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.gene015309.t1 | XP_003611481.1 | 96.7 | 180 | 5 | 1 | 1 | 180 | 73 | 251 | 7.80E-93 | 349.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene015309.t1 | O80942 | 72.2 | 54 | 11 | 1 | 5 | 54 | 34 | 87 | 9.6e-15 | 81.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene015309.t1 | D7R6G3 | 96.7 | 180 | 5 | 1 | 1 | 180 | 73 | 251 | 5.6e-93 | 349.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene015309.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.gene015309.t1 | MTR_5g014400 | 96.667 | 180 | 5 | 1 | 1 | 180 | 73 | 251 | 2.42e-127 | 358 |
| MS.gene015309.t1 | MTR_2g076060 | 87.805 | 41 | 5 | 0 | 5 | 45 | 47 | 87 | 3.43e-22 | 89.7 |
| MS.gene015309.t1 | MTR_4g021270 | 37.805 | 164 | 69 | 6 | 5 | 140 | 56 | 214 | 5.88e-20 | 85.5 |
| MS.gene015309.t1 | MTR_3g068095 | 86.842 | 38 | 5 | 0 | 5 | 42 | 52 | 89 | 6.24e-19 | 81.6 |
| MS.gene015309.t1 | MTR_5g080660 | 74.419 | 43 | 11 | 0 | 3 | 45 | 42 | 84 | 9.36e-19 | 80.9 |
| MS.gene015309.t1 | MTR_1g070265 | 80.000 | 40 | 8 | 0 | 3 | 42 | 30 | 69 | 1.82e-18 | 79.0 |
| MS.gene015309.t1 | MTR_1g070250 | 31.977 | 172 | 97 | 5 | 8 | 177 | 38 | 191 | 1.19e-14 | 68.9 |
| MS.gene015309.t1 | MTR_7g063220 | 76.471 | 34 | 8 | 0 | 8 | 41 | 24 | 57 | 5.53e-14 | 65.9 |
| MS.gene015309.t1 | MTR_4g064873 | 32.749 | 171 | 85 | 4 | 7 | 177 | 20 | 160 | 6.48e-14 | 66.6 |
| MS.gene015309.t1 | MTR_1g075430 | 31.551 | 187 | 88 | 9 | 8 | 174 | 18 | 184 | 1.80e-12 | 63.2 |
| MS.gene015309.t1 | MTR_1g044225 | 43.548 | 62 | 26 | 1 | 8 | 60 | 26 | 87 | 8.62e-11 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene015309.t1 | AT4G17810 | 41.885 | 191 | 71 | 7 | 2 | 177 | 38 | 203 | 4.52e-31 | 112 |
| MS.gene015309.t1 | AT4G17810 | 39.674 | 184 | 55 | 9 | 2 | 177 | 38 | 173 | 2.07e-23 | 91.7 |
| MS.gene015309.t1 | AT5G06070 | 37.306 | 193 | 81 | 8 | 5 | 177 | 50 | 222 | 2.27e-23 | 92.8 |
| MS.gene015309.t1 | AT2G37740 | 68.421 | 57 | 14 | 1 | 2 | 54 | 31 | 87 | 1.77e-20 | 86.7 |
| MS.gene015309.t1 | AT3G23130 | 79.070 | 43 | 9 | 0 | 1 | 43 | 38 | 80 | 9.95e-20 | 82.8 |
| MS.gene015309.t1 | AT2G42410 | 35.979 | 189 | 82 | 6 | 5 | 174 | 44 | 212 | 1.22e-19 | 82.8 |
| MS.gene015309.t1 | AT2G42410 | 35.979 | 189 | 82 | 6 | 5 | 174 | 44 | 212 | 1.22e-19 | 82.8 |
| MS.gene015309.t1 | AT2G42410 | 67.925 | 53 | 17 | 0 | 5 | 57 | 70 | 122 | 2.00e-19 | 82.8 |
| MS.gene015309.t1 | AT3G09290 | 31.792 | 173 | 70 | 7 | 8 | 174 | 33 | 163 | 3.45e-13 | 64.7 |
| MS.gene015309.t1 | AT3G53820 | 63.889 | 36 | 13 | 0 | 7 | 42 | 18 | 53 | 3.43e-11 | 58.5 |
Find 39 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCAAAAGCATTATTATTATT+AGG | 0.154031 | 5.4:-8234100 | None:intergenic |
| TATTATTAGGGTTTGGTAAA+TGG | 0.178618 | 5.4:-8234087 | None:intergenic |
| ATTTGCATCATCAAATTATT+TGG | 0.190581 | 5.4:-8234199 | None:intergenic |
| CAAAAGCATTATTATTATTA+GGG | 0.268434 | 5.4:-8234099 | None:intergenic |
| TTAACGGTGGTTGGCTTTGA+TGG | 0.294750 | 5.4:-8233985 | None:intergenic |
| CTTGATCTTGAGCTCCGTTT+AGG | 0.296503 | 5.4:+8234367 | MS.gene015309:CDS |
| TACAATAGTTCTAGTCCTAA+TGG | 0.356996 | 5.4:+8234127 | MS.gene015309:CDS |
| TTGATCTTGAGCTCCGTTTA+GGG | 0.364351 | 5.4:+8234368 | MS.gene015309:CDS |
| GAGATTGAGAGAAAAGTAGA+AGG | 0.386084 | 5.4:-8234157 | None:intergenic |
| GTAGAAGGAGATTCTCCATT+AGG | 0.392764 | 5.4:-8234142 | None:intergenic |
| TTCATGACCGTTATCATCAA+TGG | 0.401936 | 5.4:-8234335 | None:intergenic |
| GCATTATTATTATTAGGGTT+TGG | 0.403821 | 5.4:-8234094 | None:intergenic |
| CAAGAGCTTGTTGCTAATGC+TGG | 0.417258 | 5.4:+8234049 | MS.gene015309:CDS |
| GTGTTGGCTTGTTCCCTAAA+CGG | 0.435644 | 5.4:-8234381 | None:intergenic |
| TCCACTTGAAAATTAAAAGA+TGG | 0.441538 | 5.4:-8234235 | None:intergenic |
| ATTAGGACTAGAACTATTGT+AGG | 0.449818 | 5.4:-8234125 | None:intergenic |
| TTCCGGTCAGCTCAAGCTCT+TGG | 0.471669 | 5.4:+8233923 | MS.gene015309:CDS |
| GAGATGAATTTAACGGTGGT+TGG | 0.484111 | 5.4:-8233994 | None:intergenic |
| TGCATCATCAAATTATTTGG+TGG | 0.498570 | 5.4:-8234196 | None:intergenic |
| GGTTTGGTAAATGGTAAAGA+AGG | 0.506848 | 5.4:-8234078 | None:intergenic |
| CGGTCAGCTCAAGCTCTTGG+TGG | 0.515963 | 5.4:+8233926 | MS.gene015309:CDS |
| GATGGAGACGAGCACGGTCG+CGG | 0.516231 | 5.4:-8233967 | None:intergenic |
| CACCAAGAGCTTGAGCTGAC+CGG | 0.533757 | 5.4:-8233925 | None:intergenic |
| TGTGGAGGAATATTTATGAA+TGG | 0.545539 | 5.4:-8234028 | None:intergenic |
| GAAGGATGAGATGAATTTAA+CGG | 0.547030 | 5.4:-8234001 | None:intergenic |
| AGGTGCAAGTAGCATGTTGA+TGG | 0.551205 | 5.4:-8234312 | None:intergenic |
| TGCACCTCCATTGATGATAA+CGG | 0.570866 | 5.4:+8234328 | MS.gene015309:CDS |
| GCATTAGCAACAAGCTCTTG+TGG | 0.586992 | 5.4:-8234046 | None:intergenic |
| GGCTTTGATGGAGACGAGCA+CGG | 0.589738 | 5.4:-8233973 | None:intergenic |
| ATATTTATGAATGGTGATGA+AGG | 0.596989 | 5.4:-8234019 | None:intergenic |
| GTGCAGGTATAGGACCTTGG+TGG | 0.606792 | 5.4:-8233884 | None:intergenic |
| AAAGTGCAGGTATAGGACCT+TGG | 0.620732 | 5.4:-8233887 | None:intergenic |
| TTCAAGTGGATAATTCAGCT+AGG | 0.628424 | 5.4:+8234248 | MS.gene015309:CDS |
| ATGACCGTTATCATCAATGG+AGG | 0.643461 | 5.4:-8234332 | None:intergenic |
| TGAACACAACATGGCCACCA+AGG | 0.646071 | 5.4:+8233870 | MS.gene015309:CDS |
| GGAGACGAGCACGGTCGCGG+CGG | 0.650175 | 5.4:-8233964 | None:intergenic |
| TTAGCAACAAGCTCTTGTGG+AGG | 0.690594 | 5.4:-8234043 | None:intergenic |
| GGAATATTATGAACACAACA+TGG | 0.697427 | 5.4:+8233861 | None:intergenic |
| GGATGAGATGAATTTAACGG+TGG | 0.714956 | 5.4:-8233998 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CAAAAGCATTATTATTATTA+GGG | - | chr5.4:8234102-8234121 | None:intergenic | 15.0% |
| !! | ATTTGCATCATCAAATTATT+TGG | - | chr5.4:8234202-8234221 | None:intergenic | 20.0% |
| !!! | GCAAAAGCATTATTATTATT+AGG | - | chr5.4:8234103-8234122 | None:intergenic | 20.0% |
| ! | GCATTATTATTATTAGGGTT+TGG | - | chr5.4:8234097-8234116 | None:intergenic | 25.0% |
| ! | TCCACTTGAAAATTAAAAGA+TGG | - | chr5.4:8234238-8234257 | None:intergenic | 25.0% |
| !! | ATATTTATGAATGGTGATGA+AGG | - | chr5.4:8234022-8234041 | None:intergenic | 25.0% |
| !! | TATTATTAGGGTTTGGTAAA+TGG | - | chr5.4:8234090-8234109 | None:intergenic | 25.0% |
| !!! | TCCATCTTTTAATTTTCAAG+TGG | + | chr5.4:8234234-8234253 | MS.gene015309:CDS | 25.0% |
| ATTAGGACTAGAACTATTGT+AGG | - | chr5.4:8234128-8234147 | None:intergenic | 30.0% | |
| GAAGGATGAGATGAATTTAA+CGG | - | chr5.4:8234004-8234023 | None:intergenic | 30.0% | |
| TGCATCATCAAATTATTTGG+TGG | - | chr5.4:8234199-8234218 | None:intergenic | 30.0% | |
| TGTGGAGGAATATTTATGAA+TGG | - | chr5.4:8234031-8234050 | None:intergenic | 30.0% | |
| !! | TACAATAGTTCTAGTCCTAA+TGG | + | chr5.4:8234127-8234146 | MS.gene015309:CDS | 30.0% |
| !! | TTCTTCTTTTTCTAGCAAAG+TGG | + | chr5.4:8234288-8234307 | MS.gene015309:CDS | 30.0% |
| GAGATTGAGAGAAAAGTAGA+AGG | - | chr5.4:8234160-8234179 | None:intergenic | 35.0% | |
| TTCAAGTGGATAATTCAGCT+AGG | + | chr5.4:8234248-8234267 | MS.gene015309:CDS | 35.0% | |
| TTCATGACCGTTATCATCAA+TGG | - | chr5.4:8234338-8234357 | None:intergenic | 35.0% | |
| ! | GGTTTGGTAAATGGTAAAGA+AGG | - | chr5.4:8234081-8234100 | None:intergenic | 35.0% |
| ATGACCGTTATCATCAATGG+AGG | - | chr5.4:8234335-8234354 | None:intergenic | 40.0% | |
| GAGATGAATTTAACGGTGGT+TGG | - | chr5.4:8233997-8234016 | None:intergenic | 40.0% | |
| GGATGAGATGAATTTAACGG+TGG | - | chr5.4:8234001-8234020 | None:intergenic | 40.0% | |
| GTAGAAGGAGATTCTCCATT+AGG | - | chr5.4:8234145-8234164 | None:intergenic | 40.0% | |
| TTGATCTTGAGCTCCGTTTA+GGG | + | chr5.4:8234368-8234387 | MS.gene015309:CDS | 40.0% | |
| ! | CTTTTTGCAGAAGAGAGTTC+CGG | + | chr5.4:8233906-8233925 | MS.gene015309:CDS | 40.0% |
| ! | TCTGCAAAAAGTGCAGGTAT+AGG | - | chr5.4:8233897-8233916 | None:intergenic | 40.0% |
| ! | TGCACCTCCATTGATGATAA+CGG | + | chr5.4:8234328-8234347 | MS.gene015309:CDS | 40.0% |
| AAAGTGCAGGTATAGGACCT+TGG | - | chr5.4:8233890-8233909 | None:intergenic | 45.0% | |
| AGGTGCAAGTAGCATGTTGA+TGG | - | chr5.4:8234315-8234334 | None:intergenic | 45.0% | |
| CTTGATCTTGAGCTCCGTTT+AGG | + | chr5.4:8234367-8234386 | MS.gene015309:CDS | 45.0% | |
| GCATTAGCAACAAGCTCTTG+TGG | - | chr5.4:8234049-8234068 | None:intergenic | 45.0% | |
| TTAGCAACAAGCTCTTGTGG+AGG | - | chr5.4:8234046-8234065 | None:intergenic | 45.0% | |
| ! | CTCTCTTCTGCAAAAAGTGC+AGG | - | chr5.4:8233903-8233922 | None:intergenic | 45.0% |
| !! | CAAGAGCTTGTTGCTAATGC+TGG | + | chr5.4:8234049-8234068 | MS.gene015309:CDS | 45.0% |
| !! | GTGTTGGCTTGTTCCCTAAA+CGG | - | chr5.4:8234384-8234403 | None:intergenic | 45.0% |
| !! | TTAACGGTGGTTGGCTTTGA+TGG | - | chr5.4:8233988-8234007 | None:intergenic | 45.0% |
| TGAACACAACATGGCCACCA+AGG | + | chr5.4:8233870-8233889 | MS.gene015309:CDS | 50.0% | |
| CACCAAGAGCTTGAGCTGAC+CGG | - | chr5.4:8233928-8233947 | None:intergenic | 55.0% | |
| GTGCAGGTATAGGACCTTGG+TGG | - | chr5.4:8233887-8233906 | None:intergenic | 55.0% | |
| TTCCGGTCAGCTCAAGCTCT+TGG | + | chr5.4:8233923-8233942 | MS.gene015309:CDS | 55.0% | |
| ! | GGCTTTGATGGAGACGAGCA+CGG | - | chr5.4:8233976-8233995 | None:intergenic | 55.0% |
| CGGTCAGCTCAAGCTCTTGG+TGG | + | chr5.4:8233926-8233945 | MS.gene015309:CDS | 60.0% | |
| GATGGAGACGAGCACGGTCG+CGG | - | chr5.4:8233970-8233989 | None:intergenic | 65.0% | |
| GGAGACGAGCACGGTCGCGG+CGG | - | chr5.4:8233967-8233986 | None:intergenic | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.4 | gene | 8233869 | 8234411 | 8233869 | ID=MS.gene015309 |
| chr5.4 | mRNA | 8233869 | 8234411 | 8233869 | ID=MS.gene015309.t1;Parent=MS.gene015309 |
| chr5.4 | exon | 8233869 | 8234411 | 8233869 | ID=MS.gene015309.t1.exon1;Parent=MS.gene015309.t1 |
| chr5.4 | CDS | 8233869 | 8234411 | 8233869 | ID=cds.MS.gene015309.t1;Parent=MS.gene015309.t1 |
| Gene Sequence |
| Protein sequence |
