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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0745070 | XP_003618062.1 | 74.153 | 236 | 34 | 3 | 1 | 234 | 1 | 211 | 9.51e-98 | 294 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0745070 | G7K0N6 | 74.153 | 236 | 34 | 3 | 1 | 234 | 1 | 211 | 4.54e-98 | 294 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0078830 | Msa0745070 | 0.806202 | 9.224254e-50 | -8.615850e-47 |
| Msa0708290 | Msa0745070 | 0.812497 | 4.116002e-51 | -8.615850e-47 |
| Msa0708300 | Msa0745070 | 0.808486 | 3.024281e-50 | -8.615850e-47 |
| Msa0708310 | Msa0745070 | 0.825405 | 4.773669e-54 | -8.615850e-47 |
| Msa0745070 | Msa0825870 | 0.896620 | 3.095800e-76 | -8.615850e-47 |
| Msa0745070 | Msa0865330 | 0.892285 | 1.827721e-74 | -8.615850e-47 |
| Msa0745070 | Msa0932100 | 0.813272 | 2.783837e-51 | -8.615850e-47 |
| Msa0745070 | Msa0970230 | 0.817489 | 3.211275e-52 | -8.615850e-47 |
| Msa0745070 | Msa1201200 | 0.827658 | 1.385362e-54 | -8.615850e-47 |
| Msa0745070 | Msa1236730 | 0.836553 | 8.749620e-57 | -8.615850e-47 |
| Msa0745070 | Msa1246700 | 0.869838 | 2.292983e-66 | -8.615850e-47 |
| Msa0745070 | Msa1269660 | 0.976576 | 4.318239e-142 | -8.615850e-47 |
| Msa0745070 | Msa1293760 | 0.817513 | 3.172393e-52 | -8.615850e-47 |
| Msa0745070 | Msa1317130 | 0.841319 | 5.105745e-58 | -8.615850e-47 |
| Msa0745070 | Msa1344890 | 0.827387 | 1.609177e-54 | -8.615850e-47 |
| Msa0745070 | Msa1353880 | 0.805262 | 1.453405e-49 | -8.615850e-47 |
| Msa0745070 | Msa1353890 | 0.819921 | 9.008619e-53 | -8.615850e-47 |
| Msa0745070 | Msa1365270 | 0.860523 | 1.946054e-63 | -8.615850e-47 |
| Msa0745070 | Msa1376450 | 0.873665 | 1.233137e-67 | -8.615850e-47 |
| Msa0745070 | Msa1391550 | 0.854943 | 8.789377e-62 | -8.615850e-47 |
| Msa0745070 | Msa1418280 | 0.818166 | 2.258576e-52 | -8.615850e-47 |
| Msa0133080 | Msa0745070 | 0.828158 | 1.050501e-54 | -8.615850e-47 |
| Msa0198640 | Msa0745070 | 0.853114 | 2.959843e-61 | -8.615850e-47 |
| Msa0215590 | Msa0745070 | 0.814402 | 1.569270e-51 | -8.615850e-47 |
| Msa0377800 | Msa0745070 | 0.830969 | 2.177235e-55 | -8.615850e-47 |
| Msa0426600 | Msa0745070 | 0.820026 | 8.526652e-53 | -8.615850e-47 |
| Msa0461420 | Msa0745070 | 0.804333 | 2.271995e-49 | -8.615850e-47 |
| Msa0333650 | Msa0745070 | 0.816969 | 4.204351e-52 | -8.615850e-47 |
| Msa0517570 | Msa0745070 | 0.829736 | 4.357153e-55 | -8.615850e-47 |
| Msa0524440 | Msa0745070 | 0.800303 | 1.535213e-48 | -8.615850e-47 |
| Msa0574570 | Msa0745070 | 0.848391 | 6.314610e-60 | -8.615850e-47 |
| Msa0574600 | Msa0745070 | 0.811438 | 7.000617e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0745070 | MtrunA17_Chr5g0448291 | 74.153 | 236 | 34 | 3 | 1 | 234 | 1 | 211 | 8.75e-102 | 294 |
| Msa0745070 | MtrunA17_Chr5g0448311 | 77.928 | 222 | 34 | 4 | 1 | 216 | 1 | 213 | 2.07e-84 | 250 |
| Msa0745070 | MtrunA17_Chr5g0448321 | 43.231 | 229 | 77 | 9 | 13 | 235 | 10 | 191 | 4.08e-34 | 121 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 21 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAAGAGGGAAATGCTCTTA+TGG | 0.351628 | 5_1:-66186739 | Msa0745070:CDS |
| AACTTATGGTGATAACGTTA+TGG | 0.422749 | 5_1:-66186847 | Msa0745070:CDS |
| GAGATTACAGAACCAACTTA+TGG | 0.427552 | 5_1:-66186861 | Msa0745070:CDS |
| AGTGAAGAGTTTCGTGATAG+TGG | 0.437310 | 5_1:-66186685 | Msa0745070:CDS |
| CTGATATGTAAAATTCGAAC+CGG | 0.464643 | 5_1:+66186889 | None:intergenic |
| TTGCATAAGGAATGGCTTCA+AGG | 0.464946 | 5_1:+66187061 | None:intergenic |
| CAAGAAGGATATTGCAGAGA+AGG | 0.490364 | 5_1:+66187003 | None:intergenic |
| TGATGAGTGGTTGATGAAGA+GGG | 0.490655 | 5_1:+66186948 | None:intergenic |
| AGAAGATGAAGGAAAAGAAG+AGG | 0.503671 | 5_1:-66186754 | Msa0745070:CDS |
| GAAGATGAAGGAAAAGAAGA+GGG | 0.505978 | 5_1:-66186753 | Msa0745070:CDS |
| ATAACGTTATCACCATAAGT+TGG | 0.521599 | 5_1:+66186849 | None:intergenic |
| TGTAGCTAAAGAATTGCATA+AGG | 0.524182 | 5_1:+66187048 | None:intergenic |
| TCGACAGCGACAAGAGTAAC+CGG | 0.524574 | 5_1:-66186908 | Msa0745070:CDS |
| ATTGAAGCAGAAGAAGATGA+AGG | 0.541164 | 5_1:-66186765 | Msa0745070:CDS |
| CTAAAGAATTGCATAAGGAA+TGG | 0.544450 | 5_1:+66187053 | None:intergenic |
| TTGATGAGTGGTTGATGAAG+AGG | 0.572497 | 5_1:+66186947 | None:intergenic |
| TTCAAGGACTGAGAGAGTAA+AGG | 0.580402 | 5_1:+66187077 | None:intergenic |
| ATAATGCAATAAAAGCAAGA+AGG | 0.623530 | 5_1:+66186988 | None:intergenic |
| GGTTACTCTTGTCGCTGTCG+AGG | 0.630249 | 5_1:+66186910 | None:intergenic |
| GATAGTGAAACCAGAAAATG+TGG | 0.638900 | 5_1:-66186790 | Msa0745070:CDS |
| GAAACTAAACAAGAAATGTG+AGG | 0.665023 | 5_1:-66186577 | Msa0745070:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTCTTCATTTTCTTCAATTT+GGG | + | chr5_1:66186933-66186952 | None:intergenic | 20.0% |
| !! | TTTATCAAAAAAATGAAAGC+TGG | - | chr5_1:66187085-66187104 | Msa0745070:CDS | 20.0% |
| ! | ATAATGCAATAAAAGCAAGA+AGG | + | chr5_1:66186652-66186671 | None:intergenic | 25.0% |
| !! | CAAACTATTTTCTTCTTCTT+GGG | + | chr5_1:66186825-66186844 | None:intergenic | 25.0% |
| !! | TCAAACTATTTTCTTCTTCT+TGG | + | chr5_1:66186826-66186845 | None:intergenic | 25.0% |
| !! | CTTCTTCATTTTCTTCAATT+TGG | + | chr5_1:66186934-66186953 | None:intergenic | 25.0% |
| CTAAAGAATTGCATAAGGAA+TGG | + | chr5_1:66186587-66186606 | None:intergenic | 30.0% | |
| TGTAGCTAAAGAATTGCATA+AGG | + | chr5_1:66186592-66186611 | None:intergenic | 30.0% | |
| !!! | ATGTTCAATGTTTTGATGAG+TGG | + | chr5_1:66186705-66186724 | None:intergenic | 30.0% |
| CTGATATGTAAAATTCGAAC+CGG | + | chr5_1:66186751-66186770 | None:intergenic | 30.0% | |
| ATAACGTTATCACCATAAGT+TGG | + | chr5_1:66186791-66186810 | None:intergenic | 30.0% | |
| ! | AACTTATGGTGATAACGTTA+TGG | - | chr5_1:66186790-66186809 | Msa0745070:CDS | 30.0% |
| ! | AGAAGAAGAAGTACAAAAAG+AGG | - | chr5_1:66187000-66187019 | Msa0745070:CDS | 30.0% |
| ! | GAAGAAGAAGTACAAAAAGA+GGG | - | chr5_1:66187001-66187020 | Msa0745070:CDS | 30.0% |
| GAAACTAAACAAGAAATGTG+AGG | - | chr5_1:66187060-66187079 | Msa0745070:CDS | 30.0% | |
| GAGATTACAGAACCAACTTA+TGG | - | chr5_1:66186776-66186795 | Msa0745070:CDS | 35.0% | |
| GATAGTGAAACCAGAAAATG+TGG | - | chr5_1:66186847-66186866 | Msa0745070:CDS | 35.0% | |
| ! | GCTTCAATAACCACATTTTC+TGG | + | chr5_1:66186860-66186879 | None:intergenic | 35.0% |
| ATTGAAGCAGAAGAAGATGA+AGG | - | chr5_1:66186872-66186891 | Msa0745070:CDS | 35.0% | |
| AGAAGATGAAGGAAAAGAAG+AGG | - | chr5_1:66186883-66186902 | Msa0745070:CDS | 35.0% | |
| GAAGATGAAGGAAAAGAAGA+GGG | - | chr5_1:66186884-66186903 | Msa0745070:CDS | 35.0% | |
| TTCAAGGACTGAGAGAGTAA+AGG | + | chr5_1:66186563-66186582 | None:intergenic | 40.0% | |
| TTGCATAAGGAATGGCTTCA+AGG | + | chr5_1:66186579-66186598 | None:intergenic | 40.0% | |
| CAAGAAGGATATTGCAGAGA+AGG | + | chr5_1:66186637-66186656 | None:intergenic | 40.0% | |
| !! | TGATGAGTGGTTGATGAAGA+GGG | + | chr5_1:66186692-66186711 | None:intergenic | 40.0% |
| !! | TTGATGAGTGGTTGATGAAG+AGG | + | chr5_1:66186693-66186712 | None:intergenic | 40.0% |
| AGAAGAGGGAAATGCTCTTA+TGG | - | chr5_1:66186898-66186917 | Msa0745070:CDS | 40.0% | |
| AGTGAAGAGTTTCGTGATAG+TGG | - | chr5_1:66186952-66186971 | Msa0745070:CDS | 40.0% | |
| TCGACAGCGACAAGAGTAAC+CGG | - | chr5_1:66186729-66186748 | Msa0745070:CDS | 50.0% | |
| GGTTACTCTTGTCGCTGTCG+AGG | + | chr5_1:66186730-66186749 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_1 | gene | 66186476 | 66187183 | 66186476 | ID=Msa0745070;Name=Msa0745070 |
| chr5_1 | mRNA | 66186476 | 66187183 | 66186476 | ID=Msa0745070-mRNA-1;Parent=Msa0745070;Name=Msa0745070-mRNA-1;_AED=0.17;_eAED=0.17;_QI=0|-1|0|1|-1|1|1|0|235 |
| chr5_1 | exon | 66186476 | 66187183 | 66186476 | ID=Msa0745070-mRNA-1:exon:19744;Parent=Msa0745070-mRNA-1 |
| chr5_1 | CDS | 66186476 | 66187183 | 66186476 | ID=Msa0745070-mRNA-1:cds;Parent=Msa0745070-mRNA-1 |
| Gene Sequence |
| Protein sequence |
