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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1022710 | QHO38780.1 | 79.104 | 67 | 14 | 0 | 1 | 67 | 538 | 604 | 8.68e-31 | 123 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1022710 | A0A6P4D1K8 | 79.104 | 67 | 14 | 0 | 1 | 67 | 592 | 658 | 4.89e-31 | 123 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1022710 | Msa1458680 | 0.806030 | 1.002587e-49 | -8.615850e-47 |
| Msa0287870 | Msa1022710 | 0.804893 | 1.735860e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1022710 | MtrunA17_Chr7g0239641 | 95.588 | 68 | 3 | 0 | 1 | 68 | 615 | 682 | 2.88e-31 | 113 |
| Msa1022710 | MtrunA17_Chr2g0322001 | 49.180 | 61 | 31 | 0 | 1 | 61 | 795 | 855 | 5.48e-12 | 58.9 |
| Msa1022710 | MtrunA17_Chr1g0184231 | 49.206 | 63 | 30 | 1 | 1 | 61 | 597 | 659 | 1.15e-11 | 57.8 |
| Msa1022710 | MtrunA17_Chr4g0025571 | 47.541 | 61 | 32 | 0 | 1 | 61 | 834 | 894 | 5.51e-11 | 55.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 16 sgRNAs with CRISPR-Local
Find 20 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TACCATCTTGAAAGGGATTT+TGG | 0.115506 | 7_1:+49427539 | Msa1022710:CDS |
| TGCTCACGTGATCCGAAGGC+TGG | 0.462740 | 7_1:+49427512 | Msa1022710:CDS |
| GGGTCAGCTTTCTATGAGAC+AGG | 0.477956 | 7_1:-49427763 | None:intergenic |
| TTCCAAAATCCCTTTCAAGA+TGG | 0.498138 | 7_1:-49427541 | None:intergenic |
| AGATGGTAATGTCCAGCCTT+CGG | 0.502070 | 7_1:-49427524 | None:intergenic |
| AGCTGCAAAAGATGCAGTAA+AGG | 0.507015 | 7_1:-49427730 | None:intergenic |
| CTGGACATTACCATCTTGAA+AGG | 0.517528 | 7_1:+49427531 | Msa1022710:CDS |
| CACGATGAAACAAGCCAAGC+TGG | 0.529806 | 7_1:-49427577 | None:intergenic |
| TGGACATTACCATCTTGAAA+GGG | 0.555810 | 7_1:+49427532 | Msa1022710:CDS |
| AAACTGTTCGAGTACCAGCT+TGG | 0.567327 | 7_1:+49427563 | Msa1022710:CDS |
| TCCATCCTGTGAAAACCTCT+AGG | 0.589748 | 7_1:-49427697 | None:intergenic |
| CAGCTTGGCTTGTTTCATCG+TGG | 0.601058 | 7_1:+49427578 | Msa1022710:CDS |
| AGATTGCTCACGTGATCCGA+AGG | 0.614020 | 7_1:+49427508 | Msa1022710:CDS |
| CAGATGGTATGCAATGAGCA+TGG | 0.615053 | 7_1:+49427474 | None:intergenic |
| CTTGGCTTGTTTCATCGTGG+AGG | 0.615140 | 7_1:+49427581 | Msa1022710:CDS |
| GGACATGCACAGGTTCCTAG+AGG | 0.640850 | 7_1:+49427682 | Msa1022710:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTACTTACATAATTTTTTCT+TGG | + | chr7_1:49427661-49427680 | Msa1022710:intron | 15.0% |
| ! | GTAATCAAATATAGAATGAG+TGG | - | chr7_1:49427631-49427650 | None:intergenic | 25.0% |
| TGGACATTACCATCTTGAAA+GGG | + | chr7_1:49427532-49427551 | Msa1022710:CDS | 35.0% | |
| ! | TACCATCTTGAAAGGGATTT+TGG | + | chr7_1:49427539-49427558 | Msa1022710:CDS | 35.0% |
| TTCCAAAATCCCTTTCAAGA+TGG | - | chr7_1:49427544-49427563 | None:intergenic | 35.0% | |
| !!! | ATTTTTTCTTGGACATGCAC+AGG | + | chr7_1:49427672-49427691 | Msa1022710:intron | 35.0% |
| ! | CAATGAGCATGGACTTTTCT+TGG | + | chr7_1:49427485-49427504 | Msa1022710:CDS | 40.0% |
| CTGGACATTACCATCTTGAA+AGG | + | chr7_1:49427531-49427550 | Msa1022710:CDS | 40.0% | |
| AGCTGCAAAAGATGCAGTAA+AGG | - | chr7_1:49427733-49427752 | None:intergenic | 40.0% | |
| ! | AGATGGTAATGTCCAGCCTT+CGG | - | chr7_1:49427527-49427546 | None:intergenic | 45.0% |
| AAACTGTTCGAGTACCAGCT+TGG | + | chr7_1:49427563-49427582 | Msa1022710:CDS | 45.0% | |
| ! | AGGTTCCTAGAGGTTTTCAC+AGG | + | chr7_1:49427692-49427711 | Msa1022710:intron | 45.0% |
| ! | TCCTAGAGGTTTTCACAGGA+TGG | + | chr7_1:49427696-49427715 | Msa1022710:CDS | 45.0% |
| TCCATCCTGTGAAAACCTCT+AGG | - | chr7_1:49427700-49427719 | None:intergenic | 45.0% | |
| AGATTGCTCACGTGATCCGA+AGG | + | chr7_1:49427508-49427527 | Msa1022710:CDS | 50.0% | |
| CACGATGAAACAAGCCAAGC+TGG | - | chr7_1:49427580-49427599 | None:intergenic | 50.0% | |
| !! | CAGCTTGGCTTGTTTCATCG+TGG | + | chr7_1:49427578-49427597 | Msa1022710:CDS | 50.0% |
| !! | CTTGGCTTGTTTCATCGTGG+AGG | + | chr7_1:49427581-49427600 | Msa1022710:CDS | 50.0% |
| GGACATGCACAGGTTCCTAG+AGG | + | chr7_1:49427682-49427701 | Msa1022710:intron | 55.0% | |
| TGCTCACGTGATCCGAAGGC+TGG | + | chr7_1:49427512-49427531 | Msa1022710:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_1 | gene | 49427477 | 49427774 | 49427477 | ID=Msa1022710;Name=Msa1022710 |
| chr7_1 | mRNA | 49427477 | 49427774 | 49427477 | ID=Msa1022710-mRNA-1;Parent=Msa1022710;Name=Msa1022710-mRNA-1;_AED=0.48;_eAED=0.48;_QI=0|0|0|1|1|1|2|0|68 |
| chr7_1 | exon | 49427477 | 49427602 | 49427477 | ID=Msa1022710-mRNA-1:exon:9672;Parent=Msa1022710-mRNA-1 |
| chr7_1 | exon | 49427694 | 49427774 | 49427694 | ID=Msa1022710-mRNA-1:exon:9673;Parent=Msa1022710-mRNA-1 |
| chr7_1 | CDS | 49427477 | 49427602 | 49427477 | ID=Msa1022710-mRNA-1:cds;Parent=Msa1022710-mRNA-1 |
| chr7_1 | CDS | 49427694 | 49427774 | 49427694 | ID=Msa1022710-mRNA-1:cds;Parent=Msa1022710-mRNA-1 |
| Gene Sequence |
| Protein sequence |
