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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0495860 | XP_024637264.1 | 63.253 | 166 | 47 | 3 | 1 | 153 | 1 | 165 | 3.21e-65 | 206 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0495860 | G7JQ00 | 63.253 | 166 | 47 | 3 | 1 | 153 | 61 | 225 | 8.60e-65 | 206 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0495860 | TF | B3 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0495860 | MtrunA17_Chr5g0393501 | 28.655 | 171 | 97 | 5 | 2 | 152 | 76 | 241 | 4.52e-11 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 31 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGAAGTTCCTATCTGGATA+TGG | 0.251500 | 3_4:+25584990 | Msa0495860:CDS |
| AGGAATTTGCCGAAAGTATC+AGG | 0.335653 | 3_4:-25585136 | None:intergenic |
| AATCGTGATGTTTCACTCTA+AGG | 0.341127 | 3_4:-25585156 | None:intergenic |
| CGATTATTCTACGAGTTTAG+TGG | 0.386306 | 3_4:+25584835 | Msa0495860:CDS |
| TAGGAACTACCTGATACTTT+CGG | 0.400617 | 3_4:+25585127 | Msa0495860:intron |
| TCCGAACATCACATTTGGTA+TGG | 0.417548 | 3_4:-25585242 | None:intergenic |
| ATCTACTTCCACCAAGGTAC+TGG | 0.428620 | 3_4:-25584876 | None:intergenic |
| CCGAACATCACATTTGGTAT+GGG | 0.451435 | 3_4:-25585241 | None:intergenic |
| ATTATTGCTTTCCAGTACCT+TGG | 0.461507 | 3_4:+25584865 | Msa0495860:CDS |
| TTGTGCTGCCAATGGTATTG+AGG | 0.463000 | 3_4:+25585282 | Msa0495860:CDS |
| CCAAATGTGATGTTCGGAAA+AGG | 0.475440 | 3_4:+25585247 | Msa0495860:CDS |
| CCCATACCAAATGTGATGTT+CGG | 0.477035 | 3_4:+25585241 | Msa0495860:CDS |
| TCGTCGATCCATATCCAGAT+AGG | 0.486078 | 3_4:-25584998 | None:intergenic |
| GGCCGTTGTTGACAGATGGT+TGG | 0.487397 | 3_4:+25584801 | Msa0495860:CDS |
| GTCATGCGTTTATCAACGCT+TGG | 0.494559 | 3_4:-25585365 | None:intergenic |
| TGTGCTGCCAATGGTATTGA+GGG | 0.501205 | 3_4:+25585283 | Msa0495860:CDS |
| TCTACGAGTTTAGTGGAAGT+AGG | 0.509601 | 3_4:+25584842 | Msa0495860:CDS |
| ACATGAATGATATTGTCATA+AGG | 0.526037 | 3_4:-25585196 | None:intergenic |
| AGTCGGCCGTTGTTGACAGA+TGG | 0.531450 | 3_4:+25584797 | Msa0495860:CDS |
| ATCCAGATAGGAACTTCAAA+AGG | 0.531873 | 3_4:-25584986 | None:intergenic |
| ATTGCTTTCCAGTACCTTGG+TGG | 0.549152 | 3_4:+25584868 | Msa0495860:CDS |
| CGAACATCACATTTGGTATG+GGG | 0.552019 | 3_4:-25585240 | None:intergenic |
| TTTCAAGTGCAAGTGCGTCA+TGG | 0.567746 | 3_4:+25585321 | Msa0495860:CDS |
| GTCTCCGCCCTCAATACCAT+TGG | 0.581950 | 3_4:-25585290 | None:intergenic |
| CACGATTACGTCATGTTGTG+CGG | 0.590860 | 3_4:+25585172 | Msa0495860:CDS |
| ATGTGATGTTCGGAAAAGGT+TGG | 0.606400 | 3_4:+25585251 | Msa0495860:CDS |
| TGTTCAACAAATCAGTTAGT+CGG | 0.609582 | 3_4:+25584780 | Msa0495860:CDS |
| CTCCAACCATCTGTCAACAA+CGG | 0.679074 | 3_4:-25584803 | None:intergenic |
| TTTGAAATCTACTTCCACCA+AGG | 0.681040 | 3_4:-25584882 | None:intergenic |
| TGGATCGACGAAATCACCGA+AGG | 0.700849 | 3_4:+25585010 | Msa0495860:CDS |
| GCTGCCAATGGTATTGAGGG+CGG | 0.739556 | 3_4:+25585286 | Msa0495860:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTTATATATGCTATAATAA+AGG | + | chr3_4:25585067-25585086 | Msa0495860:intron | 10.0% |
| !!! | CAATTTTTTTTTCTTTTTTT+AGG | + | chr3_4:25585108-25585127 | Msa0495860:intron | 10.0% |
| !! | AAAAAACAATAAACAACCTT+CGG | - | chr3_4:25585029-25585048 | None:intergenic | 20.0% |
| ! | ACATGAATGATATTGTCATA+AGG | - | chr3_4:25585199-25585218 | None:intergenic | 25.0% |
| TGTTCAACAAATCAGTTAGT+CGG | + | chr3_4:25584780-25584799 | Msa0495860:CDS | 30.0% | |
| CGATTATTCTACGAGTTTAG+TGG | + | chr3_4:25584835-25584854 | Msa0495860:CDS | 35.0% | |
| ATTATTGCTTTCCAGTACCT+TGG | + | chr3_4:25584865-25584884 | Msa0495860:CDS | 35.0% | |
| ! | TTTGAAATCTACTTCCACCA+AGG | - | chr3_4:25584885-25584904 | None:intergenic | 35.0% |
| !!! | TACCTTTTGAAGTTCCTATC+TGG | + | chr3_4:25584984-25585003 | Msa0495860:CDS | 35.0% |
| ATCCAGATAGGAACTTCAAA+AGG | - | chr3_4:25584989-25585008 | None:intergenic | 35.0% | |
| TTGAAGTTCCTATCTGGATA+TGG | + | chr3_4:25584990-25585009 | Msa0495860:CDS | 35.0% | |
| TAGGAACTACCTGATACTTT+CGG | + | chr3_4:25585127-25585146 | Msa0495860:intron | 35.0% | |
| AATCGTGATGTTTCACTCTA+AGG | - | chr3_4:25585159-25585178 | None:intergenic | 35.0% | |
| TCTACGAGTTTAGTGGAAGT+AGG | + | chr3_4:25584842-25584861 | Msa0495860:CDS | 40.0% | |
| TGATAGGGTGGATAATCAAC+TGG | - | chr3_4:25584934-25584953 | None:intergenic | 40.0% | |
| !! | AGGAATTTGCCGAAAGTATC+AGG | - | chr3_4:25585139-25585158 | None:intergenic | 40.0% |
| CGAACATCACATTTGGTATG+GGG | - | chr3_4:25585243-25585262 | None:intergenic | 40.0% | |
| CCGAACATCACATTTGGTAT+GGG | - | chr3_4:25585244-25585263 | None:intergenic | 40.0% | |
| CCCATACCAAATGTGATGTT+CGG | + | chr3_4:25585241-25585260 | Msa0495860:CDS | 40.0% | |
| TCCGAACATCACATTTGGTA+TGG | - | chr3_4:25585245-25585264 | None:intergenic | 40.0% | |
| ! | CCTTTTCCGAACATCACATT+TGG | - | chr3_4:25585250-25585269 | None:intergenic | 40.0% |
| CCAAATGTGATGTTCGGAAA+AGG | + | chr3_4:25585247-25585266 | Msa0495860:CDS | 40.0% | |
| ATGTGATGTTCGGAAAAGGT+TGG | + | chr3_4:25585251-25585270 | Msa0495860:CDS | 40.0% | |
| CTCCAACCATCTGTCAACAA+CGG | - | chr3_4:25584806-25584825 | None:intergenic | 45.0% | |
| ATTGCTTTCCAGTACCTTGG+TGG | + | chr3_4:25584868-25584887 | Msa0495860:CDS | 45.0% | |
| ATCTACTTCCACCAAGGTAC+TGG | - | chr3_4:25584879-25584898 | None:intergenic | 45.0% | |
| ACCCTATCATTCCATGAGTG+CGG | + | chr3_4:25584945-25584964 | Msa0495860:intron | 45.0% | |
| TCGTCGATCCATATCCAGAT+AGG | - | chr3_4:25585001-25585020 | None:intergenic | 45.0% | |
| CACGATTACGTCATGTTGTG+CGG | + | chr3_4:25585172-25585191 | Msa0495860:CDS | 45.0% | |
| ! | ACGAGTTTTTGTGCTGCCAA+TGG | + | chr3_4:25585274-25585293 | Msa0495860:CDS | 45.0% |
| TTGTGCTGCCAATGGTATTG+AGG | + | chr3_4:25585282-25585301 | Msa0495860:CDS | 45.0% | |
| ! | TGTGCTGCCAATGGTATTGA+GGG | + | chr3_4:25585283-25585302 | Msa0495860:CDS | 45.0% |
| ! | TTTCAAGTGCAAGTGCGTCA+TGG | + | chr3_4:25585321-25585340 | Msa0495860:CDS | 45.0% |
| GCACTCATGGAATGATAGGG+TGG | - | chr3_4:25584946-25584965 | None:intergenic | 50.0% | |
| GCCGCACTCATGGAATGATA+GGG | - | chr3_4:25584949-25584968 | None:intergenic | 50.0% | |
| TGCCGCACTCATGGAATGAT+AGG | - | chr3_4:25584950-25584969 | None:intergenic | 50.0% | |
| TGGATCGACGAAATCACCGA+AGG | + | chr3_4:25585010-25585029 | Msa0495860:CDS | 50.0% | |
| AGTCGGCCGTTGTTGACAGA+TGG | + | chr3_4:25584797-25584816 | Msa0495860:CDS | 55.0% | |
| GGCCGTTGTTGACAGATGGT+TGG | + | chr3_4:25584801-25584820 | Msa0495860:CDS | 55.0% | |
| ! | GCTGCCAATGGTATTGAGGG+CGG | + | chr3_4:25585286-25585305 | Msa0495860:CDS | 55.0% |
| GTCTCCGCCCTCAATACCAT+TGG | - | chr3_4:25585293-25585312 | None:intergenic | 55.0% | |
| ACACGATGCTGCCGCACTCA+TGG | - | chr3_4:25584959-25584978 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 25584779 | 25585375 | 25584779 | ID=Msa0495860;Name=Msa0495860 |
| chr3_4 | mRNA | 25584779 | 25585375 | 25584779 | ID=Msa0495860-mRNA-1;Parent=Msa0495860;Name=Msa0495860-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|0.5|0|1|0.5|0.33|3|0|153 |
| chr3_4 | exon | 25584779 | 25584933 | 25584779 | ID=Msa0495860-mRNA-1:exon:6175;Parent=Msa0495860-mRNA-1 |
| chr3_4 | exon | 25584971 | 25585031 | 25584971 | ID=Msa0495860-mRNA-1:exon:6176;Parent=Msa0495860-mRNA-1 |
| chr3_4 | exon | 25585130 | 25585375 | 25585130 | ID=Msa0495860-mRNA-1:exon:6177;Parent=Msa0495860-mRNA-1 |
| chr3_4 | CDS | 25584779 | 25584933 | 25584779 | ID=Msa0495860-mRNA-1:cds;Parent=Msa0495860-mRNA-1 |
| chr3_4 | CDS | 25584971 | 25585031 | 25584971 | ID=Msa0495860-mRNA-1:cds;Parent=Msa0495860-mRNA-1 |
| chr3_4 | CDS | 25585130 | 25585375 | 25585130 | ID=Msa0495860-mRNA-1:cds;Parent=Msa0495860-mRNA-1 |
| Gene Sequence |
| Protein sequence |
