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.gene07244.t1 | XP_007201834.1 | 88.9 | 117 | 11 | 1 | 1 | 115 | 96 | 212 | 4.40E-41 | 177.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene07244.t1 | P49693 | 87.0 | 115 | 13 | 1 | 1 | 115 | 96 | 208 | 3.4e-42 | 172.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene07244.t1 | M5W1D3 | 88.9 | 117 | 11 | 1 | 1 | 115 | 96 | 212 | 3.2e-41 | 177.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049361 | MS.gene07244 | 0.82533 | 4.97E-54 | -1.69E-46 |
| MS.gene050134 | MS.gene07244 | 0.82999 | 3.78E-55 | -1.69E-46 |
| MS.gene052664 | MS.gene07244 | 0.846094 | 2.69E-59 | -1.69E-46 |
| MS.gene052666 | MS.gene07244 | 0.840987 | 6.24E-58 | -1.69E-46 |
| MS.gene053224 | MS.gene07244 | 0.820287 | 7.43E-53 | -1.69E-46 |
| MS.gene057641 | MS.gene07244 | 0.820913 | 5.34E-53 | -1.69E-46 |
| MS.gene057643 | MS.gene07244 | 0.852714 | 3.85E-61 | -1.69E-46 |
| MS.gene060432 | MS.gene07244 | 0.898568 | 4.67E-77 | -1.69E-46 |
| MS.gene060483 | MS.gene07244 | 0.80141 | 9.12E-49 | -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.gene07244.t1 | MTR_1g087910 | 96.610 | 118 | 1 | 1 | 1 | 115 | 96 | 213 | 1.13e-75 | 223 |
| MS.gene07244.t1 | MTR_1g087910 | 96.396 | 111 | 1 | 1 | 1 | 108 | 96 | 206 | 4.69e-71 | 211 |
| MS.gene07244.t1 | MTR_7g108955 | 87.037 | 108 | 9 | 2 | 13 | 115 | 108 | 215 | 2.37e-58 | 179 |
| MS.gene07244.t1 | MTR_7g108955 | 85.859 | 99 | 14 | 0 | 13 | 111 | 108 | 206 | 1.51e-55 | 172 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene07244.t1 | AT3G16780 | 78.070 | 114 | 23 | 1 | 1 | 112 | 96 | 209 | 2.41e-55 | 171 |
| MS.gene07244.t1 | AT4G02230 | 85.577 | 104 | 13 | 1 | 12 | 115 | 107 | 208 | 2.04e-51 | 161 |
| MS.gene07244.t1 | AT1G02780 | 93.750 | 80 | 5 | 0 | 12 | 91 | 107 | 186 | 3.74e-49 | 155 |
| MS.gene07244.t1 | AT4G16030 | 48.235 | 85 | 17 | 4 | 18 | 100 | 54 | 113 | 1.89e-11 | 57.0 |
Find 31 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGGATACTTGATTTACTTCT+TGG | 0.183729 | 1.4:+69945869 | None:intergenic |
| TACTTCTTGGATTTCTTTGA+TGG | 0.223836 | 1.4:+69945882 | None:intergenic |
| GCAGCTGGTGCTGCAGCTGC+AGG | 0.328328 | 1.4:+69946002 | None:intergenic |
| CTCTCTAGCCTTCTCAGCCT+TGG | 0.342124 | 1.4:+69946255 | None:intergenic |
| GGCCAAGAGGGCGAAGAATA+AGG | 0.353398 | 1.4:-69946209 | MS.gene07244:CDS |
| CAAGAACAAGAGAGTCCTTA+TGG | 0.366020 | 1.4:-69946293 | MS.gene07244:CDS |
| GACTGGGTTGCTGTTGCAGC+TGG | 0.390238 | 1.4:+69945987 | None:intergenic |
| AGCCTTATTCTTCGCCCTCT+TGG | 0.400876 | 1.4:+69946207 | None:intergenic |
| TGTCAATCTTCTTTGCCTCT+CGG | 0.425253 | 1.4:+69946362 | None:intergenic |
| GTTTAGATACTTACTGGGAC+TGG | 0.459001 | 1.4:+69945970 | None:intergenic |
| GCTGCAGGAACCTTCTCTCC+TGG | 0.459743 | 1.4:+69946017 | None:intergenic |
| AGCAAAGCGCTCTTCTCTGC+GGG | 0.467270 | 1.4:+69946165 | None:intergenic |
| GACATTATCTGATCAGTTTG+AGG | 0.469564 | 1.4:-69946230 | MS.gene07244:CDS |
| GGGCGAAGAATAAGGCTAGC+AGG | 0.473984 | 1.4:-69946201 | MS.gene07244:CDS |
| TGAGGAGGATGCGTGTCCTC+AGG | 0.478520 | 1.4:-69946402 | MS.gene07244:CDS |
| ACTTGTGAATACTCTCCATA+AGG | 0.533671 | 1.4:+69946278 | None:intergenic |
| TCACAAGTCCAAGGCTGAGA+AGG | 0.542917 | 1.4:-69946263 | MS.gene07244:CDS |
| TTTAGATACTTACTGGGACT+GGG | 0.545217 | 1.4:+69945971 | None:intergenic |
| TGATATGTACATGAAGGTGA+AGG | 0.563752 | 1.4:-69946326 | MS.gene07244:CDS |
| TGTATAGGGTCCAGGAGAGA+AGG | 0.563890 | 1.4:-69946027 | MS.gene07244:intron |
| CCAAAATCCTTTGGATGAGG+AGG | 0.569919 | 1.4:-69946417 | None:intergenic |
| GGCGAAGAATAAGGCTAGCA+GGG | 0.575881 | 1.4:-69946200 | MS.gene07244:CDS |
| AGAATAAGGCTAGCAGGGAA+AGG | 0.589605 | 1.4:-69946195 | MS.gene07244:CDS |
| GAGCAAAGCGCTCTTCTCTG+CGG | 0.593895 | 1.4:+69946164 | None:intergenic |
| TGATCAGTTTGAGGCCAAGA+GGG | 0.598337 | 1.4:-69946221 | MS.gene07244:CDS |
| GATATGTACATGAAGGTGAA+GGG | 0.614061 | 1.4:-69946325 | MS.gene07244:CDS |
| GGAGAGTATTCACAAGTCCA+AGG | 0.617146 | 1.4:-69946272 | MS.gene07244:CDS |
| CTGATCAGTTTGAGGCCAAG+AGG | 0.627289 | 1.4:-69946222 | MS.gene07244:CDS |
| GTATCATGATATGTACATGA+AGG | 0.691105 | 1.4:-69946332 | MS.gene07244:CDS |
| TTTGCTTCGCAAGTACCGAG+AGG | 0.708306 | 1.4:-69946377 | MS.gene07244:CDS |
| ACTTGCGAAGCAAACGCCTG+AGG | 0.708807 | 1.4:+69946386 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CATATATTATCAAAACATTA+TGG | + | chr1.4:69946155-69946174 | None:intergenic | 15.0% |
| !! | TGATAATATATGTAGTGAAT+TGG | - | chr1.4:69946163-69946182 | MS.gene07244:CDS | 20.0% |
| !!! | TAGTTTTTTTTGTTATGTTG+TGG | - | chr1.4:69946354-69946373 | MS.gene07244:CDS | 20.0% |
| !! | AAAGTGTTTAGATACTTACT+GGG | + | chr1.4:69946322-69946341 | None:intergenic | 25.0% |
| !! | ATCTAAACACTTTTGTTACT+TGG | - | chr1.4:69946329-69946348 | MS.gene07244:CDS | 25.0% |
| !!! | AAAAGTGTTTAGATACTTAC+TGG | + | chr1.4:69946323-69946342 | None:intergenic | 25.0% |
| GTATCATGATATGTACATGA+AGG | - | chr1.4:69945952-69945971 | MS.gene07244:intron | 30.0% | |
| TACTTCTTGGATTTCTTTGA+TGG | + | chr1.4:69946405-69946424 | None:intergenic | 30.0% | |
| ! | TGGACCCTATACATTTTAAA+AGG | + | chr1.4:69946250-69946269 | None:intergenic | 30.0% |
| !! | CCTATACATTTTAAAAGGCA+GGG | + | chr1.4:69946245-69946264 | None:intergenic | 30.0% |
| !!! | CCTGCCTTTTAAAATGTATA+GGG | - | chr1.4:69946243-69946262 | MS.gene07244:CDS | 30.0% |
| !!! | TTTTAAAATGTATAGGGTCC+AGG | - | chr1.4:69946249-69946268 | MS.gene07244:CDS | 30.0% |
| ACTTGTGAATACTCTCCATA+AGG | + | chr1.4:69946009-69946028 | None:intergenic | 35.0% | |
| GACATTATCTGATCAGTTTG+AGG | - | chr1.4:69946054-69946073 | MS.gene07244:intron | 35.0% | |
| GATATGTACATGAAGGTGAA+GGG | - | chr1.4:69945959-69945978 | MS.gene07244:intron | 35.0% | |
| TGATATGTACATGAAGGTGA+AGG | - | chr1.4:69945958-69945977 | MS.gene07244:intron | 35.0% | |
| TTTAGATACTTACTGGGACT+GGG | + | chr1.4:69946316-69946335 | None:intergenic | 35.0% | |
| !! | CCCTATACATTTTAAAAGGC+AGG | + | chr1.4:69946246-69946265 | None:intergenic | 35.0% |
| !! | TTTTAAAAGGCAGGGTGATA+TGG | + | chr1.4:69946237-69946256 | None:intergenic | 35.0% |
| !!! | CCCTGCCTTTTAAAATGTAT+AGG | - | chr1.4:69946242-69946261 | MS.gene07244:CDS | 35.0% |
| CAAGAACAAGAGAGTCCTTA+TGG | - | chr1.4:69945991-69946010 | MS.gene07244:CDS | 40.0% | |
| GTTTAGATACTTACTGGGAC+TGG | + | chr1.4:69946317-69946336 | None:intergenic | 40.0% | |
| TGTCAATCTTCTTTGCCTCT+CGG | + | chr1.4:69945925-69945944 | None:intergenic | 40.0% | |
| AGAATAAGGCTAGCAGGGAA+AGG | - | chr1.4:69946089-69946108 | MS.gene07244:intron | 45.0% | |
| ! | TGATCAGTTTGAGGCCAAGA+GGG | - | chr1.4:69946063-69946082 | MS.gene07244:intron | 45.0% |
| !! | GGAGAGTATTCACAAGTCCA+AGG | - | chr1.4:69946012-69946031 | MS.gene07244:CDS | 45.0% |
| GGCGAAGAATAAGGCTAGCA+GGG | - | chr1.4:69946084-69946103 | MS.gene07244:intron | 50.0% | |
| TCACAAGTCCAAGGCTGAGA+AGG | - | chr1.4:69946021-69946040 | MS.gene07244:CDS | 50.0% | |
| TGTATAGGGTCCAGGAGAGA+AGG | - | chr1.4:69946257-69946276 | MS.gene07244:CDS | 50.0% | |
| ! | CTGATCAGTTTGAGGCCAAG+AGG | - | chr1.4:69946062-69946081 | MS.gene07244:intron | 50.0% |
| !! | AGCCTTATTCTTCGCCCTCT+TGG | + | chr1.4:69946080-69946099 | None:intergenic | 50.0% |
| !! | TTTGCTTCGCAAGTACCGAG+AGG | - | chr1.4:69945907-69945926 | MS.gene07244:intron | 50.0% |
| ACTTGCGAAGCAAACGCCTG+AGG | + | chr1.4:69945901-69945920 | None:intergenic | 55.0% | |
| GGCCAAGAGGGCGAAGAATA+AGG | - | chr1.4:69946075-69946094 | MS.gene07244:intron | 55.0% | |
| GGGCGAAGAATAAGGCTAGC+AGG | - | chr1.4:69946083-69946102 | MS.gene07244:intron | 55.0% | |
| ! | AGCAAAGCGCTCTTCTCTGC+GGG | + | chr1.4:69946122-69946141 | None:intergenic | 55.0% |
| ! | CTCTCTAGCCTTCTCAGCCT+TGG | + | chr1.4:69946032-69946051 | None:intergenic | 55.0% |
| ! | GAGCAAAGCGCTCTTCTCTG+CGG | + | chr1.4:69946123-69946142 | None:intergenic | 55.0% |
| GCTGCAGGAACCTTCTCTCC+TGG | + | chr1.4:69946270-69946289 | None:intergenic | 60.0% | |
| TGAGGAGGATGCGTGTCCTC+AGG | - | chr1.4:69945882-69945901 | MS.gene07244:CDS | 60.0% | |
| ! | GACTGGGTTGCTGTTGCAGC+TGG | + | chr1.4:69946300-69946319 | None:intergenic | 60.0% |
| !! | GCAGCTGGTGCTGCAGCTGC+AGG | + | chr1.4:69946285-69946304 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 69945881 | 69946425 | 69945881 | ID=MS.gene07244 |
| chr1.4 | mRNA | 69945881 | 69946425 | 69945881 | ID=MS.gene07244.t1;Parent=MS.gene07244 |
| chr1.4 | exon | 69946162 | 69946425 | 69946162 | ID=MS.gene07244.t1.exon1;Parent=MS.gene07244.t1 |
| chr1.4 | CDS | 69946162 | 69946425 | 69946162 | ID=cds.MS.gene07244.t1;Parent=MS.gene07244.t1 |
| chr1.4 | exon | 69945984 | 69946042 | 69945984 | ID=MS.gene07244.t1.exon2;Parent=MS.gene07244.t1 |
| chr1.4 | CDS | 69945984 | 69946042 | 69945984 | ID=cds.MS.gene07244.t1;Parent=MS.gene07244.t1 |
| chr1.4 | exon | 69945881 | 69945905 | 69945881 | ID=MS.gene07244.t1.exon3;Parent=MS.gene07244.t1 |
| chr1.4 | CDS | 69945881 | 69945905 | 69945881 | ID=cds.MS.gene07244.t1;Parent=MS.gene07244.t1 |
| Gene Sequence |
| Protein sequence |
