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.gene56559.t1 | AES89899.2 | 99.3 | 143 | 1 | 0 | 5 | 147 | 51 | 193 | 5.70E-49 | 203.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56559.t1 | Q9FH37 | 80.7 | 145 | 26 | 2 | 5 | 147 | 90 | 234 | 8.0e-36 | 151.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56559.t1 | B7FHK4 | 99.3 | 143 | 1 | 0 | 5 | 147 | 95 | 237 | 4.1e-49 | 203.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049824 | MS.gene56559 | -0.810016 | 1.42E-50 | -1.69E-46 |
| MS.gene051279 | MS.gene56559 | -0.810375 | 1.19E-50 | -1.69E-46 |
| MS.gene052239 | MS.gene56559 | 0.80642 | 8.30E-50 | -1.69E-46 |
| MS.gene052582 | MS.gene56559 | -0.810929 | 9.03E-51 | -1.69E-46 |
| MS.gene052584 | MS.gene56559 | -0.810935 | 9.00E-51 | -1.69E-46 |
| MS.gene053079 | MS.gene56559 | -0.803455 | 3.46E-49 | -1.69E-46 |
| MS.gene053226 | MS.gene56559 | -0.835428 | 1.69E-56 | -1.69E-46 |
| MS.gene05364 | MS.gene56559 | -0.826532 | 2.58E-54 | -1.69E-46 |
| MS.gene053931 | MS.gene56559 | -0.831314 | 1.79E-55 | -1.69E-46 |
| MS.gene054651 | MS.gene56559 | -0.813792 | 2.14E-51 | -1.69E-46 |
| MS.gene055841 | MS.gene56559 | -0.819252 | 1.28E-52 | -1.69E-46 |
| MS.gene05686 | MS.gene56559 | -0.808651 | 2.79E-50 | -1.69E-46 |
| MS.gene05689 | MS.gene56559 | -0.801134 | 1.04E-48 | -1.69E-46 |
| MS.gene057060 | MS.gene56559 | -0.806088 | 9.75E-50 | -1.69E-46 |
| MS.gene057208 | MS.gene56559 | -0.8004 | 1.47E-48 | -1.69E-46 |
| MS.gene05985 | MS.gene56559 | 0.802457 | 5.56E-49 | -1.69E-46 |
| MS.gene060587 | MS.gene56559 | -0.807437 | 5.06E-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.gene56559.t1 | MTR_4g081370 | 99.301 | 143 | 1 | 0 | 5 | 147 | 51 | 193 | 2.23e-102 | 291 |
| MS.gene56559.t1 | MTR_4g081370 | 99.301 | 143 | 1 | 0 | 5 | 147 | 95 | 237 | 4.71e-101 | 289 |
| MS.gene56559.t1 | MTR_2g082640 | 88.112 | 143 | 17 | 0 | 5 | 147 | 88 | 230 | 1.61e-87 | 255 |
| MS.gene56559.t1 | MTR_2g089000 | 60.839 | 143 | 50 | 1 | 5 | 147 | 124 | 260 | 2.30e-56 | 177 |
| MS.gene56559.t1 | MTR_1g043430 | 54.167 | 144 | 59 | 3 | 5 | 147 | 109 | 246 | 1.39e-44 | 146 |
| MS.gene56559.t1 | MTR_4g075480 | 47.500 | 80 | 41 | 1 | 5 | 84 | 25 | 103 | 1.07e-15 | 72.0 |
| MS.gene56559.t1 | MTR_4g075480 | 47.500 | 80 | 41 | 1 | 5 | 84 | 53 | 131 | 1.51e-15 | 72.0 |
| MS.gene56559.t1 | MTR_1g032600 | 36.250 | 80 | 50 | 1 | 5 | 84 | 96 | 174 | 1.54e-11 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56559.t1 | AT5G54680 | 83.448 | 145 | 22 | 2 | 5 | 147 | 90 | 234 | 2.19e-83 | 244 |
| MS.gene56559.t1 | AT1G51070 | 68.707 | 147 | 37 | 2 | 5 | 147 | 85 | 226 | 1.23e-65 | 199 |
| MS.gene56559.t1 | AT1G51070 | 68.707 | 147 | 37 | 2 | 5 | 147 | 151 | 292 | 1.28e-64 | 199 |
| MS.gene56559.t1 | AT4G14410 | 55.556 | 144 | 54 | 3 | 5 | 147 | 143 | 277 | 3.24e-43 | 144 |
| MS.gene56559.t1 | AT4G14410 | 55.556 | 144 | 54 | 3 | 5 | 147 | 143 | 277 | 3.24e-43 | 144 |
| MS.gene56559.t1 | AT4G14410 | 55.556 | 144 | 54 | 3 | 5 | 147 | 149 | 283 | 4.02e-43 | 144 |
| MS.gene56559.t1 | AT3G23210 | 54.054 | 148 | 55 | 5 | 5 | 147 | 152 | 291 | 2.12e-40 | 137 |
| MS.gene56559.t1 | AT3G23210 | 54.054 | 148 | 55 | 5 | 5 | 147 | 181 | 320 | 3.81e-40 | 137 |
| MS.gene56559.t1 | AT3G19860 | 32.278 | 158 | 72 | 4 | 6 | 134 | 25 | 176 | 5.27e-16 | 73.2 |
| MS.gene56559.t1 | AT3G19860 | 32.278 | 158 | 72 | 4 | 6 | 134 | 56 | 207 | 6.77e-16 | 73.2 |
| MS.gene56559.t1 | AT3G19860 | 32.278 | 158 | 72 | 4 | 6 | 134 | 78 | 229 | 6.82e-16 | 73.2 |
| MS.gene56559.t1 | AT4G36060 | 34.188 | 117 | 67 | 4 | 5 | 117 | 45 | 155 | 2.41e-11 | 60.1 |
| MS.gene56559.t1 | AT4G36060 | 40.000 | 80 | 47 | 1 | 5 | 84 | 45 | 123 | 2.54e-11 | 60.1 |
| MS.gene56559.t1 | AT4G36060 | 34.188 | 117 | 67 | 4 | 5 | 117 | 63 | 173 | 4.45e-11 | 59.7 |
| MS.gene56559.t1 | AT4G36060 | 40.000 | 80 | 47 | 1 | 5 | 84 | 63 | 141 | 4.89e-11 | 59.3 |
Find 49 sgRNAs with CRISPR-Local
Find 60 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGTTGGCATCTTTCAACTTT+TGG | 0.148107 | 4.4:-30946278 | None:intergenic |
| AGAAAAGATTAAAGAGTTAA+AGG | 0.172284 | 4.4:+30946311 | MS.gene56559:CDS |
| AACTCCTGGATAACTAATAA+AGG | 0.263274 | 4.4:-30946673 | None:intergenic |
| CTAATATAATGAACATTGTT+AGG | 0.292021 | 4.4:+30946148 | None:intergenic |
| GATGGCAGCCTTGTCGGTTT+TGG | 0.311125 | 4.4:-30946211 | None:intergenic |
| CCAATTTGTTGCCATGGGCT+TGG | 0.333737 | 4.4:-30946647 | None:intergenic |
| CCAAGCCCATGGCAACAAAT+TGG | 0.353392 | 4.4:+30946647 | MS.gene56559:CDS |
| TGCCGCAGGGAGTGCGGTGG+GGG | 0.394894 | 4.4:-30946610 | None:intergenic |
| TCCGAATGGTGACACAGTTA+AGG | 0.403203 | 4.4:+30946247 | MS.gene56559:CDS |
| GTACCCTTTATTAGTTATCC+AGG | 0.420242 | 4.4:+30946669 | MS.gene56559:CDS |
| CAAGGCAGAGAAAGAGAAGT+TGG | 0.426792 | 4.4:+30946542 | MS.gene56559:CDS |
| CCCTTAACTGTGTCACCATT+CGG | 0.446843 | 4.4:-30946248 | None:intergenic |
| CCGAATGGTGACACAGTTAA+GGG | 0.454973 | 4.4:+30946248 | MS.gene56559:CDS |
| AATTGCCACATTGCAACTCC+TGG | 0.456516 | 4.4:-30946687 | None:intergenic |
| AATCAGGATGGCAGCCTTGT+CGG | 0.459158 | 4.4:-30946217 | None:intergenic |
| ACTCCTGGATAACTAATAAA+GGG | 0.460680 | 4.4:-30946672 | None:intergenic |
| CCATTCGGACAGCATCAATC+AGG | 0.463542 | 4.4:-30946233 | None:intergenic |
| ACAGAGCCAGCTTAGGCAAC+TGG | 0.474028 | 4.4:-30946759 | None:intergenic |
| TATTGAACTAGGCTCCATCT+TGG | 0.477914 | 4.4:+30946173 | MS.gene56559:CDS |
| AATGCCGCAGGGAGTGCGGT+GGG | 0.478526 | 4.4:-30946612 | None:intergenic |
| CCTTGTGCAGCAAATGCCGC+AGG | 0.484770 | 4.4:-30946624 | None:intergenic |
| CTAGGCTCCATCTTGGAGCC+TGG | 0.485022 | 4.4:+30946180 | MS.gene56559:CDS |
| AGGGTACCAATTTGTTGCCA+TGG | 0.491389 | 4.4:-30946653 | None:intergenic |
| GGGTACCAATTTGTTGCCAT+GGG | 0.498672 | 4.4:-30946652 | None:intergenic |
| GCTCCATCTTGGAGCCTGGA+AGG | 0.524851 | 4.4:+30946184 | MS.gene56559:CDS |
| ATTGTTAGGTTTATTGAACT+AGG | 0.530194 | 4.4:+30946162 | MS.gene56559:CDS |
| CCTGCGGCATTTGCTGCACA+AGG | 0.540694 | 4.4:+30946624 | MS.gene56559:CDS |
| AAATGCCGCAGGGAGTGCGG+TGG | 0.545674 | 4.4:-30946613 | None:intergenic |
| ATTTATGCCACCTGCTGCAG+TGG | 0.547258 | 4.4:+30946707 | MS.gene56559:CDS |
| TGTGAGGTATCCACTGCAGC+AGG | 0.547849 | 4.4:-30946717 | None:intergenic |
| ATGCCGCAGGGAGTGCGGTG+GGG | 0.554371 | 4.4:-30946611 | None:intergenic |
| AGCAAATGCCGCAGGGAGTG+CGG | 0.555070 | 4.4:-30946616 | None:intergenic |
| AAAGTTGAAAGATGCCAACT+CGG | 0.556876 | 4.4:+30946281 | MS.gene56559:CDS |
| AGGCCTTCCAGGCTCCAAGA+TGG | 0.576941 | 4.4:-30946187 | None:intergenic |
| GCTGCACAAGGCCAAGCCCA+TGG | 0.577267 | 4.4:+30946636 | MS.gene56559:CDS |
| TGCTGCAGTGGATACCTCAC+AGG | 0.591418 | 4.4:+30946719 | MS.gene56559:CDS |
| AAGTTGAAAGATGCCAACTC+GGG | 0.605070 | 4.4:+30946282 | MS.gene56559:CDS |
| CTTGTGCAGCAAATGCCGCA+GGG | 0.618158 | 4.4:-30946623 | None:intergenic |
| CCTGATTGATGCTGTCCGAA+TGG | 0.625819 | 4.4:+30946233 | MS.gene56559:CDS |
| AAGGCCTGCCAAAACCGACA+AGG | 0.632388 | 4.4:+30946203 | MS.gene56559:CDS |
| TGACGAGAAACAGAGGCTCA+AGG | 0.635039 | 4.4:+30946524 | MS.gene56559:CDS |
| CGAATGGTGACACAGTTAAG+GGG | 0.650749 | 4.4:+30946249 | MS.gene56559:CDS |
| GAGGTATCCACTGCAGCAGG+TGG | 0.651341 | 4.4:-30946714 | None:intergenic |
| AACTTCGTGACGAGAAACAG+AGG | 0.668282 | 4.4:+30946517 | MS.gene56559:CDS |
| TCGGACAGCATCAATCAGGA+TGG | 0.668544 | 4.4:-30946229 | None:intergenic |
| GTTATCCAGGAGTTGCAATG+TGG | 0.686227 | 4.4:+30946682 | MS.gene56559:CDS |
| GAGCCAGCTTAGGCAACTGG+AGG | 0.695906 | 4.4:-30946756 | None:intergenic |
| GGGGTAGGCAAGAAACTAGG+TGG | 0.721390 | 4.4:-30946591 | None:intergenic |
| ACGAAGTACATGATCCTGTG+AGG | 0.733239 | 4.4:-30946733 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTAAGAAATAAAAATTGAA+GGG | - | chr4.4:30946417-30946436 | None:intergenic | 10.0% |
| !!! | TTTTAAGAAATAAAAATTGA+AGG | - | chr4.4:30946418-30946437 | None:intergenic | 10.0% |
| !! | GTATTAAAAAACAAATTTCT+AGG | + | chr4.4:30946482-30946501 | MS.gene56559:intron | 15.0% |
| !! | AGAAAAGATTAAAGAGTTAA+AGG | + | chr4.4:30946311-30946330 | MS.gene56559:CDS | 20.0% |
| ! | ATTGTTAGGTTTATTGAACT+AGG | + | chr4.4:30946162-30946181 | MS.gene56559:CDS | 25.0% |
| ! | GTGAAGTCTCAATTTATATT+CGG | + | chr4.4:30946333-30946352 | MS.gene56559:intron | 25.0% |
| ! | TGAAGTCTCAATTTATATTC+GGG | + | chr4.4:30946334-30946353 | MS.gene56559:intron | 25.0% |
| ! | TTTCTTTGTAAATTTGCATG+TGG | + | chr4.4:30946361-30946380 | MS.gene56559:intron | 25.0% |
| AACTCCTGGATAACTAATAA+AGG | - | chr4.4:30946676-30946695 | None:intergenic | 30.0% | |
| ACTCCTGGATAACTAATAAA+GGG | - | chr4.4:30946675-30946694 | None:intergenic | 30.0% | |
| ! | TGAGTTTTTCATTCAACGAT+AGG | - | chr4.4:30946453-30946472 | None:intergenic | 30.0% |
| AAAGTTGAAAGATGCCAACT+CGG | + | chr4.4:30946281-30946300 | MS.gene56559:CDS | 35.0% | |
| GTACCCTTTATTAGTTATCC+AGG | + | chr4.4:30946669-30946688 | MS.gene56559:CDS | 35.0% | |
| ! | AGTTGGCATCTTTCAACTTT+TGG | - | chr4.4:30946281-30946300 | None:intergenic | 35.0% |
| ! | GTTGGCATCTTTCAACTTTT+GGG | - | chr4.4:30946280-30946299 | None:intergenic | 35.0% |
| AAGTTGAAAGATGCCAACTC+GGG | + | chr4.4:30946282-30946301 | MS.gene56559:CDS | 40.0% | |
| TATTGAACTAGGCTCCATCT+TGG | + | chr4.4:30946173-30946192 | MS.gene56559:CDS | 40.0% | |
| AACTTCGTGACGAGAAACAG+AGG | + | chr4.4:30946517-30946536 | MS.gene56559:CDS | 45.0% | |
| AATTGCCACATTGCAACTCC+TGG | - | chr4.4:30946690-30946709 | None:intergenic | 45.0% | |
| ACGAAGTACATGATCCTGTG+AGG | - | chr4.4:30946736-30946755 | None:intergenic | 45.0% | |
| CAAGGCAGAGAAAGAGAAGT+TGG | + | chr4.4:30946542-30946561 | MS.gene56559:CDS | 45.0% | |
| CCCTTAACTGTGTCACCATT+CGG | - | chr4.4:30946251-30946270 | None:intergenic | 45.0% | |
| CCGAATGGTGACACAGTTAA+GGG | + | chr4.4:30946248-30946267 | MS.gene56559:CDS | 45.0% | |
| CGAATGGTGACACAGTTAAG+GGG | + | chr4.4:30946249-30946268 | MS.gene56559:CDS | 45.0% | |
| GTTATCCAGGAGTTGCAATG+TGG | + | chr4.4:30946682-30946701 | MS.gene56559:CDS | 45.0% | |
| TCCGAATGGTGACACAGTTA+AGG | + | chr4.4:30946247-30946266 | MS.gene56559:CDS | 45.0% | |
| ! | CTTTTCTTGAAGACCCGAGT+TGG | - | chr4.4:30946298-30946317 | None:intergenic | 45.0% |
| !! | AGGGTACCAATTTGTTGCCA+TGG | - | chr4.4:30946656-30946675 | None:intergenic | 45.0% |
| !! | GGGTACCAATTTGTTGCCAT+GGG | - | chr4.4:30946655-30946674 | None:intergenic | 45.0% |
| ATTTATGCCACCTGCTGCAG+TGG | + | chr4.4:30946707-30946726 | MS.gene56559:CDS | 50.0% | |
| CCAAGCCCATGGCAACAAAT+TGG | + | chr4.4:30946647-30946666 | MS.gene56559:CDS | 50.0% | |
| CCATTCGGACAGCATCAATC+AGG | - | chr4.4:30946236-30946255 | None:intergenic | 50.0% | |
| CCTGATTGATGCTGTCCGAA+TGG | + | chr4.4:30946233-30946252 | MS.gene56559:CDS | 50.0% | |
| TCGGACAGCATCAATCAGGA+TGG | - | chr4.4:30946232-30946251 | None:intergenic | 50.0% | |
| TGACGAGAAACAGAGGCTCA+AGG | + | chr4.4:30946524-30946543 | MS.gene56559:CDS | 50.0% | |
| ! | AATCAGGATGGCAGCCTTGT+CGG | - | chr4.4:30946220-30946239 | None:intergenic | 50.0% |
| !! | CCAATTTGTTGCCATGGGCT+TGG | - | chr4.4:30946650-30946669 | None:intergenic | 50.0% |
| AAGGCCTGCCAAAACCGACA+AGG | + | chr4.4:30946203-30946222 | MS.gene56559:CDS | 55.0% | |
| CTTGTGCAGCAAATGCCGCA+GGG | - | chr4.4:30946626-30946645 | None:intergenic | 55.0% | |
| GGGGTAGGCAAGAAACTAGG+TGG | - | chr4.4:30946594-30946613 | None:intergenic | 55.0% | |
| GTGGGGGTAGGCAAGAAACT+AGG | - | chr4.4:30946597-30946616 | None:intergenic | 55.0% | |
| TGCTGCAGTGGATACCTCAC+AGG | + | chr4.4:30946719-30946738 | MS.gene56559:CDS | 55.0% | |
| ! | TGTGAGGTATCCACTGCAGC+AGG | - | chr4.4:30946720-30946739 | None:intergenic | 55.0% |
| !!! | GATGGCAGCCTTGTCGGTTT+TGG | - | chr4.4:30946214-30946233 | None:intergenic | 55.0% |
| AGCAAATGCCGCAGGGAGTG+CGG | - | chr4.4:30946619-30946638 | None:intergenic | 60.0% | |
| AGGCCTTCCAGGCTCCAAGA+TGG | - | chr4.4:30946190-30946209 | None:intergenic | 60.0% | |
| CCTTGTGCAGCAAATGCCGC+AGG | - | chr4.4:30946627-30946646 | None:intergenic | 60.0% | |
| CTAGGCTCCATCTTGGAGCC+TGG | + | chr4.4:30946180-30946199 | MS.gene56559:CDS | 60.0% | |
| GCTCCATCTTGGAGCCTGGA+AGG | + | chr4.4:30946184-30946203 | MS.gene56559:CDS | 60.0% | |
| ! | CCTGCGGCATTTGCTGCACA+AGG | + | chr4.4:30946624-30946643 | MS.gene56559:CDS | 60.0% |
| ! | GAGGTATCCACTGCAGCAGG+TGG | - | chr4.4:30946717-30946736 | None:intergenic | 60.0% |
| !! | TCGGTTTTGGCAGGCCTTCC+AGG | - | chr4.4:30946201-30946220 | None:intergenic | 60.0% |
| !!! | GCAGCCTTGTCGGTTTTGGC+AGG | - | chr4.4:30946210-30946229 | None:intergenic | 60.0% |
| GCTGCACAAGGCCAAGCCCA+TGG | + | chr4.4:30946636-30946655 | MS.gene56559:CDS | 65.0% | |
| ! | AAATGCCGCAGGGAGTGCGG+TGG | - | chr4.4:30946616-30946635 | None:intergenic | 65.0% |
| ! | AATGCCGCAGGGAGTGCGGT+GGG | - | chr4.4:30946615-30946634 | None:intergenic | 65.0% |
| TACCCCCACCGCACTCCCTG+CGG | + | chr4.4:30946608-30946627 | MS.gene56559:CDS | 70.0% | |
| ! | ATGCCGCAGGGAGTGCGGTG+GGG | - | chr4.4:30946614-30946633 | None:intergenic | 70.0% |
| ! | GCAGGGAGTGCGGTGGGGGT+AGG | - | chr4.4:30946609-30946628 | None:intergenic | 75.0% |
| ! | TGCCGCAGGGAGTGCGGTGG+GGG | - | chr4.4:30946613-30946632 | None:intergenic | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 30946156 | 30946770 | 30946156 | ID=MS.gene56559 |
| chr4.4 | mRNA | 30946156 | 30946770 | 30946156 | ID=MS.gene56559.t1;Parent=MS.gene56559 |
| chr4.4 | exon | 30946156 | 30946332 | 30946156 | ID=MS.gene56559.t1.exon1;Parent=MS.gene56559.t1 |
| chr4.4 | CDS | 30946156 | 30946332 | 30946156 | ID=cds.MS.gene56559.t1;Parent=MS.gene56559.t1 |
| chr4.4 | exon | 30946504 | 30946770 | 30946504 | ID=MS.gene56559.t1.exon2;Parent=MS.gene56559.t1 |
| chr4.4 | CDS | 30946504 | 30946770 | 30946504 | ID=cds.MS.gene56559.t1;Parent=MS.gene56559.t1 |
| Gene Sequence |
| Protein sequence |
