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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0544550 | XP_039687084.1 | 78.689 | 122 | 13 | 2 | 4 | 112 | 1 | 122 | 1.33e-59 | 189 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0544550 | G7INX6 | 78.689 | 122 | 13 | 2 | 4 | 112 | 1 | 122 | 6.34e-60 | 189 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0544550 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0544550 | MtrunA17_Chr2g0281511 | 78.689 | 122 | 13 | 2 | 4 | 112 | 1 | 122 | 1.22e-63 | 189 |
| Msa0544550 | MtrunA17_Chr2g0309121 | 72.951 | 122 | 19 | 3 | 4 | 112 | 1 | 121 | 2.54e-56 | 170 |
| Msa0544550 | MtrunA17_Chr3g0081891 | 75.000 | 80 | 7 | 2 | 4 | 70 | 1 | 80 | 3.12e-34 | 113 |
| Msa0544550 | MtrunA17_Chr7g0276661 | 47.059 | 68 | 35 | 1 | 43 | 110 | 101 | 167 | 6.09e-17 | 72.0 |
| Msa0544550 | MtrunA17_Chr5g0430431 | 42.623 | 61 | 35 | 0 | 46 | 106 | 194 | 254 | 5.16e-13 | 63.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGATGTTACTACTTCTATTT+TGG | 0.146520 | 4_1:+33241481 | Msa0544550:CDS |
| GAAGTCAATGGTACTGATTT+AGG | 0.173353 | 4_1:+33241422 | Msa0544550:CDS |
| CTTGAAAAGGGCCTAAAATT+TGG | 0.185070 | 4_1:+33241744 | Msa0544550:CDS |
| AAAATATCGATGTTCATTAT+TGG | 0.232793 | 4_1:+33241453 | Msa0544550:CDS |
| TACCAGTTTCTTCATCAAAA+AGG | 0.252196 | 4_1:-33241641 | None:intergenic |
| TGTATGTTACCGTCGTTAAC+TGG | 0.292738 | 4_1:+33241808 | Msa0544550:CDS |
| AAGTCAATGGTACTGATTTA+GGG | 0.335811 | 4_1:+33241423 | Msa0544550:CDS |
| CGGTCAATAATCCTCCTAAT+AGG | 0.355854 | 4_1:+33241784 | Msa0544550:CDS |
| GTACGACTTTGTTCTTGAAA+AGG | 0.412286 | 4_1:+33241731 | Msa0544550:CDS |
| ACGGTAACATACATCCTATT+AGG | 0.430681 | 4_1:-33241798 | None:intergenic |
| TACGACTTTGTTCTTGAAAA+GGG | 0.450393 | 4_1:+33241732 | Msa0544550:CDS |
| GTATGTTACCGTCGTTAACT+GGG | 0.530161 | 4_1:+33241809 | Msa0544550:CDS |
| AGCATGCATCAGAAATACAT+AGG | 0.544935 | 4_1:+33241699 | Msa0544550:CDS |
| AGAAATACATAGGGAGAGGA+TGG | 0.573439 | 4_1:+33241709 | Msa0544550:CDS |
| CATCAGAAATACATAGGGAG+AGG | 0.580360 | 4_1:+33241705 | Msa0544550:CDS |
| GCATGCATCAGAAATACATA+GGG | 0.580795 | 4_1:+33241700 | Msa0544550:CDS |
| GTAACATACATCCTATTAGG+AGG | 0.590541 | 4_1:-33241795 | None:intergenic |
| GAGATTGGAGTTGAAGTCAA+TGG | 0.592580 | 4_1:+33241410 | Msa0544550:CDS |
| AAATCAGTCCCAGTTAACGA+CGG | 0.717617 | 4_1:-33241817 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTATATATCATTTTGATTGA+AGG | + | chr4_1:33241377-33241396 | Msa0544550:intron | 15.0% |
| !!! | TGGTTCTGTTTTATTTTTAA+TGG | + | chr4_1:33241325-33241344 | Msa0544550:intron | 20.0% |
| !! | AAAATATCGATGTTCATTAT+TGG | + | chr4_1:33241453-33241472 | Msa0544550:CDS | 20.0% |
| ! | AATAAAACAGAACCAAAGAA+AGG | - | chr4_1:33241320-33241339 | None:intergenic | 25.0% |
| !! | TGATGTTACTACTTCTATTT+TGG | + | chr4_1:33241481-33241500 | Msa0544550:CDS | 25.0% |
| !! | AAATAACGTCACCAAATTTT+AGG | - | chr4_1:33241758-33241777 | None:intergenic | 25.0% |
| !!! | TTTTTTGTTTGTGCCTTTCA+TGG | + | chr4_1:33241289-33241308 | Msa0544550:intron | 30.0% |
| !! | AAGTCAATGGTACTGATTTA+GGG | + | chr4_1:33241423-33241442 | Msa0544550:CDS | 30.0% |
| !! | GTTACTACTTCTATTTTGGA+TGG | + | chr4_1:33241485-33241504 | Msa0544550:CDS | 30.0% |
| TACCAGTTTCTTCATCAAAA+AGG | - | chr4_1:33241644-33241663 | None:intergenic | 30.0% | |
| TACGACTTTGTTCTTGAAAA+GGG | + | chr4_1:33241732-33241751 | Msa0544550:CDS | 30.0% | |
| GAAGGAAAAATGAACGAGAT+TGG | + | chr4_1:33241395-33241414 | Msa0544550:intron | 35.0% | |
| !! | GAAGTCAATGGTACTGATTT+AGG | + | chr4_1:33241422-33241441 | Msa0544550:CDS | 35.0% |
| TTTGGATGGTAACAACGTTT+AGG | + | chr4_1:33241499-33241518 | Msa0544550:intron | 35.0% | |
| ! | CTCCTTTTTGATGAAGAAAC+TGG | + | chr4_1:33241639-33241658 | Msa0544550:CDS | 35.0% |
| AGCATGCATCAGAAATACAT+AGG | + | chr4_1:33241699-33241718 | Msa0544550:CDS | 35.0% | |
| GCATGCATCAGAAATACATA+GGG | + | chr4_1:33241700-33241719 | Msa0544550:CDS | 35.0% | |
| GTACGACTTTGTTCTTGAAA+AGG | + | chr4_1:33241731-33241750 | Msa0544550:CDS | 35.0% | |
| CTTGAAAAGGGCCTAAAATT+TGG | + | chr4_1:33241744-33241763 | Msa0544550:CDS | 35.0% | |
| !! | TGGTGACGTTATTTTGTTCA+CGG | + | chr4_1:33241764-33241783 | Msa0544550:CDS | 35.0% |
| GTAACATACATCCTATTAGG+AGG | - | chr4_1:33241798-33241817 | None:intergenic | 35.0% | |
| ACGGTAACATACATCCTATT+AGG | - | chr4_1:33241801-33241820 | None:intergenic | 35.0% | |
| TGTTTGTGCCTTTCATGGAT+AGG | + | chr4_1:33241294-33241313 | Msa0544550:intron | 40.0% | |
| AAGAAAGGCCTATCCATGAA+AGG | - | chr4_1:33241305-33241324 | None:intergenic | 40.0% | |
| TTCATGGATAGGCCTTTCTT+TGG | + | chr4_1:33241305-33241324 | Msa0544550:intron | 40.0% | |
| GAGATTGGAGTTGAAGTCAA+TGG | + | chr4_1:33241410-33241429 | Msa0544550:CDS | 40.0% | |
| CATCAGAAATACATAGGGAG+AGG | + | chr4_1:33241705-33241724 | Msa0544550:CDS | 40.0% | |
| AGAAATACATAGGGAGAGGA+TGG | + | chr4_1:33241709-33241728 | Msa0544550:CDS | 40.0% | |
| CGGTCAATAATCCTCCTAAT+AGG | + | chr4_1:33241784-33241803 | Msa0544550:CDS | 40.0% | |
| TGTATGTTACCGTCGTTAAC+TGG | + | chr4_1:33241808-33241827 | Msa0544550:CDS | 40.0% | |
| GTATGTTACCGTCGTTAACT+GGG | + | chr4_1:33241809-33241828 | Msa0544550:CDS | 40.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 33241271 | 33241836 | 33241271 | ID=Msa0544550;Name=Msa0544550 |
| chr4_1 | mRNA | 33241271 | 33241836 | 33241271 | ID=Msa0544550-mRNA-1;Parent=Msa0544550;Name=Msa0544550-mRNA-1;_AED=0.06;_eAED=0.06;_QI=0|0|0|0.66|0|0|3|0|112 |
| chr4_1 | exon | 33241271 | 33241274 | 33241271 | ID=Msa0544550-mRNA-1:exon:8512;Parent=Msa0544550-mRNA-1 |
| chr4_1 | exon | 33241399 | 33241514 | 33241399 | ID=Msa0544550-mRNA-1:exon:8513;Parent=Msa0544550-mRNA-1 |
| chr4_1 | exon | 33241618 | 33241836 | 33241618 | ID=Msa0544550-mRNA-1:exon:8514;Parent=Msa0544550-mRNA-1 |
| chr4_1 | CDS | 33241271 | 33241274 | 33241271 | ID=Msa0544550-mRNA-1:cds;Parent=Msa0544550-mRNA-1 |
| chr4_1 | CDS | 33241399 | 33241514 | 33241399 | ID=Msa0544550-mRNA-1:cds;Parent=Msa0544550-mRNA-1 |
| chr4_1 | CDS | 33241618 | 33241836 | 33241618 | ID=Msa0544550-mRNA-1:cds;Parent=Msa0544550-mRNA-1 |
| Gene Sequence |
| Protein sequence |
