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.gene78325.t1 | XP_003626337.1 | 94.7 | 151 | 4 | 1 | 1 | 151 | 1 | 147 | 4.10E-71 | 277.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene78325.t1 | Q9ZNV9 | 58.5 | 147 | 60 | 1 | 4 | 150 | 3 | 148 | 6.3e-44 | 178.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene78325.t1 | A2Q3H8 | 94.7 | 151 | 4 | 1 | 1 | 151 | 1 | 147 | 3.0e-71 | 277.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050170 | MS.gene78325 | -0.813903 | 2.02E-51 | -1.69E-46 |
| MS.gene050225 | MS.gene78325 | 0.805616 | 1.22E-49 | -1.69E-46 |
| MS.gene050904 | MS.gene78325 | -0.802563 | 5.29E-49 | -1.69E-46 |
| MS.gene051025 | MS.gene78325 | 0.809575 | 1.77E-50 | -1.69E-46 |
| MS.gene052494 | MS.gene78325 | 0.828419 | 9.09E-55 | -1.69E-46 |
| MS.gene054851 | MS.gene78325 | 0.811311 | 7.46E-51 | -1.69E-46 |
| MS.gene055616 | MS.gene78325 | 0.817462 | 3.26E-52 | -1.69E-46 |
| MS.gene055858 | MS.gene78325 | 0.810794 | 9.65E-51 | -1.69E-46 |
| MS.gene05589 | MS.gene78325 | -0.808385 | 3.18E-50 | -1.69E-46 |
| MS.gene056387 | MS.gene78325 | -0.803982 | 2.69E-49 | -1.69E-46 |
| MS.gene056618 | MS.gene78325 | 0.846905 | 1.62E-59 | -1.69E-46 |
| MS.gene057367 | MS.gene78325 | 0.833025 | 6.76E-56 | -1.69E-46 |
| MS.gene058334 | MS.gene78325 | 0.800205 | 1.61E-48 | -1.69E-46 |
| MS.gene058382 | MS.gene78325 | 0.830847 | 2.33E-55 | -1.69E-46 |
| MS.gene05926 | MS.gene78325 | 0.805429 | 1.34E-49 | -1.69E-46 |
| MS.gene05960 | MS.gene78325 | 0.832244 | 1.06E-55 | -1.69E-46 |
| MS.gene05995 | MS.gene78325 | -0.814086 | 1.84E-51 | -1.69E-46 |
| MS.gene05996 | MS.gene78325 | -0.817145 | 3.84E-52 | -1.69E-46 |
| MS.gene060291 | MS.gene78325 | 0.803171 | 3.96E-49 | -1.69E-46 |
| MS.gene06042 | MS.gene78325 | 0.867404 | 1.40E-65 | -1.69E-46 |
| MS.gene061044 | MS.gene78325 | 0.82779 | 1.29E-54 | -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.gene78325.t1 | MTR_7g114020 | 94.702 | 151 | 4 | 1 | 1 | 151 | 1 | 147 | 4.91e-101 | 286 |
| MS.gene78325.t1 | MTR_1g082290 | 65.517 | 145 | 49 | 1 | 1 | 145 | 1 | 144 | 6.22e-67 | 200 |
| MS.gene78325.t1 | MTR_2g020770 | 61.224 | 147 | 56 | 1 | 4 | 150 | 3 | 148 | 1.34e-56 | 174 |
| MS.gene78325.t1 | MTR_1g089130 | 50.350 | 143 | 70 | 1 | 6 | 148 | 3 | 144 | 6.44e-52 | 162 |
| MS.gene78325.t1 | MTR_2g020770 | 59.124 | 137 | 55 | 1 | 4 | 140 | 3 | 138 | 6.15e-49 | 154 |
| MS.gene78325.t1 | MTR_2g100900 | 44.030 | 134 | 74 | 1 | 8 | 141 | 7 | 139 | 9.20e-39 | 129 |
| MS.gene78325.t1 | MTR_2g100880 | 44.030 | 134 | 74 | 1 | 8 | 141 | 7 | 139 | 1.24e-38 | 128 |
| MS.gene78325.t1 | MTR_2g103870 | 44.776 | 134 | 73 | 1 | 18 | 150 | 20 | 153 | 3.88e-30 | 107 |
| MS.gene78325.t1 | MTR_4g010160 | 46.324 | 136 | 72 | 1 | 16 | 150 | 6 | 141 | 1.74e-27 | 100 |
| MS.gene78325.t1 | MTR_2g086010 | 27.465 | 142 | 101 | 2 | 3 | 143 | 2 | 142 | 8.27e-12 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene78325.t1 | AT1G03430 | 54.730 | 148 | 67 | 0 | 4 | 151 | 6 | 153 | 5.01e-57 | 175 |
| MS.gene78325.t1 | AT5G39340 | 52.027 | 148 | 71 | 0 | 4 | 151 | 5 | 152 | 8.68e-55 | 169 |
| MS.gene78325.t1 | AT5G39340 | 52.027 | 148 | 71 | 0 | 4 | 151 | 38 | 185 | 3.16e-54 | 169 |
| MS.gene78325.t1 | AT3G29350 | 51.351 | 148 | 72 | 0 | 4 | 151 | 5 | 152 | 4.72e-54 | 167 |
| MS.gene78325.t1 | AT5G39340 | 52.027 | 148 | 71 | 0 | 4 | 151 | 54 | 201 | 7.55e-54 | 169 |
| MS.gene78325.t1 | AT5G39340 | 52.027 | 148 | 71 | 0 | 4 | 151 | 54 | 201 | 7.55e-54 | 169 |
| MS.gene78325.t1 | AT3G21510 | 58.503 | 147 | 60 | 1 | 4 | 150 | 3 | 148 | 2.52e-53 | 166 |
| MS.gene78325.t1 | AT1G03430 | 54.676 | 139 | 63 | 0 | 4 | 142 | 6 | 144 | 6.91e-51 | 160 |
| MS.gene78325.t1 | AT3G29350 | 55.455 | 110 | 49 | 0 | 4 | 113 | 5 | 114 | 9.64e-42 | 135 |
| MS.gene78325.t1 | AT3G16360 | 41.481 | 135 | 78 | 1 | 7 | 141 | 1 | 134 | 9.90e-39 | 129 |
| MS.gene78325.t1 | AT3G16360 | 41.667 | 120 | 69 | 1 | 21 | 140 | 9 | 127 | 1.33e-34 | 117 |
| MS.gene78325.t1 | AT1G80100 | 42.282 | 149 | 85 | 1 | 3 | 150 | 5 | 153 | 4.42e-24 | 91.7 |
| MS.gene78325.t1 | AT1G80100 | 41.176 | 136 | 80 | 0 | 3 | 138 | 5 | 140 | 5.55e-20 | 81.3 |
| MS.gene78325.t1 | AT4G04402 | 31.915 | 141 | 82 | 4 | 22 | 150 | 24 | 162 | 1.99e-18 | 77.4 |
| MS.gene78325.t1 | AT1G80100 | 38.255 | 149 | 69 | 3 | 3 | 150 | 5 | 131 | 1.47e-17 | 74.3 |
Find 20 sgRNAs with CRISPR-Local
Find 58 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAGAAGCTTCTTAATCAAT+TGG | 0.405079 | 7.4:+2859650 | MS.gene78325:CDS |
| CTTGAAGAGTGTCTCAAACT+TGG | 0.419955 | 7.4:-2860315 | None:intergenic |
| AGTGGTCACTCTCTTCTTTG+AGG | 0.421547 | 7.4:+2859623 | MS.gene78325:CDS |
| ACCACTTCAACAACAAAGTC+AGG | 0.424359 | 7.4:-2859606 | None:intergenic |
| CAAGTTTGAGACACTCTTCA+AGG | 0.437960 | 7.4:+2860316 | MS.gene78325:CDS |
| GCTGGTTAAATTGATCATCT+AGG | 0.442108 | 7.4:-2859557 | None:intergenic |
| TCCCTTATCATTCACTATCT+AGG | 0.448382 | 7.4:-2860475 | None:intergenic |
| CATCTTGAAGTAGTTGAAGC+TGG | 0.469279 | 7.4:-2859575 | None:intergenic |
| TGGAGCTGCTGCCTTTCAGC+TGG | 0.470844 | 7.4:-2859818 | None:intergenic |
| AGCTGAAAGGCAGCAGCTCC+AGG | 0.471527 | 7.4:+2859820 | MS.gene78325:CDS |
| CCCTGACTTTGTTGTTGAAG+TGG | 0.477305 | 7.4:+2859605 | MS.gene78325:CDS |
| TAAATGTTACCTCTTGAAAG+AGG | 0.497593 | 7.4:-2859455 | None:intergenic |
| ATTAATCCCAAGCAGAGGCC+AGG | 0.527313 | 7.4:+2859755 | MS.gene78325:intron |
| CAATTCTTCCCTCTTTCAAG+AGG | 0.543757 | 7.4:+2859446 | MS.gene78325:CDS |
| GGCTCAGTTGCAAAGACAGT+TGG | 0.573415 | 7.4:+2859416 | MS.gene78325:CDS |
| GCTCTTGTTCACCAGCTGAA+AGG | 0.590228 | 7.4:+2859807 | MS.gene78325:CDS |
| AAATGTTACCTCTTGAAAGA+GGG | 0.594954 | 7.4:-2859454 | None:intergenic |
| AAGCTTGCAAGACATAAAGC+AGG | 0.597078 | 7.4:+2860274 | MS.gene78325:CDS |
| GAGAACAACAATGTATAGTG+TGG | 0.639598 | 7.4:+2859395 | None:intergenic |
| CCACTTCAACAACAAAGTCA+GGG | 0.677112 | 7.4:-2859605 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAATTTAATACATATATGAA+GGG | - | chr7.4:2860357-2860376 | None:intergenic | 10.0% |
| !! | TTAATTTAATACATATATGA+AGG | - | chr7.4:2860358-2860377 | None:intergenic | 10.0% |
| !!! | AAAATAACATTGATTTTAAA+AGG | + | chr7.4:2859778-2859797 | MS.gene78325:CDS | 10.0% |
| !!! | AAATAACATTGATTTTAAAA+GGG | + | chr7.4:2859779-2859798 | MS.gene78325:CDS | 10.0% |
| !!! | TTTTCTTTATTTTATGTATA+GGG | + | chr7.4:2859710-2859729 | MS.gene78325:intron | 10.0% |
| !! | ATTAGAATTATACATTACTT+TGG | - | chr7.4:2859737-2859756 | None:intergenic | 15.0% |
| !!! | AGAAAAAATATACATGTTTT+TGG | + | chr7.4:2860235-2860254 | MS.gene78325:intron | 15.0% |
| !!! | CTTTTCTTTATTTTATGTAT+AGG | + | chr7.4:2859709-2859728 | MS.gene78325:intron | 15.0% |
| !! | AAGAAAAGATAGAAAGAAAA+TGG | - | chr7.4:2859506-2859525 | None:intergenic | 20.0% |
| !!! | CAACTTGTATAATTTTGATA+AGG | + | chr7.4:2860039-2860058 | MS.gene78325:intron | 20.0% |
| !!! | TAAAATCAATGTTATTTTCC+TGG | - | chr7.4:2859776-2859795 | None:intergenic | 20.0% |
| !!! | TACTTTCTTATCTTGTTTTA+AGG | - | chr7.4:2860001-2860020 | None:intergenic | 20.0% |
| ! | CAAAAGTTCAATATATTACC+TGG | - | chr7.4:2859841-2859860 | None:intergenic | 25.0% |
| ! | CAATTGGAAAAAGAAATGTA+AGG | + | chr7.4:2859666-2859685 | MS.gene78325:intron | 25.0% |
| !! | CTTATCTTATTTCAAGAACA+AGG | - | chr7.4:2859943-2859962 | None:intergenic | 25.0% |
| !! | TCTATCTTTTCTTTCATTTG+TGG | + | chr7.4:2859513-2859532 | MS.gene78325:intron | 25.0% |
| !!! | TAACATTGATTTTAAAAGGG+TGG | + | chr7.4:2859782-2859801 | MS.gene78325:CDS | 25.0% |
| AAATGTTACCTCTTGAAAGA+GGG | - | chr7.4:2859457-2859476 | None:intergenic | 30.0% | |
| AGAGAAGCTTCTTAATCAAT+TGG | + | chr7.4:2859650-2859669 | MS.gene78325:CDS | 30.0% | |
| CTTATTTCAAGAACAAGGAA+AGG | - | chr7.4:2859938-2859957 | None:intergenic | 30.0% | |
| GTTATTGGAAAATACAGCAT+TGG | + | chr7.4:2860069-2860088 | MS.gene78325:intron | 30.0% | |
| TAAATGTTACCTCTTGAAAG+AGG | - | chr7.4:2859458-2859477 | None:intergenic | 30.0% | |
| ! | TGTGGTGATATCTTTGAAAA+GGG | + | chr7.4:2859531-2859550 | MS.gene78325:intron | 30.0% |
| ! | TTGTGGTGATATCTTTGAAA+AGG | + | chr7.4:2859530-2859549 | MS.gene78325:intron | 30.0% |
| !!! | TATACATGTTTTTGGCATTC+AGG | + | chr7.4:2860243-2860262 | MS.gene78325:intron | 30.0% |
| GCTGGTTAAATTGATCATCT+AGG | - | chr7.4:2859560-2859579 | None:intergenic | 35.0% | |
| GTGAGGAGAAAAACATAGAA+GGG | + | chr7.4:2860136-2860155 | MS.gene78325:CDS | 35.0% | |
| TGATAAGGTCGTTGAGTTAT+TGG | + | chr7.4:2860054-2860073 | MS.gene78325:intron | 35.0% | |
| TGTGAGGAGAAAAACATAGA+AGG | + | chr7.4:2860135-2860154 | MS.gene78325:CDS | 35.0% | |
| TTCTAATTAATCCCAAGCAG+AGG | + | chr7.4:2859750-2859769 | MS.gene78325:intron | 35.0% | |
| TTGATGTGATTAAGTCAACG+AGG | - | chr7.4:2859879-2859898 | None:intergenic | 35.0% | |
| TTTGCTTCTGTGATTGTAGA+TGG | + | chr7.4:2860420-2860439 | MS.gene78325:intron | 35.0% | |
| !! | CTCAAACTTGGTTTTCACTA+AGG | - | chr7.4:2860306-2860325 | None:intergenic | 35.0% |
| AAGCTTGCAAGACATAAAGC+AGG | + | chr7.4:2860274-2860293 | MS.gene78325:CDS | 40.0% | |
| ACCACTTCAACAACAAAGTC+AGG | - | chr7.4:2859609-2859628 | None:intergenic | 40.0% | |
| CAATTCTTCCCTCTTTCAAG+AGG | + | chr7.4:2859446-2859465 | MS.gene78325:CDS | 40.0% | |
| CATCTTGAAGTAGTTGAAGC+TGG | - | chr7.4:2859578-2859597 | None:intergenic | 40.0% | |
| CCACTTCAACAACAAAGTCA+GGG | - | chr7.4:2859608-2859627 | None:intergenic | 40.0% | |
| TGCCTTCAAAAACTACTGTG+AGG | + | chr7.4:2860119-2860138 | MS.gene78325:CDS | 40.0% | |
| TGTGATTAAGTCAACGAGGT+CGG | - | chr7.4:2859875-2859894 | None:intergenic | 40.0% | |
| TTGAGACACTCTTCAAGGTA+AGG | + | chr7.4:2860321-2860340 | MS.gene78325:intron | 40.0% | |
| ! | CAAGTTTGAGACACTCTTCA+AGG | + | chr7.4:2860316-2860335 | MS.gene78325:CDS | 40.0% |
| ! | CTCCTCACAGTAGTTTTTGA+AGG | - | chr7.4:2860124-2860143 | None:intergenic | 40.0% |
| !! | CTTGAAGAGTGTCTCAAACT+TGG | - | chr7.4:2860318-2860337 | None:intergenic | 40.0% |
| AGTGGTCACTCTCTTCTTTG+AGG | + | chr7.4:2859623-2859642 | MS.gene78325:CDS | 45.0% | |
| ! | AGCAGCAACTTTTTGCTGCA+GGG | + | chr7.4:2860443-2860462 | MS.gene78325:CDS | 45.0% |
| ! | TATTTTCCTGGCCTCTGCTT+GGG | - | chr7.4:2859764-2859783 | None:intergenic | 45.0% |
| ! | TTATTTTCCTGGCCTCTGCT+TGG | - | chr7.4:2859765-2859784 | None:intergenic | 45.0% |
| !! | CCCTGACTTTGTTGTTGAAG+TGG | + | chr7.4:2859605-2859624 | MS.gene78325:CDS | 45.0% |
| ATTAATCCCAAGCAGAGGCC+AGG | + | chr7.4:2859755-2859774 | MS.gene78325:intron | 50.0% | |
| GCTCTTGTTCACCAGCTGAA+AGG | + | chr7.4:2859807-2859826 | MS.gene78325:CDS | 50.0% | |
| GGCTCAGTTGCAAAGACAGT+TGG | + | chr7.4:2859416-2859435 | MS.gene78325:CDS | 50.0% | |
| ! | ACTTTTTGCTGCAGGGGGTT+CGG | + | chr7.4:2860450-2860469 | MS.gene78325:CDS | 50.0% |
| ! | CAGCAACTTTTTGCTGCAGG+GGG | + | chr7.4:2860445-2860464 | MS.gene78325:CDS | 50.0% |
| ! | GAGCAGCAACTTTTTGCTGC+AGG | + | chr7.4:2860442-2860461 | MS.gene78325:CDS | 50.0% |
| ! | GCAGCAACTTTTTGCTGCAG+GGG | + | chr7.4:2860444-2860463 | MS.gene78325:CDS | 50.0% |
| AGCTGAAAGGCAGCAGCTCC+AGG | + | chr7.4:2859820-2859839 | MS.gene78325:CDS | 60.0% | |
| TGGAGCTGCTGCCTTTCAGC+TGG | - | chr7.4:2859821-2859840 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.4 | gene | 2859405 | 2860483 | 2859405 | ID=MS.gene78325 |
| chr7.4 | mRNA | 2859405 | 2860483 | 2859405 | ID=MS.gene78325.t1;Parent=MS.gene78325 |
| chr7.4 | exon | 2859405 | 2859467 | 2859405 | ID=MS.gene78325.t1.exon1;Parent=MS.gene78325.t1 |
| chr7.4 | CDS | 2859405 | 2859467 | 2859405 | ID=cds.MS.gene78325.t1;Parent=MS.gene78325.t1 |
| chr7.4 | exon | 2859552 | 2859682 | 2859552 | ID=MS.gene78325.t1.exon2;Parent=MS.gene78325.t1 |
| chr7.4 | CDS | 2859552 | 2859682 | 2859552 | ID=cds.MS.gene78325.t1;Parent=MS.gene78325.t1 |
| chr7.4 | exon | 2859770 | 2859841 | 2859770 | ID=MS.gene78325.t1.exon3;Parent=MS.gene78325.t1 |
| chr7.4 | CDS | 2859770 | 2859841 | 2859770 | ID=cds.MS.gene78325.t1;Parent=MS.gene78325.t1 |
| chr7.4 | exon | 2860086 | 2860157 | 2860086 | ID=MS.gene78325.t1.exon4;Parent=MS.gene78325.t1 |
| chr7.4 | CDS | 2860086 | 2860157 | 2860086 | ID=cds.MS.gene78325.t1;Parent=MS.gene78325.t1 |
| chr7.4 | exon | 2860265 | 2860337 | 2860265 | ID=MS.gene78325.t1.exon5;Parent=MS.gene78325.t1 |
| chr7.4 | CDS | 2860265 | 2860337 | 2860265 | ID=cds.MS.gene78325.t1;Parent=MS.gene78325.t1 |
| chr7.4 | exon | 2860439 | 2860483 | 2860439 | ID=MS.gene78325.t1.exon6;Parent=MS.gene78325.t1 |
| chr7.4 | CDS | 2860439 | 2860483 | 2860439 | ID=cds.MS.gene78325.t1;Parent=MS.gene78325.t1 |
| Gene Sequence |
| Protein sequence |
