Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene24609.t1 | XP_003590484.1 | 98.6 | 72 | 1 | 0 | 1 | 72 | 1 | 72 | 1.50E-31 | 144.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene24609.t1 | Q8L8B8 | 83.6 | 73 | 11 | 1 | 1 | 72 | 1 | 73 | 5.2e-28 | 124.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene24609.t1 | G7IBJ6 | 98.6 | 72 | 1 | 0 | 1 | 72 | 1 | 72 | 1.1e-31 | 144.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049821 | MS.gene24609 | 0.815622 | 8.41E-52 | -1.69E-46 |
| MS.gene050020 | MS.gene24609 | 0.834703 | 2.57E-56 | -1.69E-46 |
| MS.gene050689 | MS.gene24609 | 0.831923 | 1.27E-55 | -1.69E-46 |
| MS.gene050807 | MS.gene24609 | 0.82426 | 8.89E-54 | -1.69E-46 |
| MS.gene050901 | MS.gene24609 | 0.804851 | 1.77E-49 | -1.69E-46 |
| MS.gene05157 | MS.gene24609 | 0.807422 | 5.10E-50 | -1.69E-46 |
| MS.gene051719 | MS.gene24609 | 0.8206 | 6.30E-53 | -1.69E-46 |
| MS.gene051720 | MS.gene24609 | 0.821198 | 4.59E-53 | -1.69E-46 |
| MS.gene052133 | MS.gene24609 | 0.800727 | 1.26E-48 | -1.69E-46 |
| MS.gene052516 | MS.gene24609 | 0.821449 | 4.02E-53 | -1.69E-46 |
| MS.gene052665 | MS.gene24609 | 0.81019 | 1.30E-50 | -1.69E-46 |
| MS.gene053563 | MS.gene24609 | 0.818351 | 2.05E-52 | -1.69E-46 |
| MS.gene053581 | MS.gene24609 | 0.81863 | 1.77E-52 | -1.69E-46 |
| MS.gene05364 | MS.gene24609 | 0.829616 | 4.66E-55 | -1.69E-46 |
| MS.gene055465 | MS.gene24609 | 0.800456 | 1.43E-48 | -1.69E-46 |
| MS.gene055512 | MS.gene24609 | 0.806076 | 9.81E-50 | -1.69E-46 |
| MS.gene056005 | MS.gene24609 | 0.804796 | 1.82E-49 | -1.69E-46 |
| MS.gene05978 | MS.gene24609 | 0.833151 | 6.29E-56 | -1.69E-46 |
| MS.gene060587 | MS.gene24609 | 0.823923 | 1.07E-53 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene24609.t1 | MTR_1g064260 | 98.611 | 72 | 1 | 0 | 1 | 72 | 1 | 72 | 2.59e-46 | 147 |
| MS.gene24609.t1 | MTR_7g101290 | 88.406 | 69 | 8 | 0 | 4 | 72 | 5 | 73 | 8.94e-41 | 132 |
| MS.gene24609.t1 | MTR_0041s0100 | 88.406 | 69 | 8 | 0 | 4 | 72 | 5 | 73 | 8.94e-41 | 132 |
| MS.gene24609.t1 | MTR_2g094790 | 81.944 | 72 | 13 | 0 | 1 | 72 | 1 | 72 | 1.80e-38 | 126 |
| MS.gene24609.t1 | MTR_4g058740 | 91.803 | 61 | 5 | 0 | 12 | 72 | 12 | 72 | 4.95e-35 | 117 |
| MS.gene24609.t1 | MTR_1g057020 | 76.190 | 63 | 15 | 0 | 10 | 72 | 6 | 68 | 3.26e-31 | 108 |
| MS.gene24609.t1 | MTR_3g113710 | 74.603 | 63 | 16 | 0 | 10 | 72 | 12 | 74 | 8.71e-31 | 107 |
| MS.gene24609.t1 | MTR_3g113710 | 74.603 | 63 | 16 | 0 | 10 | 72 | 12 | 74 | 1.51e-30 | 106 |
| MS.gene24609.t1 | MTR_1g024850 | 71.429 | 63 | 18 | 0 | 10 | 72 | 14 | 76 | 1.65e-29 | 100 |
| MS.gene24609.t1 | MTR_1g015830 | 66.129 | 62 | 21 | 0 | 11 | 72 | 7 | 68 | 7.59e-25 | 92.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene24609.t1 | AT2G37210 | 83.562 | 73 | 11 | 1 | 1 | 72 | 1 | 73 | 1.19e-37 | 124 |
| MS.gene24609.t1 | AT2G37210 | 83.562 | 73 | 11 | 1 | 1 | 72 | 1 | 73 | 1.38e-37 | 125 |
| MS.gene24609.t1 | AT3G53450 | 82.192 | 73 | 12 | 1 | 1 | 72 | 1 | 73 | 3.48e-36 | 120 |
| MS.gene24609.t1 | AT2G28305 | 84.127 | 63 | 10 | 0 | 10 | 72 | 5 | 67 | 4.92e-33 | 111 |
| MS.gene24609.t1 | AT2G28305 | 84.127 | 63 | 10 | 0 | 10 | 72 | 5 | 67 | 1.09e-32 | 111 |
| MS.gene24609.t1 | AT5G06300 | 80.952 | 63 | 12 | 0 | 10 | 72 | 6 | 68 | 1.92e-32 | 111 |
| MS.gene24609.t1 | AT2G28305 | 84.127 | 63 | 10 | 0 | 10 | 72 | 5 | 67 | 2.38e-32 | 111 |
| MS.gene24609.t1 | AT5G03270 | 80.952 | 63 | 12 | 0 | 10 | 72 | 16 | 78 | 2.70e-31 | 108 |
| MS.gene24609.t1 | AT5G03270 | 80.952 | 63 | 12 | 0 | 10 | 72 | 16 | 78 | 3.15e-31 | 108 |
| MS.gene24609.t1 | AT2G35990 | 71.429 | 63 | 18 | 0 | 10 | 72 | 6 | 68 | 1.55e-30 | 106 |
| MS.gene24609.t1 | AT4G35190 | 68.657 | 67 | 21 | 0 | 6 | 72 | 2 | 68 | 7.39e-27 | 96.7 |
| MS.gene24609.t1 | AT4G35190 | 68.657 | 67 | 21 | 0 | 6 | 72 | 2 | 68 | 1.08e-26 | 97.1 |
| MS.gene24609.t1 | AT5G11950 | 59.722 | 72 | 26 | 1 | 1 | 72 | 1 | 69 | 8.29e-25 | 92.0 |
| MS.gene24609.t1 | AT5G11950 | 59.722 | 72 | 26 | 1 | 1 | 72 | 1 | 69 | 8.29e-25 | 92.0 |
| MS.gene24609.t1 | AT5G11950 | 59.722 | 72 | 26 | 1 | 1 | 72 | 1 | 69 | 8.29e-25 | 92.0 |
Find 17 sgRNAs with CRISPR-Local
Find 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAAATATTGATCTAGTTTA+TGG | 0.173128 | 1.2:-49110723 | MS.gene24609:CDS |
| CAAGATGCTGCCATTGAACT+TGG | 0.349737 | 1.2:-49111189 | MS.gene24609:CDS |
| AGGAGGAAGCATTGGTCTAA+TGG | 0.380070 | 1.2:-49110700 | MS.gene24609:CDS |
| CATTGAACTTGGAAATGAAT+TGG | 0.407304 | 1.2:-49111178 | MS.gene24609:intron |
| GATGGTGGAAGACATGTCAT+AGG | 0.434367 | 1.2:-49110654 | MS.gene24609:CDS |
| AAGCATTGGTCTAATGGGTT+CGG | 0.439439 | 1.2:-49110694 | MS.gene24609:CDS |
| GGAGGAAGCATTGGTCTAAT+GGG | 0.451429 | 1.2:-49110699 | MS.gene24609:CDS |
| CAATTCATTTCCAAGTTCAA+TGG | 0.462751 | 1.2:+49111179 | None:intergenic |
| ATTGATCTAGTTTATGGAGG+AGG | 0.513882 | 1.2:-49110717 | MS.gene24609:CDS |
| CAAATACAAATGGAGACAAA+TGG | 0.514050 | 1.2:-49111285 | None:intergenic |
| GTTTATGGAGGAGGAAGCAT+TGG | 0.534440 | 1.2:-49110708 | MS.gene24609:CDS |
| GTTTCACAAGCTGTTCATGA+TGG | 0.539577 | 1.2:-49110672 | MS.gene24609:CDS |
| TAAGAGTGTCAAAGTTCAAG+AGG | 0.560240 | 1.2:-49111257 | MS.gene24609:CDS |
| AATATTGATCTAGTTTATGG+AGG | 0.578824 | 1.2:-49110720 | MS.gene24609:CDS |
| TCACAAGCTGTTCATGATGG+TGG | 0.582768 | 1.2:-49110669 | MS.gene24609:CDS |
| ATGGTGGAAGACATGTCATA+GGG | 0.603354 | 1.2:-49110653 | None:intergenic |
| AAGAGTGTCAAAGTTCAAGA+GGG | 0.616352 | 1.2:-49111256 | MS.gene24609:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATATATATGAAAAAAACTTT+AGG | + | chr1.2:49111067-49111086 | None:intergenic | 10.0% |
| !!! | AAAATCTTATTTATTTTTTG+TGG | - | chr1.2:49110839-49110858 | MS.gene24609:intron | 10.0% |
| !!! | TTTTTTTTTCTCAAAAAAGA+AGG | + | chr1.2:49110823-49110842 | None:intergenic | 15.0% |
| !! | ACAAACCATTAAAATTGATT+GGG | + | chr1.2:49111177-49111196 | None:intergenic | 20.0% |
| !!! | AGAAATATTGATCTAGTTTA+TGG | - | chr1.2:49111207-49111226 | MS.gene24609:CDS | 20.0% |
| !!! | ATCAAGTTTGAAATGAAAAA+TGG | + | chr1.2:49111139-49111158 | None:intergenic | 20.0% |
| !!! | CTTATTTATTTTTTGTGGAT+GGG | - | chr1.2:49110844-49110863 | MS.gene24609:intron | 20.0% |
| !!! | TCTTATTTATTTTTTGTGGA+TGG | - | chr1.2:49110843-49110862 | MS.gene24609:intron | 20.0% |
| !!! | TTATTTATTTTTTGTGGATG+GGG | - | chr1.2:49110845-49110864 | MS.gene24609:intron | 20.0% |
| ! | ATTCCTTTGTATATTTCAGT+TGG | - | chr1.2:49110911-49110930 | MS.gene24609:intron | 25.0% |
| ! | CACAAACCATTAAAATTGAT+TGG | + | chr1.2:49111178-49111197 | None:intergenic | 25.0% |
| ! | GGAAAAAAAAACAGTATGTA+AGG | + | chr1.2:49110802-49110821 | None:intergenic | 25.0% |
| ! | TTCCTTTGTATATTTCAGTT+GGG | - | chr1.2:49110912-49110931 | MS.gene24609:intron | 25.0% |
| !! | AATATTGATCTAGTTTATGG+AGG | - | chr1.2:49111210-49111229 | MS.gene24609:CDS | 25.0% |
| !! | ATACTTTAAAAAGCTGAGAA+AGG | + | chr1.2:49111116-49111135 | None:intergenic | 25.0% |
| !! | CTTATCCCAATCAATTTTAA+TGG | - | chr1.2:49111169-49111188 | MS.gene24609:intron | 25.0% |
| !!! | TCAATTTTAATGGTTTGTGA+AGG | - | chr1.2:49111179-49111198 | MS.gene24609:CDS | 25.0% |
| CAATTCATTTCCAAGTTCAA+TGG | + | chr1.2:49110754-49110773 | None:intergenic | 30.0% | |
| CATTGAACTTGGAAATGAAT+TGG | - | chr1.2:49110752-49110771 | MS.gene24609:intron | 30.0% | |
| GACCCAACTGAAATATACAA+AGG | + | chr1.2:49110917-49110936 | None:intergenic | 35.0% | |
| ! | ATTGATCTAGTTTATGGAGG+AGG | - | chr1.2:49111213-49111232 | MS.gene24609:CDS | 35.0% |
| !! | AAGAGTGTCAAAGTTCAAGA+GGG | - | chr1.2:49110674-49110693 | MS.gene24609:CDS | 35.0% |
| !! | TAAGAGTGTCAAAGTTCAAG+AGG | - | chr1.2:49110673-49110692 | MS.gene24609:CDS | 35.0% |
| !! | TGATAACTACTTTTCTTGCC+AGG | + | chr1.2:49110723-49110742 | None:intergenic | 35.0% |
| GTTTCACAAGCTGTTCATGA+TGG | - | chr1.2:49111258-49111277 | MS.gene24609:CDS | 40.0% | |
| ! | AAGAGGGTTTGTGTCTTTTG+TGG | - | chr1.2:49110690-49110709 | MS.gene24609:CDS | 40.0% |
| ! | TTTTGTGGATGGGGTGAAAA+TGG | - | chr1.2:49110854-49110873 | MS.gene24609:intron | 40.0% |
| !! | AAGCATTGGTCTAATGGGTT+CGG | - | chr1.2:49111236-49111255 | MS.gene24609:CDS | 40.0% |
| CAAGATGCTGCCATTGAACT+TGG | - | chr1.2:49110741-49110760 | MS.gene24609:intron | 45.0% | |
| TCACAAGCTGTTCATGATGG+TGG | - | chr1.2:49111261-49111280 | MS.gene24609:CDS | 45.0% | |
| ! | GTCTTTTGTGGAAGTAGTCC+TGG | - | chr1.2:49110702-49110721 | MS.gene24609:CDS | 45.0% |
| ! | GTTTATGGAGGAGGAAGCAT+TGG | - | chr1.2:49111222-49111241 | MS.gene24609:CDS | 45.0% |
| !! | AGGAGGAAGCATTGGTCTAA+TGG | - | chr1.2:49111230-49111249 | MS.gene24609:CDS | 45.0% |
| !! | GATGGTGGAAGACATGTCAT+AGG | - | chr1.2:49111276-49111295 | MS.gene24609:CDS | 45.0% |
| !! | GGAGGAAGCATTGGTCTAAT+GGG | - | chr1.2:49111231-49111250 | MS.gene24609:CDS | 45.0% |
| !!! | AATATAAATTTTTTGTTTTT+TGG | - | chr1.2:49111004-49111023 | MS.gene24609:intron | 5.0% |
| !!! | ATATTTTTTTTTTATATCTA+TGG | - | chr1.2:49111083-49111102 | MS.gene24609:intron | 5.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.2 | gene | 49110654 | 49111298 | 49110654 | ID=MS.gene24609 |
| chr1.2 | mRNA | 49110654 | 49111298 | 49110654 | ID=MS.gene24609.t1;Parent=MS.gene24609 |
| chr1.2 | exon | 49111179 | 49111298 | 49111179 | ID=MS.gene24609.t1.exon1;Parent=MS.gene24609.t1 |
| chr1.2 | CDS | 49111179 | 49111298 | 49111179 | ID=cds.MS.gene24609.t1;Parent=MS.gene24609.t1 |
| chr1.2 | exon | 49110654 | 49110751 | 49110654 | ID=MS.gene24609.t1.exon2;Parent=MS.gene24609.t1 |
| chr1.2 | CDS | 49110654 | 49110751 | 49110654 | ID=cds.MS.gene24609.t1;Parent=MS.gene24609.t1 |
| Gene Sequence |
| Protein sequence |
