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.gene057118.t1 | RHN79921.1 | 64.3 | 272 | 58 | 5 | 1 | 271 | 1 | 234 | 1.00E-83 | 320.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene057118.t1 | Q9LVU8 | 50.4 | 113 | 56 | 0 | 153 | 265 | 137 | 249 | 5.3e-25 | 116.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene057118.t1 | A0A396JT22 | 64.3 | 272 | 58 | 5 | 1 | 271 | 1 | 234 | 7.2e-84 | 320.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene057118.t1 | TF | RWP-RK |
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.gene057118.t1 | MTR_3g091700 | 64.338 | 272 | 56 | 5 | 1 | 271 | 30 | 261 | 3.60e-116 | 334 |
| MS.gene057118.t1 | MTR_3g435550 | 47.321 | 112 | 53 | 1 | 164 | 269 | 59 | 170 | 4.37e-29 | 109 |
| MS.gene057118.t1 | MTR_5g024070 | 37.719 | 114 | 58 | 1 | 164 | 264 | 201 | 314 | 2.60e-19 | 86.3 |
| MS.gene057118.t1 | MTR_3g091720 | 75.000 | 52 | 6 | 1 | 220 | 271 | 19 | 63 | 1.14e-17 | 75.5 |
| MS.gene057118.t1 | MTR_0140s0010 | 37.079 | 89 | 44 | 2 | 194 | 270 | 150 | 238 | 1.20e-11 | 63.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene057118.t1 | AT5G53040 | 52.381 | 105 | 50 | 0 | 164 | 268 | 148 | 252 | 4.69e-32 | 119 |
| MS.gene057118.t1 | AT5G66990 | 49.550 | 111 | 45 | 1 | 169 | 268 | 164 | 274 | 2.95e-31 | 117 |
| MS.gene057118.t1 | AT1G18790 | 44.094 | 127 | 54 | 2 | 149 | 265 | 120 | 239 | 6.43e-28 | 108 |
| MS.gene057118.t1 | AT1G74480 | 46.364 | 110 | 49 | 1 | 162 | 261 | 133 | 242 | 5.00e-27 | 106 |
| MS.gene057118.t1 | AT4G35590 | 33.824 | 136 | 70 | 2 | 150 | 265 | 171 | 306 | 1.40e-17 | 81.3 |
| MS.gene057118.t1 | AT4G35590 | 33.824 | 136 | 70 | 2 | 150 | 265 | 221 | 356 | 2.03e-17 | 81.3 |
| MS.gene057118.t1 | AT5G16100 | 38.462 | 91 | 48 | 1 | 158 | 240 | 348 | 438 | 3.70e-12 | 66.2 |
Find 47 sgRNAs with CRISPR-Local
Find 81 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCAGGTAAAGCAACATTTA+AGG | 0.169846 | 3.1:+73640689 | None:intergenic |
| CATTGCAATTTGATGATATA+AGG | 0.198698 | 3.1:-73640368 | MS.gene057118:CDS |
| TCGGTGTAATGCCCCATTTC+AGG | 0.239025 | 3.1:+73640672 | None:intergenic |
| AAATGTTGCTTTACCTGAAA+TGG | 0.239415 | 3.1:-73640685 | MS.gene057118:CDS |
| TCTTCATTCAATTCCATTTC+AGG | 0.242189 | 3.1:+73639882 | None:intergenic |
| AACTACTTTGATCAAGGTAT+TGG | 0.343714 | 3.1:+73640730 | None:intergenic |
| TCAGGTAAAGCAACATTTAA+GGG | 0.355156 | 3.1:+73640690 | None:intergenic |
| AATGTTGCTTTACCTGAAAT+GGG | 0.356567 | 3.1:-73640684 | MS.gene057118:CDS |
| TTGTGAACAAACAAGAGAAA+TGG | 0.359147 | 3.1:-73640578 | MS.gene057118:CDS |
| ATGATTTCATTGAGTTTGAT+TGG | 0.364629 | 3.1:-73640836 | MS.gene057118:CDS |
| AGCAATACTCTTCCCTTTGT+CGG | 0.387658 | 3.1:+73640653 | None:intergenic |
| GTTGAGGCTTCCAAGAAAAC+AGG | 0.393183 | 3.1:-73640618 | MS.gene057118:CDS |
| CCCTGCATCTATTCTTCAAA+AGG | 0.394587 | 3.1:+73640289 | None:intergenic |
| GTTAGAGAAACTTCCTGAAA+TGG | 0.395826 | 3.1:-73639895 | MS.gene057118:CDS |
| GAGTGGATTTGTTGAAGCTT+CGG | 0.430431 | 3.1:-73640514 | MS.gene057118:CDS |
| TGTTGTGTGATGCAGGAAAT+GGG | 0.433682 | 3.1:-73639960 | MS.gene057118:intron |
| GGCAAACGAGGTTGCTATGA+TGG | 0.435987 | 3.1:-73639934 | MS.gene057118:CDS |
| TGTGAACAAACAAGAGAAAT+GGG | 0.437906 | 3.1:-73640577 | MS.gene057118:CDS |
| TGTACTCATCGACAACCTTA+AGG | 0.457457 | 3.1:-73640220 | MS.gene057118:intron |
| AACTCAATGAAATCATCAAA+TGG | 0.471465 | 3.1:+73640843 | None:intergenic |
| GTACTAGAACTAGTATCATA+AGG | 0.476033 | 3.1:-73640404 | MS.gene057118:CDS |
| CTGCTACTTGGCAATGGTAG+TGG | 0.480934 | 3.1:+73640426 | None:intergenic |
| TGATTTCATTGAGTTTGATT+GGG | 0.486276 | 3.1:-73640835 | MS.gene057118:CDS |
| CTAGTTCTAGTACTGCTACT+TGG | 0.488715 | 3.1:+73640414 | None:intergenic |
| GGGAGCTCAACATCACTAGA+TGG | 0.489772 | 3.1:-73640269 | MS.gene057118:CDS |
| AGGTTGAAGCTCAAGGGTTG+AGG | 0.489859 | 3.1:+73639799 | None:intergenic |
| TGTGATGCAGGAAATGGGTT+TGG | 0.499818 | 3.1:-73639955 | MS.gene057118:intron |
| TTGTGAAGAAAGAGGTTGAA+GGG | 0.507686 | 3.1:-73640464 | MS.gene057118:CDS |
| TCTCAAAACTACTTTGATCA+AGG | 0.511922 | 3.1:+73640724 | None:intergenic |
| CTATGATGGAGAAGAAGAAA+AGG | 0.520048 | 3.1:-73639920 | MS.gene057118:CDS |
| AAGATCATTGAACCACCCAT+TGG | 0.537266 | 3.1:+73640776 | None:intergenic |
| TTTGTGAAGAAAGAGGTTGA+AGG | 0.545050 | 3.1:-73640465 | MS.gene057118:CDS |
| GGTTGAAGCTCAAGGGTTGA+GGG | 0.549829 | 3.1:+73639800 | None:intergenic |
| TGTGAAGAAAGAGGTTGAAG+GGG | 0.555743 | 3.1:-73640463 | MS.gene057118:CDS |
| ATGGGGCATTACACCGACAA+AGG | 0.558093 | 3.1:-73640666 | MS.gene057118:CDS |
| TGGGGCATTACACCGACAAA+GGG | 0.567564 | 3.1:-73640665 | MS.gene057118:CDS |
| GAACTAGTATCATAAGGAAG+AGG | 0.575464 | 3.1:-73640398 | MS.gene057118:CDS |
| CTAGTACTGCTACTTGGCAA+TGG | 0.587993 | 3.1:+73640420 | None:intergenic |
| CCTGCATCTATTCTTCAAAA+GGG | 0.589493 | 3.1:+73640290 | None:intergenic |
| ACATTGAGTGCTGCTGAGAG+TGG | 0.594289 | 3.1:-73640531 | MS.gene057118:CDS |
| GGGAAGAGTATTGCTGAGAG+TGG | 0.605279 | 3.1:-73640645 | MS.gene057118:CDS |
| GGAAATGGGTTTGGCAAACG+AGG | 0.606744 | 3.1:-73639946 | MS.gene057118:CDS |
| ATGTTGCTTTACCTGAAATG+GGG | 0.616338 | 3.1:-73640683 | MS.gene057118:CDS |
| GATGGCCTCACAGAAAATTG+AGG | 0.623093 | 3.1:-73640251 | MS.gene057118:CDS |
| ATGAAGAAATCAAGAAGCTG+AGG | 0.626377 | 3.1:-73639866 | MS.gene057118:CDS |
| GCTGCTAAGAAAATGAATGT+TGG | 0.631864 | 3.1:-73640318 | MS.gene057118:CDS |
| GCACTCAATGTCAATGACAG+TGG | 0.693921 | 3.1:+73640543 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATAAATAATTTTTTATCAAC+TGG | - | chr3.1:73640661-73640680 | MS.gene057118:CDS | 10.0% |
| !! | AACATAAAGAATATACCTTA+AGG | + | chr3.1:73640462-73640481 | None:intergenic | 20.0% |
| !!! | TTTTGATGTTCCTTTAAAAA+TGG | - | chr3.1:73640324-73640343 | MS.gene057118:CDS | 20.0% |
| ! | AACTCAATGAAATCATCAAA+TGG | + | chr3.1:73639824-73639843 | None:intergenic | 25.0% |
| ! | ATCCAAACAAAGATAATGTT+AGG | + | chr3.1:73640523-73640542 | None:intergenic | 25.0% |
| ! | ATGATTTCATTGAGTTTGAT+TGG | - | chr3.1:73639828-73639847 | MS.gene057118:CDS | 25.0% |
| ! | ATTTCAATTGTCATTCAAAG+TGG | + | chr3.1:73640582-73640601 | None:intergenic | 25.0% |
| ! | TGATTTCATTGAGTTTGATT+GGG | - | chr3.1:73639829-73639848 | MS.gene057118:CDS | 25.0% |
| ! | TGGTGTAAAAATGATTACTT+TGG | + | chr3.1:73639871-73639890 | None:intergenic | 25.0% |
| ! | TTCCTAACATTATCTTTGTT+TGG | - | chr3.1:73640518-73640537 | MS.gene057118:CDS | 25.0% |
| ! | TTTCAATTGTCATTCAAAGT+GGG | + | chr3.1:73640581-73640600 | None:intergenic | 25.0% |
| !! | CATTGCAATTTGATGATATA+AGG | - | chr3.1:73640296-73640315 | MS.gene057118:CDS | 25.0% |
| !! | TTTGAAGTACTTAACAATGT+GGG | + | chr3.1:73640497-73640516 | None:intergenic | 25.0% |
| !!! | AGTAATCATTTTTACACCAA+TGG | - | chr3.1:73639872-73639891 | MS.gene057118:CDS | 25.0% |
| !!! | ATTTTTTATCAACTGGTCAT+AGG | - | chr3.1:73640668-73640687 | MS.gene057118:CDS | 25.0% |
| !!! | GTAATCATTTTTACACCAAT+GGG | - | chr3.1:73639873-73639892 | MS.gene057118:CDS | 25.0% |
| !!! | TTTTGAAGTACTTAACAATG+TGG | + | chr3.1:73640498-73640517 | None:intergenic | 25.0% |
| AACTACTTTGATCAAGGTAT+TGG | + | chr3.1:73639937-73639956 | None:intergenic | 30.0% | |
| GAAACTTGAAACTGTAGTTT+GGG | - | chr3.1:73640609-73640628 | MS.gene057118:CDS | 30.0% | |
| GTACTAGAACTAGTATCATA+AGG | - | chr3.1:73640260-73640279 | MS.gene057118:CDS | 30.0% | |
| TCAGGTAAAGCAACATTTAA+GGG | + | chr3.1:73639977-73639996 | None:intergenic | 30.0% | |
| TCTCAAAACTACTTTGATCA+AGG | + | chr3.1:73639943-73639962 | None:intergenic | 30.0% | |
| TCTTCATTCAATTCCATTTC+AGG | + | chr3.1:73640785-73640804 | None:intergenic | 30.0% | |
| TGAAACTTGAAACTGTAGTT+TGG | - | chr3.1:73640608-73640627 | MS.gene057118:CDS | 30.0% | |
| TGTGAACAAACAAGAGAAAT+GGG | - | chr3.1:73640087-73640106 | MS.gene057118:intron | 30.0% | |
| TTCAGGTAAAGCAACATTTA+AGG | + | chr3.1:73639978-73639997 | None:intergenic | 30.0% | |
| TTGTGAACAAACAAGAGAAA+TGG | - | chr3.1:73640086-73640105 | MS.gene057118:intron | 30.0% | |
| ! | TTGAAGTACTTAACAATGTG+GGG | + | chr3.1:73640496-73640515 | None:intergenic | 30.0% |
| !! | AAACTGATTTCCTGTTTTCT+TGG | + | chr3.1:73640059-73640078 | None:intergenic | 30.0% |
| !! | AAATGTTGCTTTACCTGAAA+TGG | - | chr3.1:73639979-73639998 | MS.gene057118:intron | 30.0% |
| !! | AATGTTGCTTTACCTGAAAT+GGG | - | chr3.1:73639980-73639999 | MS.gene057118:intron | 30.0% |
| !! | ATTATTTTGTTGTGTGATGC+AGG | - | chr3.1:73640697-73640716 | MS.gene057118:CDS | 30.0% |
| !!! | TTCTTAGCAGCCATTTTTAA+AGG | + | chr3.1:73640337-73640356 | None:intergenic | 30.0% |
| ATGAAGAAATCAAGAAGCTG+AGG | - | chr3.1:73640798-73640817 | MS.gene057118:CDS | 35.0% | |
| CCTGCATCTATTCTTCAAAA+GGG | + | chr3.1:73640377-73640396 | None:intergenic | 35.0% | |
| GAACTAGTATCATAAGGAAG+AGG | - | chr3.1:73640266-73640285 | MS.gene057118:CDS | 35.0% | |
| GAGCATTAGACTCAAATTGT+AGG | - | chr3.1:73640548-73640567 | MS.gene057118:CDS | 35.0% | |
| GCTGCTAAGAAAATGAATGT+TGG | - | chr3.1:73640346-73640365 | MS.gene057118:CDS | 35.0% | |
| GTTAGAGAAACTTCCTGAAA+TGG | - | chr3.1:73640769-73640788 | MS.gene057118:CDS | 35.0% | |
| TTGTGAAGAAAGAGGTTGAA+GGG | - | chr3.1:73640200-73640219 | MS.gene057118:intron | 35.0% | |
| TTTGTGAAGAAAGAGGTTGA+AGG | - | chr3.1:73640199-73640218 | MS.gene057118:intron | 35.0% | |
| ! | AAAAACTGAAAGTGGGTTTG+TGG | - | chr3.1:73640174-73640193 | MS.gene057118:intron | 35.0% |
| ! | CTATGATGGAGAAGAAGAAA+AGG | - | chr3.1:73640744-73640763 | MS.gene057118:CDS | 35.0% |
| ! | TGAAGTACTTAACAATGTGG+GGG | + | chr3.1:73640495-73640514 | None:intergenic | 35.0% |
| ! | TGTGGATTTTGTGAAGAAAG+AGG | - | chr3.1:73640192-73640211 | MS.gene057118:intron | 35.0% |
| !! | ATCATTTTTACACCAATGGG+TGG | - | chr3.1:73639876-73639895 | MS.gene057118:CDS | 35.0% |
| !! | ATGTTGCTTTACCTGAAATG+GGG | - | chr3.1:73639981-73640000 | MS.gene057118:intron | 35.0% |
| !! | CCTTTTGAAGAATAGATGCA+GGG | - | chr3.1:73640375-73640394 | MS.gene057118:CDS | 35.0% |
| AAGATCATTGAACCACCCAT+TGG | + | chr3.1:73639891-73639910 | None:intergenic | 40.0% | |
| ACTTGAAACTGTAGTTTGGG+TGG | - | chr3.1:73640612-73640631 | MS.gene057118:CDS | 40.0% | |
| AGCAATACTCTTCCCTTTGT+CGG | + | chr3.1:73640014-73640033 | None:intergenic | 40.0% | |
| CCCTGCATCTATTCTTCAAA+AGG | + | chr3.1:73640378-73640397 | None:intergenic | 40.0% | |
| CTTCGGCAAAAACTGAAAGT+GGG | - | chr3.1:73640167-73640186 | MS.gene057118:intron | 40.0% | |
| TAGACTCAAATTGTAGGACC+AGG | - | chr3.1:73640554-73640573 | MS.gene057118:CDS | 40.0% | |
| TGTACTCATCGACAACCTTA+AGG | - | chr3.1:73640444-73640463 | MS.gene057118:CDS | 40.0% | |
| TGTGAAGAAAGAGGTTGAAG+GGG | - | chr3.1:73640201-73640220 | MS.gene057118:intron | 40.0% | |
| TGTTGTGTGATGCAGGAAAT+GGG | - | chr3.1:73640704-73640723 | MS.gene057118:CDS | 40.0% | |
| TTGTTGTGTGATGCAGGAAA+TGG | - | chr3.1:73640703-73640722 | MS.gene057118:CDS | 40.0% | |
| ! | AAGCTCCTCAATTTTCTGTG+AGG | + | chr3.1:73640421-73640440 | None:intergenic | 40.0% |
| ! | GAAGTACTTAACAATGTGGG+GGG | + | chr3.1:73640494-73640513 | None:intergenic | 40.0% |
| !! | CCCTTTTGAAGAATAGATGC+AGG | - | chr3.1:73640374-73640393 | MS.gene057118:CDS | 40.0% |
| !! | CTAGTTCTAGTACTGCTACT+TGG | + | chr3.1:73640253-73640272 | None:intergenic | 40.0% |
| !! | GAGTGGATTTGTTGAAGCTT+CGG | - | chr3.1:73640150-73640169 | MS.gene057118:intron | 40.0% |
| !! | TTTGGGTGGAGCATTTTTGT+TGG | - | chr3.1:73640626-73640645 | MS.gene057118:CDS | 40.0% |
| GATGGCCTCACAGAAAATTG+AGG | - | chr3.1:73640413-73640432 | MS.gene057118:CDS | 45.0% | |
| GCACTCAATGTCAATGACAG+TGG | + | chr3.1:73640124-73640143 | None:intergenic | 45.0% | |
| GCTTCGGCAAAAACTGAAAG+TGG | - | chr3.1:73640166-73640185 | MS.gene057118:intron | 45.0% | |
| GTTGAGGCTTCCAAGAAAAC+AGG | - | chr3.1:73640046-73640065 | MS.gene057118:intron | 45.0% | |
| TTGTCATTCAAAGTGGGTCC+TGG | + | chr3.1:73640575-73640594 | None:intergenic | 45.0% | |
| ! | CTAGTACTGCTACTTGGCAA+TGG | + | chr3.1:73640247-73640266 | None:intergenic | 45.0% |
| ! | TGTGATGCAGGAAATGGGTT+TGG | - | chr3.1:73640709-73640728 | MS.gene057118:CDS | 45.0% |
| !!! | TGCTGAGAGTGGTTTTGTTG+AGG | - | chr3.1:73640030-73640049 | MS.gene057118:intron | 45.0% |
| GGCAAACGAGGTTGCTATGA+TGG | - | chr3.1:73640730-73640749 | MS.gene057118:CDS | 50.0% | |
| GGGAGCTCAACATCACTAGA+TGG | - | chr3.1:73640395-73640414 | MS.gene057118:CDS | 50.0% | |
| TCGGTGTAATGCCCCATTTC+AGG | + | chr3.1:73639995-73640014 | None:intergenic | 50.0% | |
| ! | ACATTGAGTGCTGCTGAGAG+TGG | - | chr3.1:73640133-73640152 | MS.gene057118:intron | 50.0% |
| ! | ATGGGGCATTACACCGACAA+AGG | - | chr3.1:73639998-73640017 | MS.gene057118:intron | 50.0% |
| ! | CTGCTACTTGGCAATGGTAG+TGG | + | chr3.1:73640241-73640260 | None:intergenic | 50.0% |
| ! | GGAAATGGGTTTGGCAAACG+AGG | - | chr3.1:73640718-73640737 | MS.gene057118:CDS | 50.0% |
| ! | TGGGGCATTACACCGACAAA+GGG | - | chr3.1:73639999-73640018 | MS.gene057118:intron | 50.0% |
| !! | GGGAAGAGTATTGCTGAGAG+TGG | - | chr3.1:73640019-73640038 | MS.gene057118:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 73639809 | 73640877 | 73639809 | ID=MS.gene057118 |
| chr3.1 | mRNA | 73639809 | 73640877 | 73639809 | ID=MS.gene057118.t1;Parent=MS.gene057118 |
| chr3.1 | exon | 73640221 | 73640877 | 73640221 | ID=MS.gene057118.t1.exon1;Parent=MS.gene057118.t1 |
| chr3.1 | CDS | 73640221 | 73640877 | 73640221 | ID=cds.MS.gene057118.t1;Parent=MS.gene057118.t1 |
| chr3.1 | exon | 73639809 | 73639967 | 73639809 | ID=MS.gene057118.t1.exon2;Parent=MS.gene057118.t1 |
| chr3.1 | CDS | 73639809 | 73639967 | 73639809 | ID=cds.MS.gene057118.t1;Parent=MS.gene057118.t1 |
| Gene Sequence |
| Protein sequence |
