Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0280006833.01.T01 | XP_013462553.1 | 80.952 | 168 | 9 | 1 | 1 | 145 | 1 | 168 | 1.61E-89 | 268 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0280006833.01.T01 | O49813 | 48.466 | 163 | 59 | 2 | 1 | 139 | 1 | 162 | 7.77E-48 | 154 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0280006833.01.T01 | B7FGN2 | 80.952 | 168 | 9 | 1 | 1 | 145 | 1 | 168 | 7.68e-90 | 268 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI
| Gene1 | Gene2 | Type |
|---|---|---|
| MsG0280006882.01 | MsG0280006833.01 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0280006833.01.T01 | MTR_2g016020 | 80.952 | 168 | 9 | 1 | 1 | 145 | 1 | 168 | 1.95e-93 | 268 |
| MsG0280006833.01.T01 | MTR_2g077960 | 29.193 | 161 | 78 | 5 | 8 | 138 | 11 | 165 | 4.01e-14 | 65.9 |
| MsG0280006833.01.T01 | MTR_2g077940 | 29.341 | 167 | 76 | 5 | 8 | 138 | 11 | 171 | 5.43e-14 | 65.9 |
| MsG0280006833.01.T01 | MTR_3g087540 | 27.481 | 131 | 66 | 4 | 28 | 132 | 25 | 152 | 2.65e-12 | 61.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0280006833.01.T01 | AT1G29140 | 40.588 | 170 | 72 | 4 | 1 | 141 | 1 | 170 | 2.23e-34 | 118 |
| MsG0280006833.01.T01 | AT4G18596 | 39.181 | 171 | 74 | 4 | 1 | 141 | 1 | 171 | 3.07e-33 | 115 |
| MsG0280006833.01.T01 | AT5G45880 | 42.857 | 140 | 55 | 2 | 27 | 141 | 34 | 173 | 4.26e-33 | 115 |
| MsG0280006833.01.T01 | AT4G18596 | 39.181 | 171 | 74 | 4 | 1 | 141 | 47 | 217 | 1.26e-32 | 115 |
| MsG0280006833.01.T01 | AT5G10130 | 30.675 | 163 | 86 | 2 | 1 | 139 | 1 | 160 | 4.42e-18 | 76.3 |
| MsG0280006833.01.T01 | AT4G08685 | 31.013 | 158 | 79 | 5 | 8 | 139 | 6 | 159 | 1.28e-17 | 75.1 |
Find 57 sgRNAs with CRISPR-Local
Find 79 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTTGCCCACATTAATAATT+AGG | 0.159605 | 2:+6869066 | MsG0280006833.01.T01:three_prime_UTR |
| GATTCATCCCAATTTGTCTT+AGG | 0.203921 | 2:+6869217 | MsG0280006833.01.T01:three_prime_UTR |
| TAGCAAACCCTAAGACAAAT+TGG | 0.255500 | 2:-6869225 | None:intergenic |
| AGGATCCTAACCAATGTCTT+TGG | 0.288354 | 2:-6869257 | None:intergenic |
| TTGAGAACCTCACCACATTT+AGG | 0.300765 | 2:-6868982 | None:intergenic |
| AAGACAAAATTTATACTAAT+AGG | 0.306921 | 2:-6869277 | None:intergenic |
| TTCTTATGTGGGATTAATAA+TGG | 0.307360 | 2:+6869089 | MsG0280006833.01.T01:three_prime_UTR |
| CGGTCAATCTGGTGATGAAT+TGG | 0.316647 | 2:-6868300 | None:intergenic |
| AGAGGGCTAGCAGCACGAAC+TGG | 0.354642 | 2:-6868934 | None:intergenic |
| CCTGAACGCTTCTTTGTAGA+AGG | 0.366196 | 2:+6868250 | MsG0280006833.01.T01:CDS |
| ATTCATCCCAATTTGTCTTA+GGG | 0.388089 | 2:+6869218 | MsG0280006833.01.T01:three_prime_UTR |
| GTTCGTGCTGCTAGCCCTCT+TGG | 0.402448 | 2:+6868937 | MsG0280006833.01.T01:CDS |
| TAGGTAGACGCTCTTTCTTA+AGG | 0.405456 | 2:-6868963 | None:intergenic |
| TGATCCTAGCAGCTTGTTGT+AGG | 0.405713 | 2:-6868882 | None:intergenic |
| TTCAATGAACTCGGTCAATC+TGG | 0.407937 | 2:-6868311 | None:intergenic |
| AAAATACAGTGTGAGATAGA+TGG | 0.410040 | 2:+6868778 | MsG0280006833.01.T01:intron |
| GGATCCTAACCAATGTCTTT+GGG | 0.425852 | 2:-6869256 | None:intergenic |
| TACAAAGAAGCGTTCAGGCT+TGG | 0.439377 | 2:-6868245 | None:intergenic |
| GAACTTGGAATTAATGAAGA+TGG | 0.440677 | 2:+6869006 | MsG0280006833.01.T01:CDS |
| ACCTCTGAGCAATCTTTCCT+TGG | 0.443518 | 2:-6868844 | None:intergenic |
| TAATGAAGATGGAACTGAAA+AGG | 0.471543 | 2:+6869017 | MsG0280006833.01.T01:CDS |
| AATGAAAGGAATATCCTTTG+AGG | 0.471700 | 2:-6869160 | None:intergenic |
| CCTTCTACAAAGAAGCGTTC+AGG | 0.474728 | 2:-6868250 | None:intergenic |
| TTAATAATTAGGTTCTTATG+TGG | 0.478314 | 2:+6869077 | MsG0280006833.01.T01:three_prime_UTR |
| GGAATAAGCCGCACCTAAGA+AGG | 0.479861 | 2:-6868224 | None:intergenic |
| AGCAAACCCTAAGACAAATT+GGG | 0.491288 | 2:-6869224 | None:intergenic |
| GAGGGCTAGCAGCACGAACT+GGG | 0.491624 | 2:-6868933 | None:intergenic |
| GTATCCCAAAGACATTGGTT+AGG | 0.493956 | 2:+6869252 | MsG0280006833.01.T01:three_prime_UTR |
| AGATTGACCGAGTTCATTGA+AGG | 0.500832 | 2:+6868313 | MsG0280006833.01.T01:CDS |
| GGTGAGGTTCTCAAAGAACT+TGG | 0.517638 | 2:+6868991 | MsG0280006833.01.T01:CDS |
| GGTCAATCTGGTGATGAATT+GGG | 0.518245 | 2:-6868299 | None:intergenic |
| ATGAAAGGAATATCCTTTGA+GGG | 0.520779 | 2:-6869159 | None:intergenic |
| CTTCACATGTTTCATCCTCA+TGG | 0.533134 | 2:-6868804 | None:intergenic |
| TAAGAACCTAATTATTAATG+TGG | 0.534253 | 2:-6869072 | None:intergenic |
| TTATTCTTTGCAAGAGTCCA+AGG | 0.534437 | 2:+6868827 | MsG0280006833.01.T01:CDS |
| TAATAATTAGGTTCTTATGT+GGG | 0.542657 | 2:+6869078 | MsG0280006833.01.T01:three_prime_UTR |
| CTAGATTTCATGACCCTCAA+AGG | 0.544332 | 2:+6869146 | MsG0280006833.01.T01:three_prime_UTR |
| TAATGTGGGCAAAGGACAGA+AGG | 0.550685 | 2:-6869057 | None:intergenic |
| AAAAGCAAAGGGTGAAGACA+AGG | 0.570670 | 2:-6868198 | None:intergenic |
| AATTAGTATCCCAAAGACAT+TGG | 0.576377 | 2:+6869247 | MsG0280006833.01.T01:three_prime_UTR |
| CTAATTATTAATGTGGGCAA+AGG | 0.581679 | 2:-6869065 | None:intergenic |
| AAGAACCTAATTATTAATGT+GGG | 0.600559 | 2:-6869071 | None:intergenic |
| ATCTAGTATAACTCCTCCAA+AGG | 0.603577 | 2:-6869129 | None:intergenic |
| CTTTCTTAAGGAAACCAAGA+GGG | 0.608256 | 2:-6868951 | None:intergenic |
| ATCAGTGTCACAAACAACAA+TGG | 0.613848 | 2:+6868901 | MsG0280006833.01.T01:CDS |
| AAGCAAAGGGTGAAGACAAG+GGG | 0.617019 | 2:-6868196 | None:intergenic |
| CTCACCTACAACAAGCTGCT+AGG | 0.622703 | 2:+6868878 | MsG0280006833.01.T01:CDS |
| TGAAGATGGAACTGAAAAGG+AGG | 0.627791 | 2:+6869020 | MsG0280006833.01.T01:CDS |
| GTACGTACCTTCAATGAACT+CGG | 0.638216 | 2:-6868320 | None:intergenic |
| AAAGAGCGTCTACCTAAATG+TGG | 0.642536 | 2:+6868970 | MsG0280006833.01.T01:CDS |
| AGGGCTAGCAGCACGAACTG+GGG | 0.655258 | 2:-6868932 | None:intergenic |
| AAAGCAAAGGGTGAAGACAA+GGG | 0.660463 | 2:-6868197 | None:intergenic |
| GCGTCTACCTAAATGTGGTG+AGG | 0.675591 | 2:+6868975 | MsG0280006833.01.T01:CDS |
| TCTTTCTTAAGGAAACCAAG+AGG | 0.685975 | 2:-6868952 | None:intergenic |
| TCCAAGGAAAGATTGCTCAG+AGG | 0.698789 | 2:+6868843 | MsG0280006833.01.T01:CDS |
| AGCAAAGGGTGAAGACAAGG+GGG | 0.721824 | 2:-6868195 | None:intergenic |
| TGAGATAGATGGAGACCATG+AGG | 0.746654 | 2:+6868789 | MsG0280006833.01.T01:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAGACAAAATTTATACTAAT+AGG | - | Chr2:6869280-6869299 | None:intergenic | 15.0% |
| !!! | ATAATCTGAATTTTACTTTT+AGG | - | Chr2:6868527-6868546 | None:intergenic | 15.0% |
| !!! | TGACATAAATAATAATTTTG+TGG | + | Chr2:6868659-6868678 | MsG0280006833.01.T01:intron | 15.0% |
| !! | AAGAACCTAATTATTAATGT+GGG | - | Chr2:6869074-6869093 | None:intergenic | 20.0% |
| !! | ACTAGAGAAATAAAAATGAA+AGG | - | Chr2:6869177-6869196 | None:intergenic | 20.0% |
| !! | TAAGAACCTAATTATTAATG+TGG | - | Chr2:6869075-6869094 | None:intergenic | 20.0% |
| !! | TAATAATTAGGTTCTTATGT+GGG | + | Chr2:6869078-6869097 | MsG0280006833.01.T01:three_prime_UTR | 20.0% |
| !! | TTAATAATTAGGTTCTTATG+TGG | + | Chr2:6869077-6869096 | MsG0280006833.01.T01:three_prime_UTR | 20.0% |
| ! | ACACATTTATTACTAAGAAG+CGG | + | Chr2:6868586-6868605 | MsG0280006833.01.T01:intron | 25.0% |
| ! | TAAGAAGGATAAAAAGCAAA+GGG | - | Chr2:6868212-6868231 | None:intergenic | 25.0% |
| ! | TTCTTATGTGGGATTAATAA+TGG | + | Chr2:6869089-6869108 | MsG0280006833.01.T01:three_prime_UTR | 25.0% |
| !!! | TTTTACTTTTAGGTATTACG+AGG | - | Chr2:6868517-6868536 | None:intergenic | 25.0% |
| AAAATACAGTGTGAGATAGA+TGG | + | Chr2:6868778-6868797 | MsG0280006833.01.T01:intron | 30.0% | |
| AATGAAAGGAATATCCTTTG+AGG | - | Chr2:6869163-6869182 | None:intergenic | 30.0% | |
| AATTAGTATCCCAAAGACAT+TGG | + | Chr2:6869247-6869266 | MsG0280006833.01.T01:three_prime_UTR | 30.0% | |
| ATGAAAGGAATATCCTTTGA+GGG | - | Chr2:6869162-6869181 | None:intergenic | 30.0% | |
| ATTCATCCCAATTTGTCTTA+GGG | + | Chr2:6869218-6869237 | MsG0280006833.01.T01:three_prime_UTR | 30.0% | |
| CTAAGAAGGATAAAAAGCAA+AGG | - | Chr2:6868213-6868232 | None:intergenic | 30.0% | |
| CTAATTATTAATGTGGGCAA+AGG | - | Chr2:6869068-6869087 | None:intergenic | 30.0% | |
| CTTTGCCCACATTAATAATT+AGG | + | Chr2:6869066-6869085 | MsG0280006833.01.T01:three_prime_UTR | 30.0% | |
| GAACTTGGAATTAATGAAGA+TGG | + | Chr2:6869006-6869025 | MsG0280006833.01.T01:CDS | 30.0% | |
| TAATGAAGATGGAACTGAAA+AGG | + | Chr2:6869017-6869036 | MsG0280006833.01.T01:CDS | 30.0% | |
| TTGCACCTTCATTACATATA+TGG | - | Chr2:6868685-6868704 | None:intergenic | 30.0% | |
| ! | AGCTTTTATGTATGTACCTT+TGG | + | Chr2:6869113-6869132 | MsG0280006833.01.T01:three_prime_UTR | 30.0% |
| ! | TATATGTAATGAAGGTGCAA+CGG | + | Chr2:6868685-6868704 | MsG0280006833.01.T01:intron | 30.0% |
| ! | TTTTATGTATGTACCTTTGG+AGG | + | Chr2:6869116-6869135 | MsG0280006833.01.T01:three_prime_UTR | 30.0% |
| !!! | CTTTGCTTTTTATCCTTCTT+AGG | + | Chr2:6868211-6868230 | MsG0280006833.01.T01:CDS | 30.0% |
| AGCAAACCCTAAGACAAATT+GGG | - | Chr2:6869227-6869246 | None:intergenic | 35.0% | |
| ATCAGTGTCACAAACAACAA+TGG | + | Chr2:6868901-6868920 | MsG0280006833.01.T01:CDS | 35.0% | |
| ATCTAGTATAACTCCTCCAA+AGG | - | Chr2:6869132-6869151 | None:intergenic | 35.0% | |
| CTTTCTTAAGGAAACCAAGA+GGG | - | Chr2:6868954-6868973 | None:intergenic | 35.0% | |
| GAAGCAACAACAGATAAATC+AGG | + | Chr2:6868755-6868774 | MsG0280006833.01.T01:intron | 35.0% | |
| GACACGATACATATTTGACA+CGG | - | Chr2:6868400-6868419 | None:intergenic | 35.0% | |
| GATTCATCCCAATTTGTCTT+AGG | + | Chr2:6869217-6869236 | MsG0280006833.01.T01:three_prime_UTR | 35.0% | |
| GTGGAATGCAAAGAAGAAAA+TGG | + | Chr2:6868713-6868732 | MsG0280006833.01.T01:intron | 35.0% | |
| TAGCAAACCCTAAGACAAAT+TGG | - | Chr2:6869228-6869247 | None:intergenic | 35.0% | |
| TCTTTCTTAAGGAAACCAAG+AGG | - | Chr2:6868955-6868974 | None:intergenic | 35.0% | |
| TGTGGCCATATATGTAATGA+AGG | + | Chr2:6868677-6868696 | MsG0280006833.01.T01:intron | 35.0% | |
| TTATTCTTTGCAAGAGTCCA+AGG | + | Chr2:6868827-6868846 | MsG0280006833.01.T01:CDS | 35.0% | |
| ! | CTTTTTATCCTTCTTAGGTG+CGG | + | Chr2:6868216-6868235 | MsG0280006833.01.T01:CDS | 35.0% |
| AAAAGCAAAGGGTGAAGACA+AGG | - | Chr2:6868201-6868220 | None:intergenic | 40.0% | |
| AAAGCAAAGGGTGAAGACAA+GGG | - | Chr2:6868200-6868219 | None:intergenic | 40.0% | |
| AGATTGACCGAGTTCATTGA+AGG | + | Chr2:6868313-6868332 | MsG0280006833.01.T01:CDS | 40.0% | |
| AGGATCCTAACCAATGTCTT+TGG | - | Chr2:6869260-6869279 | None:intergenic | 40.0% | |
| CATATATGTGACGTGTGTGT+TGG | - | Chr2:6868428-6868447 | None:intergenic | 40.0% | |
| CTAGATTTCATGACCCTCAA+AGG | + | Chr2:6869146-6869165 | MsG0280006833.01.T01:three_prime_UTR | 40.0% | |
| CTTCACATGTTTCATCCTCA+TGG | - | Chr2:6868807-6868826 | None:intergenic | 40.0% | |
| GCAAGACATTCGATATGCTA+AGG | - | Chr2:6868635-6868654 | None:intergenic | 40.0% | |
| GGATCCTAACCAATGTCTTT+GGG | - | Chr2:6869259-6869278 | None:intergenic | 40.0% | |
| GTACGTACCTTCAATGAACT+CGG | - | Chr2:6868323-6868342 | None:intergenic | 40.0% | |
| TAGGTAGACGCTCTTTCTTA+AGG | - | Chr2:6868966-6868985 | None:intergenic | 40.0% | |
| TATACTCCTCGAATTATGCG+TGG | + | Chr2:6868373-6868392 | MsG0280006833.01.T01:intron | 40.0% | |
| TGAAGATGGAACTGAAAAGG+AGG | + | Chr2:6869020-6869039 | MsG0280006833.01.T01:CDS | 40.0% | |
| TTCAATGAACTCGGTCAATC+TGG | - | Chr2:6868314-6868333 | None:intergenic | 40.0% | |
| TTGAGAACCTCACCACATTT+AGG | - | Chr2:6868985-6869004 | None:intergenic | 40.0% | |
| ! | GGTCAATCTGGTGATGAATT+GGG | - | Chr2:6868302-6868321 | None:intergenic | 40.0% |
| ! | GTATCCCAAAGACATTGGTT+AGG | + | Chr2:6869252-6869271 | MsG0280006833.01.T01:three_prime_UTR | 40.0% |
| !! | AAAGAGCGTCTACCTAAATG+TGG | + | Chr2:6868970-6868989 | MsG0280006833.01.T01:CDS | 40.0% |
| AAGCAAAGGGTGAAGACAAG+GGG | - | Chr2:6868199-6868218 | None:intergenic | 45.0% | |
| ACCTCTGAGCAATCTTTCCT+TGG | - | Chr2:6868847-6868866 | None:intergenic | 45.0% | |
| CCTGAACGCTTCTTTGTAGA+AGG | + | Chr2:6868250-6868269 | MsG0280006833.01.T01:CDS | 45.0% | |
| GGTGAGGTTCTCAAAGAACT+TGG | + | Chr2:6868991-6869010 | MsG0280006833.01.T01:CDS | 45.0% | |
| TAATGTGGGCAAAGGACAGA+AGG | - | Chr2:6869060-6869079 | None:intergenic | 45.0% | |
| TCCAAGGAAAGATTGCTCAG+AGG | + | Chr2:6868843-6868862 | MsG0280006833.01.T01:CDS | 45.0% | |
| TGAGATAGATGGAGACCATG+AGG | + | Chr2:6868789-6868808 | MsG0280006833.01.T01:CDS | 45.0% | |
| ! | CGGTCAATCTGGTGATGAAT+TGG | - | Chr2:6868303-6868322 | None:intergenic | 45.0% |
| !! | CCTTCTACAAAGAAGCGTTC+AGG | - | Chr2:6868253-6868272 | None:intergenic | 45.0% |
| !! | TACAAAGAAGCGTTCAGGCT+TGG | - | Chr2:6868248-6868267 | None:intergenic | 45.0% |
| !! | TGATCCTAGCAGCTTGTTGT+AGG | - | Chr2:6868885-6868904 | None:intergenic | 45.0% |
| AGCAAAGGGTGAAGACAAGG+GGG | - | Chr2:6868198-6868217 | None:intergenic | 50.0% | |
| CTCACCTACAACAAGCTGCT+AGG | + | Chr2:6868878-6868897 | MsG0280006833.01.T01:CDS | 50.0% | |
| GCGTCTACCTAAATGTGGTG+AGG | + | Chr2:6868975-6868994 | MsG0280006833.01.T01:CDS | 50.0% | |
| GGAATAAGCCGCACCTAAGA+AGG | - | Chr2:6868227-6868246 | None:intergenic | 50.0% | |
| CACGGACCACGCATAATTCG+AGG | - | Chr2:6868382-6868401 | None:intergenic | 55.0% | |
| ! | AGAGGGCTAGCAGCACGAAC+TGG | - | Chr2:6868937-6868956 | None:intergenic | 60.0% |
| ! | AGGGCTAGCAGCACGAACTG+GGG | - | Chr2:6868935-6868954 | None:intergenic | 60.0% |
| ! | GAGGGCTAGCAGCACGAACT+GGG | - | Chr2:6868936-6868955 | None:intergenic | 60.0% |
| ! | GTTCGTGCTGCTAGCCCTCT+TGG | + | Chr2:6868937-6868956 | MsG0280006833.01.T01:CDS | 60.0% |
| ! | TGAAGGTGCAACGGTGCGTG+TGG | + | Chr2:6868694-6868713 | MsG0280006833.01.T01:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr2 | gene | 6868178 | 6869323 | 6868178 | ID=MsG0280006833.01;Name=MsG0280006833.01 |
| Chr2 | mRNA | 6868178 | 6869323 | 6868178 | ID=MsG0280006833.01.T01;Parent=MsG0280006833.01;Name=MsG0280006833.01.T01;_AED=0.44;_eAED=0.45;_QI=0|0|0|1|0|0.5|2|276|145 |
| Chr2 | exon | 6868178 | 6868354 | 6868178 | ID=MsG0280006833.01.T01:exon:2868;Parent=MsG0280006833.01.T01 |
| Chr2 | exon | 6868787 | 6869323 | 6868787 | ID=MsG0280006833.01.T01:exon:2869;Parent=MsG0280006833.01.T01 |
| Chr2 | CDS | 6868178 | 6868354 | 6868178 | ID=MsG0280006833.01.T01:cds;Parent=MsG0280006833.01.T01 |
| Chr2 | CDS | 6868787 | 6869047 | 6868787 | ID=MsG0280006833.01.T01:cds;Parent=MsG0280006833.01.T01 |
| Chr2 | three_prime_UTR | 6869048 | 6869323 | 6869048 | ID=MsG0280006833.01.T01:three_prime_utr;Parent=MsG0280006833.01.T01 |
| Gene Sequence |
| Protein sequence |
