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.gene61482.t1 | RHN63911.1 | 82.9 | 211 | 35 | 1 | 1 | 211 | 1 | 210 | 2.80E-100 | 374.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene61482.t1 | Q9LT81 | 39.6 | 227 | 89 | 6 | 31 | 214 | 81 | 302 | 3.9e-34 | 146.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene61482.t1 | A0A396IGG1 | 82.9 | 211 | 35 | 1 | 1 | 211 | 1 | 210 | 2.0e-100 | 374.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene61482.t1 | TF | C3H |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene61482.t1 | MTR_4g113940 | 82.938 | 211 | 35 | 1 | 1 | 211 | 1 | 210 | 3.92e-129 | 365 |
| MS.gene61482.t1 | MTR_4g113890 | 68.037 | 219 | 21 | 3 | 1 | 211 | 1 | 178 | 1.32e-99 | 289 |
| MS.gene61482.t1 | MTR_4g113970 | 53.937 | 254 | 75 | 7 | 1 | 214 | 1 | 252 | 2.35e-79 | 238 |
| MS.gene61482.t1 | MTR_4g113860 | 50.806 | 248 | 87 | 5 | 1 | 214 | 1 | 247 | 4.15e-76 | 232 |
| MS.gene61482.t1 | MTR_3g050390 | 49.189 | 185 | 68 | 5 | 32 | 211 | 16 | 179 | 3.03e-49 | 161 |
| MS.gene61482.t1 | MTR_8g066730 | 28.235 | 255 | 112 | 6 | 16 | 207 | 36 | 282 | 1.26e-21 | 90.5 |
| MS.gene61482.t1 | MTR_8g066730 | 28.235 | 255 | 112 | 6 | 16 | 207 | 36 | 282 | 2.60e-21 | 90.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene61482.t1 | AT3G19360 | 40.088 | 227 | 88 | 7 | 31 | 214 | 81 | 302 | 6.72e-42 | 146 |
| MS.gene61482.t1 | AT3G19360 | 40.088 | 227 | 88 | 7 | 31 | 214 | 81 | 302 | 6.72e-42 | 146 |
| MS.gene61482.t1 | AT1G32360 | 29.442 | 197 | 96 | 5 | 54 | 207 | 90 | 286 | 3.49e-21 | 90.9 |
Find 60 sgRNAs with CRISPR-Local
Find 76 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACCATTGAAACTAATAATT+TGG | 0.147683 | 8.3:-13399190 | MS.gene61482:CDS |
| CCAACTAGCTTCTGCGAATT+TGG | 0.204635 | 8.3:+13399405 | None:intergenic |
| ATGAAGATCCTGCACAGTTT+AGG | 0.341189 | 8.3:-13399251 | MS.gene61482:CDS |
| ATCGACTGCAGCTGGGAAAT+CGG | 0.346952 | 8.3:-13399368 | MS.gene61482:CDS |
| TTCCAAATTATTAGTTTCAA+TGG | 0.356757 | 8.3:+13399188 | None:intergenic |
| ATTTGTACTAAGTTCAGATT+TGG | 0.359410 | 8.3:-13399492 | MS.gene61482:CDS |
| GAAGCACTCTCTTGATTTCA+AGG | 0.359778 | 8.3:+13399218 | None:intergenic |
| TGAACAACAATGACTTCAAA+AGG | 0.386314 | 8.3:-13399611 | MS.gene61482:CDS |
| TAACGAAGATCGACTGCAGC+TGG | 0.416609 | 8.3:-13399376 | MS.gene61482:CDS |
| AGACTAAACTGTGTCGCAAT+TGG | 0.421823 | 8.3:-13399122 | MS.gene61482:CDS |
| AGCAAGCAAGGGGCACTTAT+CGG | 0.435970 | 8.3:-13399146 | MS.gene61482:CDS |
| AGATTTGGTGCTTGTAGAAA+CGG | 0.437088 | 8.3:-13399477 | MS.gene61482:CDS |
| TCCTTGTTTATAGGCATAGC+AGG | 0.441222 | 8.3:-13398737 | MS.gene61482:intron |
| TTAGAGGTTGGAATATCATA+TGG | 0.441570 | 8.3:+13399660 | None:intergenic |
| TCGACTGCAGCTGGGAAATC+GGG | 0.443166 | 8.3:-13399367 | MS.gene61482:CDS |
| TTGCGGCGGTGACATCTTAG+AGG | 0.444480 | 8.3:+13399644 | None:intergenic |
| TGTGCAAGCATTATTGCAAT+GGG | 0.460308 | 8.3:-13399311 | MS.gene61482:CDS |
| CTCTTTGCTCATGGTGAAGA+AGG | 0.463092 | 8.3:-13399063 | MS.gene61482:intron |
| CTGATCTGTTTGATTGAGGA+AGG | 0.475163 | 8.3:+13399538 | None:intergenic |
| AATATACACTTATCTCCATA+TGG | 0.477192 | 8.3:+13399279 | None:intergenic |
| GAGACAGGATATTGTTCCTA+TGG | 0.480467 | 8.3:-13399096 | MS.gene61482:CDS |
| CTCATGGAGCTGAAGAGATA+AGG | 0.489689 | 8.3:-13399437 | MS.gene61482:CDS |
| CCAAATTCGCAGAAGCTAGT+TGG | 0.492172 | 8.3:-13399405 | MS.gene61482:CDS |
| AATAATTGCAACTTTGCTCA+TGG | 0.494959 | 8.3:-13399453 | MS.gene61482:CDS |
| GATTGAGGAAGGGTCATCCT+TGG | 0.496966 | 8.3:+13399549 | None:intergenic |
| CTTGGAGGAGGGCATATCAA+TGG | 0.505795 | 8.3:+13399567 | None:intergenic |
| AGCTTCTGCGAATTTGGTGG+TGG | 0.508361 | 8.3:+13399411 | None:intergenic |
| GGAATGTGAACAAGCAAGCA+AGG | 0.508839 | 8.3:-13399158 | MS.gene61482:CDS |
| ACTAGCTTCTGCGAATTTGG+TGG | 0.517860 | 8.3:+13399408 | None:intergenic |
| CTAATAATTTGGAAGGCAGC+AGG | 0.521839 | 8.3:-13399179 | MS.gene61482:CDS |
| AGGAGGGCATATCAATGGAT+TGG | 0.527979 | 8.3:+13399572 | None:intergenic |
| GGAAGGGTCATCCTTGGAGG+AGG | 0.531078 | 8.3:+13399555 | None:intergenic |
| TATTCATTCCTAAACTGTGC+AGG | 0.531321 | 8.3:+13399243 | None:intergenic |
| CTGTGCAAGCATTATTGCAA+TGG | 0.534714 | 8.3:-13399312 | MS.gene61482:CDS |
| TGTCGCAATTGGAAGGAGAC+AGG | 0.541370 | 8.3:-13399111 | MS.gene61482:CDS |
| ATTGAAACTAATAATTTGGA+AGG | 0.547647 | 8.3:-13399186 | MS.gene61482:CDS |
| GAACAACAATGACTTCAAAA+GGG | 0.550138 | 8.3:-13399610 | MS.gene61482:CDS |
| AAAGAGACAGTTCTTTCCAT+AGG | 0.554060 | 8.3:+13399080 | None:intergenic |
| TGAGGAAGGGTCATCCTTGG+AGG | 0.556539 | 8.3:+13399552 | None:intergenic |
| CATTGATATGCCCTCCTCCA+AGG | 0.556864 | 8.3:-13399566 | MS.gene61482:CDS |
| GGCGGTGACATCTTAGAGGT+TGG | 0.560713 | 8.3:+13399648 | None:intergenic |
| AACAATGACTTCAAAAGGGA+AGG | 0.561307 | 8.3:-13399606 | MS.gene61482:CDS |
| TGGTCTGATCTGTTTGATTG+AGG | 0.566957 | 8.3:+13399534 | None:intergenic |
| TGCAGTCGATCTTCGTTACA+CGG | 0.568839 | 8.3:+13399381 | None:intergenic |
| AAGAACTGTCTCTTTGCTCA+TGG | 0.580294 | 8.3:-13399072 | MS.gene61482:CDS |
| AATGGGGAGGAATGTCCATA+TGG | 0.583975 | 8.3:-13399294 | MS.gene61482:CDS |
| TAAACTGTGTCGCAATTGGA+AGG | 0.596328 | 8.3:-13399118 | MS.gene61482:CDS |
| GAATGTGAACAAGCAAGCAA+GGG | 0.597583 | 8.3:-13399157 | MS.gene61482:CDS |
| ACTGTGCAGGATCTTCATGA+AGG | 0.599205 | 8.3:+13399256 | None:intergenic |
| AACGAAGATCGACTGCAGCT+GGG | 0.604723 | 8.3:-13399375 | MS.gene61482:CDS |
| TGATCATTAATCATACATGA+AGG | 0.605179 | 8.3:+13398703 | None:intergenic |
| TGATCTGTTTGATTGAGGAA+GGG | 0.618914 | 8.3:+13399539 | None:intergenic |
| GAAGGGTCATCCTTGGAGGA+GGG | 0.622595 | 8.3:+13399556 | None:intergenic |
| AATATCATATGGAAAAGCCA+TGG | 0.637338 | 8.3:+13399671 | None:intergenic |
| TTGTTCAATGAAGTGAATTG+CGG | 0.641834 | 8.3:+13399627 | None:intergenic |
| GCAGTCGATCTTCGTTACAC+GGG | 0.651804 | 8.3:+13399382 | None:intergenic |
| AATGTGAACAAGCAAGCAAG+GGG | 0.656040 | 8.3:-13399156 | MS.gene61482:CDS |
| TTCAATGAAGTGAATTGCGG+CGG | 0.657596 | 8.3:+13399630 | None:intergenic |
| CAAGCATTATTGCAATGGGG+AGG | 0.662472 | 8.3:-13399307 | MS.gene61482:CDS |
| GTGCAAGCATTATTGCAATG+GGG | 0.746686 | 8.3:-13399310 | MS.gene61482:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATATCAAAAAATCATACAA+AGG | - | chr8.3:13399037-13399056 | MS.gene61482:intron | 15.0% |
| !! | TATACTTTGATTATTTGTTT+CGG | - | chr8.3:13399347-13399366 | MS.gene61482:CDS | 15.0% |
| !! | AACCATTGAAACTAATAATT+TGG | - | chr8.3:13399188-13399207 | MS.gene61482:CDS | 20.0% |
| !! | ATTGAAACTAATAATTTGGA+AGG | - | chr8.3:13399192-13399211 | MS.gene61482:CDS | 20.0% |
| !!! | TTCCAAATTATTAGTTTCAA+TGG | + | chr8.3:13399193-13399212 | None:intergenic | 20.0% |
| ! | AATATACACTTATCTCCATA+TGG | + | chr8.3:13399102-13399121 | None:intergenic | 25.0% |
| ! | ATTTGTACTAAGTTCAGATT+TGG | - | chr8.3:13398886-13398905 | MS.gene61482:intron | 25.0% |
| AATAATTGCAACTTTGCTCA+TGG | - | chr8.3:13398925-13398944 | MS.gene61482:intron | 30.0% | |
| GAACAACAATGACTTCAAAA+GGG | - | chr8.3:13398768-13398787 | MS.gene61482:intron | 30.0% | |
| TGAACAACAATGACTTCAAA+AGG | - | chr8.3:13398767-13398786 | MS.gene61482:intron | 30.0% | |
| TGCAAATTACAGTGTTTGAA+TGG | - | chr8.3:13399474-13399493 | MS.gene61482:CDS | 30.0% | |
| TGTGTATGATGTTTCATGTT+TGG | - | chr8.3:13399526-13399545 | MS.gene61482:CDS | 30.0% | |
| TTAGAGGTTGGAATATCATA+TGG | + | chr8.3:13398721-13398740 | None:intergenic | 30.0% | |
| TTGTTCAATGAAGTGAATTG+CGG | + | chr8.3:13398754-13398773 | None:intergenic | 30.0% | |
| ! | ATGATTCCATCCTTGTTTAT+AGG | - | chr8.3:13399632-13399651 | MS.gene61482:CDS | 30.0% |
| ! | ATTTTCCATTCAGAACCTTA+GGG | + | chr8.3:13399614-13399633 | None:intergenic | 30.0% |
| ! | TTCGTGTTTTGTAGAAAATG+TGG | + | chr8.3:13398867-13398886 | None:intergenic | 30.0% |
| AAAGAGACAGTTCTTTCCAT+AGG | + | chr8.3:13399301-13399320 | None:intergenic | 35.0% | |
| AACAATGACTTCAAAAGGGA+AGG | - | chr8.3:13398772-13398791 | MS.gene61482:intron | 35.0% | |
| TATTCATTCCTAAACTGTGC+AGG | + | chr8.3:13399138-13399157 | None:intergenic | 35.0% | |
| TGATCTGTTTGATTGAGGAA+GGG | + | chr8.3:13398842-13398861 | None:intergenic | 35.0% | |
| TGTGCAAGCATTATTGCAAT+GGG | - | chr8.3:13399067-13399086 | MS.gene61482:CDS | 35.0% | |
| ! | AGGTACATTTTTGCAAGACA+AGG | + | chr8.3:13399591-13399610 | None:intergenic | 35.0% |
| ! | ATTTTTGCAAGACAAGGCAA+TGG | + | chr8.3:13399585-13399604 | None:intergenic | 35.0% |
| ! | CATTTTCCATTCAGAACCTT+AGG | + | chr8.3:13399615-13399634 | None:intergenic | 35.0% |
| ! | TTTTTGCAAGACAAGGCAAT+GGG | + | chr8.3:13399584-13399603 | None:intergenic | 35.0% |
| !! | AGATTTGGTGCTTGTAGAAA+CGG | - | chr8.3:13398901-13398920 | MS.gene61482:intron | 35.0% |
| AAGAACTGTCTCTTTGCTCA+TGG | - | chr8.3:13399306-13399325 | MS.gene61482:CDS | 40.0% | |
| AATGTGAACAAGCAAGCAAG+GGG | - | chr8.3:13399222-13399241 | MS.gene61482:CDS | 40.0% | |
| ACCTGCTATGCCTATAAACA+AGG | + | chr8.3:13399645-13399664 | None:intergenic | 40.0% | |
| AGACTAAACTGTGTCGCAAT+TGG | - | chr8.3:13399256-13399275 | MS.gene61482:CDS | 40.0% | |
| ATGAAGATCCTGCACAGTTT+AGG | - | chr8.3:13399127-13399146 | MS.gene61482:CDS | 40.0% | |
| CTAATAATTTGGAAGGCAGC+AGG | - | chr8.3:13399199-13399218 | MS.gene61482:CDS | 40.0% | |
| CTGATCTGTTTGATTGAGGA+AGG | + | chr8.3:13398843-13398862 | None:intergenic | 40.0% | |
| CTGTGCAAGCATTATTGCAA+TGG | - | chr8.3:13399066-13399085 | MS.gene61482:CDS | 40.0% | |
| GAATGTGAACAAGCAAGCAA+GGG | - | chr8.3:13399221-13399240 | MS.gene61482:CDS | 40.0% | |
| GAGACAGGATATTGTTCCTA+TGG | - | chr8.3:13399282-13399301 | MS.gene61482:CDS | 40.0% | |
| GCTATGCCTATAAACAAGGA+TGG | + | chr8.3:13399641-13399660 | None:intergenic | 40.0% | |
| GTGCAAGCATTATTGCAATG+GGG | - | chr8.3:13399068-13399087 | MS.gene61482:CDS | 40.0% | |
| TAAACTGTGTCGCAATTGGA+AGG | - | chr8.3:13399260-13399279 | MS.gene61482:CDS | 40.0% | |
| TGCAAAAATGTACCTCCCTA+AGG | - | chr8.3:13399596-13399615 | MS.gene61482:CDS | 40.0% | |
| TGGTCTGATCTGTTTGATTG+AGG | + | chr8.3:13398847-13398866 | None:intergenic | 40.0% | |
| TTCAATGAAGTGAATTGCGG+CGG | + | chr8.3:13398751-13398770 | None:intergenic | 40.0% | |
| ! | GAAGCACTCTCTTGATTTCA+AGG | + | chr8.3:13399163-13399182 | None:intergenic | 40.0% |
| ! | TCCTTGTTTATAGGCATAGC+AGG | - | chr8.3:13399641-13399660 | MS.gene61482:CDS | 40.0% |
| AAGGCAATGGGACAACAAGT+AGG | + | chr8.3:13399572-13399591 | None:intergenic | 45.0% | |
| AATGGGGAGGAATGTCCATA+TGG | - | chr8.3:13399084-13399103 | MS.gene61482:CDS | 45.0% | |
| ACTGTGCAGGATCTTCATGA+AGG | + | chr8.3:13399125-13399144 | None:intergenic | 45.0% | |
| CAAGCATTATTGCAATGGGG+AGG | - | chr8.3:13399071-13399090 | MS.gene61482:CDS | 45.0% | |
| CCAAATTCGCAGAAGCTAGT+TGG | - | chr8.3:13398973-13398992 | MS.gene61482:intron | 45.0% | |
| CTCATGGAGCTGAAGAGATA+AGG | - | chr8.3:13398941-13398960 | MS.gene61482:intron | 45.0% | |
| CTCTTTGCTCATGGTGAAGA+AGG | - | chr8.3:13399315-13399334 | MS.gene61482:CDS | 45.0% | |
| GGAATGTGAACAAGCAAGCA+AGG | - | chr8.3:13399220-13399239 | MS.gene61482:CDS | 45.0% | |
| TGCAGTCGATCTTCGTTACA+CGG | + | chr8.3:13399000-13399019 | None:intergenic | 45.0% | |
| TTCCATTCAGAACCTTAGGG+AGG | + | chr8.3:13399611-13399630 | None:intergenic | 45.0% | |
| ! | ACTAGCTTCTGCGAATTTGG+TGG | + | chr8.3:13398973-13398992 | None:intergenic | 45.0% |
| ! | AGGAGGGCATATCAATGGAT+TGG | + | chr8.3:13398809-13398828 | None:intergenic | 45.0% |
| ! | CCAACTAGCTTCTGCGAATT+TGG | + | chr8.3:13398976-13398995 | None:intergenic | 45.0% |
| !! | TACCTCCCTAAGGTTCTGAA+TGG | - | chr8.3:13399606-13399625 | MS.gene61482:CDS | 45.0% |
| AACGAAGATCGACTGCAGCT+GGG | - | chr8.3:13399003-13399022 | MS.gene61482:intron | 50.0% | |
| ATCGACTGCAGCTGGGAAAT+CGG | - | chr8.3:13399010-13399029 | MS.gene61482:intron | 50.0% | |
| CATTGATATGCCCTCCTCCA+AGG | - | chr8.3:13398812-13398831 | MS.gene61482:intron | 50.0% | |
| GATTGAGGAAGGGTCATCCT+TGG | + | chr8.3:13398832-13398851 | None:intergenic | 50.0% | |
| GCAATGGGACAACAAGTAGG+AGG | + | chr8.3:13399569-13399588 | None:intergenic | 50.0% | |
| GCAGTCGATCTTCGTTACAC+GGG | + | chr8.3:13398999-13399018 | None:intergenic | 50.0% | |
| TAACGAAGATCGACTGCAGC+TGG | - | chr8.3:13399002-13399021 | MS.gene61482:intron | 50.0% | |
| TGTCGCAATTGGAAGGAGAC+AGG | - | chr8.3:13399267-13399286 | MS.gene61482:CDS | 50.0% | |
| ! | AGCTTCTGCGAATTTGGTGG+TGG | + | chr8.3:13398970-13398989 | None:intergenic | 50.0% |
| ! | CTTGGAGGAGGGCATATCAA+TGG | + | chr8.3:13398814-13398833 | None:intergenic | 50.0% |
| !! | AGCAAGCAAGGGGCACTTAT+CGG | - | chr8.3:13399232-13399251 | MS.gene61482:CDS | 50.0% |
| GAAGGGTCATCCTTGGAGGA+GGG | + | chr8.3:13398825-13398844 | None:intergenic | 55.0% | |
| GGCGGTGACATCTTAGAGGT+TGG | + | chr8.3:13398733-13398752 | None:intergenic | 55.0% | |
| TCGACTGCAGCTGGGAAATC+GGG | - | chr8.3:13399011-13399030 | MS.gene61482:intron | 55.0% | |
| TGAGGAAGGGTCATCCTTGG+AGG | + | chr8.3:13398829-13398848 | None:intergenic | 55.0% | |
| TTGCGGCGGTGACATCTTAG+AGG | + | chr8.3:13398737-13398756 | None:intergenic | 55.0% | |
| GGAAGGGTCATCCTTGGAGG+AGG | + | chr8.3:13398826-13398845 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8.3 | gene | 13398709 | 13399691 | 13398709 | ID=MS.gene61482 |
| chr8.3 | mRNA | 13398709 | 13399691 | 13398709 | ID=MS.gene61482.t1;Parent=MS.gene61482 |
| chr8.3 | exon | 13399064 | 13399691 | 13399064 | ID=MS.gene61482.t1.exon1;Parent=MS.gene61482.t1 |
| chr8.3 | CDS | 13399064 | 13399691 | 13399064 | ID=cds.MS.gene61482.t1;Parent=MS.gene61482.t1 |
| chr8.3 | exon | 13398709 | 13398746 | 13398709 | ID=MS.gene61482.t1.exon2;Parent=MS.gene61482.t1 |
| chr8.3 | CDS | 13398709 | 13398746 | 13398709 | ID=cds.MS.gene61482.t1;Parent=MS.gene61482.t1 |
| Gene Sequence |
| Protein sequence |
