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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1246470 | XP_027188308.1 | 38.281 | 128 | 74 | 4 | 1 | 127 | 1 | 124 | 1.64e-15 | 78.2 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1246470 | A0A3Q7XN13 | 38.281 | 128 | 74 | 4 | 1 | 127 | 1 | 124 | 7.86e-16 | 78.2 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0083920 | Msa1246470 | 0.808420 | 3.124456e-50 | -8.615850e-47 |
| Msa1246470 | Msa1286720 | 0.846037 | 2.792815e-59 | -8.615850e-47 |
| Msa1246470 | Msa1287400 | 0.835676 | 1.460569e-56 | -8.615850e-47 |
| Msa1246470 | Msa1420060 | 0.800853 | 1.185970e-48 | -8.615850e-47 |
| Msa1246470 | Msa1421550 | 0.802168 | 6.376408e-49 | -8.615850e-47 |
| Msa1041530 | Msa1246470 | 0.825660 | 4.151704e-54 | -8.615850e-47 |
| Msa1081570 | Msa1246470 | 0.820083 | 8.271128e-53 | -8.615850e-47 |
| Msa1127140 | Msa1246470 | 0.823512 | 1.331137e-53 | -8.615850e-47 |
| Msa1129960 | Msa1246470 | 0.808679 | 2.750815e-50 | -8.615850e-47 |
| Msa1129970 | Msa1246470 | 0.810994 | 8.738700e-51 | -8.615850e-47 |
| Msa1166400 | Msa1246470 | 0.821881 | 3.189592e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1246470 | MtrunA17_Chr2g0298491 | 35.821 | 134 | 77 | 5 | 1 | 127 | 1 | 132 | 1.74e-14 | 65.1 |
| Msa1246470 | MtrunA17_Chr2g0298331 | 32.331 | 133 | 80 | 4 | 1 | 127 | 1 | 129 | 5.16e-13 | 61.2 |
| Msa1246470 | MtrunA17_Chr2g0298321 | 35.338 | 133 | 75 | 7 | 1 | 127 | 1 | 128 | 2.82e-12 | 59.3 |
| Msa1246470 | MtrunA17_Chr2g0298351 | 33.071 | 127 | 76 | 5 | 7 | 127 | 3 | 126 | 2.17e-11 | 57.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCACAACAGATTTGCATAAA+TGG | 0.197881 | 8_2:+37798039 | Msa1246470:CDS |
| CTTTACTGATATTATGTTAA+AGG | 0.221893 | 8_2:-37797690 | None:intergenic |
| AATATTATGTTTAATTATAA+AGG | 0.231984 | 8_2:-37798207 | None:intergenic |
| GCCATGAAACAACAATTCTT+TGG | 0.256444 | 8_2:-37797715 | None:intergenic |
| CAGATTTGCATAAATGGATT+TGG | 0.269049 | 8_2:+37798045 | Msa1246470:CDS |
| TCCAAAGAATTGTTGTTTCA+TGG | 0.276843 | 8_2:+37797714 | Msa1246470:exon |
| GACATCTAGATTGCACAAAT+AGG | 0.327131 | 8_2:-37797906 | None:intergenic |
| GAAAGACAATTATGTTGGTC+AGG | 0.400650 | 8_2:-37797928 | None:intergenic |
| ACATCTAGATTGCACAAATA+GGG | 0.428059 | 8_2:-37797905 | None:intergenic |
| TACACACAAAGACACTTAAT+CGG | 0.445050 | 8_2:-37798171 | None:intergenic |
| TAGATTGCACTCAGCAGAGC+AGG | 0.480112 | 8_2:-37798070 | None:intergenic |
| TCAAAGTGTAAGAACAAATA+CGG | 0.506661 | 8_2:+37798105 | Msa1246470:CDS |
| AATTTGAAAGACAATTATGT+TGG | 0.529644 | 8_2:-37797933 | None:intergenic |
| AAATACGGTGGACCTCGTAC+TGG | 0.555797 | 8_2:+37798120 | Msa1246470:CDS |
| ACAGTGGAATTCATAGCAGA+AGG | 0.572584 | 8_2:+37797871 | Msa1246470:intron |
| TACGGTGGACCTCGTACTGG+TGG | 0.588057 | 8_2:+37798123 | Msa1246470:CDS |
| ATATGTAACTCAAATGTACC+TGG | 0.597283 | 8_2:+37798147 | Msa1246470:CDS |
| CAAAGACACTTAATCGGACC+AGG | 0.601774 | 8_2:-37798165 | None:intergenic |
| CCATTTATGCAAATCTGTTG+TGG | 0.611972 | 8_2:-37798039 | None:intergenic |
| GATTGCACAAATAGGGAACA+TGG | 0.649315 | 8_2:-37797898 | None:intergenic |
| AAGTGTAAGAACAAATACGG+TGG | 0.715335 | 8_2:+37798108 | Msa1246470:CDS |
| TTACATATTCCACCAGTACG+AGG | 0.722086 | 8_2:-37798132 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTGATGAAATATATCATTTA+TGG | - | chr8_2:37797811-37797830 | None:intergenic | 15.0% |
| !!! | TTTTTTTCTAATTAATTTGC+TGG | + | chr8_2:37797845-37797864 | Msa1246470:intron | 15.0% |
| !! | CTTTACTGATATTATGTTAA+AGG | - | chr8_2:37797693-37797712 | None:intergenic | 20.0% |
| !!! | ACAAAAAAGTAGAAAGATTT+TGG | - | chr8_2:37797751-37797770 | None:intergenic | 20.0% |
| !! | AATTTGAAAGACAATTATGT+TGG | - | chr8_2:37797936-37797955 | None:intergenic | 20.0% |
| !!! | ATCTTTCTACTTTTTTGTTG+TGG | + | chr8_2:37797753-37797772 | Msa1246470:CDS | 25.0% |
| ! | TCAAAGTGTAAGAACAAATA+CGG | + | chr8_2:37798105-37798124 | Msa1246470:CDS | 25.0% |
| !! | TCCAAAGAATTGTTGTTTCA+TGG | + | chr8_2:37797714-37797733 | Msa1246470:exon | 30.0% |
| !! | AGTAGAAAGATTTTGGAGAA+TGG | - | chr8_2:37797744-37797763 | None:intergenic | 30.0% |
| !! | ATTAATTTGCTGGTTTACAG+TGG | + | chr8_2:37797855-37797874 | Msa1246470:intron | 30.0% |
| ACATCTAGATTGCACAAATA+GGG | - | chr8_2:37797908-37797927 | None:intergenic | 30.0% | |
| TCCAAATTCAAAAATGTCTC+TGG | + | chr8_2:37797961-37797980 | Msa1246470:CDS | 30.0% | |
| CCAAATTCAAAAATGTCTCT+GGG | + | chr8_2:37797962-37797981 | Msa1246470:CDS | 30.0% | |
| ! | CAGATTTGCATAAATGGATT+TGG | + | chr8_2:37798045-37798064 | Msa1246470:CDS | 30.0% |
| ATATGTAACTCAAATGTACC+TGG | + | chr8_2:37798147-37798166 | Msa1246470:CDS | 30.0% | |
| TACACACAAAGACACTTAAT+CGG | - | chr8_2:37798174-37798193 | None:intergenic | 30.0% | |
| GCCATGAAACAACAATTCTT+TGG | - | chr8_2:37797718-37797737 | None:intergenic | 35.0% | |
| GACATCTAGATTGCACAAAT+AGG | - | chr8_2:37797909-37797928 | None:intergenic | 35.0% | |
| GAAAGACAATTATGTTGGTC+AGG | - | chr8_2:37797931-37797950 | None:intergenic | 35.0% | |
| ! | CCCAGAGACATTTTTGAATT+TGG | - | chr8_2:37797965-37797984 | None:intergenic | 35.0% |
| CGTCAAAAAAACATGTGCAT+TGG | - | chr8_2:37798008-37798027 | None:intergenic | 35.0% | |
| CCATTTATGCAAATCTGTTG+TGG | - | chr8_2:37798042-37798061 | None:intergenic | 35.0% | |
| CCACAACAGATTTGCATAAA+TGG | + | chr8_2:37798039-37798058 | Msa1246470:CDS | 35.0% | |
| AAGTGTAAGAACAAATACGG+TGG | + | chr8_2:37798108-37798127 | Msa1246470:CDS | 35.0% | |
| ACAGTGGAATTCATAGCAGA+AGG | + | chr8_2:37797871-37797890 | Msa1246470:intron | 40.0% | |
| GATTGCACAAATAGGGAACA+TGG | - | chr8_2:37797901-37797920 | None:intergenic | 40.0% | |
| TTACATATTCCACCAGTACG+AGG | - | chr8_2:37798135-37798154 | None:intergenic | 40.0% | |
| CAAAGACACTTAATCGGACC+AGG | - | chr8_2:37798168-37798187 | None:intergenic | 45.0% | |
| !! | AATATTATGTTTAATTATAA+AGG | - | chr8_2:37798210-37798229 | None:intergenic | 5.0% |
| TAGATTGCACTCAGCAGAGC+AGG | - | chr8_2:37798073-37798092 | None:intergenic | 50.0% | |
| AAATACGGTGGACCTCGTAC+TGG | + | chr8_2:37798120-37798139 | Msa1246470:CDS | 50.0% | |
| TACGGTGGACCTCGTACTGG+TGG | + | chr8_2:37798123-37798142 | Msa1246470:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 37797680 | 37798247 | 37797680 | ID=Msa1246470;Name=Msa1246470 |
| chr8_2 | mRNA | 37797680 | 37798247 | 37797680 | ID=Msa1246470-mRNA-1;Parent=Msa1246470;Name=Msa1246470-mRNA-1;_AED=0.00;_eAED=0.00;_QI=53|1|1|1|0|0.5|2|50|127 |
| chr8_2 | exon | 37797680 | 37797793 | 37797680 | ID=Msa1246470-mRNA-1:exon:11866;Parent=Msa1246470-mRNA-1 |
| chr8_2 | exon | 37797875 | 37798247 | 37797875 | ID=Msa1246470-mRNA-1:exon:11867;Parent=Msa1246470-mRNA-1 |
| chr8_2 | five_prime_UTR | 37797680 | 37797732 | 37797680 | ID=Msa1246470-mRNA-1:five_prime_utr;Parent=Msa1246470-mRNA-1 |
| chr8_2 | CDS | 37797733 | 37797793 | 37797733 | ID=Msa1246470-mRNA-1:cds;Parent=Msa1246470-mRNA-1 |
| chr8_2 | CDS | 37797875 | 37798197 | 37797875 | ID=Msa1246470-mRNA-1:cds;Parent=Msa1246470-mRNA-1 |
| chr8_2 | three_prime_UTR | 37798198 | 37798247 | 37798198 | ID=Msa1246470-mRNA-1:three_prime_utr;Parent=Msa1246470-mRNA-1 |
| Gene Sequence |
| Protein sequence |
