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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0840740 | GAU31486.1 | 59.633 | 109 | 36 | 1 | 2 | 102 | 111 | 219 | 1.81e-24 | 104 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0840740 | A0A2Z6MFJ5 | 59.633 | 109 | 36 | 1 | 2 | 102 | 111 | 219 | 8.64e-25 | 104 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0054260 | Msa0840740 | 0.800992 | 1.110729e-48 | -8.615850e-47 |
| Msa0100090 | Msa0840740 | 0.801607 | 8.313616e-49 | -8.615850e-47 |
| Msa0627410 | Msa0840740 | 0.803956 | 2.721062e-49 | -8.615850e-47 |
| Msa0657970 | Msa0840740 | 0.817988 | 2.478352e-52 | -8.615850e-47 |
| Msa0661870 | Msa0840740 | 0.808343 | 3.245650e-50 | -8.615850e-47 |
| Msa0766630 | Msa0840740 | 0.836648 | 8.275625e-57 | -8.615850e-47 |
| Msa0840740 | Msa0840750 | 0.807075 | 6.035121e-50 | -8.615850e-47 |
| Msa0840740 | Msa0842650 | 0.809226 | 2.100760e-50 | -8.615850e-47 |
| Msa0840740 | Msa0885280 | 0.813245 | 2.821423e-51 | -8.615850e-47 |
| Msa0840740 | Msa0897880 | 0.807404 | 5.139986e-50 | -8.615850e-47 |
| Msa0840740 | Msa0898390 | 0.803760 | 2.988835e-49 | -8.615850e-47 |
| Msa0840740 | Msa0907070 | 0.819543 | 1.099156e-52 | -8.615850e-47 |
| Msa0840740 | Msa0909120 | 0.821171 | 4.653830e-53 | -8.615850e-47 |
| Msa0840740 | Msa0935910 | 0.811703 | 6.130039e-51 | -8.615850e-47 |
| Msa0840740 | Msa0954910 | 0.811007 | 8.683449e-51 | -8.615850e-47 |
| Msa0840740 | Msa0983090 | 0.818701 | 1.708379e-52 | -8.615850e-47 |
| Msa0840740 | Msa1002320 | 0.803153 | 3.993193e-49 | -8.615850e-47 |
| Msa0840740 | Msa1081590 | 0.804630 | 1.970137e-49 | -8.615850e-47 |
| Msa0840740 | Msa1082500 | 0.832259 | 1.046665e-55 | -8.615850e-47 |
| Msa0840740 | Msa1092390 | 0.803436 | 3.489123e-49 | -8.615850e-47 |
| Msa0840740 | Msa1136090 | 0.826537 | 2.569693e-54 | -8.615850e-47 |
| Msa0840740 | Msa1137690 | 0.835866 | 1.307396e-56 | -8.615850e-47 |
| Msa0840740 | Msa1195920 | 0.808073 | 3.703902e-50 | -8.615850e-47 |
| Msa0840740 | Msa1249490 | 0.806375 | 8.482157e-50 | -8.615850e-47 |
| Msa0840740 | Msa1283860 | 0.810085 | 1.373526e-50 | -8.615850e-47 |
| Msa0840740 | Msa1284680 | 0.818171 | 2.252490e-52 | -8.615850e-47 |
| Msa0840740 | Msa1308580 | 0.823168 | 1.601831e-53 | -8.615850e-47 |
| Msa0840740 | Msa1308620 | 0.824169 | 9.334212e-54 | -8.615850e-47 |
| Msa0153910 | Msa0840740 | 0.830346 | 3.093656e-55 | -8.615850e-47 |
| Msa0233300 | Msa0840740 | 0.842502 | 2.486220e-58 | -8.615850e-47 |
| Msa0414230 | Msa0840740 | 0.807786 | 4.264299e-50 | -8.615850e-47 |
| Msa0431690 | Msa0840740 | 0.818936 | 1.510856e-52 | -8.615850e-47 |
| Msa0435230 | Msa0840740 | 0.806610 | 7.566197e-50 | -8.615850e-47 |
| Msa0456200 | Msa0840740 | 0.804151 | 2.478322e-49 | -8.615850e-47 |
| Msa0479340 | Msa0840740 | 0.820979 | 5.151515e-53 | -8.615850e-47 |
| Msa0326200 | Msa0840740 | 0.810044 | 1.401898e-50 | -8.615850e-47 |
| Msa0484780 | Msa0840740 | 0.812229 | 4.708557e-51 | -8.615850e-47 |
| Msa0512900 | Msa0840740 | 0.811247 | 7.703582e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0840740 | MtrunA17_Chr7g0246491 | 42.000 | 150 | 38 | 3 | 1 | 102 | 233 | 381 | 4.91e-24 | 94.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 10 sgRNAs with CRISPR-Local
Find 20 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTCAATGTGTTATTGTCATA+TGG | 0.391076 | 5_4:+16583000 | Msa0840740:CDS |
| TTGAACCACCGACAATAATC+AGG | 0.435822 | 5_4:+16583058 | Msa0840740:CDS |
| CAGGAAAAGAATCAAACAAT+CGG | 0.500908 | 5_4:+16583077 | Msa0840740:CDS |
| CTTGTAAGGTCATGGTTTCG+AGG | 0.546514 | 5_4:-16583124 | None:intergenic |
| CGGTTTATGGATATTCTCGA+GGG | 0.568582 | 5_4:+16582687 | None:intergenic |
| ACGGTTTATGGATATTCTCG+AGG | 0.576657 | 5_4:+16582686 | None:intergenic |
| GAAACAAAAGCAGCTCAATG+AGG | 0.629844 | 5_4:-16583023 | None:intergenic |
| TGTACTCATGATAGTGTGAG+AGG | 0.632071 | 5_4:+16582952 | Msa0840740:CDS |
| AAACAATCGGATAATCAAGA+CGG | 0.648509 | 5_4:+16583090 | Msa0840740:CDS |
| TAGTGTGAGAGGCAACACAG+AGG | 0.797817 | 5_4:+16582963 | Msa0840740:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATCAGTTTTCATCTAAATTA+CGG | + | chr5_4:16582733-16582752 | Msa0840740:CDS | 20.0% |
| ! | GGAATATTCAATAAATCCAT+TGG | + | chr5_4:16582858-16582877 | Msa0840740:intron | 25.0% |
| !! | ATTCTTTTCCTGATTATTGT+CGG | - | chr5_4:16583069-16583088 | None:intergenic | 25.0% |
| ! | GAAATTTTGAACGAGTGAAT+CGG | + | chr5_4:16582795-16582814 | Msa0840740:intron | 30.0% |
| ATACTCGCTTATGATATTGA+GGG | + | chr5_4:16582924-16582943 | Msa0840740:intron | 30.0% | |
| ! | GTCAATGTGTTATTGTCATA+TGG | + | chr5_4:16583000-16583019 | Msa0840740:CDS | 30.0% |
| CAGGAAAAGAATCAAACAAT+CGG | + | chr5_4:16583077-16583096 | Msa0840740:CDS | 30.0% | |
| AAACAATCGGATAATCAAGA+CGG | + | chr5_4:16583090-16583109 | Msa0840740:CDS | 30.0% | |
| GATGTTGCGTTGTTTGTTTA+TGG | + | chr5_4:16582837-16582856 | Msa0840740:intron | 35.0% | |
| GATACTCGCTTATGATATTG+AGG | + | chr5_4:16582923-16582942 | Msa0840740:intron | 35.0% | |
| ! | ATTTTGAACGAGTGAATCGG+AGG | + | chr5_4:16582798-16582817 | Msa0840740:intron | 40.0% |
| ! | ATCTGCTGCAATGGATTTCT+TGG | + | chr5_4:16582901-16582920 | Msa0840740:intron | 40.0% |
| ! | TGTACTCATGATAGTGTGAG+AGG | + | chr5_4:16582952-16582971 | Msa0840740:CDS | 40.0% |
| GAAACAAAAGCAGCTCAATG+AGG | - | chr5_4:16583026-16583045 | None:intergenic | 40.0% | |
| TTGAACCACCGACAATAATC+AGG | + | chr5_4:16583058-16583077 | Msa0840740:CDS | 40.0% | |
| ! | CTTTTCCTGATTATTGTCGG+TGG | - | chr5_4:16583066-16583085 | None:intergenic | 40.0% |
| TGCATGCTCAAGAACTCCAA+TGG | - | chr5_4:16582877-16582896 | None:intergenic | 45.0% | |
| ATGCAGTGAATCTGCTGCAA+TGG | + | chr5_4:16582892-16582911 | Msa0840740:intron | 45.0% | |
| !!! | CGGAGGTGTCACTGTTTTGA+AGG | + | chr5_4:16582815-16582834 | Msa0840740:intron | 50.0% |
| TAGTGTGAGAGGCAACACAG+AGG | + | chr5_4:16582963-16582982 | Msa0840740:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_4 | gene | 16582693 | 16583137 | 16582693 | ID=Msa0840740;Name=Msa0840740 |
| chr5_4 | mRNA | 16582693 | 16583137 | 16582693 | ID=Msa0840740-mRNA-1;Parent=Msa0840740;Name=Msa0840740-mRNA-1;_AED=0.36;_eAED=0.40;_QI=0|0|0|1|0|0|2|0|102 |
| chr5_4 | exon | 16582693 | 16582808 | 16582693 | ID=Msa0840740-mRNA-1:exon:7139;Parent=Msa0840740-mRNA-1 |
| chr5_4 | exon | 16582945 | 16583137 | 16582945 | ID=Msa0840740-mRNA-1:exon:7140;Parent=Msa0840740-mRNA-1 |
| chr5_4 | CDS | 16582693 | 16582808 | 16582693 | ID=Msa0840740-mRNA-1:cds;Parent=Msa0840740-mRNA-1 |
| chr5_4 | CDS | 16582945 | 16583137 | 16582945 | ID=Msa0840740-mRNA-1:cds;Parent=Msa0840740-mRNA-1 |
| Gene Sequence |
| Protein sequence |
