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.gene28055.t1 | XP_013446781.1 | 94.6 | 112 | 6 | 0 | 3 | 114 | 189 | 300 | 3.60E-59 | 237.3 |
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.gene28055.t1 | A0A072TVA7 | 94.6 | 112 | 6 | 0 | 3 | 114 | 189 | 300 | 2.6e-59 | 237.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene052413 | MS.gene28055 | 0.806153 | 9.45E-50 | -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.gene28055.t1 | MTR_8g090055 | 94.643 | 112 | 6 | 0 | 3 | 114 | 189 | 300 | 1.33e-74 | 223 |
| MS.gene28055.t1 | MTR_5g037310 | 39.474 | 76 | 45 | 1 | 1 | 76 | 192 | 266 | 2.83e-13 | 64.3 |
| MS.gene28055.t1 | MTR_5g037310 | 39.474 | 76 | 45 | 1 | 1 | 76 | 192 | 266 | 3.13e-13 | 64.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28055.t1 | AT1G10380 | 44.156 | 77 | 41 | 2 | 1 | 76 | 195 | 270 | 5.52e-13 | 63.5 |
| MS.gene28055.t1 | AT1G10380 | 44.156 | 77 | 41 | 2 | 1 | 76 | 195 | 270 | 5.74e-13 | 63.5 |
Find 33 sgRNAs with CRISPR-Local
Find 56 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GATCCTACTCATTGGGTTTA+TGG | 0.115730 | 4.4:-10915289 | MS.gene28055:CDS |
| CTCACAACTAGTACATTTAG+TGG | 0.331784 | 4.4:+10915222 | None:intergenic |
| ATCAAAACCAAGATTTCCTT+TGG | 0.338876 | 4.4:-10915102 | MS.gene28055:CDS |
| ACACAAACAAATCCACTTCC+TGG | 0.398611 | 4.4:+10915169 | None:intergenic |
| TAGAGTCCCAAAGGAAATCT+TGG | 0.407259 | 4.4:+10915095 | None:intergenic |
| GATCGTAATTAGAGCAATCA+AGG | 0.418096 | 4.4:+10915122 | None:intergenic |
| CCCTACTGATCCTACTCATT+GGG | 0.420444 | 4.4:-10915296 | MS.gene28055:CDS |
| GAATGTCTGGAGTTCCATCT+TGG | 0.421862 | 4.4:-10914605 | MS.gene28055:CDS |
| TATGAACAGTTGGGAATGTC+TGG | 0.453180 | 4.4:-10914618 | MS.gene28055:intron |
| ACCCTACTGATCCTACTCAT+TGG | 0.456155 | 4.4:-10915297 | MS.gene28055:CDS |
| TTTGTTTGTGTTTGTAAAGG+TGG | 0.459550 | 4.4:-10915157 | MS.gene28055:CDS |
| TCAAAACCAAGATTTCCTTT+GGG | 0.473584 | 4.4:-10915101 | MS.gene28055:CDS |
| GTCTGGAGTTCCATCTTGGC+TGG | 0.482605 | 4.4:-10914601 | MS.gene28055:CDS |
| TATACTTCGGTTGTGTCACT+TGG | 0.519729 | 4.4:-10915325 | MS.gene28055:CDS |
| GAAAATGATACCAGCCAAGA+TGG | 0.521207 | 4.4:+10914591 | None:intergenic |
| GGATATGCTCCTCCAGGAAG+TGG | 0.522288 | 4.4:-10915181 | MS.gene28055:CDS |
| GGATTTGTTTGTGTTTGTAA+AGG | 0.540887 | 4.4:-10915160 | MS.gene28055:CDS |
| ACCCAATGAGTAGGATCAGT+AGG | 0.552236 | 4.4:+10915295 | None:intergenic |
| TTAGAGAGAATGATTTGTAG+TGG | 0.554536 | 4.4:-10915349 | None:intergenic |
| GAGAGTAGTGGTGGTGTATG+TGG | 0.555000 | 4.4:-10915202 | MS.gene28055:CDS |
| TACTCATTGGGTTTATGGAG+TGG | 0.555908 | 4.4:-10915284 | MS.gene28055:CDS |
| GATTTGTAGTGGTTATACTT+CGG | 0.561863 | 4.4:-10915338 | MS.gene28055:CDS |
| CATTATCATCCGATTACACT+AGG | 0.569260 | 4.4:+10914566 | None:intergenic |
| CCCAATGAGTAGGATCAGTA+GGG | 0.577746 | 4.4:+10915296 | None:intergenic |
| GTATGTGGATATGCTCCTCC+AGG | 0.583052 | 4.4:-10915187 | MS.gene28055:CDS |
| GAGGAGAGATAGAGTCCCAA+AGG | 0.583741 | 4.4:+10915086 | None:intergenic |
| AACATACTGTTGTACATGGG+AGG | 0.621855 | 4.4:+10915064 | None:intergenic |
| ACTCCATAAACCCAATGAGT+AGG | 0.626290 | 4.4:+10915286 | None:intergenic |
| ATACTGTTGTACATGGGAGG+AGG | 0.638228 | 4.4:+10915067 | None:intergenic |
| GTGGCATTGAAATATACTCA+TGG | 0.674830 | 4.4:-10915265 | MS.gene28055:CDS |
| ACTAGTTGTGAGAGTAGTGG+TGG | 0.700797 | 4.4:-10915211 | MS.gene28055:CDS |
| TGTACTAGTTGTGAGAGTAG+TGG | 0.707622 | 4.4:-10915214 | MS.gene28055:CDS |
| CAAACAAATCCACTTCCTGG+AGG | 0.785898 | 4.4:+10915172 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATAAGTAAGTTAAAGTAATT+AGG | - | chr4.4:10914994-10915013 | MS.gene28055:intron | 15.0% |
| !! | TAAGTAAGTTAAAGTAATTA+GGG | - | chr4.4:10914995-10915014 | MS.gene28055:intron | 15.0% |
| !! | AAGTAAGTTAAAGTAATTAG+GGG | - | chr4.4:10914996-10915015 | MS.gene28055:intron | 20.0% |
| !!! | GTCTTTTTTAATTTTCATAC+AGG | - | chr4.4:10914956-10914975 | MS.gene28055:intron | 20.0% |
| ! | AAAAACATACTGTTGTACAT+GGG | + | chr4.4:10914861-10914880 | None:intergenic | 25.0% |
| ! | AAAAAGGAAAAATAGATGGT+TGG | - | chr4.4:10915091-10915110 | MS.gene28055:CDS | 25.0% |
| ! | AAAACAATATGCCAAAGTAA+TGG | - | chr4.4:10915156-10915175 | MS.gene28055:CDS | 25.0% |
| ! | AAACAATATGCCAAAGTAAT+GGG | - | chr4.4:10915157-10915176 | MS.gene28055:CDS | 25.0% |
| ! | AAAGAAACAACAAAAAGAGA+AGG | + | chr4.4:10914884-10914903 | None:intergenic | 25.0% |
| ! | ATAATAGTTACCCATTACTT+TGG | + | chr4.4:10915170-10915189 | None:intergenic | 25.0% |
| ! | CAAGAAAAAGGAAAAATAGA+TGG | - | chr4.4:10915087-10915106 | MS.gene28055:CDS | 25.0% |
| ! | TATTATTCTGTACACTTGAA+AGG | - | chr4.4:10915184-10915203 | MS.gene28055:CDS | 25.0% |
| !! | ATTTTCTGAGTACAAGAAAA+AGG | - | chr4.4:10915075-10915094 | MS.gene28055:CDS | 25.0% |
| !!! | TTTATATTGATTCTCTCTCT+TGG | - | chr4.4:10915230-10915249 | MS.gene28055:CDS | 25.0% |
| AAAAAAGACCCGAAAACTAT+GGG | + | chr4.4:10914945-10914964 | None:intergenic | 30.0% | |
| ATCAAAACCAAGATTTCCTT+TGG | - | chr4.4:10914817-10914836 | MS.gene28055:intron | 30.0% | |
| GAAAAACATACTGTTGTACA+TGG | + | chr4.4:10914862-10914881 | None:intergenic | 30.0% | |
| GAAATGAGTCAAATGACTAT+TGG | - | chr4.4:10915018-10915037 | MS.gene28055:intron | 30.0% | |
| GATTTGTAGTGGTTATACTT+CGG | - | chr4.4:10914581-10914600 | MS.gene28055:CDS | 30.0% | |
| TAAAAAAGACCCGAAAACTA+TGG | + | chr4.4:10914946-10914965 | None:intergenic | 30.0% | |
| TCAAAACCAAGATTTCCTTT+GGG | - | chr4.4:10914818-10914837 | MS.gene28055:intron | 30.0% | |
| TTTGTTTGTGTTTGTAAAGG+TGG | - | chr4.4:10914762-10914781 | MS.gene28055:intron | 30.0% | |
| ! | GGATTTGTTTGTGTTTGTAA+AGG | - | chr4.4:10914759-10914778 | MS.gene28055:intron | 30.0% |
| ! | TTTACATTCCCCATAGTTTT+CGG | - | chr4.4:10914933-10914952 | MS.gene28055:intron | 30.0% |
| AAAAAGACCCGAAAACTATG+GGG | + | chr4.4:10914944-10914963 | None:intergenic | 35.0% | |
| AAAAATAGATGGTTGGACGA+TGG | - | chr4.4:10915098-10915117 | MS.gene28055:CDS | 35.0% | |
| CTCACAACTAGTACATTTAG+TGG | + | chr4.4:10914700-10914719 | None:intergenic | 35.0% | |
| CTGTTCTGTTATGAACAGTT+GGG | - | chr4.4:10915292-10915311 | MS.gene28055:CDS | 35.0% | |
| GATCGTAATTAGAGCAATCA+AGG | + | chr4.4:10914800-10914819 | None:intergenic | 35.0% | |
| ! | GTGGCATTGAAATATACTCA+TGG | - | chr4.4:10914654-10914673 | MS.gene28055:intron | 35.0% |
| ! | TTACATTCCCCATAGTTTTC+GGG | - | chr4.4:10914934-10914953 | MS.gene28055:intron | 35.0% |
| AACATACTGTTGTACATGGG+AGG | + | chr4.4:10914858-10914877 | None:intergenic | 40.0% | |
| ACACAAACAAATCCACTTCC+TGG | + | chr4.4:10914753-10914772 | None:intergenic | 40.0% | |
| ACTCCATAAACCCAATGAGT+AGG | + | chr4.4:10914636-10914655 | None:intergenic | 40.0% | |
| CCAACTGTTCATAACAGAAC+AGG | + | chr4.4:10915294-10915313 | None:intergenic | 40.0% | |
| CCTGTTCTGTTATGAACAGT+TGG | - | chr4.4:10915291-10915310 | MS.gene28055:CDS | 40.0% | |
| GAAAATGATACCAGCCAAGA+TGG | + | chr4.4:10915331-10915350 | None:intergenic | 40.0% | |
| GATCCTACTCATTGGGTTTA+TGG | - | chr4.4:10914630-10914649 | MS.gene28055:intron | 40.0% | |
| TACTCATTGGGTTTATGGAG+TGG | - | chr4.4:10914635-10914654 | MS.gene28055:intron | 40.0% | |
| TAGAGTCCCAAAGGAAATCT+TGG | + | chr4.4:10914827-10914846 | None:intergenic | 40.0% | |
| TATGAACAGTTGGGAATGTC+TGG | - | chr4.4:10915301-10915320 | MS.gene28055:CDS | 40.0% | |
| TGTACTAGTTGTGAGAGTAG+TGG | - | chr4.4:10914705-10914724 | MS.gene28055:intron | 40.0% | |
| ! | TATACTTCGGTTGTGTCACT+TGG | - | chr4.4:10914594-10914613 | MS.gene28055:CDS | 40.0% |
| ACCCAATGAGTAGGATCAGT+AGG | + | chr4.4:10914627-10914646 | None:intergenic | 45.0% | |
| ACCCTACTGATCCTACTCAT+TGG | - | chr4.4:10914622-10914641 | MS.gene28055:intron | 45.0% | |
| ACTAGTTGTGAGAGTAGTGG+TGG | - | chr4.4:10914708-10914727 | MS.gene28055:intron | 45.0% | |
| ATACTGTTGTACATGGGAGG+AGG | + | chr4.4:10914855-10914874 | None:intergenic | 45.0% | |
| CAAACAAATCCACTTCCTGG+AGG | + | chr4.4:10914750-10914769 | None:intergenic | 45.0% | |
| CCCAATGAGTAGGATCAGTA+GGG | + | chr4.4:10914626-10914645 | None:intergenic | 45.0% | |
| CCCTACTGATCCTACTCATT+GGG | - | chr4.4:10914623-10914642 | MS.gene28055:intron | 45.0% | |
| ! | GAATGTCTGGAGTTCCATCT+TGG | - | chr4.4:10915314-10915333 | MS.gene28055:CDS | 45.0% |
| GAGGAGAGATAGAGTCCCAA+AGG | + | chr4.4:10914836-10914855 | None:intergenic | 50.0% | |
| GTATGTGGATATGCTCCTCC+AGG | - | chr4.4:10914732-10914751 | MS.gene28055:intron | 50.0% | |
| ! | GAGAGTAGTGGTGGTGTATG+TGG | - | chr4.4:10914717-10914736 | MS.gene28055:intron | 50.0% |
| GGATATGCTCCTCCAGGAAG+TGG | - | chr4.4:10914738-10914757 | MS.gene28055:intron | 55.0% | |
| ! | GTCTGGAGTTCCATCTTGGC+TGG | - | chr4.4:10915318-10915337 | MS.gene28055:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 10914579 | 10915362 | 10914579 | ID=MS.gene28055 |
| chr4.4 | mRNA | 10914579 | 10915362 | 10914579 | ID=MS.gene28055.t1;Parent=MS.gene28055 |
| chr4.4 | exon | 10915071 | 10915362 | 10915071 | ID=MS.gene28055.t1.exon1;Parent=MS.gene28055.t1 |
| chr4.4 | CDS | 10915071 | 10915362 | 10915071 | ID=cds.MS.gene28055.t1;Parent=MS.gene28055.t1 |
| chr4.4 | exon | 10914579 | 10914631 | 10914579 | ID=MS.gene28055.t1.exon2;Parent=MS.gene28055.t1 |
| chr4.4 | CDS | 10914579 | 10914631 | 10914579 | ID=cds.MS.gene28055.t1;Parent=MS.gene28055.t1 |
| Gene Sequence |
| Protein sequence |
