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.gene05164.t1 | KEH28568.1 | 78.9 | 57 | 12 | 0 | 39 | 95 | 294 | 350 | 2.20E-15 | 91.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene05164.t1 | A0A072UHG8 | 78.9 | 57 | 12 | 0 | 39 | 95 | 294 | 350 | 1.6e-15 | 91.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene05164.t1 | TR | HMG |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene05164 | MS.gene42487 | 0.908188 | 2.25E-81 | -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.gene05164.t1 | MTR_6g048860 | 82.692 | 52 | 9 | 0 | 39 | 90 | 266 | 317 | 3.42e-24 | 94.0 |
| MS.gene05164.t1 | MTR_3g037670 | 80.952 | 42 | 8 | 0 | 39 | 80 | 224 | 265 | 8.42e-18 | 76.3 |
| MS.gene05164.t1 | MTR_4g007610 | 78.947 | 57 | 12 | 0 | 39 | 95 | 294 | 350 | 1.07e-17 | 76.6 |
| MS.gene05164.t1 | MTR_8g107350 | 76.190 | 42 | 10 | 0 | 39 | 80 | 192 | 233 | 1.10e-16 | 73.2 |
| MS.gene05164.t1 | MTR_5g038770 | 50.847 | 59 | 28 | 1 | 11 | 68 | 6 | 64 | 9.00e-12 | 57.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 18 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCAGGATAAACAACATTATT+TGG | 0.112137 | 6.4:+51606572 | MS.gene05164:intron |
| AAATTATGATGTTAATAAAA+TGG | 0.232813 | 6.4:+51606434 | MS.gene05164:CDS |
| TCTATCTGCAACTGTGAAAT+TGG | 0.248781 | 6.4:-51606000 | None:intergenic |
| TTATATTTCAGGGATAAGTT+TGG | 0.382899 | 6.4:+51606387 | MS.gene05164:intron |
| GTGTTACCTGTGAGCGAAAG+AGG | 0.447507 | 6.4:-51606037 | None:intergenic |
| GTGAAGCATTCCACCATTCT+CGG | 0.464051 | 6.4:-51606752 | None:intergenic |
| AGGATGAAGTTCAATAGATC+CGG | 0.465533 | 6.4:-51605977 | None:intergenic |
| AACATGAGAAACTTAAGAAA+AGG | 0.495000 | 6.4:+51606619 | MS.gene05164:CDS |
| AGGACTTACTTCATTACTCA+TGG | 0.496503 | 6.4:-51606475 | None:intergenic |
| ATAAAATGGTTGTTAAAGCA+TGG | 0.505549 | 6.4:+51606448 | MS.gene05164:CDS |
| CCGGGACTGTGAAGCTCGAT+CGG | 0.546676 | 6.4:-51605958 | None:intergenic |
| GAATAGGGTGACTCCGAGAA+TGG | 0.550110 | 6.4:+51606739 | MS.gene05164:intron |
| CCGATCGAGCTTCACAGTCC+CGG | 0.552827 | 6.4:+51605958 | MS.gene05164:CDS |
| CGGTGAAGTGTGAAGCTCCA+TGG | 0.558822 | 6.4:-51605938 | None:intergenic |
| ATCTGCAACTGTGAAATTGG+AGG | 0.566506 | 6.4:-51605997 | None:intergenic |
| GGATGAAGTTCAATAGATCC+GGG | 0.594180 | 6.4:-51605976 | None:intergenic |
| GGATAAAGCATCTAAGCGCA+AGG | 0.626619 | 6.4:+51606593 | MS.gene05164:CDS |
| TAGGGTGACTCCGAGAATGG+TGG | 0.628698 | 6.4:+51606742 | MS.gene05164:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATTATGATGTTAATAAAA+TGG | + | chr6.4:51606434-51606453 | MS.gene05164:CDS | 10.0% |
| !! | AAGTATAAAATTTATATTTC+AGG | + | chr6.4:51606376-51606395 | MS.gene05164:intron | 10.0% |
| !! | AGTATAAAATTTATATTTCA+GGG | + | chr6.4:51606377-51606396 | MS.gene05164:intron | 10.0% |
| !! | ATTGATTATATTATTTAATC+AGG | + | chr6.4:51606554-51606573 | MS.gene05164:intron | 10.0% |
| !! | AACACAAAATCAATTAAATT+TGG | - | chr6.4:51606658-51606677 | None:intergenic | 15.0% |
| !! | ACACAAAATCAATTAAATTT+GGG | - | chr6.4:51606657-51606676 | None:intergenic | 15.0% |
| !! | AAAGAAGATTTCTTATTCTT+TGG | - | chr6.4:51606319-51606338 | None:intergenic | 20.0% |
| ! | AACATGAGAAACTTAAGAAA+AGG | + | chr6.4:51606619-51606638 | MS.gene05164:CDS | 25.0% |
| ! | ATAAAATGGTTGTTAAAGCA+TGG | + | chr6.4:51606448-51606467 | MS.gene05164:CDS | 25.0% |
| ! | TCAGGATAAACAACATTATT+TGG | + | chr6.4:51606572-51606591 | MS.gene05164:intron | 25.0% |
| ! | TTATATTTCAGGGATAAGTT+TGG | + | chr6.4:51606387-51606406 | MS.gene05164:intron | 25.0% |
| ! | TTTGTGTGTTTGATTGAATA+GGG | + | chr6.4:51606724-51606743 | MS.gene05164:intron | 25.0% |
| CATGTGTTGTAATATACTAG+AGG | - | chr6.4:51606498-51606517 | None:intergenic | 30.0% | |
| CTTTGTGTGTTTGATTGAAT+AGG | + | chr6.4:51606723-51606742 | MS.gene05164:intron | 30.0% | |
| !! | TTTCTTTGAAATCCATGTGT+TGG | + | chr6.4:51606287-51606306 | MS.gene05164:intron | 30.0% |
| AGGACTTACTTCATTACTCA+TGG | - | chr6.4:51606478-51606497 | None:intergenic | 35.0% | |
| AGGATGAAGTTCAATAGATC+CGG | - | chr6.4:51605980-51605999 | None:intergenic | 35.0% | |
| TCTATCTGCAACTGTGAAAT+TGG | - | chr6.4:51606003-51606022 | None:intergenic | 35.0% | |
| ATCTGCAACTGTGAAATTGG+AGG | - | chr6.4:51606000-51606019 | None:intergenic | 40.0% | |
| GGATGAAGTTCAATAGATCC+GGG | - | chr6.4:51605979-51605998 | None:intergenic | 40.0% | |
| !!! | TTTTTTCCTCTTTCGCTCAC+AGG | + | chr6.4:51606031-51606050 | MS.gene05164:CDS | 40.0% |
| CTTTGGCAACATCCAACACA+TGG | - | chr6.4:51606302-51606321 | None:intergenic | 45.0% | |
| ! | GGATAAAGCATCTAAGCGCA+AGG | + | chr6.4:51606593-51606612 | MS.gene05164:CDS | 45.0% |
| ! | GTGAAGCATTCCACCATTCT+CGG | - | chr6.4:51606755-51606774 | None:intergenic | 45.0% |
| GAATAGGGTGACTCCGAGAA+TGG | + | chr6.4:51606739-51606758 | MS.gene05164:intron | 50.0% | |
| GTGTTACCTGTGAGCGAAAG+AGG | - | chr6.4:51606040-51606059 | None:intergenic | 50.0% | |
| TAGGGTGACTCCGAGAATGG+TGG | + | chr6.4:51606742-51606761 | MS.gene05164:intron | 55.0% | |
| CCGATCGAGCTTCACAGTCC+CGG | + | chr6.4:51605958-51605977 | MS.gene05164:CDS | 60.0% | |
| CCGGGACTGTGAAGCTCGAT+CGG | - | chr6.4:51605961-51605980 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.4 | gene | 51605940 | 51606781 | 51605940 | ID=MS.gene05164 |
| chr6.4 | mRNA | 51605940 | 51606781 | 51605940 | ID=MS.gene05164.t1;Parent=MS.gene05164 |
| chr6.4 | exon | 51605940 | 51606052 | 51605940 | ID=MS.gene05164.t1.exon1;Parent=MS.gene05164.t1 |
| chr6.4 | CDS | 51605940 | 51606052 | 51605940 | ID=cds.MS.gene05164.t1;Parent=MS.gene05164.t1 |
| chr6.4 | exon | 51606398 | 51606488 | 51606398 | ID=MS.gene05164.t1.exon2;Parent=MS.gene05164.t1 |
| chr6.4 | CDS | 51606398 | 51606488 | 51606398 | ID=cds.MS.gene05164.t1;Parent=MS.gene05164.t1 |
| chr6.4 | exon | 51606576 | 51606640 | 51606576 | ID=MS.gene05164.t1.exon3;Parent=MS.gene05164.t1 |
| chr6.4 | CDS | 51606576 | 51606640 | 51606576 | ID=cds.MS.gene05164.t1;Parent=MS.gene05164.t1 |
| chr6.4 | exon | 51606745 | 51606781 | 51606745 | ID=MS.gene05164.t1.exon4;Parent=MS.gene05164.t1 |
| chr6.4 | CDS | 51606745 | 51606781 | 51606745 | ID=cds.MS.gene05164.t1;Parent=MS.gene05164.t1 |
| Gene Sequence |
| Protein sequence |
