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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0076000 | XP_013467304.1 | 100.000 | 96 | 0 | 0 | 1 | 96 | 1 | 96 | 8.64e-63 | 195 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0002490 | Msa0076000 | 0.852671 | 3.961232e-61 | -8.615850e-47 |
| Msa0004860 | Msa0076000 | 0.830485 | 2.859890e-55 | -8.615850e-47 |
| Msa0004920 | Msa0076000 | 0.826415 | 2.746609e-54 | -8.615850e-47 |
| Msa0004980 | Msa0076000 | 0.809527 | 1.810991e-50 | -8.615850e-47 |
| Msa0006290 | Msa0076000 | 0.818040 | 2.411338e-52 | -8.615850e-47 |
| Msa0006880 | Msa0076000 | 0.827616 | 1.418297e-54 | -8.615850e-47 |
| Msa0008090 | Msa0076000 | 0.826103 | 3.259056e-54 | -8.615850e-47 |
| Msa0008410 | Msa0076000 | 0.869846 | 2.279468e-66 | -8.615850e-47 |
| Msa0015300 | Msa0076000 | 0.862035 | 6.737506e-64 | -8.615850e-47 |
| Msa0018620 | Msa0076000 | 0.891316 | 4.438377e-74 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0076000 | MtrunA17_Chr1g0170661 | 100.000 | 96 | 0 | 0 | 1 | 96 | 1 | 96 | 7.95e-67 | 195 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0076000 | AT1G72020.1 | 69.072 | 97 | 29 | 1 | 1 | 96 | 1 | 97 | 2.53e-45 | 141 |
Find 42 sgRNAs with CRISPR-Local
Find 187 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACAATAATCAGATGGATTT+GGG | 0.242746 | 1_2:+51767071 | Msa0076000:three_prime_UTR |
| AAGAACCACCACCTGAAAAC+AGG | 0.448093 | 1_2:-51767274 | None:intergenic |
| AAGAGGATGGGAGGTGGACA+TGG | 0.543948 | 1_2:+51766861 | Msa0076000:CDS |
| AATCGAATTTGCGATAACGA+TGG | 0.704958 | 1_2:+51764930 | Msa0076000:exon |
| AATGTCCAAGCACAGATATT+TGG | 0.348530 | 1_2:-51767216 | None:intergenic |
| ACAATAATCAGATGGATTTG+GGG | 0.667145 | 1_2:+51767072 | Msa0076000:three_prime_UTR |
| ACTGGCGTGAAGAGGATGGG+AGG | 0.681452 | 1_2:+51766852 | Msa0076000:CDS |
| ATAACGATGGCATTGAACAA+CGG | 0.641834 | 1_2:+51764943 | Msa0076000:exon |
| ATGGAAAGAAACAAATCAGA+GGG | 0.541693 | 1_2:-51767340 | None:intergenic |
| CAAAACCAATATGCTAGTCT+AGG | 0.520108 | 1_2:-51767097 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GAAACACAAATTTCTTTCGA+AGG | + | chr1_2:51764901-51764920 | Msa0076000:five_prime_UTR | 30.0% | |
| AAATCTTCCTCAACAGTAAT+CGG | - | chr1_2:51765058-51765077 | None:intergenic | 30.0% | |
| GATGTTGTTGAAGGATATTT+CGG | + | chr1_2:51765313-51765332 | Msa0076000:intron | 30.0% | |
| ATTTAAATCCAGCGAAAACA+TGG | - | chr1_2:51765668-51765687 | None:intergenic | 30.0% | |
| ACTAAATGAAACTCAATCAC+AGG | - | chr1_2:51765754-51765773 | None:intergenic | 30.0% | |
| GGTTTAATTAGGTCATTATC+TGG | + | chr1_2:51765826-51765845 | Msa0076000:intron | 30.0% | |
| GCCATTGGATTAACAATTAA+CGG | + | chr1_2:51765965-51765984 | Msa0076000:intron | 30.0% | |
| TTCAGAATTAAACTCTTGGA+AGG | + | chr1_2:51766226-51766245 | Msa0076000:intron | 30.0% | |
| TCAGAATTAAACTCTTGGAA+GGG | + | chr1_2:51766227-51766246 | Msa0076000:intron | 30.0% | |
| AGTGAGAAAAAATGCATCAA+TGG | + | chr1_2:51766262-51766281 | Msa0076000:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 51764844 | 51767394 | 51764844 | ID=Msa0076000;Name=Msa0076000 |
| chr1_2 | mRNA | 51764844 | 51767394 | 51764844 | ID=Msa0076000-mRNA-1;Parent=Msa0076000;Name=Msa0076000-mRNA-1;_AED=0.00;_eAED=0.00;_QI=105|1|1|1|1|1|2|345|96 |
| chr1_2 | exon | 51764844 | 51765021 | 51764844 | ID=Msa0076000-mRNA-1:exon:15925;Parent=Msa0076000-mRNA-1 |
| chr1_2 | exon | 51766832 | 51767394 | 51766832 | ID=Msa0076000-mRNA-1:exon:15926;Parent=Msa0076000-mRNA-1 |
| chr1_2 | five_prime_UTR | 51764844 | 51764948 | 51764844 | ID=Msa0076000-mRNA-1:five_prime_utr;Parent=Msa0076000-mRNA-1 |
| chr1_2 | CDS | 51764949 | 51765021 | 51764949 | ID=Msa0076000-mRNA-1:cds;Parent=Msa0076000-mRNA-1 |
| chr1_2 | CDS | 51766832 | 51767049 | 51766832 | ID=Msa0076000-mRNA-1:cds;Parent=Msa0076000-mRNA-1 |
| chr1_2 | three_prime_UTR | 51767050 | 51767394 | 51767050 | ID=Msa0076000-mRNA-1:three_prime_utr;Parent=Msa0076000-mRNA-1 |
| Gene Sequence |
>Msa0076000 ATGGCATTGAACAACGGTCTCAGATCTGCTGCGAAGCTAATTGCTTCTTCTGAATCCTCCATCTCCAAATCAGTGAGTAGAGGTTTTCATTCAACTGGCGTGAAGAGGATGGGAGGTGGACATGGCCATAGCGAACCAGAGTATATGCATGCATATCACATGTACAACTTGGACAAGATGAAGTATCAGGGTTTGAAAATGTCTCTTGCTGTGTTCACAGCTTTCAGCATTGGTGTTGCAGTTCCTGTGTATGCAGTCATTTTCCAGCAAAAGAAGACAGCATCTGGCTGA |
| Protein sequence |
>Msa0076000 MALNNGLRSAAKLIASSESSISKSVSRGFHSTGVKRMGGGHGHSEPEYMHAYHMYNLDKMKYQGLKMSLAVFTAFSIGVAVPVYAVIFQQKKTASG* |
