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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0851620 | XP_003615340.1 | 93.407 | 91 | 6 | 0 | 1 | 91 | 1 | 91 | 5.59e-51 | 165 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0851620 | G7JYH8 | 93.407 | 91 | 6 | 0 | 1 | 91 | 1 | 91 | 2.67e-51 | 165 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0004840 | Msa0851620 | 0.840151 | 1.033604e-57 | -8.615850e-47 |
| Msa0038870 | Msa0851620 | 0.821002 | 5.087883e-53 | -8.615850e-47 |
| Msa0051860 | Msa0851620 | 0.826774 | 2.255970e-54 | -8.615850e-47 |
| Msa0068020 | Msa0851620 | 0.810081 | 1.376239e-50 | -8.615850e-47 |
| Msa0096980 | Msa0851620 | 0.836962 | 6.878375e-57 | -8.615850e-47 |
| Msa0118540 | Msa0851620 | 0.805206 | 1.492809e-49 | -8.615850e-47 |
| Msa0673470 | Msa0851620 | 0.816917 | 4.318824e-52 | -8.615850e-47 |
| Msa0811430 | Msa0851620 | 0.996792 | 2.686585e-232 | -8.615850e-47 |
| Msa0140110 | Msa0851620 | 0.802280 | 6.045660e-49 | -8.615850e-47 |
| Msa0145010 | Msa0851620 | 0.837849 | 4.076988e-57 | -8.615850e-47 |
| Msa0190120 | Msa0851620 | 0.806791 | 6.930100e-50 | -8.615850e-47 |
| Msa0415430 | Msa0851620 | 0.803127 | 4.043214e-49 | -8.615850e-47 |
| Msa0296790 | Msa0851620 | 0.801241 | 9.878753e-49 | -8.615850e-47 |
| Msa0296920 | Msa0851620 | 0.800865 | 1.179066e-48 | -8.615850e-47 |
| Msa0485850 | Msa0851620 | 0.802189 | 6.312433e-49 | -8.615850e-47 |
| Msa0591710 | Msa0851620 | 0.804943 | 1.694626e-49 | -8.615850e-47 |
| Msa0594910 | Msa0851620 | 0.802089 | 6.618643e-49 | -8.615850e-47 |
| Msa0851620 | Msa0993240 | 0.803132 | 4.033015e-49 | -8.615850e-47 |
| Msa0851620 | Msa1043050 | 0.808646 | 2.796192e-50 | -8.615850e-47 |
| Msa0851620 | Msa1150710 | 0.807998 | 3.843437e-50 | -8.615850e-47 |
| Msa0851620 | Msa1176360 | 0.808522 | 2.971644e-50 | -8.615850e-47 |
| Msa0851620 | Msa1176980 | 0.804720 | 1.886279e-49 | -8.615850e-47 |
| Msa0851620 | Msa1233850 | 0.802021 | 6.836159e-49 | -8.615850e-47 |
| Msa0851620 | Msa1272620 | 0.811861 | 5.663289e-51 | -8.615850e-47 |
| Msa0851620 | Msa1423910 | 0.834288 | 3.268864e-56 | -8.615850e-47 |
| Msa0851620 | Msa1448630 | 0.809145 | 2.187231e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0851620 | MtrunA17_Chr5g0427841 | 93.407 | 91 | 6 | 0 | 1 | 91 | 1 | 91 | 5.14e-55 | 165 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0851620 | AT2G38465.1 | 59.420 | 69 | 28 | 0 | 19 | 87 | 13 | 81 | 1.94e-22 | 83.2 |
Find 13 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GATAATGTTAGAAGACTTAA+AGG | 0.245207 | 5_4:-41990384 | None:intergenic |
| AATCACAACAAAACTTCTTT+TGG | 0.285814 | 5_4:+41990572 | Msa0851620:CDS |
| GTCGGTGAACAATTGCTAAA+TGG | 0.339976 | 5_4:+41990340 | None:intergenic |
| ATATATATTTCATCTCTATA+AGG | 0.409482 | 5_4:+41990496 | Msa0851620:five_prime_UTR |
| CATTAATTTAATTAACTATG+AGG | 0.415967 | 5_4:-41990911 | None:intergenic |
| CTGCTGAACATATCAAGAAT+AGG | 0.429170 | 5_4:+41990879 | Msa0851620:CDS |
| AAAAGTTTCTTGTATAGAAA+CGG | 0.456929 | 5_4:-41990627 | None:intergenic |
| AAAAGTAGCTATGGAAGAGA+TGG | 0.471774 | 5_4:+41990523 | Msa0851620:exon |
| ATCTATAAAAGAAGGACAAA+TGG | 0.481664 | 5_4:+41990424 | Msa0851620:five_prime_UTR |
| TAAGGCAATAAAAGTAGCTA+TGG | 0.485068 | 5_4:+41990514 | Msa0851620:exon |
| AAAGTAGCTATGGAAGAGAT+GGG | 0.580832 | 5_4:+41990524 | Msa0851620:exon |
| GGCTTCAAAGAAACAAGTTG+AGG | 0.622095 | 5_4:+41990847 | Msa0851620:CDS |
| AGCAAGTGAAGCTGAACTTG+AGG | 0.634101 | 5_4:+41990826 | Msa0851620:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTATTTATCTATAAAAGA+AGG | + | chr5_4:41990416-41990435 | Msa0851620:five_prime_UTR | 10.0% |
| !! | ATATATATTTCATCTCTATA+AGG | + | chr5_4:41990496-41990515 | Msa0851620:five_prime_UTR | 15.0% |
| !! | CATTAATTTAATTAACTATG+AGG | - | chr5_4:41990914-41990933 | None:intergenic | 15.0% |
| !! | AAAAGTTTCTTGTATAGAAA+CGG | - | chr5_4:41990630-41990649 | None:intergenic | 20.0% |
| !! | AAATAAGTAGTAGCTAAAAA+TGG | - | chr5_4:41990712-41990731 | None:intergenic | 20.0% |
| ! | GATAATGTTAGAAGACTTAA+AGG | - | chr5_4:41990387-41990406 | None:intergenic | 25.0% |
| ! | ATCTATAAAAGAAGGACAAA+TGG | + | chr5_4:41990424-41990443 | Msa0851620:five_prime_UTR | 25.0% |
| !!! | AAAGAAGTTTTGTTGTGATT+TGG | - | chr5_4:41990572-41990591 | None:intergenic | 25.0% |
| !! | AATCACAACAAAACTTCTTT+TGG | + | chr5_4:41990572-41990591 | Msa0851620:CDS | 25.0% |
| ! | TAGTAGCTAAAAATGGAAAA+GGG | - | chr5_4:41990705-41990724 | None:intergenic | 25.0% |
| ! | GAATTGGTGTGAAAAAAAAT+AGG | + | chr5_4:41990772-41990791 | Msa0851620:intron | 25.0% |
| ! | TATAACTGCAAAAAATGAGA+AGG | + | chr5_4:41990802-41990821 | Msa0851620:CDS | 25.0% |
| TAAGGCAATAAAAGTAGCTA+TGG | + | chr5_4:41990514-41990533 | Msa0851620:exon | 30.0% | |
| !!! | TATGCAAAAGCCTTTTTTGT+CGG | + | chr5_4:41990653-41990672 | Msa0851620:CDS | 30.0% |
| !! | AAATGGAAAAGGGTTGTTTT+TGG | - | chr5_4:41990695-41990714 | None:intergenic | 30.0% |
| GTAGTAGCTAAAAATGGAAA+AGG | - | chr5_4:41990706-41990725 | None:intergenic | 30.0% | |
| ATCAAACAAGGCAATTTCAA+AGG | - | chr5_4:41990748-41990767 | None:intergenic | 30.0% | |
| AAAAGAAAAACACTTGCATG+AGG | - | chr5_4:41991020-41991039 | None:intergenic | 30.0% | |
| ! | ATGCAAGTGTTTTTCTTTTC+TGG | + | chr5_4:41991021-41991040 | Msa0851620:three_prime_UTR | 30.0% |
| AAAAGTAGCTATGGAAGAGA+TGG | + | chr5_4:41990523-41990542 | Msa0851620:exon | 35.0% | |
| AAAGTAGCTATGGAAGAGAT+GGG | + | chr5_4:41990524-41990543 | Msa0851620:exon | 35.0% | |
| !! | GTTTTGTTGTGATTTGGCAA+AGG | - | chr5_4:41990566-41990585 | None:intergenic | 35.0% |
| AATTACCTGACCGACAAAAA+AGG | - | chr5_4:41990666-41990685 | None:intergenic | 35.0% | |
| !! | GAAATTGCCTTGTTTGATTG+AGG | + | chr5_4:41990750-41990769 | Msa0851620:intron | 35.0% |
| ACCAATTCCTCAATCAAACA+AGG | - | chr5_4:41990760-41990779 | None:intergenic | 35.0% | |
| CTGCTGAACATATCAAGAAT+AGG | + | chr5_4:41990879-41990898 | Msa0851620:CDS | 35.0% | |
| !!! | AAAAGCCTTTTTTGTCGGTC+AGG | + | chr5_4:41990658-41990677 | Msa0851620:CDS | 40.0% |
| !! | GCCTTGTTTGATTGAGGAAT+TGG | + | chr5_4:41990756-41990775 | Msa0851620:intron | 40.0% |
| GGCTTCAAAGAAACAAGTTG+AGG | + | chr5_4:41990847-41990866 | Msa0851620:CDS | 40.0% | |
| AGCAAGTGAAGCTGAACTTG+AGG | + | chr5_4:41990826-41990845 | Msa0851620:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_4 | gene | 41990345 | 41991081 | 41990345 | ID=Msa0851620;Name=Msa0851620 |
| chr5_4 | mRNA | 41990345 | 41991081 | 41990345 | ID=Msa0851620-mRNA-1;Parent=Msa0851620;Name=Msa0851620-mRNA-1;_AED=0.08;_eAED=0.08;_QI=188|1|1|1|1|1|2|159|91 |
| chr5_4 | exon | 41990345 | 41990679 | 41990345 | ID=Msa0851620-mRNA-1:exon:13338;Parent=Msa0851620-mRNA-1 |
| chr5_4 | exon | 41990794 | 41991081 | 41990794 | ID=Msa0851620-mRNA-1:exon:13339;Parent=Msa0851620-mRNA-1 |
| chr5_4 | five_prime_UTR | 41990345 | 41990532 | 41990345 | ID=Msa0851620-mRNA-1:five_prime_utr;Parent=Msa0851620-mRNA-1 |
| chr5_4 | CDS | 41990533 | 41990679 | 41990533 | ID=Msa0851620-mRNA-1:cds;Parent=Msa0851620-mRNA-1 |
| chr5_4 | CDS | 41990794 | 41990922 | 41990794 | ID=Msa0851620-mRNA-1:cds;Parent=Msa0851620-mRNA-1 |
| chr5_4 | three_prime_UTR | 41990923 | 41991081 | 41990923 | ID=Msa0851620-mRNA-1:three_prime_utr;Parent=Msa0851620-mRNA-1 |
| Gene Sequence |
| Protein sequence |
