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.gene29848.t1 | XP_013460851.1 | 94.2 | 156 | 1 | 1 | 1 | 148 | 1 | 156 | 9.10E-63 | 249.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29848.t1 | Q9SGZ8 | 43.9 | 157 | 66 | 6 | 1 | 142 | 1 | 150 | 1.8e-19 | 97.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29848.t1 | G8A369 | 94.2 | 156 | 1 | 1 | 1 | 148 | 1 | 156 | 6.5e-63 | 249.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049586 | MS.gene29848 | 0.801096 | 1.06E-48 | -1.69E-46 |
| MS.gene050787 | MS.gene29848 | 0.852894 | 3.42E-61 | -1.69E-46 |
| MS.gene051190 | MS.gene29848 | 0.812653 | 3.80E-51 | -1.69E-46 |
| MS.gene051568 | MS.gene29848 | 0.857855 | 1.23E-62 | -1.69E-46 |
| MS.gene052333 | MS.gene29848 | 0.817474 | 3.24E-52 | -1.69E-46 |
| MS.gene053147 | MS.gene29848 | 0.83086 | 2.31E-55 | -1.69E-46 |
| MS.gene054291 | MS.gene29848 | -0.814927 | 1.20E-51 | -1.69E-46 |
| MS.gene054467 | MS.gene29848 | 0.824651 | 7.19E-54 | -1.69E-46 |
| MS.gene054468 | MS.gene29848 | 0.845196 | 4.72E-59 | -1.69E-46 |
| MS.gene054581 | MS.gene29848 | 0.831633 | 1.49E-55 | -1.69E-46 |
| MS.gene055356 | MS.gene29848 | 0.842764 | 2.12E-58 | -1.69E-46 |
| MS.gene055358 | MS.gene29848 | 0.83046 | 2.90E-55 | -1.69E-46 |
| MS.gene057469 | MS.gene29848 | 0.808015 | 3.81E-50 | -1.69E-46 |
| MS.gene05872 | MS.gene29848 | 0.854821 | 9.53E-62 | -1.69E-46 |
| MS.gene058935 | MS.gene29848 | 0.837201 | 5.98E-57 | -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.gene29848.t1 | MTR_3g073960 | 94.231 | 156 | 1 | 1 | 1 | 148 | 1 | 156 | 1.32e-105 | 298 |
| MS.gene29848.t1 | MTR_3g087700 | 33.721 | 172 | 72 | 8 | 1 | 130 | 1 | 172 | 1.56e-15 | 70.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29848.t1 | AT1G78020 | 47.887 | 142 | 49 | 7 | 1 | 126 | 1 | 133 | 8.15e-32 | 111 |
| MS.gene29848.t1 | AT1G22160 | 46.000 | 150 | 59 | 6 | 1 | 141 | 1 | 137 | 4.32e-31 | 109 |
| MS.gene29848.t1 | AT4G39795 | 32.624 | 141 | 64 | 3 | 1 | 130 | 1 | 121 | 4.02e-15 | 67.8 |
| MS.gene29848.t1 | AT5G65040 | 33.099 | 142 | 54 | 5 | 1 | 134 | 1 | 109 | 2.50e-13 | 62.8 |
Find 31 sgRNAs with CRISPR-Local
Find 47 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCAGGAGAAGTTGGTGGATA+TGG | 0.255956 | 3.4:+72586264 | None:intergenic |
| GAATTTCTTCTAAGGTTTCT+AGG | 0.264307 | 3.4:+72586198 | None:intergenic |
| TATCAGCTGAATTTCTTCTA+AGG | 0.311688 | 3.4:+72586190 | None:intergenic |
| AAGCAAGAGCGTAAGAAATC+AGG | 0.327281 | 3.4:+72586156 | None:intergenic |
| AGAAGTAAGAAGATGATGTT+AGG | 0.329332 | 3.4:-72586429 | None:intergenic |
| TGATCTGAACCGTTGATTCC+AGG | 0.372333 | 3.4:+72586246 | None:intergenic |
| CTTTCTCTGTAAACGCCGTT+TGG | 0.383139 | 3.4:-72586136 | MS.gene29848:CDS |
| TGTAAACGCCGTTTGGTACC+TGG | 0.425032 | 3.4:-72586129 | MS.gene29848:intron |
| TTTCATATGCTACAAATTTG+TGG | 0.444162 | 3.4:+72585667 | None:intergenic |
| CCATATCCACCAACTTCTCC+TGG | 0.454006 | 3.4:-72586264 | MS.gene29848:CDS |
| AAACAAGTTGTAGTTGCAGC+TGG | 0.457073 | 3.4:-72585704 | MS.gene29848:CDS |
| GAAGTAAGAAGATGATGTTA+GGG | 0.462099 | 3.4:-72586428 | None:intergenic |
| CAGGTCCATGACGGTTGAAA+AGG | 0.471195 | 3.4:+72586304 | None:intergenic |
| AACCGTCATGGACCTGGTGT+TGG | 0.498303 | 3.4:-72586297 | MS.gene29848:CDS |
| AGCAAGAGCGTAAGAAATCA+GGG | 0.500012 | 3.4:+72586157 | None:intergenic |
| GGACCTGGTGTTGGTCCGTA+CGG | 0.509388 | 3.4:-72586288 | MS.gene29848:CDS |
| TCAACGGTTCAGATCAGAGC+AGG | 0.509698 | 3.4:-72586239 | MS.gene29848:CDS |
| CCGTTGATTCCAGGAGAAGT+TGG | 0.513302 | 3.4:+72586255 | None:intergenic |
| TGTTACTGTGTTCAGATCGA+AGG | 0.548881 | 3.4:+72586356 | None:intergenic |
| TTGATTCCAGGAGAAGTTGG+TGG | 0.560507 | 3.4:+72586258 | None:intergenic |
| AACAAGTTGTAGTTGCAGCT+GGG | 0.574251 | 3.4:-72585703 | MS.gene29848:CDS |
| TCAGAGCAGGGTTATGTCCA+TGG | 0.575433 | 3.4:-72586226 | MS.gene29848:CDS |
| AGTTGCAGCTGGGTCTAAAG+TGG | 0.592297 | 3.4:-72585693 | MS.gene29848:CDS |
| GTTGGTGGATATGGACCGTA+CGG | 0.599015 | 3.4:+72586273 | None:intergenic |
| GGACCGTACGGACCAACACC+AGG | 0.604586 | 3.4:+72586285 | None:intergenic |
| CCAACTTCTCCTGGAATCAA+CGG | 0.605664 | 3.4:-72586255 | MS.gene29848:CDS |
| TGTCACGACCAGGTACCAAA+CGG | 0.608597 | 3.4:+72586121 | None:intergenic |
| AAGGTTTCTAGGTGATACCA+TGG | 0.614252 | 3.4:+72586209 | None:intergenic |
| GAAGAAAGATAAGTGTTCTG+TGG | 0.638421 | 3.4:-72585735 | MS.gene29848:CDS |
| GACCAACACCAGGTCCATGA+CGG | 0.641553 | 3.4:+72586295 | None:intergenic |
| CAACGGTTCAGATCAGAGCA+GGG | 0.716813 | 3.4:-72586238 | MS.gene29848:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTATTATTATTAATTTTGTG+TGG | - | chr3.4:72586223-72586242 | MS.gene29848:CDS | 10.0% |
| ! | GTGAAAAATTAAATTTGCAG+AGG | - | chr3.4:72586281-72586300 | MS.gene29848:CDS | 25.0% |
| !! | AATTTTGTGTGGATATAGAA+GGG | - | chr3.4:72586234-72586253 | MS.gene29848:CDS | 25.0% |
| !! | TAATTTTGTGTGGATATAGA+AGG | - | chr3.4:72586233-72586252 | MS.gene29848:CDS | 25.0% |
| !!! | TTTTTTGCATCTAAAAGTCT+TGG | - | chr3.4:72586049-72586068 | MS.gene29848:intron | 25.0% |
| TATCAGCTGAATTTCTTCTA+AGG | + | chr3.4:72585906-72585925 | None:intergenic | 30.0% | |
| ! | AAAAGGTTGTTGTTGTTGTT+AGG | + | chr3.4:72585775-72585794 | None:intergenic | 30.0% |
| !! | GAATTTCTTCTAAGGTTTCT+AGG | + | chr3.4:72585898-72585917 | None:intergenic | 30.0% |
| !!! | ATGCTTGTTGTTCTTTTCAT+TGG | + | chr3.4:72585706-72585725 | None:intergenic | 30.0% |
| CAGAGACATTTGATACGTTA+GGG | + | chr3.4:72586136-72586155 | None:intergenic | 35.0% | |
| CTTGTGAACACATCTCATAT+CGG | + | chr3.4:72586168-72586187 | None:intergenic | 35.0% | |
| GAAGAAAGATAAGTGTTCTG+TGG | - | chr3.4:72586358-72586377 | MS.gene29848:CDS | 35.0% | |
| ! | ATAGAAGGGTGTGTGATAAT+TGG | - | chr3.4:72586248-72586267 | MS.gene29848:CDS | 35.0% |
| !!! | CTTGTTGTTCTTTTCATTGG+AGG | + | chr3.4:72585703-72585722 | None:intergenic | 35.0% |
| AAACAAGTTGTAGTTGCAGC+TGG | - | chr3.4:72586389-72586408 | MS.gene29848:CDS | 40.0% | |
| AACAAGTTGTAGTTGCAGCT+GGG | - | chr3.4:72586390-72586409 | MS.gene29848:CDS | 40.0% | |
| ACTAAGTTTGATACCAGACG+CGG | - | chr3.4:72586087-72586106 | MS.gene29848:intron | 40.0% | |
| GCAGAGACATTTGATACGTT+AGG | + | chr3.4:72586137-72586156 | None:intergenic | 40.0% | |
| TGTTACTGTGTTCAGATCGA+AGG | + | chr3.4:72585740-72585759 | None:intergenic | 40.0% | |
| ! | AACAACCTTTTCAACCGTCA+TGG | - | chr3.4:72585784-72585803 | MS.gene29848:CDS | 40.0% |
| ! | AAGCAAGAGCGTAAGAAATC+AGG | + | chr3.4:72585940-72585959 | None:intergenic | 40.0% |
| ! | AAGGTTTCTAGGTGATACCA+TGG | + | chr3.4:72585887-72585906 | None:intergenic | 40.0% |
| ! | AGCAAGAGCGTAAGAAATCA+GGG | + | chr3.4:72585939-72585958 | None:intergenic | 40.0% |
| CCAACTTCTCCTGGAATCAA+CGG | - | chr3.4:72585838-72585857 | MS.gene29848:intron | 45.0% | |
| CTTTCTCTGTAAACGCCGTT+TGG | - | chr3.4:72585957-72585976 | MS.gene29848:intron | 45.0% | |
| TACATGTAGATGTCACGACC+AGG | + | chr3.4:72585985-72586004 | None:intergenic | 45.0% | |
| TTGATTCCAGGAGAAGTTGG+TGG | + | chr3.4:72585838-72585857 | None:intergenic | 45.0% | |
| ! | GTTCTTTTCATTGGAGGACG+AGG | + | chr3.4:72585697-72585716 | None:intergenic | 45.0% |
| !! | TGATCTGAACCGTTGATTCC+AGG | + | chr3.4:72585850-72585869 | None:intergenic | 45.0% |
| AGTTGCAGCTGGGTCTAAAG+TGG | - | chr3.4:72586400-72586419 | MS.gene29848:CDS | 50.0% | |
| CAACGGTTCAGATCAGAGCA+GGG | - | chr3.4:72585855-72585874 | MS.gene29848:intron | 50.0% | |
| CAGGTCCATGACGGTTGAAA+AGG | + | chr3.4:72585792-72585811 | None:intergenic | 50.0% | |
| CCATATCCACCAACTTCTCC+TGG | - | chr3.4:72585829-72585848 | MS.gene29848:intron | 50.0% | |
| TCAACGGTTCAGATCAGAGC+AGG | - | chr3.4:72585854-72585873 | MS.gene29848:intron | 50.0% | |
| TCAGAGCAGGGTTATGTCCA+TGG | - | chr3.4:72585867-72585886 | MS.gene29848:intron | 50.0% | |
| TGTAAACGCCGTTTGGTACC+TGG | - | chr3.4:72585964-72585983 | MS.gene29848:intron | 50.0% | |
| TGTCACGACCAGGTACCAAA+CGG | + | chr3.4:72585975-72585994 | None:intergenic | 50.0% | |
| ! | CTTTTCAACCGTCATGGACC+TGG | - | chr3.4:72585790-72585809 | MS.gene29848:CDS | 50.0% |
| ! | GTTGGTGGATATGGACCGTA+CGG | + | chr3.4:72585823-72585842 | None:intergenic | 50.0% |
| !! | CCAGGAGAAGTTGGTGGATA+TGG | + | chr3.4:72585832-72585851 | None:intergenic | 50.0% |
| !! | CCGTTGATTCCAGGAGAAGT+TGG | + | chr3.4:72585841-72585860 | None:intergenic | 50.0% |
| AACCGTCATGGACCTGGTGT+TGG | - | chr3.4:72585796-72585815 | MS.gene29848:intron | 55.0% | |
| AACCTGCAATTCTCCGCGTC+TGG | + | chr3.4:72586103-72586122 | None:intergenic | 55.0% | |
| GACCAACACCAGGTCCATGA+CGG | + | chr3.4:72585801-72585820 | None:intergenic | 55.0% | |
| TACCAGACGCGGAGAATTGC+AGG | - | chr3.4:72586098-72586117 | MS.gene29848:intron | 55.0% | |
| !! | GGACCTGGTGTTGGTCCGTA+CGG | - | chr3.4:72585805-72585824 | MS.gene29848:intron | 60.0% |
| GGACCGTACGGACCAACACC+AGG | + | chr3.4:72585811-72585830 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 72585676 | 72586439 | 72585676 | ID=MS.gene29848 |
| chr3.4 | mRNA | 72585676 | 72586439 | 72585676 | ID=MS.gene29848.t1;Parent=MS.gene29848 |
| chr3.4 | exon | 72586130 | 72586439 | 72586130 | ID=MS.gene29848.t1.exon1;Parent=MS.gene29848.t1 |
| chr3.4 | CDS | 72586130 | 72586439 | 72586130 | ID=cds.MS.gene29848.t1;Parent=MS.gene29848.t1 |
| chr3.4 | exon | 72585676 | 72585812 | 72585676 | ID=MS.gene29848.t1.exon2;Parent=MS.gene29848.t1 |
| chr3.4 | CDS | 72585676 | 72585812 | 72585676 | ID=cds.MS.gene29848.t1;Parent=MS.gene29848.t1 |
| Gene Sequence |
| Protein sequence |
