATTTTGCCT+TGG | - | chr8.4:304842-304861 | MS.gene43474:CDS | 30.0% |
| TGAATAGTACAAACAGACAC+AGG | + | chr8.4:304950-304969 | None:intergenic | 35.0% | |
| TTCATTATGAAAACGAGTCC+CGG | + | chr8.4:304881-304900 | None:intergenic | 35.0% | |
| ATACAGCAGAGTTCTTCAAG+AGG | - | chr8.4:304487-304506 | MS.gene43474:intron | 40.0% | |
| GGAAGAGGAATTCATCTTGT+TGG | + | chr8.4:304625-304644 | None:intergenic | 40.0% | |
| TACATTACTTTCGCAGGTGA+AGG | - | chr8.4:304982-305001 | MS.gene43474:CDS | 40.0% | |
| ! | AGATACATGGTGATGAGAAG+AGG | + | chr8.4:304646-304665 | None:intergenic | 40.0% |
| ! | GAGATTTTGCCTTGGTTGAT+TGG | - | chr8.4:304850-304869 | MS.gene43474:CDS | 40.0% |
| AATGTAAATGGGGGAATGGG+AGG | + | chr8.4:304735-304754 | None:intergenic | 45.0% | |
| ACGCATCTGATTACCAAGCA+TGG | + | chr8.4:304535-304554 | None:intergenic | 45.0% | |
| AGCAGAGTTCTTCAAGAGGA+GGG | - | chr8.4:304491-304510 | MS.gene43474:intron | 45.0% | |
| ATGTAAATGGGGGAATGGGA+GGG | + | chr8.4:304734-304753 | None:intergenic | 45.0% | |
| CATACAACAAGCAACGATGC+TGG | + | chr8.4:304804-304823 | None:intergenic | 45.0% | |
| CGCATCTGATTACCAAGCAT+GGG | + | chr8.4:304534-304553 | None:intergenic | 45.0% | |
| TCTTCAAGAGGAGGGATGAA+TGG | - | chr8.4:304499-304518 | MS.gene43474:intron | 45.0% | |
| ! | ATGGTGATGAGAAGAGGAAG+AGG | + | chr8.4:304640-304659 | None:intergenic | 45.0% |
| CAGCAGAGTTCTTCAAGAGG+AGG | - | chr8.4:304490-304509 | MS.gene43474:intron | 50.0% | |
| TACTTTCGCAGGTGAAGGCT+GGG | - | chr8.4:304987-305006 | MS.gene43474:CDS | 50.0% | |
| TCAAGAGGAGGGATGAATGG+AGG | - | chr8.4:304502-304521 | MS.gene43474:intron | 50.0% | |
| TTACTTTCGCAGGTGAAGGC+TGG | - | chr8.4:304986-305005 | MS.gene43474:CDS | 50.0% | |
| ! | CCTTGGTTGATTGGTTGCAC+CGG | - | chr8.4:304859-304878 | MS.gene43474:CDS | 50.0% |
| ! | CTTGGTTGATTGGTTGCACC+GGG | - | chr8.4:304860-304879 | MS.gene43474:CDS | 50.0% |
| ACTTTCGCAGGTGAAGGCTG+GGG | - | chr8.4:304988-305007 | MS.gene43474:CDS | 55.0% | |
| CCGGTGCAACCAATCAACCA+AGG | + | chr8.4:304862-304881 | None:intergenic | 55.0% | |
| !! | TGGAGGAAGCATCCCATGCT+TGG | - | chr8.4:304519-304538 | MS.gene43474:intron | 55.0% |
| !!! | GGCATCGCTCTTGTCGCTTT+TGG | - | chr8.4:304573-304592 | MS.gene43474:intron | 55.0% |
| ACAAGAGCGATGCCGAGACC+AGG | + | chr8.4:304567-304586 | None:intergenic | 60.0% | |
| CAGATGCGTCATGCCACTCC+TGG | - | chr8.4:304546-304565 | MS.gene43474:intron | 60.0% | |
| CGTCATGCCACTCCTGGTCT+CGG | - | chr8.4:304552-304571 | MS.gene43474:intron | 60.0% | |
| AGCGATGCCGAGACCAGGAG+TGG | + | chr8.4:304562-304581 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8.4 | gene | 304468 | 305018 | 304468 | ID=MS.gene43474 |
| chr8.4 | mRNA | 304468 | 305018 | 304468 | ID=MS.gene43474.t1;Parent=MS.gene43474 |
| chr8.4 | exon | 304827 | 305018 | 304827 | ID=MS.gene43474.t1.exon1;Parent=MS.gene43474.t1 |
| chr8.4 | CDS | 304827 | 305018 | 304827 | ID=cds.MS.gene43474.t1;Parent=MS.gene43474.t1 |
| chr8.4 | exon | 304468 | 304488 | 304468 | ID=MS.gene43474.t1.exon2;Parent=MS.gene43474.t1 |
| chr8.4 | CDS | 304468 | 304488 | 304468 | ID=cds.MS.gene43474.t1;Parent=MS.gene43474.t1 |
| Gene Sequence |
| Protein sequence |
