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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0515170 | XP_013461269.1 | 91.960 | 199 | 16 | 0 | 1 | 199 | 1 | 199 | 1.12e-131 | 377 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0515170 | A0A072UZT9 | 91.960 | 199 | 16 | 0 | 1 | 199 | 1 | 199 | 5.35e-132 | 377 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0209520 | Msa0515170 | 0.801851 | 7.408906e-49 | -8.615850e-47 |
| Msa0515130 | Msa0515170 | 0.826155 | 3.167689e-54 | -8.615850e-47 |
| Msa0515150 | Msa0515170 | 0.820806 | 5.646214e-53 | -8.615850e-47 |
| Msa0515170 | Msa0591490 | 0.824132 | 9.526402e-54 | -8.615850e-47 |
| Msa0515170 | Msa1059660 | 0.802256 | 6.116115e-49 | -8.615850e-47 |
| Msa0515170 | Msa1231720 | 0.809997 | 1.435071e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0515170 | MtrunA17_Chr3g0124111 | 87.437 | 199 | 25 | 0 | 1 | 199 | 1 | 199 | 1.68e-131 | 367 |
| Msa0515170 | MtrunA17_Chr3g0124061 | 86.432 | 199 | 27 | 0 | 1 | 199 | 1 | 199 | 7.14e-129 | 360 |
| Msa0515170 | MtrunA17_Chr3g0124091 | 87.562 | 201 | 22 | 2 | 1 | 199 | 1 | 200 | 4.73e-126 | 353 |
| Msa0515170 | MtrunA17_Chr3g0124141 | 85.427 | 199 | 29 | 0 | 1 | 199 | 1 | 199 | 2.98e-125 | 351 |
| Msa0515170 | MtrunA17_Chr3g0124151 | 83.019 | 106 | 18 | 0 | 94 | 199 | 1 | 106 | 2.23e-61 | 186 |
| Msa0515170 | MtrunA17_Chr3g0124131 | 80.000 | 50 | 10 | 0 | 1 | 50 | 1 | 50 | 6.74e-23 | 87.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0515170 | AT5G10210.1 | 33.152 | 184 | 104 | 7 | 15 | 184 | 13 | 191 | 1.20e-25 | 98.6 |
| Msa0515170 | AT5G65030.1 | 30.270 | 185 | 108 | 5 | 14 | 181 | 13 | 193 | 5.39e-24 | 94.4 |
Find 41 sgRNAs with CRISPR-Local
Find 54 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATAATAGAAGGTTGAATAAT+TGG | 0.222372 | 3_4:-66170648 | Msa0515170:CDS |
| CCACCAAATCAGTGCCCTTT+TGG | 0.261436 | 3_4:-66170963 | Msa0515170:CDS |
| TTAATTTCCACTTCAACTTC+TGG | 0.281792 | 3_4:+66170709 | None:intergenic |
| GCTCCACCACTAGGCTTTCT+TGG | 0.283513 | 3_4:+66170884 | None:intergenic |
| CCACTAGGCTTTCTTGGTTA+AGG | 0.333644 | 3_4:+66170890 | None:intergenic |
| ATTCCAAAAGGGCACTGATT+TGG | 0.371058 | 3_4:+66170960 | None:intergenic |
| AGTTTGTACAAGCAGGTATA+TGG | 0.376794 | 3_4:+66171115 | None:intergenic |
| AAAATGGTTGAAAATGGATT+TGG | 0.402081 | 3_4:-66170770 | Msa0515170:CDS |
| ATTTGCGCCTGGTGCAGCTT+TGG | 0.406008 | 3_4:-66170560 | Msa0515170:CDS |
| CGCAAATAAATCACATTCTT+CGG | 0.410770 | 3_4:+66170576 | None:intergenic |
| TTGAAAATGGATTTGGTGAA+TGG | 0.418640 | 3_4:-66170763 | Msa0515170:CDS |
| TGGAAAAGAAGAATAATAGA+AGG | 0.423777 | 3_4:-66170660 | Msa0515170:CDS |
| TGCGCCTGGTGCAGCTTTGG+AGG | 0.428492 | 3_4:-66170557 | Msa0515170:CDS |
| GATTCAAGAATCACTTTCCA+TGG | 0.437928 | 3_4:+66170811 | None:intergenic |
| ATTAAAAGACTCATTCCAAA+AGG | 0.442021 | 3_4:+66170948 | None:intergenic |
| GCAAGGTTGTACCTTCCAAC+AGG | 0.452079 | 3_4:-66171024 | Msa0515170:CDS |
| TTGGAAAAGGTGAGATTCCA+TGG | 0.470388 | 3_4:-66170828 | Msa0515170:CDS |
| AGTGACTTCGGTTGCTGAGA+TGG | 0.471131 | 3_4:-66170680 | Msa0515170:CDS |
| CCAAAAGGGCACTGATTTGG+TGG | 0.477642 | 3_4:+66170963 | None:intergenic |
| AAAGCCTCCAAAGCTGCACC+AGG | 0.512037 | 3_4:+66170553 | None:intergenic |
| TTTGCCTTAGCTCCACCACT+AGG | 0.522695 | 3_4:+66170875 | None:intergenic |
| CAGATGAAGTTTGTACAAGC+AGG | 0.529351 | 3_4:+66171108 | None:intergenic |
| AAAGCCTAGTGGTGGAGCTA+AGG | 0.535601 | 3_4:-66170879 | Msa0515170:CDS |
| GGGTCACAACTTATTGGAAA+AGG | 0.536727 | 3_4:-66170841 | Msa0515170:CDS |
| TTAAAAGACTCATTCCAAAA+GGG | 0.544558 | 3_4:+66170949 | None:intergenic |
| CACTACACCAGAAGTTGAAG+TGG | 0.544887 | 3_4:-66170716 | Msa0515170:CDS |
| GAATGTGATTTATTTGCGCC+TGG | 0.547250 | 3_4:-66170571 | Msa0515170:CDS |
| AATTAAAATAAGAGTGACTT+CGG | 0.548743 | 3_4:-66170692 | Msa0515170:CDS |
| GCTAAGGCAAAGGAAGATGT+GGG | 0.557016 | 3_4:-66170863 | Msa0515170:CDS |
| AGCTAAGGCAAAGGAAGATG+TGG | 0.560256 | 3_4:-66170864 | Msa0515170:CDS |
| GTACAAGCAGGTATATGGAA+TGG | 0.566192 | 3_4:+66171120 | None:intergenic |
| TTGAATAATTGGAATGAGTG+TGG | 0.570637 | 3_4:-66170637 | Msa0515170:CDS |
| GATTCTTGAATCACAAAACA+TGG | 0.583125 | 3_4:-66170800 | Msa0515170:CDS |
| TAGTGGTGGAGCTAAGGCAA+AGG | 0.590191 | 3_4:-66170873 | Msa0515170:CDS |
| AACTGAGAATAATACAAGCA+CGG | 0.610282 | 3_4:-66171083 | Msa0515170:CDS |
| ATGGTCATGATCATAATGCT+TGG | 0.627084 | 3_4:-66170606 | Msa0515170:CDS |
| TAACCAAGAAAGCCTAGTGG+TGG | 0.631682 | 3_4:-66170887 | Msa0515170:CDS |
| TAAGGCAAAGGAAGATGTGG+GGG | 0.660678 | 3_4:-66170861 | Msa0515170:CDS |
| CTAAGGCAAAGGAAGATGTG+GGG | 0.689053 | 3_4:-66170862 | Msa0515170:CDS |
| GAATGGAAGTGATTGCAAAG+AGG | 0.732454 | 3_4:-66170746 | Msa0515170:CDS |
| CCTTAACCAAGAAAGCCTAG+TGG | 0.762460 | 3_4:-66170890 | Msa0515170:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAACATGGAGTTAAAAAAA+TGG | - | chr3_4:66170889-66170908 | Msa0515170:CDS | 20.0% |
| !! | GTTAAAAAAATGGTTGAAAA+TGG | - | chr3_4:66170899-66170918 | Msa0515170:CDS | 20.0% |
| !! | AATTAAAATAAGAGTGACTT+CGG | - | chr3_4:66170983-66171002 | Msa0515170:CDS | 20.0% |
| !! | ATAATAGAAGGTTGAATAAT+TGG | - | chr3_4:66171027-66171046 | Msa0515170:CDS | 20.0% |
| ! | TTAAAAGACTCATTCCAAAA+GGG | + | chr3_4:66170729-66170748 | None:intergenic | 25.0% |
| ! | ATTAAAAGACTCATTCCAAA+AGG | + | chr3_4:66170730-66170749 | None:intergenic | 25.0% |
| !! | AAAATGGTTGAAAATGGATT+TGG | - | chr3_4:66170905-66170924 | Msa0515170:CDS | 25.0% |
| ! | TGGAAAAGAAGAATAATAGA+AGG | - | chr3_4:66171015-66171034 | Msa0515170:CDS | 25.0% |
| AACTGAGAATAATACAAGCA+CGG | - | chr3_4:66170592-66170611 | Msa0515170:CDS | 30.0% | |
| !!! | ATTCTTTTGTTGTTTCCTGT+TGG | + | chr3_4:66170669-66170688 | None:intergenic | 30.0% |
| ! | AAGGTTTTCCAAGAATTCTT+GGG | + | chr3_4:66170769-66170788 | None:intergenic | 30.0% |
| ! | TAAGGTTTTCCAAGAATTCT+TGG | + | chr3_4:66170770-66170789 | None:intergenic | 30.0% |
| GATTCTTGAATCACAAAACA+TGG | - | chr3_4:66170875-66170894 | Msa0515170:CDS | 30.0% | |
| !! | TTGAAAATGGATTTGGTGAA+TGG | - | chr3_4:66170912-66170931 | Msa0515170:CDS | 30.0% |
| TTAATTTCCACTTCAACTTC+TGG | + | chr3_4:66170969-66170988 | None:intergenic | 30.0% | |
| TTGAATAATTGGAATGAGTG+TGG | - | chr3_4:66171038-66171057 | Msa0515170:CDS | 30.0% | |
| CGCAAATAAATCACATTCTT+CGG | + | chr3_4:66171102-66171121 | None:intergenic | 30.0% | |
| AGTTTGTACAAGCAGGTATA+TGG | + | chr3_4:66170563-66170582 | None:intergenic | 35.0% | |
| !!! | CCTTGCAAACAAGTTTTTTG+TGG | + | chr3_4:66170637-66170656 | None:intergenic | 35.0% |
| ! | CCACAAAAAACTTGTTTGCA+AGG | - | chr3_4:66170634-66170653 | Msa0515170:CDS | 35.0% |
| !!! | TTTTGTTGTTTCCTGTTGGA+AGG | + | chr3_4:66170665-66170684 | None:intergenic | 35.0% |
| ! | AGGTTTTCCAAGAATTCTTG+GGG | + | chr3_4:66170768-66170787 | None:intergenic | 35.0% |
| GATTCAAGAATCACTTTCCA+TGG | + | chr3_4:66170867-66170886 | None:intergenic | 35.0% | |
| AATGAGTGTGGATGCAAAAA+TGG | - | chr3_4:66171050-66171069 | Msa0515170:CDS | 35.0% | |
| ATGGTCATGATCATAATGCT+TGG | - | chr3_4:66171069-66171088 | Msa0515170:CDS | 35.0% | |
| GTACAAGCAGGTATATGGAA+TGG | + | chr3_4:66170558-66170577 | None:intergenic | 40.0% | |
| CAGATGAAGTTTGTACAAGC+AGG | + | chr3_4:66170570-66170589 | None:intergenic | 40.0% | |
| !! | ATTCCAAAAGGGCACTGATT+TGG | + | chr3_4:66170718-66170737 | None:intergenic | 40.0% |
| ! | GGTTTTCCAAGAATTCTTGG+GGG | + | chr3_4:66170767-66170786 | None:intergenic | 40.0% |
| GGGTCACAACTTATTGGAAA+AGG | - | chr3_4:66170834-66170853 | Msa0515170:CDS | 40.0% | |
| TTGGAAAAGGTGAGATTCCA+TGG | - | chr3_4:66170847-66170866 | Msa0515170:CDS | 40.0% | |
| GAATGGAAGTGATTGCAAAG+AGG | - | chr3_4:66170929-66170948 | Msa0515170:CDS | 40.0% | |
| GAATGTGATTTATTTGCGCC+TGG | - | chr3_4:66171104-66171123 | Msa0515170:CDS | 40.0% | |
| TTCATGCCCCCAAGAATTCT+TGG | - | chr3_4:66170758-66170777 | Msa0515170:CDS | 45.0% | |
| CCACTAGGCTTTCTTGGTTA+AGG | + | chr3_4:66170788-66170807 | None:intergenic | 45.0% | |
| CCTTAACCAAGAAAGCCTAG+TGG | - | chr3_4:66170785-66170804 | Msa0515170:CDS | 45.0% | |
| TAACCAAGAAAGCCTAGTGG+TGG | - | chr3_4:66170788-66170807 | Msa0515170:CDS | 45.0% | |
| AGCTAAGGCAAAGGAAGATG+TGG | - | chr3_4:66170811-66170830 | Msa0515170:CDS | 45.0% | |
| GCTAAGGCAAAGGAAGATGT+GGG | - | chr3_4:66170812-66170831 | Msa0515170:CDS | 45.0% | |
| CTAAGGCAAAGGAAGATGTG+GGG | - | chr3_4:66170813-66170832 | Msa0515170:CDS | 45.0% | |
| TAAGGCAAAGGAAGATGTGG+GGG | - | chr3_4:66170814-66170833 | Msa0515170:CDS | 45.0% | |
| ATGTGGGGGTCACAACTTAT+TGG | - | chr3_4:66170828-66170847 | Msa0515170:CDS | 45.0% | |
| CACTACACCAGAAGTTGAAG+TGG | - | chr3_4:66170959-66170978 | Msa0515170:CDS | 45.0% | |
| GCAAGGTTGTACCTTCCAAC+AGG | - | chr3_4:66170651-66170670 | Msa0515170:CDS | 50.0% | |
| !! | CCAAAAGGGCACTGATTTGG+TGG | + | chr3_4:66170715-66170734 | None:intergenic | 50.0% |
| ! | CCACCAAATCAGTGCCCTTT+TGG | - | chr3_4:66170712-66170731 | Msa0515170:CDS | 50.0% |
| ! | AAAGCCTAGTGGTGGAGCTA+AGG | - | chr3_4:66170796-66170815 | Msa0515170:CDS | 50.0% |
| TTTGCCTTAGCTCCACCACT+AGG | + | chr3_4:66170803-66170822 | None:intergenic | 50.0% | |
| ! | TAGTGGTGGAGCTAAGGCAA+AGG | - | chr3_4:66170802-66170821 | Msa0515170:CDS | 50.0% |
| AGTGACTTCGGTTGCTGAGA+TGG | - | chr3_4:66170995-66171014 | Msa0515170:CDS | 50.0% | |
| GCTCCACCACTAGGCTTTCT+TGG | + | chr3_4:66170794-66170813 | None:intergenic | 55.0% | |
| ATTTGCGCCTGGTGCAGCTT+TGG | - | chr3_4:66171115-66171134 | Msa0515170:CDS | 55.0% | |
| AAAGCCTCCAAAGCTGCACC+AGG | + | chr3_4:66171125-66171144 | None:intergenic | 55.0% | |
| ! | TGCGCCTGGTGCAGCTTTGG+AGG | - | chr3_4:66171118-66171137 | Msa0515170:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 66170549 | 66171148 | 66170549 | ID=Msa0515170;Name=Msa0515170 |
| chr3_4 | mRNA | 66170549 | 66171148 | 66170549 | ID=Msa0515170-mRNA-1;Parent=Msa0515170;Name=Msa0515170-mRNA-1;_AED=0.40;_eAED=0.40;_QI=0|-1|0|1|-1|1|1|0|199 |
| chr3_4 | exon | 66170549 | 66171148 | 66170549 | ID=Msa0515170-mRNA-1:exon:17027;Parent=Msa0515170-mRNA-1 |
| chr3_4 | CDS | 66170549 | 66171148 | 66170549 | ID=Msa0515170-mRNA-1:cds;Parent=Msa0515170-mRNA-1 |
| Gene Sequence |
| Protein sequence |
