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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1165340 | KEH24467.1 | 98.925 | 93 | 1 | 0 | 17 | 109 | 15 | 107 | 5.12e-60 | 197 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1165340 | sp|F4I562|AP3M_ARATH | 82.105 | 95 | 13 | 1 | 19 | 109 | 17 | 111 | 7.76e-50 | 165 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1165340 | A0A072U444 | 98.925 | 93 | 1 | 0 | 17 | 109 | 15 | 107 | 2.44e-60 | 197 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0017510 | Msa1165340 | 0.803273 | 3.771074e-49 | -8.615850e-47 |
| Msa0089630 | Msa1165340 | 0.818735 | 1.678237e-52 | -8.615850e-47 |
| Msa0626450 | Msa1165340 | 0.808444 | 3.088252e-50 | -8.615850e-47 |
| Msa0626490 | Msa1165340 | 0.805489 | 1.302322e-49 | -8.615850e-47 |
| Msa0664600 | Msa1165340 | 0.811058 | 8.465654e-51 | -8.615850e-47 |
| Msa0146260 | Msa1165340 | 0.801405 | 9.145437e-49 | -8.615850e-47 |
| Msa0152400 | Msa1165340 | 0.805025 | 1.629353e-49 | -8.615850e-47 |
| Msa0157290 | Msa1165340 | 0.804111 | 2.527218e-49 | -8.615850e-47 |
| Msa0376350 | Msa1165340 | 0.800781 | 1.226929e-48 | -8.615850e-47 |
| Msa0388960 | Msa1165340 | 0.816412 | 5.605116e-52 | -8.615850e-47 |
| Msa0410650 | Msa1165340 | 0.800723 | 1.260493e-48 | -8.615850e-47 |
| Msa0417880 | Msa1165340 | 0.813654 | 2.294680e-51 | -8.615850e-47 |
| Msa0422850 | Msa1165340 | 0.804683 | 1.920808e-49 | -8.615850e-47 |
| Msa0422930 | Msa1165340 | 0.808519 | 2.976062e-50 | -8.615850e-47 |
| Msa0467430 | Msa1165340 | 0.818440 | 1.957737e-52 | -8.615850e-47 |
| Msa1085200 | Msa1165340 | 0.802513 | 5.414485e-49 | -8.615850e-47 |
| Msa1165340 | Msa1199570 | 0.800246 | 1.576908e-48 | -8.615850e-47 |
| Msa1165340 | Msa1199830 | -0.808255 | 3.388399e-50 | -8.615850e-47 |
| Msa1165340 | Msa1269480 | 0.807788 | 4.260085e-50 | -8.615850e-47 |
| Msa1165340 | Msa1313150 | 0.814072 | 1.855890e-51 | -8.615850e-47 |
| Msa1165340 | Msa1328710 | 0.802238 | 6.167072e-49 | -8.615850e-47 |
| Msa0516170 | Msa1165340 | 0.803222 | 3.863450e-49 | -8.615850e-47 |
| Msa0520700 | Msa1165340 | 0.801650 | 8.145719e-49 | -8.615850e-47 |
| Msa0969200 | Msa1165340 | 0.805718 | 1.166079e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1165340 | MtrunA17_Chr7g0271601 | 98.925 | 93 | 1 | 0 | 17 | 109 | 15 | 107 | 2.73e-63 | 197 |
| Msa1165340 | MtrunA17_Chr5g0427331 | 42.667 | 75 | 43 | 0 | 35 | 109 | 38 | 112 | 3.81e-12 | 61.2 |
| Msa1165340 | MtrunA17_Chr3g0141861 | 41.333 | 75 | 44 | 0 | 35 | 109 | 38 | 112 | 3.84e-12 | 61.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1165340 | AT1G56590.1 | 82.105 | 95 | 13 | 1 | 19 | 109 | 17 | 111 | 7.89e-51 | 165 |
| Msa1165340 | AT4G24550.2 | 41.333 | 75 | 44 | 0 | 35 | 109 | 39 | 113 | 1.80e-12 | 62.4 |
| Msa1165340 | AT4G24550.3 | 41.333 | 75 | 44 | 0 | 35 | 109 | 39 | 113 | 1.87e-12 | 62.4 |
| Msa1165340 | AT4G24550.1 | 41.333 | 75 | 44 | 0 | 35 | 109 | 39 | 113 | 2.21e-12 | 62.0 |
Find 18 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCTCCATTTGTAACTGGTTT+TGG | 0.197605 | 7_4:+57168590 | Msa1165340:CDS |
| AATAACAAAGTTGTCTTTGA+TGG | 0.266110 | 7_4:-57168881 | None:intergenic |
| AGTTGAAATGCCACCTTTGA+TGG | 0.290368 | 7_4:+57168714 | Msa1165340:CDS |
| TTGATCGCTCCATTTGTAAC+TGG | 0.321452 | 7_4:+57168584 | Msa1165340:CDS |
| TGGGTTGGTGAAGCAATAAC+AGG | 0.437020 | 7_4:-57168640 | None:intergenic |
| AATAACAGGTTGTTGCTTGA+AGG | 0.438236 | 7_4:-57168626 | None:intergenic |
| GATGTAATCAATGATTATCT+TGG | 0.467330 | 7_4:+57168841 | Msa1165340:CDS |
| GCCACCTTTGATGGCCATTG+AGG | 0.482311 | 7_4:+57168723 | Msa1165340:CDS |
| TAACTGAACTCACCCGGAAT+CGG | 0.483808 | 7_4:-57168454 | None:intergenic |
| ATCCCAAAACCAGTTACAAA+TGG | 0.489182 | 7_4:-57168593 | None:intergenic |
| GTAATCAATGATTATCTTGG+CGG | 0.494450 | 7_4:+57168844 | Msa1165340:CDS |
| GGCATGTATTATTACCTCAA+TGG | 0.494893 | 7_4:-57168737 | None:intergenic |
| GGTTGTTGCTTGAAGGAATG+AGG | 0.566910 | 7_4:-57168619 | None:intergenic |
| ATTACCTCAATGGCCATCAA+AGG | 0.597567 | 7_4:-57168727 | None:intergenic |
| ATTCTAGAGAAACAACTCAC+TGG | 0.606650 | 7_4:+57168553 | Msa1165340:intron |
| ACCTCAATGGCCATCAAAGG+TGG | 0.612533 | 7_4:-57168724 | None:intergenic |
| TTACATCAGCTACCCTACAA+AGG | 0.663264 | 7_4:-57168825 | None:intergenic |
| TACAAATGGAGCGATCAACA+CGG | 0.712287 | 7_4:-57168579 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATTGATTAAATTGAAAATT+GGG | - | chr7_4:57168504-57168523 | None:intergenic | 10.0% |
| !! | AAATTGATTAAATTGAAAAT+TGG | - | chr7_4:57168505-57168524 | None:intergenic | 10.0% |
| !! | AAAAACTTGAAAAAGATAAT+GGG | - | chr7_4:57168662-57168681 | None:intergenic | 15.0% |
| !! | GAAAAACTTGAAAAAGATAA+TGG | - | chr7_4:57168663-57168682 | None:intergenic | 20.0% |
| ! | AATTGAAGAAAAGGAAAGAA+GGG | - | chr7_4:57168481-57168500 | None:intergenic | 25.0% |
| ! | AAAATTGGGAATTGAAGAAA+AGG | - | chr7_4:57168490-57168509 | None:intergenic | 25.0% |
| ! | GGAACTAAAAATGAATTGAA+TGG | - | chr7_4:57168807-57168826 | None:intergenic | 25.0% |
| !!! | TTCATTTTTAGTTCCTTTGT+AGG | + | chr7_4:57168812-57168831 | Msa1165340:intron | 25.0% |
| !!! | TCATTTTTAGTTCCTTTGTA+GGG | + | chr7_4:57168813-57168832 | Msa1165340:intron | 25.0% |
| ! | GATGTAATCAATGATTATCT+TGG | + | chr7_4:57168841-57168860 | Msa1165340:CDS | 25.0% |
| ! | AATAACAAAGTTGTCTTTGA+TGG | - | chr7_4:57168884-57168903 | None:intergenic | 25.0% |
| GAATTGAAGAAAAGGAAAGA+AGG | - | chr7_4:57168482-57168501 | None:intergenic | 30.0% | |
| !! | ACTTGAAAAAGATAATGGGT+TGG | - | chr7_4:57168658-57168677 | None:intergenic | 30.0% |
| TTCCTATGAATTGCAAATCA+TGG | - | chr7_4:57168761-57168780 | None:intergenic | 30.0% | |
| GTAATCAATGATTATCTTGG+CGG | + | chr7_4:57168844-57168863 | Msa1165340:CDS | 30.0% | |
| ! | ATTTTTCTTCTCTCCGATTC+CGG | + | chr7_4:57168441-57168460 | Msa1165340:CDS | 35.0% |
| ! | ATTCTAGAGAAACAACTCAC+TGG | + | chr7_4:57168553-57168572 | Msa1165340:intron | 35.0% |
| !!! | CTCCATTTGTAACTGGTTTT+GGG | + | chr7_4:57168591-57168610 | Msa1165340:CDS | 35.0% |
| ATCCCAAAACCAGTTACAAA+TGG | - | chr7_4:57168596-57168615 | None:intergenic | 35.0% | |
| ! | AATAACAGGTTGTTGCTTGA+AGG | - | chr7_4:57168629-57168648 | None:intergenic | 35.0% |
| !!! | CTTTTTCAAGTTTTTCGCGA+TGG | + | chr7_4:57168667-57168686 | Msa1165340:CDS | 35.0% |
| GGCATGTATTATTACCTCAA+TGG | - | chr7_4:57168740-57168759 | None:intergenic | 35.0% | |
| ! | TGCCATGATTTGCAATTCAT+AGG | + | chr7_4:57168756-57168775 | Msa1165340:intron | 35.0% |
| ! | TTTTTCTTCTCTCCGATTCC+GGG | + | chr7_4:57168442-57168461 | Msa1165340:CDS | 40.0% |
| CGATCTTGATTCATTCAGAG+AGG | + | chr7_4:57168528-57168547 | Msa1165340:intron | 40.0% | |
| TACAAATGGAGCGATCAACA+CGG | - | chr7_4:57168582-57168601 | None:intergenic | 40.0% | |
| TTGATCGCTCCATTTGTAAC+TGG | + | chr7_4:57168584-57168603 | Msa1165340:CDS | 40.0% | |
| !! | GCTCCATTTGTAACTGGTTT+TGG | + | chr7_4:57168590-57168609 | Msa1165340:CDS | 40.0% |
| !!! | TCGCGATGGAATCACTTTTT+TGG | + | chr7_4:57168681-57168700 | Msa1165340:CDS | 40.0% |
| AGTTGAAATGCCACCTTTGA+TGG | + | chr7_4:57168714-57168733 | Msa1165340:CDS | 40.0% | |
| ATTACCTCAATGGCCATCAA+AGG | - | chr7_4:57168730-57168749 | None:intergenic | 40.0% | |
| TTACATCAGCTACCCTACAA+AGG | - | chr7_4:57168828-57168847 | None:intergenic | 40.0% | |
| TAACTGAACTCACCCGGAAT+CGG | - | chr7_4:57168457-57168476 | None:intergenic | 45.0% | |
| AAGGGTTAACTGAACTCACC+CGG | - | chr7_4:57168463-57168482 | None:intergenic | 45.0% | |
| ! | GGTTGTTGCTTGAAGGAATG+AGG | - | chr7_4:57168622-57168641 | None:intergenic | 45.0% |
| !! | TGGGTTGGTGAAGCAATAAC+AGG | - | chr7_4:57168643-57168662 | None:intergenic | 45.0% |
| ACCTCAATGGCCATCAAAGG+TGG | - | chr7_4:57168727-57168746 | None:intergenic | 50.0% | |
| ! | GCCACCTTTGATGGCCATTG+AGG | + | chr7_4:57168723-57168742 | Msa1165340:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 57168409 | 57168909 | 57168409 | ID=Msa1165340;Name=Msa1165340 |
| chr7_4 | mRNA | 57168409 | 57168909 | 57168409 | ID=Msa1165340-mRNA-1;Parent=Msa1165340;Name=Msa1165340-mRNA-1;_AED=0.14;_eAED=0.14;_QI=0|0.5|0.33|0.66|0.5|0.33|3|0|109 |
| chr7_4 | exon | 57168409 | 57168463 | 57168409 | ID=Msa1165340-mRNA-1:exon:17180;Parent=Msa1165340-mRNA-1 |
| chr7_4 | exon | 57168560 | 57168744 | 57168560 | ID=Msa1165340-mRNA-1:exon:17181;Parent=Msa1165340-mRNA-1 |
| chr7_4 | exon | 57168823 | 57168909 | 57168823 | ID=Msa1165340-mRNA-1:exon:17182;Parent=Msa1165340-mRNA-1 |
| chr7_4 | CDS | 57168409 | 57168463 | 57168409 | ID=Msa1165340-mRNA-1:cds;Parent=Msa1165340-mRNA-1 |
| chr7_4 | CDS | 57168560 | 57168744 | 57168560 | ID=Msa1165340-mRNA-1:cds;Parent=Msa1165340-mRNA-1 |
| chr7_4 | CDS | 57168823 | 57168909 | 57168823 | ID=Msa1165340-mRNA-1:cds;Parent=Msa1165340-mRNA-1 |
| Gene Sequence |
| Protein sequence |
