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.gene39884.t1 | XP_013468539.1 | 90.9 | 187 | 15 | 2 | 1 | 185 | 1 | 187 | 3.00E-87 | 331.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene39884.t1 | Q38895 | 33.3 | 189 | 88 | 4 | 15 | 185 | 33 | 201 | 3.2e-13 | 76.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene39884.t1 | A0A072VLS0 | 90.9 | 187 | 15 | 2 | 1 | 185 | 1 | 187 | 2.1e-87 | 331.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene39884.t1 | TF | C2H2 |
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.gene39884.t1 | MTR_1g070265 | 96.791 | 187 | 4 | 2 | 1 | 185 | 1 | 187 | 4.68e-131 | 365 |
| MS.gene39884.t1 | MTR_5g080660 | 78.571 | 42 | 9 | 0 | 28 | 69 | 41 | 82 | 3.66e-18 | 79.3 |
| MS.gene39884.t1 | MTR_3g068095 | 80.952 | 42 | 8 | 0 | 28 | 69 | 49 | 90 | 4.01e-18 | 79.7 |
| MS.gene39884.t1 | MTR_2g076060 | 81.579 | 38 | 7 | 0 | 31 | 68 | 47 | 84 | 9.08e-18 | 78.2 |
| MS.gene39884.t1 | MTR_4g021270 | 82.051 | 39 | 7 | 0 | 28 | 66 | 53 | 91 | 1.74e-17 | 79.0 |
| MS.gene39884.t1 | MTR_5g014400 | 83.784 | 37 | 6 | 0 | 29 | 65 | 75 | 111 | 1.85e-17 | 77.8 |
| MS.gene39884.t1 | MTR_7g063220 | 64.286 | 42 | 13 | 1 | 27 | 66 | 15 | 56 | 1.04e-13 | 65.5 |
| MS.gene39884.t1 | MTR_4g064873 | 45.455 | 66 | 33 | 2 | 17 | 82 | 5 | 67 | 3.17e-12 | 62.4 |
| MS.gene39884.t1 | MTR_1g070250 | 43.478 | 69 | 22 | 1 | 33 | 101 | 37 | 88 | 7.21e-11 | 58.9 |
| MS.gene39884.t1 | MTR_1g075430 | 70.968 | 31 | 9 | 0 | 34 | 64 | 18 | 48 | 9.79e-11 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene39884.t1 | AT3G23130 | 37.688 | 199 | 84 | 6 | 6 | 185 | 24 | 201 | 8.42e-26 | 98.6 |
| MS.gene39884.t1 | AT2G42410 | 40.223 | 179 | 72 | 9 | 31 | 185 | 44 | 211 | 1.83e-20 | 85.1 |
| MS.gene39884.t1 | AT2G42410 | 40.223 | 179 | 72 | 9 | 31 | 185 | 44 | 211 | 1.83e-20 | 85.1 |
| MS.gene39884.t1 | AT2G42410 | 40.223 | 179 | 72 | 9 | 31 | 185 | 70 | 237 | 2.39e-20 | 85.1 |
| MS.gene39884.t1 | AT2G37740 | 52.239 | 67 | 31 | 1 | 3 | 68 | 5 | 71 | 1.68e-19 | 84.0 |
| MS.gene39884.t1 | AT5G06070 | 34.066 | 182 | 86 | 6 | 28 | 185 | 47 | 218 | 1.55e-18 | 80.1 |
| MS.gene39884.t1 | AT4G17810 | 77.500 | 40 | 9 | 0 | 28 | 67 | 38 | 77 | 1.17e-17 | 76.6 |
| MS.gene39884.t1 | AT4G17810 | 77.500 | 40 | 9 | 0 | 28 | 67 | 38 | 77 | 1.57e-17 | 77.0 |
| MS.gene39884.t1 | AT3G09290 | 68.421 | 38 | 12 | 0 | 33 | 70 | 32 | 69 | 2.16e-13 | 65.5 |
| MS.gene39884.t1 | AT3G53820 | 61.364 | 44 | 16 | 1 | 25 | 68 | 11 | 53 | 2.10e-12 | 62.0 |
Find 43 sgRNAs with CRISPR-Local
Find 45 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGGTTTGGTTTATTATTATT+AGG | 0.205569 | 1.4:+57445401 | None:intergenic |
| ATCTTGCCCTATCTCTTCTA+TGG | 0.266917 | 1.4:+57445468 | None:intergenic |
| TTTAGGTCAGCTCAAGCTTT+AGG | 0.276872 | 1.4:-57445506 | MS.gene39884:CDS |
| GATCATCATTAATATCTTCT+TGG | 0.294548 | 1.4:-57445442 | MS.gene39884:CDS |
| GATCTCTTGTGTTTCTGTTC+AGG | 0.308235 | 1.4:+57445621 | None:intergenic |
| ATTACATTGGAGTTAGGAAT+AGG | 0.330776 | 1.4:-57445152 | MS.gene39884:CDS |
| GGTTTGGTTTATTATTATTA+GGG | 0.335567 | 1.4:+57445402 | None:intergenic |
| CAAAACATTACATTGGAGTT+AGG | 0.337273 | 1.4:-57445158 | MS.gene39884:CDS |
| CCAAGAGGAAAAGTTAGATT+TGG | 0.339120 | 1.4:-57445117 | MS.gene39884:CDS |
| GTTATGGTAGGGGTAGGGTT+TGG | 0.361393 | 1.4:+57445386 | None:intergenic |
| GATAAAGAAGGTGTTAATCT+TGG | 0.361924 | 1.4:+57445281 | None:intergenic |
| ATCATGATTTCACTTCTTTG+AGG | 0.366570 | 1.4:+57445242 | None:intergenic |
| CTACAAGAATAGTTTCTTGC+TGG | 0.370716 | 1.4:+57445545 | None:intergenic |
| ATCATCATTAATATCTTCTT+GGG | 0.380031 | 1.4:-57445441 | MS.gene39884:CDS |
| TGGGATTTGAGGAGCATTCA+TGG | 0.400350 | 1.4:-57445580 | MS.gene39884:CDS |
| GAAGATAAAGAGAGATAAAG+TGG | 0.410002 | 1.4:+57445347 | None:intergenic |
| TTACATTGGAGTTAGGAATA+GGG | 0.425362 | 1.4:-57445151 | MS.gene39884:CDS |
| TCATCACAACTTGGGATTTG+AGG | 0.431478 | 1.4:-57445591 | MS.gene39884:CDS |
| ATCTTGGTTTCTTATCATCA+TGG | 0.436684 | 1.4:+57445297 | None:intergenic |
| GAACAAGGAGTAGTTATGGT+AGG | 0.440481 | 1.4:+57445374 | None:intergenic |
| AGAAGAACAAGGAGTAGTTA+TGG | 0.441716 | 1.4:+57445370 | None:intergenic |
| AACAAGGAGTAGTTATGGTA+GGG | 0.444947 | 1.4:+57445375 | None:intergenic |
| TGAATGTCCATAGAAGAGAT+AGG | 0.464756 | 1.4:-57445475 | MS.gene39884:CDS |
| CTTCTTTGAGGATTCAAAAG+AGG | 0.467083 | 1.4:+57445254 | None:intergenic |
| GGAGTAGTTATGGTAGGGGT+AGG | 0.469136 | 1.4:+57445380 | None:intergenic |
| TTATCATCATGGCTAGTATG+AGG | 0.469666 | 1.4:+57445308 | None:intergenic |
| GGGATTTGAGGAGCATTCAT+GGG | 0.496162 | 1.4:-57445579 | MS.gene39884:CDS |
| GAGTAGTTATGGTAGGGGTA+GGG | 0.501296 | 1.4:+57445381 | None:intergenic |
| ACAAGGAGTAGTTATGGTAG+GGG | 0.510924 | 1.4:+57445376 | None:intergenic |
| TCATGATCATCATCACAACT+TGG | 0.522125 | 1.4:-57445600 | MS.gene39884:CDS |
| AAAAGAGGAAGAGATAAAGA+AGG | 0.530650 | 1.4:+57445269 | None:intergenic |
| GTATGAGGTAAGGAAGGTGA+AGG | 0.546089 | 1.4:+57445323 | None:intergenic |
| GAATGTCCATAGAAGAGATA+GGG | 0.559695 | 1.4:-57445474 | MS.gene39884:CDS |
| AGATAAAGTGGAGAAGAACA+AGG | 0.566773 | 1.4:+57445359 | None:intergenic |
| ATCATGGCTAGTATGAGGTA+AGG | 0.567676 | 1.4:+57445313 | None:intergenic |
| AGCATTCATGGGGAACATCA+TGG | 0.570928 | 1.4:-57445568 | MS.gene39884:CDS |
| TAATGAGCAAAACATTACAT+TGG | 0.584558 | 1.4:-57445165 | MS.gene39884:CDS |
| CATGATCATCATCACAACTT+GGG | 0.590613 | 1.4:-57445599 | MS.gene39884:CDS |
| AGGTCAGCTCAAGCTTTAGG+TGG | 0.591442 | 1.4:-57445503 | MS.gene39884:CDS |
| GAGCATCAAGAGCTATGAAG+AGG | 0.594329 | 1.4:-57445213 | MS.gene39884:CDS |
| TGGCTAGTATGAGGTAAGGA+AGG | 0.615063 | 1.4:+57445317 | None:intergenic |
| GGATTTGAGGAGCATTCATG+GGG | 0.621253 | 1.4:-57445578 | MS.gene39884:CDS |
| AGGGTTGTTTAAACACCAAG+AGG | 0.630464 | 1.4:-57445132 | MS.gene39884:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATCATCATTAATATCTTCTT+GGG | - | chr1.4:57445300-57445319 | MS.gene39884:CDS | 20.0% |
| !!! | GGTTTGGTTTATTATTATTA+GGG | + | chr1.4:57445342-57445361 | None:intergenic | 20.0% |
| ! | GATCATCATTAATATCTTCT+TGG | - | chr1.4:57445299-57445318 | MS.gene39884:CDS | 25.0% |
| ! | TAATGAGCAAAACATTACAT+TGG | - | chr1.4:57445576-57445595 | MS.gene39884:CDS | 25.0% |
| !! | GGGTTTGGTTTATTATTATT+AGG | + | chr1.4:57445343-57445362 | None:intergenic | 25.0% |
| AAAAGAGGAAGAGATAAAGA+AGG | + | chr1.4:57445475-57445494 | None:intergenic | 30.0% | |
| ATCATGATTTCACTTCTTTG+AGG | + | chr1.4:57445502-57445521 | None:intergenic | 30.0% | |
| ATCTTGGTTTCTTATCATCA+TGG | + | chr1.4:57445447-57445466 | None:intergenic | 30.0% | |
| ATTACATTGGAGTTAGGAAT+AGG | - | chr1.4:57445589-57445608 | MS.gene39884:CDS | 30.0% | |
| CAAAACATTACATTGGAGTT+AGG | - | chr1.4:57445583-57445602 | MS.gene39884:CDS | 30.0% | |
| GAAGATAAAGAGAGATAAAG+TGG | + | chr1.4:57445397-57445416 | None:intergenic | 30.0% | |
| TTACATTGGAGTTAGGAATA+GGG | - | chr1.4:57445590-57445609 | MS.gene39884:CDS | 30.0% | |
| ! | GTTTTTGCAAAAGAGAGTTT+AGG | - | chr1.4:57445218-57445237 | MS.gene39884:CDS | 30.0% |
| !! | GATAAAGAAGGTGTTAATCT+TGG | + | chr1.4:57445463-57445482 | None:intergenic | 30.0% |
| AACAAGGAGTAGTTATGGTA+GGG | + | chr1.4:57445369-57445388 | None:intergenic | 35.0% | |
| AGAAGAACAAGGAGTAGTTA+TGG | + | chr1.4:57445374-57445393 | None:intergenic | 35.0% | |
| AGATAAAGTGGAGAAGAACA+AGG | + | chr1.4:57445385-57445404 | None:intergenic | 35.0% | |
| CATGATCATCATCACAACTT+GGG | - | chr1.4:57445142-57445161 | MS.gene39884:CDS | 35.0% | |
| CCAAGAGGAAAAGTTAGATT+TGG | - | chr1.4:57445624-57445643 | MS.gene39884:CDS | 35.0% | |
| CTACAAGAATAGTTTCTTGC+TGG | + | chr1.4:57445199-57445218 | None:intergenic | 35.0% | |
| GAATGTCCATAGAAGAGATA+GGG | - | chr1.4:57445267-57445286 | MS.gene39884:CDS | 35.0% | |
| TCATGATCATCATCACAACT+TGG | - | chr1.4:57445141-57445160 | MS.gene39884:CDS | 35.0% | |
| TGAATGTCCATAGAAGAGAT+AGG | - | chr1.4:57445266-57445285 | MS.gene39884:CDS | 35.0% | |
| TTATCATCATGGCTAGTATG+AGG | + | chr1.4:57445436-57445455 | None:intergenic | 35.0% | |
| ! | CCAAATCTAACTTTTCCTCT+TGG | + | chr1.4:57445627-57445646 | None:intergenic | 35.0% |
| ! | CTTCTTTGAGGATTCAAAAG+AGG | + | chr1.4:57445490-57445509 | None:intergenic | 35.0% |
| ACAAGGAGTAGTTATGGTAG+GGG | + | chr1.4:57445368-57445387 | None:intergenic | 40.0% | |
| AGGGTTGTTTAAACACCAAG+AGG | - | chr1.4:57445609-57445628 | MS.gene39884:CDS | 40.0% | |
| ATCATGGCTAGTATGAGGTA+AGG | + | chr1.4:57445431-57445450 | None:intergenic | 40.0% | |
| ATCTTGCCCTATCTCTTCTA+TGG | + | chr1.4:57445276-57445295 | None:intergenic | 40.0% | |
| GAACAAGGAGTAGTTATGGT+AGG | + | chr1.4:57445370-57445389 | None:intergenic | 40.0% | |
| TCATCACAACTTGGGATTTG+AGG | - | chr1.4:57445150-57445169 | MS.gene39884:CDS | 40.0% | |
| TTTAGGTCAGCTCAAGCTTT+AGG | - | chr1.4:57445235-57445254 | MS.gene39884:CDS | 40.0% | |
| ! | GATCTCTTGTGTTTCTGTTC+AGG | + | chr1.4:57445123-57445142 | None:intergenic | 40.0% |
| AGCATTCATGGGGAACATCA+TGG | - | chr1.4:57445173-57445192 | MS.gene39884:CDS | 45.0% | |
| GAGCATCAAGAGCTATGAAG+AGG | - | chr1.4:57445528-57445547 | MS.gene39884:CDS | 45.0% | |
| GAGTAGTTATGGTAGGGGTA+GGG | + | chr1.4:57445363-57445382 | None:intergenic | 45.0% | |
| GTATGAGGTAAGGAAGGTGA+AGG | + | chr1.4:57445421-57445440 | None:intergenic | 45.0% | |
| TGGCTAGTATGAGGTAAGGA+AGG | + | chr1.4:57445427-57445446 | None:intergenic | 45.0% | |
| !! | GGATTTGAGGAGCATTCATG+GGG | - | chr1.4:57445163-57445182 | MS.gene39884:CDS | 45.0% |
| !! | GGGATTTGAGGAGCATTCAT+GGG | - | chr1.4:57445162-57445181 | MS.gene39884:CDS | 45.0% |
| !! | TGGGATTTGAGGAGCATTCA+TGG | - | chr1.4:57445161-57445180 | MS.gene39884:CDS | 45.0% |
| GGAGTAGTTATGGTAGGGGT+AGG | + | chr1.4:57445364-57445383 | None:intergenic | 50.0% | |
| GTTATGGTAGGGGTAGGGTT+TGG | + | chr1.4:57445358-57445377 | None:intergenic | 50.0% | |
| !! | AGGTCAGCTCAAGCTTTAGG+TGG | - | chr1.4:57445238-57445257 | MS.gene39884:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 57445103 | 57445660 | 57445103 | ID=MS.gene39884 |
| chr1.4 | mRNA | 57445103 | 57445660 | 57445103 | ID=MS.gene39884.t1;Parent=MS.gene39884 |
| chr1.4 | exon | 57445103 | 57445660 | 57445103 | ID=MS.gene39884.t1.exon1;Parent=MS.gene39884.t1 |
| chr1.4 | CDS | 57445103 | 57445660 | 57445103 | ID=cds.MS.gene39884.t1;Parent=MS.gene39884.t1 |
| Gene Sequence |
| Protein sequence |
