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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0675400 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0675400 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0675400 | A0A396I2K7 | 66.531 | 245 | 76 | 1 | 1 | 239 | 1 | 245 | 9.53e-114 | 335 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0675400 | TF | C2H2 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0636080 | Msa0675400 | 0.974220 | 8.984716e-138 | -8.615850e-47 |
| Msa0675400 | Msa0688950 | 0.964418 | 2.657981e-123 | -8.615850e-47 |
| Msa0541370 | Msa0675400 | 0.963072 | 1.222908e-121 | -8.615850e-47 |
| Msa0541400 | Msa0675400 | 0.989982 | 1.607311e-180 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0675400 | MtrunA17_Chr4g0018761 | 66.531 | 245 | 76 | 1 | 1 | 239 | 1 | 245 | 1.84e-117 | 335 |
| Msa0675400 | MtrunA17_Chr4g0018741 | 77.885 | 104 | 23 | 0 | 78 | 181 | 1 | 104 | 7.46e-55 | 171 |
| Msa0675400 | MtrunA17_Chr3g0079131 | 26.165 | 279 | 138 | 7 | 7 | 232 | 6 | 269 | 3.47e-18 | 81.3 |
| Msa0675400 | MtrunA17_Chr3g0079061 | 26.415 | 265 | 157 | 7 | 3 | 229 | 2 | 266 | 3.87e-16 | 75.9 |
| Msa0675400 | MtrunA17_Chr3g0079091 | 38.532 | 109 | 62 | 2 | 3 | 107 | 2 | 109 | 9.24e-14 | 67.4 |
| Msa0675400 | MtrunA17_Chr4g0056091 | 59.322 | 59 | 22 | 1 | 173 | 229 | 210 | 268 | 2.06e-13 | 68.6 |
| Msa0675400 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0675400 | AT3G60580.1 | 30.400 | 250 | 136 | 7 | 9 | 229 | 6 | 246 | 6.16e-18 | 81.3 |
| Msa0675400 | AT1G02030.1 | 27.132 | 258 | 132 | 6 | 9 | 236 | 7 | 238 | 4.01e-13 | 67.4 |
| Msa0675400 | 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:-24047689 | None:intergenic |
| ATTCTGTGTTTGTTGTATTT+CGG | 0.237824 | 4_4:-24047690 | None:intergenic |
| GCCGCAATTGGATCTCTTGC+GGG | 0.303465 | 4_4:-24047798 | None:intergenic |
| AATTGGATCTCTTGCGGGTT+GGG | 0.313326 | 4_4:-24047793 | None:intergenic |
| ATCCAGGTGTTCTGATGTTA+TGG | 0.324938 | 4_4:+24047864 | Msa0675400:CDS |
| TGAGTATTAGTTTCAAGCTT+TGG | 0.337317 | 4_4:-24047599 | None:intergenic |
| CAGCCGCAGCATTAACTTCT+CGG | 0.371873 | 4_4:-24047820 | None:intergenic |
| CAATTGGATCTCTTGCGGGT+TGG | 0.402481 | 4_4:-24047794 | None:intergenic |
| ATTAACTTCTCGGCCGCAAT+TGG | 0.433182 | 4_4:-24047810 | None:intergenic |
| TACTCAAGCTGTAGACAATT+CGG | 0.436960 | 4_4:+24047616 | Msa0675400:CDS |
| ATTTGTGGGAAGTGGTTCTC+CGG | 0.453707 | 4_4:+24047521 | Msa0675400:CDS |
| GTTTCAAGCTTTGGAGCAAT+CGG | 0.454553 | 4_4:-24047590 | None:intergenic |
| TTCCGATCTTATCAGGCTCT+TGG | 0.457389 | 4_4:+24048028 | Msa0675400:CDS |
| TTTACAAAGATGCGCAGAAA+AGG | 0.459521 | 4_4:+24047891 | Msa0675400:CDS |
| TACAGAATCACAAATCAATA+CGG | 0.462697 | 4_4:-24048214 | None:intergenic |
| TTCTCCGGTGGGAAAGCCCT+TGG | 0.463478 | 4_4:+24047536 | Msa0675400:CDS |
| GGAAAGCCTGTGGGATTTGT+GGG | 0.467351 | 4_4:+24047507 | Msa0675400:CDS |
| GGGAAAGCCTGTGGGATTTG+TGG | 0.468727 | 4_4:+24047506 | Msa0675400:CDS |
| CGATCTTATCAGGCTCTTGG+TGG | 0.468794 | 4_4:+24048031 | Msa0675400:CDS |
| TTGCAATTTGAGCAGTGAAA+AGG | 0.471865 | 4_4:-24048106 | None:intergenic |
| GCCTCCAAGGGCTTTCCCAC+CGG | 0.472807 | 4_4:-24047540 | None:intergenic |
| CCCCATAACATCAGAACACC+TGG | 0.474579 | 4_4:-24047866 | None:intergenic |
| AGATCTCATGTGGCCTCCAA+GGG | 0.485485 | 4_4:-24047552 | None:intergenic |
| GGCCGCAATTGGATCTCTTG+CGG | 0.489489 | 4_4:-24047799 | None:intergenic |
| TCCAGGTGTTCTGATGTTAT+GGG | 0.494593 | 4_4:+24047865 | Msa0675400:CDS |
| TCCGGTGGGAAAGCCCTTGG+AGG | 0.494800 | 4_4:+24047539 | Msa0675400:CDS |
| TTCTCTGTTTGAGCTTGCAG+AGG | 0.496954 | 4_4:-24047744 | None:intergenic |
| TCTGTTTGAGCTTGCAGAGG+AGG | 0.498454 | 4_4:-24047741 | None:intergenic |
| TTACAAAGATGCGCAGAAAA+GGG | 0.499625 | 4_4:+24047892 | Msa0675400:CDS |
| TTCAAGTCTGCTCAGGCACT+CGG | 0.500253 | 4_4:+24048136 | Msa0675400:CDS |
| AACGATGGCGAAAGCAGTAC+AGG | 0.507873 | 4_4:+24047944 | Msa0675400:CDS |
| AGCAAATTGATTTCGACGAT+GGG | 0.509489 | 4_4:-24047648 | None:intergenic |
| GCACCTCTCACAGTTGAACC+TGG | 0.509618 | 4_4:-24047996 | None:intergenic |
| ATTTCGACGATGGGTTGAAT+CGG | 0.510947 | 4_4:-24047639 | None:intergenic |
| GAGATCTCATGTGGCCTCCA+AGG | 0.514030 | 4_4:-24047553 | None:intergenic |
| GAAGATATGTCAAGAGATCC+AGG | 0.516117 | 4_4:+24047848 | Msa0675400:CDS |
| TGTGGGAAGTGGTTCTCCGG+TGG | 0.517822 | 4_4:+24047524 | Msa0675400:CDS |
| ACTTTGAAATTCCTTAGCAC+TGG | 0.521740 | 4_4:-24048182 | None:intergenic |
| CAAAGTGTTCAAGTCTGCTC+AGG | 0.524975 | 4_4:+24048129 | Msa0675400:CDS |
| CACAAGCAGACTCTGAAGCC+AGG | 0.539423 | 4_4:+24047978 | Msa0675400:CDS |
| AAGCAAATTGATTTCGACGA+TGG | 0.551421 | 4_4:-24047649 | None:intergenic |
| GTGTTTGTTGTATTTCGGGA+AGG | 0.552910 | 4_4:-24047685 | None:intergenic |
| CCTGTGGGATTTGTGGGAAG+TGG | 0.558125 | 4_4:+24047513 | Msa0675400:CDS |
| GTGGGAAGTGGTTCTCCGGT+GGG | 0.561353 | 4_4:+24047525 | Msa0675400:CDS |
| GATCTTATCAGGCTCTTGGT+GGG | 0.571526 | 4_4:+24048032 | Msa0675400:CDS |
| GGTACACTCTTCCAGTGCTA+AGG | 0.575791 | 4_4:+24048171 | Msa0675400:CDS |
| GCAACTATGGAGAAGAGCGA+TGG | 0.579019 | 4_4:+24047485 | None:intergenic |
| AAAGATGCGCAGAAAAGGGA+AGG | 0.579501 | 4_4:+24047896 | Msa0675400:CDS |
| CACCAAGAGCCTGATAAGAT+CGG | 0.582662 | 4_4:-24048030 | None:intergenic |
| CCAGGTGTTCTGATGTTATG+GGG | 0.595199 | 4_4:+24047866 | Msa0675400:CDS |
| AAGAGCGATGGGAAAGCCTG+TGG | 0.598960 | 4_4:+24047497 | Msa0675400:CDS |
| AGGCACTCGGTGGACACAAG+AGG | 0.606213 | 4_4:+24048149 | Msa0675400:CDS |
| ACAGAATCACAAATCAATAC+GGG | 0.613334 | 4_4:-24048213 | None:intergenic |
| CAACTATGGAGAAGAGCGAT+GGG | 0.616240 | 4_4:+24047486 | None:intergenic |
| TACTGCAAAAGAGACAATGA+TGG | 0.621835 | 4_4:+24048064 | Msa0675400:CDS |
| AAGCCAGGTTCAACTGTGAG+AGG | 0.622627 | 4_4:+24047993 | Msa0675400:CDS |
| ATCACAAATCAATACGGGTG+TGG | 0.631203 | 4_4:-24048208 | None:intergenic |
| GGCACTCGGTGGACACAAGA+GGG | 0.632635 | 4_4:+24048150 | Msa0675400:CDS |
| CCACTTCCCACAAATCCCAC+AGG | 0.647858 | 4_4:-24047513 | None:intergenic |
| CGGCCGAGAAGTTAATGCTG+CGG | 0.653910 | 4_4:+24047817 | Msa0675400:CDS |
| AGAGCGATGGGAAAGCCTGT+GGG | 0.654994 | 4_4:+24047498 | Msa0675400:CDS |
| AGGTTCAACTGTGAGAGGTG+CGG | 0.663022 | 4_4:+24047998 | Msa0675400:CDS |
| AAGATGCGCAGAAAAGGGAA+GGG | 0.667779 | 4_4:+24047897 | Msa0675400:CDS |
| TTCGGGAAGGCAAGTCTGTG+AGG | 0.669270 | 4_4:-24047672 | None:intergenic |
| AAGTCTGCTCAGGCACTCGG+TGG | 0.670340 | 4_4:+24048139 | Msa0675400:CDS |
| AGGCCACATGAGATCTCACA+TGG | 0.682156 | 4_4:+24047559 | Msa0675400:CDS |
| ACCCGCAAGAGATCCAATTG+CGG | 0.686880 | 4_4:+24047797 | Msa0675400:CDS |
| GAACCATGTGAGATCTCATG+TGG | 0.730676 | 4_4:-24047562 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTCTGTGTTTGTTGTATTT+CGG | - | chr4_4:24047693-24047712 | None:intergenic | 25.0% |
| ! | GATCAAGAAACAAAAAATGA+GGG | + | chr4_4:24047919-24047938 | Msa0675400:CDS | 25.0% |
| ! | TGAGTATTAGTTTCAAGCTT+TGG | - | chr4_4:24047602-24047621 | None:intergenic | 30.0% |
| !! | TTCTGTGTTTGTTGTATTTC+GGG | - | chr4_4:24047692-24047711 | None:intergenic | 30.0% |
| !!! | TGAAGTTTTGTTTCAAGGAT+AGG | - | chr4_4:24047718-24047737 | None:intergenic | 30.0% |
| GGATCAAGAAACAAAAAATG+AGG | + | chr4_4:24047918-24047937 | Msa0675400:CDS | 30.0% | |
| AAAAATGTTCCGATCTTATC+AGG | + | chr4_4:24048021-24048040 | Msa0675400:CDS | 30.0% | |
| TACTCAAGCTGTAGACAATT+CGG | + | chr4_4:24047616-24047635 | Msa0675400:CDS | 35.0% | |
| ! | AGCAAATTGATTTCGACGAT+GGG | - | chr4_4:24047651-24047670 | None:intergenic | 35.0% |
| ! | AAGCAAATTGATTTCGACGA+TGG | - | chr4_4:24047652-24047671 | None:intergenic | 35.0% |
| TTTACAAAGATGCGCAGAAA+AGG | + | chr4_4:24047891-24047910 | Msa0675400:CDS | 35.0% | |
| TTACAAAGATGCGCAGAAAA+GGG | + | chr4_4:24047892-24047911 | Msa0675400:CDS | 35.0% | |
| CAAAAAATGAGGGAAAACGA+TGG | + | chr4_4:24047929-24047948 | Msa0675400:CDS | 35.0% | |
| TACTGCAAAAGAGACAATGA+TGG | + | chr4_4:24048064-24048083 | Msa0675400:CDS | 35.0% | |
| TTGCAATTTGAGCAGTGAAA+AGG | - | chr4_4:24048109-24048128 | None:intergenic | 35.0% | |
| !! | ACTTTGAAATTCCTTAGCAC+TGG | - | chr4_4:24048185-24048204 | None:intergenic | 35.0% |
| !! | GTTTCAAGCTTTGGAGCAAT+CGG | - | chr4_4:24047593-24047612 | None:intergenic | 40.0% |
| !! | ATTTCGACGATGGGTTGAAT+CGG | - | chr4_4:24047642-24047661 | None:intergenic | 40.0% |
| !! | GTGTTTGTTGTATTTCGGGA+AGG | - | chr4_4:24047688-24047707 | None:intergenic | 40.0% |
| !!! | GGCAGTGAAGTTTTGTTTCA+AGG | - | chr4_4:24047723-24047742 | None:intergenic | 40.0% |
| GAAGATATGTCAAGAGATCC+AGG | + | chr4_4:24047848-24047867 | Msa0675400:CDS | 40.0% | |
| ATCCAGGTGTTCTGATGTTA+TGG | + | chr4_4:24047864-24047883 | Msa0675400:CDS | 40.0% | |
| TCCAGGTGTTCTGATGTTAT+GGG | + | chr4_4:24047865-24047884 | Msa0675400:CDS | 40.0% | |
| ATTTGTGGGAAGTGGTTCTC+CGG | + | chr4_4:24047521-24047540 | Msa0675400:CDS | 45.0% | |
| GAACCATGTGAGATCTCATG+TGG | - | chr4_4:24047565-24047584 | None:intergenic | 45.0% | |
| TTCTCTGTTTGAGCTTGCAG+AGG | - | chr4_4:24047747-24047766 | None:intergenic | 45.0% | |
| AATTGGATCTCTTGCGGGTT+GGG | - | chr4_4:24047796-24047815 | None:intergenic | 45.0% | |
| ATTAACTTCTCGGCCGCAAT+TGG | - | chr4_4:24047813-24047832 | None:intergenic | 45.0% | |
| CCAGGTGTTCTGATGTTATG+GGG | + | chr4_4:24047866-24047885 | Msa0675400:CDS | 45.0% | |
| AAAGATGCGCAGAAAAGGGA+AGG | + | chr4_4:24047896-24047915 | Msa0675400:CDS | 45.0% | |
| AAGATGCGCAGAAAAGGGAA+GGG | + | chr4_4:24047897-24047916 | Msa0675400:CDS | 45.0% | |
| TTCCGATCTTATCAGGCTCT+TGG | + | chr4_4:24048028-24048047 | Msa0675400:CDS | 45.0% | |
| CACCAAGAGCCTGATAAGAT+CGG | - | chr4_4:24048033-24048052 | None:intergenic | 45.0% | |
| GATCTTATCAGGCTCTTGGT+GGG | + | chr4_4:24048032-24048051 | Msa0675400:CDS | 45.0% | |
| ! | CAAAGTGTTCAAGTCTGCTC+AGG | + | chr4_4:24048129-24048148 | Msa0675400:CDS | 45.0% |
| GGAAAGCCTGTGGGATTTGT+GGG | + | chr4_4:24047507-24047526 | Msa0675400:CDS | 50.0% | |
| AGATCTCATGTGGCCTCCAA+GGG | - | chr4_4:24047555-24047574 | None:intergenic | 50.0% | |
| AGGCCACATGAGATCTCACA+TGG | + | chr4_4:24047559-24047578 | Msa0675400:CDS | 50.0% | |
| TCTGTTTGAGCTTGCAGAGG+AGG | - | chr4_4:24047744-24047763 | None:intergenic | 50.0% | |
| !!! | TCTTGCGGGTTGGGTTTTTC+GGG | - | chr4_4:24047787-24047806 | None:intergenic | 50.0% |
| !!! | CTCTTGCGGGTTGGGTTTTT+CGG | - | chr4_4:24047788-24047807 | None:intergenic | 50.0% |
| CAATTGGATCTCTTGCGGGT+TGG | - | chr4_4:24047797-24047816 | None:intergenic | 50.0% | |
| ACCCGCAAGAGATCCAATTG+CGG | + | chr4_4:24047797-24047816 | Msa0675400:CDS | 50.0% | |
| CAGCCGCAGCATTAACTTCT+CGG | - | chr4_4:24047823-24047842 | None:intergenic | 50.0% | |
| CCCCATAACATCAGAACACC+TGG | - | chr4_4:24047869-24047888 | None:intergenic | 50.0% | |
| AACGATGGCGAAAGCAGTAC+AGG | + | chr4_4:24047944-24047963 | Msa0675400:CDS | 50.0% | |
| AAGCCAGGTTCAACTGTGAG+AGG | + | chr4_4:24047993-24048012 | Msa0675400:CDS | 50.0% | |
| AGGTTCAACTGTGAGAGGTG+CGG | + | chr4_4:24047998-24048017 | Msa0675400:CDS | 50.0% | |
| CGATCTTATCAGGCTCTTGG+TGG | + | chr4_4:24048031-24048050 | Msa0675400:CDS | 50.0% | |
| TTCAAGTCTGCTCAGGCACT+CGG | + | chr4_4:24048136-24048155 | Msa0675400:CDS | 50.0% | |
| GGTACACTCTTCCAGTGCTA+AGG | + | chr4_4:24048171-24048190 | Msa0675400:CDS | 50.0% | |
| AAGAGCGATGGGAAAGCCTG+TGG | + | chr4_4:24047497-24047516 | Msa0675400:CDS | 55.0% | |
| AGAGCGATGGGAAAGCCTGT+GGG | + | chr4_4:24047498-24047517 | Msa0675400:CDS | 55.0% | |
| GGGAAAGCCTGTGGGATTTG+TGG | + | chr4_4:24047506-24047525 | Msa0675400:CDS | 55.0% | |
| CCACTTCCCACAAATCCCAC+AGG | - | chr4_4:24047516-24047535 | None:intergenic | 55.0% | |
| CCTGTGGGATTTGTGGGAAG+TGG | + | chr4_4:24047513-24047532 | Msa0675400:CDS | 55.0% | |
| GAGATCTCATGTGGCCTCCA+AGG | - | chr4_4:24047556-24047575 | None:intergenic | 55.0% | |
| TTCGGGAAGGCAAGTCTGTG+AGG | - | chr4_4:24047675-24047694 | None:intergenic | 55.0% | |
| GCCGCAATTGGATCTCTTGC+GGG | - | chr4_4:24047801-24047820 | None:intergenic | 55.0% | |
| GGCCGCAATTGGATCTCTTG+CGG | - | chr4_4:24047802-24047821 | None:intergenic | 55.0% | |
| CGGCCGAGAAGTTAATGCTG+CGG | + | chr4_4:24047817-24047836 | Msa0675400:CDS | 55.0% | |
| !! | CACAAGCAGACTCTGAAGCC+AGG | + | chr4_4:24047978-24047997 | Msa0675400:CDS | 55.0% |
| GCACCTCTCACAGTTGAACC+TGG | - | chr4_4:24047999-24048018 | None:intergenic | 55.0% | |
| TGTGGGAAGTGGTTCTCCGG+TGG | + | chr4_4:24047524-24047543 | Msa0675400:CDS | 60.0% | |
| GTGGGAAGTGGTTCTCCGGT+GGG | + | chr4_4:24047525-24047544 | Msa0675400:CDS | 60.0% | |
| TTCTCCGGTGGGAAAGCCCT+TGG | + | chr4_4:24047536-24047555 | Msa0675400:CDS | 60.0% | |
| !!! | GCGGGTTGGGTTTTTCGGGT+TGG | - | chr4_4:24047783-24047802 | None:intergenic | 60.0% |
| AAGTCTGCTCAGGCACTCGG+TGG | + | chr4_4:24048139-24048158 | Msa0675400:CDS | 60.0% | |
| ! | AGGCACTCGGTGGACACAAG+AGG | + | chr4_4:24048149-24048168 | Msa0675400:CDS | 60.0% |
| ! | GGCACTCGGTGGACACAAGA+GGG | + | chr4_4:24048150-24048169 | Msa0675400:CDS | 60.0% |
| TCCGGTGGGAAAGCCCTTGG+AGG | + | chr4_4:24047539-24047558 | Msa0675400:CDS | 65.0% | |
| GCCTCCAAGGGCTTTCCCAC+CGG | - | chr4_4:24047543-24047562 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 24047491 | 24048222 | 24047491 | ID=Msa0675400;Name=Msa0675400 |
| chr4_4 | mRNA | 24047491 | 24048222 | 24047491 | ID=Msa0675400-mRNA-1;Parent=Msa0675400;Name=Msa0675400-mRNA-1;_AED=0.43;_eAED=0.43;_QI=0|-1|0|1|-1|1|1|0|243 |
| chr4_4 | exon | 24047491 | 24048222 | 24047491 | ID=Msa0675400-mRNA-1:exon:6702;Parent=Msa0675400-mRNA-1 |
| chr4_4 | CDS | 24047491 | 24048222 | 24047491 | ID=Msa0675400-mRNA-1:cds;Parent=Msa0675400-mRNA-1 |
| Gene Sequence |
| Protein sequence |
