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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0024160 | KEH40380.1 | 76.415 | 106 | 24 | 1 | 1 | 106 | 159 | 263 | 5.22e-48 | 166 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0009610 | Msa0024160 | 0.830084 | 3.584672e-55 | -8.615850e-47 |
| Msa0020330 | Msa0024160 | 0.810540 | 1.095875e-50 | -8.615850e-47 |
| Msa0024160 | Msa0059510 | 0.857313 | 1.777535e-62 | -8.615850e-47 |
| Msa0024160 | Msa0059530 | 0.819324 | 1.233265e-52 | -8.615850e-47 |
| Msa0024160 | Msa0629880 | 0.803207 | 3.892847e-49 | -8.615850e-47 |
| Msa0024160 | Msa0752580 | 0.801522 | 8.652872e-49 | -8.615850e-47 |
| Msa0024160 | Msa1135660 | 0.808161 | 3.547943e-50 | -8.615850e-47 |
| Msa0024160 | Msa1232130 | 0.844101 | 9.311006e-59 | -8.615850e-47 |
| Msa0024160 | Msa1232180 | 0.807575 | 4.726969e-50 | -8.615850e-47 |
| Msa0024160 | Msa1287700 | 0.818385 | 2.014807e-52 | -8.615850e-47 |
| Msa0024160 | Msa1464100 | 0.893253 | 7.466183e-75 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0024160 | MtrunA17_Chr1g0158631 | 76.415 | 106 | 24 | 1 | 1 | 106 | 159 | 263 | 5.53e-50 | 167 |
| Msa0024160 | MtrunA17_Chr1g0158661 | 74.528 | 106 | 26 | 1 | 1 | 106 | 152 | 256 | 2.09e-48 | 163 |
| Msa0024160 | MtrunA17_Chr1g0158571 | 63.830 | 94 | 30 | 2 | 13 | 106 | 1 | 90 | 1.97e-32 | 118 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 34 sgRNAs with CRISPR-Local
Find 96 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGTTACTCTCACATCCTTC+TGG | 0.271931 | 1_1:+46362427 | Msa0024160:CDS |
| GCTATGGATTTGAAATTTCC+TGG | 0.305840 | 1_1:+46363078 | Msa0024160:CDS |
| AAACCCACAACTTGGAATAT+TGG | 0.322800 | 1_1:+46362383 | Msa0024160:CDS |
| TGTTACTCTCACATCCTTCT+GGG | 0.367632 | 1_1:+46362428 | Msa0024160:CDS |
| AGGGGAGGATATAACATTAT+AGG | 0.375008 | 1_1:+46362468 | Msa0024160:CDS |
| CACAACATATATGTAATTGT+TGG | 0.401837 | 1_1:+46362360 | Msa0024160:CDS |
| GGGGAGCATATACTTACATC+AGG | 0.453660 | 1_1:+46362448 | Msa0024160:CDS |
| GGCTCCAATATTCCAAGTTG+TGG | 0.468868 | 1_1:-46362387 | None:intergenic |
| TACATATCCACAACGTTACT+AGG | 0.473319 | 1_1:-46362306 | None:intergenic |
| ATTGTTGGAAACCCACAACT+TGG | 0.474548 | 1_1:+46362375 | Msa0024160:CDS |
| GCATTGATCACAATGACAAA+AGG | 0.483273 | 1_1:-46363108 | None:intergenic |
| ATTCAGAAGGCACTAGGCTA+TGG | 0.492318 | 1_1:+46363062 | Msa0024160:CDS |
| GCTCCAATATTCCAAGTTGT+GGG | 0.494268 | 1_1:-46362386 | None:intergenic |
| ATGACAAAAGGGTTGCATCC+AGG | 0.518026 | 1_1:-46363096 | None:intergenic |
| TGCGGATACAACTTCATGCA+TGG | 0.520666 | 1_1:+46362332 | Msa0024160:CDS |
| TGCTACCTCAAGGACCCTAC+TGG | 0.532171 | 1_1:+46363128 | Msa0024160:CDS |
| CATTGATCACAATGACAAAA+GGG | 0.540429 | 1_1:-46363107 | None:intergenic |
| AACACTGAATCTCGCCAGTA+GGG | 0.577783 | 1_1:-46363142 | None:intergenic |
| TAACACTGAATCTCGCCAGT+AGG | 0.586767 | 1_1:-46363143 | None:intergenic |
| GCGGATACAACTTCATGCAT+GGG | 0.595465 | 1_1:+46362333 | Msa0024160:CDS |
| GTTACTCTCACATCCTTCTG+GGG | 0.604732 | 1_1:+46362429 | Msa0024160:CDS |
| TCTCGCCAGTAGGGTCCTTG+AGG | 0.613174 | 1_1:-46363133 | None:intergenic |
| ATCATACATCGATATTCAGA+AGG | 0.615231 | 1_1:+46363049 | Msa0024160:CDS |
| TTGTGATCAATGCTACCTCA+AGG | 0.625096 | 1_1:+46363118 | Msa0024160:CDS |
| ATCGATATTCAGAAGGCACT+AGG | 0.625875 | 1_1:+46363056 | Msa0024160:CDS |
| AAGTCCACCTAGTAACGTTG+TGG | 0.633982 | 1_1:+46362299 | Msa0024160:CDS |
| CGTTGTGGATATGTATTATG+CGG | 0.639742 | 1_1:+46362314 | Msa0024160:CDS |
| GTAAGTATATGCTCCCCAGA+AGG | 0.641943 | 1_1:-46362442 | None:intergenic |
| GGGAGCATATACTTACATCA+GGG | 0.649036 | 1_1:+46362449 | Msa0024160:CDS |
| GCATATACTTACATCAGGGG+AGG | 0.651355 | 1_1:+46362453 | Msa0024160:CDS |
| ATATCCACAACGTTACTAGG+TGG | 0.679995 | 1_1:-46362303 | None:intergenic |
| ACAAGCTTAACACGGCATTG+AGG | 0.681882 | 1_1:-46362408 | None:intergenic |
| TGAGAGTAACAAGCTTAACA+CGG | 0.706562 | 1_1:-46362416 | None:intergenic |
| GGAGCATATACTTACATCAG+GGG | 0.716060 | 1_1:+46362450 | Msa0024160:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATTTCTTTTTTTTTTTTCA+TGG | - | chr1_1:46362720-46362739 | None:intergenic | 10.0% |
| !!! | AATTTCTTTTTTTTTTTTCA+TGG | - | chr1_1:46362720-46362739 | None:intergenic | 10.0% |
| !! | TTTATTTACACTTGAATAGA+AGG | + | chr1_1:46362888-46362907 | Msa0024160:intron | 20.0% |
| !!! | ATTGATTTTGTCATCTAAAA+AGG | - | chr1_1:46362942-46362961 | None:intergenic | 20.0% |
| !! | TATAGACAAAAAAATCTACA+CGG | - | chr1_1:46363003-46363022 | None:intergenic | 20.0% |
| !! | TTTATTTACACTTGAATAGA+AGG | + | chr1_1:46362888-46362907 | Msa0024160:intron | 20.0% |
| !!! | ATTGATTTTGTCATCTAAAA+AGG | - | chr1_1:46362942-46362961 | None:intergenic | 20.0% |
| !! | TATAGACAAAAAAATCTACA+CGG | - | chr1_1:46363003-46363022 | None:intergenic | 20.0% |
| ! | CACAACATATATGTAATTGT+TGG | + | chr1_1:46362360-46362379 | Msa0024160:CDS | 25.0% |
| ! | ATATAGTCAAATTGAGTCAT+TGG | - | chr1_1:46362524-46362543 | None:intergenic | 25.0% |
| ! | TTTGACTATATCACTATTGA+TGG | + | chr1_1:46362533-46362552 | Msa0024160:intron | 25.0% |
| ! | GACGATATACAATATATTGT+CGG | + | chr1_1:46362590-46362609 | Msa0024160:intron | 25.0% |
| ! | CACAACATATATGTAATTGT+TGG | + | chr1_1:46362360-46362379 | Msa0024160:CDS | 25.0% |
| ! | ATATAGTCAAATTGAGTCAT+TGG | - | chr1_1:46362524-46362543 | None:intergenic | 25.0% |
| ! | TTTGACTATATCACTATTGA+TGG | + | chr1_1:46362533-46362552 | Msa0024160:intron | 25.0% |
| ! | GACGATATACAATATATTGT+CGG | + | chr1_1:46362590-46362609 | Msa0024160:intron | 25.0% |
| ACACTTGAATAGAAGGTAAA+CGG | + | chr1_1:46362895-46362914 | Msa0024160:intron | 30.0% | |
| ATCATACATCGATATTCAGA+AGG | + | chr1_1:46363049-46363068 | Msa0024160:CDS | 30.0% | |
| CATTGATCACAATGACAAAA+GGG | - | chr1_1:46363110-46363129 | None:intergenic | 30.0% | |
| ACACTTGAATAGAAGGTAAA+CGG | + | chr1_1:46362895-46362914 | Msa0024160:intron | 30.0% | |
| ATCATACATCGATATTCAGA+AGG | + | chr1_1:46363049-46363068 | Msa0024160:CDS | 30.0% | |
| CATTGATCACAATGACAAAA+GGG | - | chr1_1:46363110-46363129 | None:intergenic | 30.0% | |
| TACATATCCACAACGTTACT+AGG | - | chr1_1:46362309-46362328 | None:intergenic | 35.0% | |
| CGTTGTGGATATGTATTATG+CGG | + | chr1_1:46362314-46362333 | Msa0024160:CDS | 35.0% | |
| AAACCCACAACTTGGAATAT+TGG | + | chr1_1:46362383-46362402 | Msa0024160:CDS | 35.0% | |
| TGAGAGTAACAAGCTTAACA+CGG | - | chr1_1:46362419-46362438 | None:intergenic | 35.0% | |
| AGGGGAGGATATAACATTAT+AGG | + | chr1_1:46362468-46362487 | Msa0024160:CDS | 35.0% | |
| ! | GAGTCATTGGTTATAGAAGA+AGG | - | chr1_1:46362511-46362530 | None:intergenic | 35.0% |
| ATTGAATATCTTACGACCGA+TGG | + | chr1_1:46362737-46362756 | Msa0024160:intron | 35.0% | |
| TCATAGTTGTCCTATTCCAT+CGG | - | chr1_1:46362756-46362775 | None:intergenic | 35.0% | |
| GGAATAGGACAACTATGATA+TGG | + | chr1_1:46362758-46362777 | Msa0024160:intron | 35.0% | |
| CACTTGAATAGAAGGTAAAC+GGG | + | chr1_1:46362896-46362915 | Msa0024160:intron | 35.0% | |
| TGTCATCTAAAAAGGTCTAG+CGG | - | chr1_1:46362934-46362953 | None:intergenic | 35.0% | |
| ! | GCTATGGATTTGAAATTTCC+TGG | + | chr1_1:46363078-46363097 | Msa0024160:CDS | 35.0% |
| ! | GCATTGATCACAATGACAAA+AGG | - | chr1_1:46363111-46363130 | None:intergenic | 35.0% |
| TACATATCCACAACGTTACT+AGG | - | chr1_1:46362309-46362328 | None:intergenic | 35.0% | |
| CGTTGTGGATATGTATTATG+CGG | + | chr1_1:46362314-46362333 | Msa0024160:CDS | 35.0% | |
| AAACCCACAACTTGGAATAT+TGG | + | chr1_1:46362383-46362402 | Msa0024160:CDS | 35.0% | |
| TGAGAGTAACAAGCTTAACA+CGG | - | chr1_1:46362419-46362438 | None:intergenic | 35.0% | |
| AGGGGAGGATATAACATTAT+AGG | + | chr1_1:46362468-46362487 | Msa0024160:CDS | 35.0% | |
| ! | GAGTCATTGGTTATAGAAGA+AGG | - | chr1_1:46362511-46362530 | None:intergenic | 35.0% |
| ATTGAATATCTTACGACCGA+TGG | + | chr1_1:46362737-46362756 | Msa0024160:intron | 35.0% | |
| TCATAGTTGTCCTATTCCAT+CGG | - | chr1_1:46362756-46362775 | None:intergenic | 35.0% | |
| GGAATAGGACAACTATGATA+TGG | + | chr1_1:46362758-46362777 | Msa0024160:intron | 35.0% | |
| CACTTGAATAGAAGGTAAAC+GGG | + | chr1_1:46362896-46362915 | Msa0024160:intron | 35.0% | |
| TGTCATCTAAAAAGGTCTAG+CGG | - | chr1_1:46362934-46362953 | None:intergenic | 35.0% | |
| ! | GCTATGGATTTGAAATTTCC+TGG | + | chr1_1:46363078-46363097 | Msa0024160:CDS | 35.0% |
| ! | GCATTGATCACAATGACAAA+AGG | - | chr1_1:46363111-46363130 | None:intergenic | 35.0% |
| ATATCCACAACGTTACTAGG+TGG | - | chr1_1:46362306-46362325 | None:intergenic | 40.0% | |
| ATTGTTGGAAACCCACAACT+TGG | + | chr1_1:46362375-46362394 | Msa0024160:CDS | 40.0% | |
| GCTCCAATATTCCAAGTTGT+GGG | - | chr1_1:46362389-46362408 | None:intergenic | 40.0% | |
| TTGTTACTCTCACATCCTTC+TGG | + | chr1_1:46362427-46362446 | Msa0024160:CDS | 40.0% | |
| TGTTACTCTCACATCCTTCT+GGG | + | chr1_1:46362428-46362447 | Msa0024160:CDS | 40.0% | |
| ! | GGGAGCATATACTTACATCA+GGG | + | chr1_1:46362449-46362468 | Msa0024160:CDS | 40.0% |
| GGAGCATATACTTACATCAG+GGG | + | chr1_1:46362450-46362469 | Msa0024160:CDS | 40.0% | |
| TATCTTACGACCGATGGAAT+AGG | + | chr1_1:46362743-46362762 | Msa0024160:intron | 40.0% | |
| !! | ATCGATATTCAGAAGGCACT+AGG | + | chr1_1:46363056-46363075 | Msa0024160:CDS | 40.0% |
| TTGTGATCAATGCTACCTCA+AGG | + | chr1_1:46363118-46363137 | Msa0024160:CDS | 40.0% | |
| ATATCCACAACGTTACTAGG+TGG | - | chr1_1:46362306-46362325 | None:intergenic | 40.0% | |
| ATTGTTGGAAACCCACAACT+TGG | + | chr1_1:46362375-46362394 | Msa0024160:CDS | 40.0% | |
| GCTCCAATATTCCAAGTTGT+GGG | - | chr1_1:46362389-46362408 | None:intergenic | 40.0% | |
| TTGTTACTCTCACATCCTTC+TGG | + | chr1_1:46362427-46362446 | Msa0024160:CDS | 40.0% | |
| TGTTACTCTCACATCCTTCT+GGG | + | chr1_1:46362428-46362447 | Msa0024160:CDS | 40.0% | |
| ! | GGGAGCATATACTTACATCA+GGG | + | chr1_1:46362449-46362468 | Msa0024160:CDS | 40.0% |
| GGAGCATATACTTACATCAG+GGG | + | chr1_1:46362450-46362469 | Msa0024160:CDS | 40.0% | |
| TATCTTACGACCGATGGAAT+AGG | + | chr1_1:46362743-46362762 | Msa0024160:intron | 40.0% | |
| !! | ATCGATATTCAGAAGGCACT+AGG | + | chr1_1:46363056-46363075 | Msa0024160:CDS | 40.0% |
| TTGTGATCAATGCTACCTCA+AGG | + | chr1_1:46363118-46363137 | Msa0024160:CDS | 40.0% | |
| AAGTCCACCTAGTAACGTTG+TGG | + | chr1_1:46362299-46362318 | Msa0024160:CDS | 45.0% | |
| TGCGGATACAACTTCATGCA+TGG | + | chr1_1:46362332-46362351 | Msa0024160:CDS | 45.0% | |
| GCGGATACAACTTCATGCAT+GGG | + | chr1_1:46362333-46362352 | Msa0024160:CDS | 45.0% | |
| GGCTCCAATATTCCAAGTTG+TGG | - | chr1_1:46362390-46362409 | None:intergenic | 45.0% | |
| ACAAGCTTAACACGGCATTG+AGG | - | chr1_1:46362411-46362430 | None:intergenic | 45.0% | |
| GTTACTCTCACATCCTTCTG+GGG | + | chr1_1:46362429-46362448 | Msa0024160:CDS | 45.0% | |
| GTAAGTATATGCTCCCCAGA+AGG | - | chr1_1:46362445-46362464 | None:intergenic | 45.0% | |
| ! | GGGGAGCATATACTTACATC+AGG | + | chr1_1:46362448-46362467 | Msa0024160:CDS | 45.0% |
| GCATATACTTACATCAGGGG+AGG | + | chr1_1:46362453-46362472 | Msa0024160:CDS | 45.0% | |
| !! | ATTCAGAAGGCACTAGGCTA+TGG | + | chr1_1:46363062-46363081 | Msa0024160:CDS | 45.0% |
| ATGACAAAAGGGTTGCATCC+AGG | - | chr1_1:46363099-46363118 | None:intergenic | 45.0% | |
| AAGTCCACCTAGTAACGTTG+TGG | + | chr1_1:46362299-46362318 | Msa0024160:CDS | 45.0% | |
| TGCGGATACAACTTCATGCA+TGG | + | chr1_1:46362332-46362351 | Msa0024160:CDS | 45.0% | |
| GCGGATACAACTTCATGCAT+GGG | + | chr1_1:46362333-46362352 | Msa0024160:CDS | 45.0% | |
| GGCTCCAATATTCCAAGTTG+TGG | - | chr1_1:46362390-46362409 | None:intergenic | 45.0% | |
| ACAAGCTTAACACGGCATTG+AGG | - | chr1_1:46362411-46362430 | None:intergenic | 45.0% | |
| GTTACTCTCACATCCTTCTG+GGG | + | chr1_1:46362429-46362448 | Msa0024160:CDS | 45.0% | |
| GTAAGTATATGCTCCCCAGA+AGG | - | chr1_1:46362445-46362464 | None:intergenic | 45.0% | |
| ! | GGGGAGCATATACTTACATC+AGG | + | chr1_1:46362448-46362467 | Msa0024160:CDS | 45.0% |
| GCATATACTTACATCAGGGG+AGG | + | chr1_1:46362453-46362472 | Msa0024160:CDS | 45.0% | |
| !! | ATTCAGAAGGCACTAGGCTA+TGG | + | chr1_1:46363062-46363081 | Msa0024160:CDS | 45.0% |
| ATGACAAAAGGGTTGCATCC+AGG | - | chr1_1:46363099-46363118 | None:intergenic | 45.0% | |
| !!! | ATAAATATTATTTCTTTTAT+AGG | + | chr1_1:46363020-46363039 | Msa0024160:intron | 5.0% |
| !!! | ATAAATATTATTTCTTTTAT+AGG | + | chr1_1:46363020-46363039 | Msa0024160:intron | 5.0% |
| TGCTACCTCAAGGACCCTAC+TGG | + | chr1_1:46363128-46363147 | Msa0024160:CDS | 55.0% | |
| TGCTACCTCAAGGACCCTAC+TGG | + | chr1_1:46363128-46363147 | Msa0024160:CDS | 55.0% | |
| TCTCGCCAGTAGGGTCCTTG+AGG | - | chr1_1:46363136-46363155 | None:intergenic | 60.0% | |
| TCTCGCCAGTAGGGTCCTTG+AGG | - | chr1_1:46363136-46363155 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 46362288 | 46363157 | 46362288 | ID=Msa0024160;Name=Msa0024160 |
| chr1_1 | mRNA | 46362288 | 46363157 | 46362288 | ID=Msa0024160-mRNA-1;Parent=Msa0024160;Name=Msa0024160-mRNA-1;_AED=0.24;_eAED=0.24;_QI=0|0|0|1|1|0.5|2|0|106 |
| chr1_1 | exon | 46362288 | 46362489 | 46362288 | ID=Msa0024160-mRNA-1:exon:13192;Parent=Msa0024160-mRNA-1 |
| chr1_1 | exon | 46363042 | 46363157 | 46363042 | ID=Msa0024160-mRNA-1:exon:13193;Parent=Msa0024160-mRNA-1 |
| chr1_1 | CDS | 46362288 | 46362489 | 46362288 | ID=Msa0024160-mRNA-1:cds;Parent=Msa0024160-mRNA-1 |
| chr1_1 | CDS | 46363042 | 46363157 | 46363042 | ID=Msa0024160-mRNA-1:cds;Parent=Msa0024160-mRNA-1 |
| Gene Sequence |
| Protein sequence |
