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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0688950 | XP_024636235.1 | 94.650 | 243 | 13 | 0 | 1 | 243 | 1 | 243 | 1.49e-173 | 487 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0688950 | sp|Q9M202|ZAT9_ARATH | 30.400 | 250 | 136 | 7 | 9 | 229 | 6 | 246 | 6.06e-17 | 81.3 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0688950 | A0A396I2K7 | 66.531 | 245 | 76 | 1 | 1 | 239 | 1 | 245 | 9.53e-114 | 335 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0688950 | TF | C2H2 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0636080 | Msa0688950 | 0.956195 | 5.224786e-114 | -8.615850e-47 |
| Msa0675400 | Msa0688950 | 0.964418 | 2.657981e-123 | -8.615850e-47 |
| Msa0541370 | Msa0688950 | 0.967940 | 5.652730e-128 | -8.615850e-47 |
| Msa0541400 | Msa0688950 | 0.975344 | 8.834010e-140 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0688950 | MtrunA17_Chr4g0018761 | 66.531 | 245 | 76 | 1 | 1 | 239 | 1 | 245 | 1.84e-117 | 335 |
| Msa0688950 | MtrunA17_Chr4g0018741 | 77.885 | 104 | 23 | 0 | 78 | 181 | 1 | 104 | 7.46e-55 | 171 |
| Msa0688950 | MtrunA17_Chr3g0079131 | 26.165 | 279 | 138 | 7 | 7 | 232 | 6 | 269 | 3.47e-18 | 81.3 |
| Msa0688950 | MtrunA17_Chr3g0079061 | 26.415 | 265 | 157 | 7 | 3 | 229 | 2 | 266 | 3.87e-16 | 75.9 |
| Msa0688950 | MtrunA17_Chr3g0079091 | 38.532 | 109 | 62 | 2 | 3 | 107 | 2 | 109 | 9.24e-14 | 67.4 |
| Msa0688950 | MtrunA17_Chr4g0056091 | 59.322 | 59 | 22 | 1 | 173 | 229 | 210 | 268 | 2.06e-13 | 68.6 |
| Msa0688950 | MtrunA17_Chr7g0231181 | 40.741 | 81 | 38 | 1 | 170 | 240 | 239 | 319 | 6.98e-13 | 67.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0688950 | AT3G60580.1 | 30.400 | 250 | 136 | 7 | 9 | 229 | 6 | 246 | 6.16e-18 | 81.3 |
| Msa0688950 | AT1G02030.1 | 27.132 | 258 | 132 | 6 | 9 | 236 | 7 | 238 | 4.01e-13 | 67.4 |
| Msa0688950 | AT5G61470.1 | 41.096 | 73 | 31 | 2 | 168 | 229 | 225 | 296 | 3.91e-12 | 65.1 |
Find 68 sgRNAs with CRISPR-Local
Find 72 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCTGTGTTTGTTGTATTTC+GGG | 0.187551 | 4_4:-55416772 | None:intergenic |
| ATTCTGTGTTTGTTGTATTT+CGG | 0.237824 | 4_4:-55416773 | None:intergenic |
| GCCGCAATTGGATCTCTTGC+GGG | 0.303465 | 4_4:-55416881 | None:intergenic |
| AATTGGATCTCTTGCGGGTT+GGG | 0.313326 | 4_4:-55416876 | None:intergenic |
| ATCCAGGTGTTCTGATGTTA+TGG | 0.324938 | 4_4:+55416947 | Msa0688950:CDS |
| TGAGTATTAGTTTCAAGCTT+TGG | 0.337317 | 4_4:-55416682 | None:intergenic |
| CAGCCGCAGCATTAACTTCT+CGG | 0.371873 | 4_4:-55416903 | None:intergenic |
| CAATTGGATCTCTTGCGGGT+TGG | 0.402481 | 4_4:-55416877 | None:intergenic |
| ATTAACTTCTCGGCCGCAAT+TGG | 0.433182 | 4_4:-55416893 | None:intergenic |
| TACTCAAGCTGTAGACAATT+CGG | 0.436960 | 4_4:+55416699 | Msa0688950:CDS |
| ATTTGTGGGAAGTGGTTCTC+CGG | 0.453707 | 4_4:+55416604 | Msa0688950:CDS |
| GTTTCAAGCTTTGGAGCAAT+CGG | 0.454553 | 4_4:-55416673 | None:intergenic |
| TTCCGATCTTATCAGGCTCT+TGG | 0.457389 | 4_4:+55417111 | Msa0688950:CDS |
| TTTACAAAGATGCGCAGAAA+AGG | 0.459521 | 4_4:+55416974 | Msa0688950:CDS |
| TACAGAATCACAAATCAATA+CGG | 0.462697 | 4_4:-55417297 | None:intergenic |
| TTCTCCGGTGGGAAAGCCCT+TGG | 0.463478 | 4_4:+55416619 | Msa0688950:CDS |
| GGAAAGCCTGTGGGATTTGT+GGG | 0.467351 | 4_4:+55416590 | Msa0688950:CDS |
| GGGAAAGCCTGTGGGATTTG+TGG | 0.468727 | 4_4:+55416589 | Msa0688950:CDS |
| CGATCTTATCAGGCTCTTGG+TGG | 0.468794 | 4_4:+55417114 | Msa0688950:CDS |
| TTGCAATTTGAGCAGTGAAA+AGG | 0.471865 | 4_4:-55417189 | None:intergenic |
| GCCTCCAAGGGCTTTCCCAC+CGG | 0.472807 | 4_4:-55416623 | None:intergenic |
| CCCCATAACATCAGAACACC+TGG | 0.474579 | 4_4:-55416949 | None:intergenic |
| AGATCTCATGTGGCCTCCAA+GGG | 0.485485 | 4_4:-55416635 | None:intergenic |
| GGCCGCAATTGGATCTCTTG+CGG | 0.489489 | 4_4:-55416882 | None:intergenic |
| TCCAGGTGTTCTGATGTTAT+GGG | 0.494593 | 4_4:+55416948 | Msa0688950:CDS |
| TCCGGTGGGAAAGCCCTTGG+AGG | 0.494800 | 4_4:+55416622 | Msa0688950:CDS |
| TTCTCTGTTTGAGCTTGCAG+AGG | 0.496954 | 4_4:-55416827 | None:intergenic |
| TCTGTTTGAGCTTGCAGAGG+AGG | 0.498454 | 4_4:-55416824 | None:intergenic |
| TTACAAAGATGCGCAGAAAA+GGG | 0.499625 | 4_4:+55416975 | Msa0688950:CDS |
| TTCAAGTCTGCTCAGGCACT+CGG | 0.500253 | 4_4:+55417219 | Msa0688950:CDS |
| AACGATGGCGAAAGCAGTAC+AGG | 0.507873 | 4_4:+55417027 | Msa0688950:CDS |
| AGCAAATTGATTTCGACGAT+GGG | 0.509489 | 4_4:-55416731 | None:intergenic |
| GCACCTCTCACAGTTGAACC+TGG | 0.509618 | 4_4:-55417079 | None:intergenic |
| ATTTCGACGATGGGTTGAAT+CGG | 0.510947 | 4_4:-55416722 | None:intergenic |
| GAGATCTCATGTGGCCTCCA+AGG | 0.514030 | 4_4:-55416636 | None:intergenic |
| GAAGATATGTCAAGAGATCC+AGG | 0.516117 | 4_4:+55416931 | Msa0688950:CDS |
| TGTGGGAAGTGGTTCTCCGG+TGG | 0.517822 | 4_4:+55416607 | Msa0688950:CDS |
| ACTTTGAAATTCCTTAGCAC+TGG | 0.521740 | 4_4:-55417265 | None:intergenic |
| CAAAGTGTTCAAGTCTGCTC+AGG | 0.524975 | 4_4:+55417212 | Msa0688950:CDS |
| CACAAGCAGACTCTGAAGCC+AGG | 0.539423 | 4_4:+55417061 | Msa0688950:CDS |
| AAGCAAATTGATTTCGACGA+TGG | 0.551421 | 4_4:-55416732 | None:intergenic |
| GTGTTTGTTGTATTTCGGGA+AGG | 0.552910 | 4_4:-55416768 | None:intergenic |
| CCTGTGGGATTTGTGGGAAG+TGG | 0.558125 | 4_4:+55416596 | Msa0688950:CDS |
| GTGGGAAGTGGTTCTCCGGT+GGG | 0.561353 | 4_4:+55416608 | Msa0688950:CDS |
| GATCTTATCAGGCTCTTGGT+GGG | 0.571526 | 4_4:+55417115 | Msa0688950:CDS |
| GGTACACTCTTCCAGTGCTA+AGG | 0.575791 | 4_4:+55417254 | Msa0688950:CDS |
| GCAACTATGGAGAAGAGCGA+TGG | 0.579019 | 4_4:+55416568 | None:intergenic |
| AAAGATGCGCAGAAAAGGGA+AGG | 0.579501 | 4_4:+55416979 | Msa0688950:CDS |
| CACCAAGAGCCTGATAAGAT+CGG | 0.582662 | 4_4:-55417113 | None:intergenic |
| CCAGGTGTTCTGATGTTATG+GGG | 0.595199 | 4_4:+55416949 | Msa0688950:CDS |
| AAGAGCGATGGGAAAGCCTG+TGG | 0.598960 | 4_4:+55416580 | Msa0688950:CDS |
| AGGCACTCGGTGGACACAAG+AGG | 0.606213 | 4_4:+55417232 | Msa0688950:CDS |
| ACAGAATCACAAATCAATAC+GGG | 0.613334 | 4_4:-55417296 | None:intergenic |
| CAACTATGGAGAAGAGCGAT+GGG | 0.616240 | 4_4:+55416569 | None:intergenic |
| TACTGCAAAAGAGACAATGA+TGG | 0.621835 | 4_4:+55417147 | Msa0688950:CDS |
| AAGCCAGGTTCAACTGTGAG+AGG | 0.622627 | 4_4:+55417076 | Msa0688950:CDS |
| ATCACAAATCAATACGGGTG+TGG | 0.631203 | 4_4:-55417291 | None:intergenic |
| GGCACTCGGTGGACACAAGA+GGG | 0.632635 | 4_4:+55417233 | Msa0688950:CDS |
| CCACTTCCCACAAATCCCAC+AGG | 0.647858 | 4_4:-55416596 | None:intergenic |
| CGGCCGAGAAGTTAATGCTG+CGG | 0.653910 | 4_4:+55416900 | Msa0688950:CDS |
| AGAGCGATGGGAAAGCCTGT+GGG | 0.654994 | 4_4:+55416581 | Msa0688950:CDS |
| AGGTTCAACTGTGAGAGGTG+CGG | 0.663022 | 4_4:+55417081 | Msa0688950:CDS |
| AAGATGCGCAGAAAAGGGAA+GGG | 0.667779 | 4_4:+55416980 | Msa0688950:CDS |
| TTCGGGAAGGCAAGTCTGTG+AGG | 0.669270 | 4_4:-55416755 | None:intergenic |
| AAGTCTGCTCAGGCACTCGG+TGG | 0.670340 | 4_4:+55417222 | Msa0688950:CDS |
| AGGCCACATGAGATCTCACA+TGG | 0.682156 | 4_4:+55416642 | Msa0688950:CDS |
| ACCCGCAAGAGATCCAATTG+CGG | 0.686880 | 4_4:+55416880 | Msa0688950:CDS |
| GAACCATGTGAGATCTCATG+TGG | 0.730676 | 4_4:-55416645 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTCTGTGTTTGTTGTATTT+CGG | - | chr4_4:55416776-55416795 | None:intergenic | 25.0% |
| ! | GATCAAGAAACAAAAAATGA+GGG | + | chr4_4:55417002-55417021 | Msa0688950:CDS | 25.0% |
| ! | TGAGTATTAGTTTCAAGCTT+TGG | - | chr4_4:55416685-55416704 | None:intergenic | 30.0% |
| !! | TTCTGTGTTTGTTGTATTTC+GGG | - | chr4_4:55416775-55416794 | None:intergenic | 30.0% |
| !!! | TGAAGTTTTGTTTCAAGGAT+AGG | - | chr4_4:55416801-55416820 | None:intergenic | 30.0% |
| GGATCAAGAAACAAAAAATG+AGG | + | chr4_4:55417001-55417020 | Msa0688950:CDS | 30.0% | |
| AAAAATGTTCCGATCTTATC+AGG | + | chr4_4:55417104-55417123 | Msa0688950:CDS | 30.0% | |
| TACTCAAGCTGTAGACAATT+CGG | + | chr4_4:55416699-55416718 | Msa0688950:CDS | 35.0% | |
| ! | AGCAAATTGATTTCGACGAT+GGG | - | chr4_4:55416734-55416753 | None:intergenic | 35.0% |
| ! | AAGCAAATTGATTTCGACGA+TGG | - | chr4_4:55416735-55416754 | None:intergenic | 35.0% |
| TTTACAAAGATGCGCAGAAA+AGG | + | chr4_4:55416974-55416993 | Msa0688950:CDS | 35.0% | |
| TTACAAAGATGCGCAGAAAA+GGG | + | chr4_4:55416975-55416994 | Msa0688950:CDS | 35.0% | |
| CAAAAAATGAGGGAAAACGA+TGG | + | chr4_4:55417012-55417031 | Msa0688950:CDS | 35.0% | |
| TACTGCAAAAGAGACAATGA+TGG | + | chr4_4:55417147-55417166 | Msa0688950:CDS | 35.0% | |
| TTGCAATTTGAGCAGTGAAA+AGG | - | chr4_4:55417192-55417211 | None:intergenic | 35.0% | |
| !! | ACTTTGAAATTCCTTAGCAC+TGG | - | chr4_4:55417268-55417287 | None:intergenic | 35.0% |
| !! | GTTTCAAGCTTTGGAGCAAT+CGG | - | chr4_4:55416676-55416695 | None:intergenic | 40.0% |
| !! | ATTTCGACGATGGGTTGAAT+CGG | - | chr4_4:55416725-55416744 | None:intergenic | 40.0% |
| !! | GTGTTTGTTGTATTTCGGGA+AGG | - | chr4_4:55416771-55416790 | None:intergenic | 40.0% |
| !!! | GGCAGTGAAGTTTTGTTTCA+AGG | - | chr4_4:55416806-55416825 | None:intergenic | 40.0% |
| GAAGATATGTCAAGAGATCC+AGG | + | chr4_4:55416931-55416950 | Msa0688950:CDS | 40.0% | |
| ATCCAGGTGTTCTGATGTTA+TGG | + | chr4_4:55416947-55416966 | Msa0688950:CDS | 40.0% | |
| TCCAGGTGTTCTGATGTTAT+GGG | + | chr4_4:55416948-55416967 | Msa0688950:CDS | 40.0% | |
| ATTTGTGGGAAGTGGTTCTC+CGG | + | chr4_4:55416604-55416623 | Msa0688950:CDS | 45.0% | |
| GAACCATGTGAGATCTCATG+TGG | - | chr4_4:55416648-55416667 | None:intergenic | 45.0% | |
| TTCTCTGTTTGAGCTTGCAG+AGG | - | chr4_4:55416830-55416849 | None:intergenic | 45.0% | |
| AATTGGATCTCTTGCGGGTT+GGG | - | chr4_4:55416879-55416898 | None:intergenic | 45.0% | |
| ATTAACTTCTCGGCCGCAAT+TGG | - | chr4_4:55416896-55416915 | None:intergenic | 45.0% | |
| CCAGGTGTTCTGATGTTATG+GGG | + | chr4_4:55416949-55416968 | Msa0688950:CDS | 45.0% | |
| AAAGATGCGCAGAAAAGGGA+AGG | + | chr4_4:55416979-55416998 | Msa0688950:CDS | 45.0% | |
| AAGATGCGCAGAAAAGGGAA+GGG | + | chr4_4:55416980-55416999 | Msa0688950:CDS | 45.0% | |
| TTCCGATCTTATCAGGCTCT+TGG | + | chr4_4:55417111-55417130 | Msa0688950:CDS | 45.0% | |
| CACCAAGAGCCTGATAAGAT+CGG | - | chr4_4:55417116-55417135 | None:intergenic | 45.0% | |
| GATCTTATCAGGCTCTTGGT+GGG | + | chr4_4:55417115-55417134 | Msa0688950:CDS | 45.0% | |
| ! | CAAAGTGTTCAAGTCTGCTC+AGG | + | chr4_4:55417212-55417231 | Msa0688950:CDS | 45.0% |
| GGAAAGCCTGTGGGATTTGT+GGG | + | chr4_4:55416590-55416609 | Msa0688950:CDS | 50.0% | |
| AGATCTCATGTGGCCTCCAA+GGG | - | chr4_4:55416638-55416657 | None:intergenic | 50.0% | |
| AGGCCACATGAGATCTCACA+TGG | + | chr4_4:55416642-55416661 | Msa0688950:CDS | 50.0% | |
| TCTGTTTGAGCTTGCAGAGG+AGG | - | chr4_4:55416827-55416846 | None:intergenic | 50.0% | |
| !!! | TCTTGCGGGTTGGGTTTTTC+GGG | - | chr4_4:55416870-55416889 | None:intergenic | 50.0% |
| !!! | CTCTTGCGGGTTGGGTTTTT+CGG | - | chr4_4:55416871-55416890 | None:intergenic | 50.0% |
| CAATTGGATCTCTTGCGGGT+TGG | - | chr4_4:55416880-55416899 | None:intergenic | 50.0% | |
| ACCCGCAAGAGATCCAATTG+CGG | + | chr4_4:55416880-55416899 | Msa0688950:CDS | 50.0% | |
| CAGCCGCAGCATTAACTTCT+CGG | - | chr4_4:55416906-55416925 | None:intergenic | 50.0% | |
| CCCCATAACATCAGAACACC+TGG | - | chr4_4:55416952-55416971 | None:intergenic | 50.0% | |
| AACGATGGCGAAAGCAGTAC+AGG | + | chr4_4:55417027-55417046 | Msa0688950:CDS | 50.0% | |
| AAGCCAGGTTCAACTGTGAG+AGG | + | chr4_4:55417076-55417095 | Msa0688950:CDS | 50.0% | |
| AGGTTCAACTGTGAGAGGTG+CGG | + | chr4_4:55417081-55417100 | Msa0688950:CDS | 50.0% | |
| CGATCTTATCAGGCTCTTGG+TGG | + | chr4_4:55417114-55417133 | Msa0688950:CDS | 50.0% | |
| TTCAAGTCTGCTCAGGCACT+CGG | + | chr4_4:55417219-55417238 | Msa0688950:CDS | 50.0% | |
| GGTACACTCTTCCAGTGCTA+AGG | + | chr4_4:55417254-55417273 | Msa0688950:CDS | 50.0% | |
| AAGAGCGATGGGAAAGCCTG+TGG | + | chr4_4:55416580-55416599 | Msa0688950:CDS | 55.0% | |
| AGAGCGATGGGAAAGCCTGT+GGG | + | chr4_4:55416581-55416600 | Msa0688950:CDS | 55.0% | |
| GGGAAAGCCTGTGGGATTTG+TGG | + | chr4_4:55416589-55416608 | Msa0688950:CDS | 55.0% | |
| CCACTTCCCACAAATCCCAC+AGG | - | chr4_4:55416599-55416618 | None:intergenic | 55.0% | |
| CCTGTGGGATTTGTGGGAAG+TGG | + | chr4_4:55416596-55416615 | Msa0688950:CDS | 55.0% | |
| GAGATCTCATGTGGCCTCCA+AGG | - | chr4_4:55416639-55416658 | None:intergenic | 55.0% | |
| TTCGGGAAGGCAAGTCTGTG+AGG | - | chr4_4:55416758-55416777 | None:intergenic | 55.0% | |
| GCCGCAATTGGATCTCTTGC+GGG | - | chr4_4:55416884-55416903 | None:intergenic | 55.0% | |
| GGCCGCAATTGGATCTCTTG+CGG | - | chr4_4:55416885-55416904 | None:intergenic | 55.0% | |
| CGGCCGAGAAGTTAATGCTG+CGG | + | chr4_4:55416900-55416919 | Msa0688950:CDS | 55.0% | |
| !! | CACAAGCAGACTCTGAAGCC+AGG | + | chr4_4:55417061-55417080 | Msa0688950:CDS | 55.0% |
| GCACCTCTCACAGTTGAACC+TGG | - | chr4_4:55417082-55417101 | None:intergenic | 55.0% | |
| TGTGGGAAGTGGTTCTCCGG+TGG | + | chr4_4:55416607-55416626 | Msa0688950:CDS | 60.0% | |
| GTGGGAAGTGGTTCTCCGGT+GGG | + | chr4_4:55416608-55416627 | Msa0688950:CDS | 60.0% | |
| TTCTCCGGTGGGAAAGCCCT+TGG | + | chr4_4:55416619-55416638 | Msa0688950:CDS | 60.0% | |
| !!! | GCGGGTTGGGTTTTTCGGGT+TGG | - | chr4_4:55416866-55416885 | None:intergenic | 60.0% |
| AAGTCTGCTCAGGCACTCGG+TGG | + | chr4_4:55417222-55417241 | Msa0688950:CDS | 60.0% | |
| ! | AGGCACTCGGTGGACACAAG+AGG | + | chr4_4:55417232-55417251 | Msa0688950:CDS | 60.0% |
| ! | GGCACTCGGTGGACACAAGA+GGG | + | chr4_4:55417233-55417252 | Msa0688950:CDS | 60.0% |
| TCCGGTGGGAAAGCCCTTGG+AGG | + | chr4_4:55416622-55416641 | Msa0688950:CDS | 65.0% | |
| GCCTCCAAGGGCTTTCCCAC+CGG | - | chr4_4:55416626-55416645 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 55416574 | 55417305 | 55416574 | ID=Msa0688950;Name=Msa0688950 |
| chr4_4 | mRNA | 55416574 | 55417305 | 55416574 | ID=Msa0688950-mRNA-1;Parent=Msa0688950;Name=Msa0688950-mRNA-1;_AED=0.43;_eAED=0.43;_QI=0|-1|0|1|-1|1|1|0|243 |
| chr4_4 | exon | 55416574 | 55417305 | 55416574 | ID=Msa0688950-mRNA-1:exon:14616;Parent=Msa0688950-mRNA-1 |
| chr4_4 | CDS | 55416574 | 55417305 | 55416574 | ID=Msa0688950-mRNA-1:cds;Parent=Msa0688950-mRNA-1 |
| Gene Sequence |
| Protein sequence |
