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.gene063230.t1 | XP_013467071.1 | 83.8 | 198 | 32 | 0 | 1 | 198 | 1 | 198 | 1.30E-51 | 213 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene063230.t1 | C0HIA3 | 73.2 | 56 | 15 | 0 | 1 | 56 | 1 | 56 | 3.2e-19 | 96.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene063230.t1 | A0A072VHK1 | 83.8 | 198 | 32 | 0 | 1 | 198 | 1 | 198 | 9.1e-52 | 213.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene063230.t1 | TF | MYB-related |
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.gene063230.t1 | MTR_1g041765 | 87.374 | 198 | 25 | 0 | 1 | 198 | 1 | 198 | 7.61e-112 | 317 |
| MS.gene063230.t1 | MTR_5g015340 | 67.416 | 89 | 27 | 1 | 1 | 87 | 1 | 89 | 6.30e-35 | 125 |
| MS.gene063230.t1 | MTR_5g015340 | 67.416 | 89 | 27 | 1 | 1 | 87 | 1 | 89 | 6.30e-35 | 125 |
| MS.gene063230.t1 | MTR_5g015340 | 67.416 | 89 | 27 | 1 | 1 | 87 | 1 | 89 | 5.53e-34 | 124 |
| MS.gene063230.t1 | MTR_4g097130 | 67.857 | 84 | 25 | 1 | 1 | 82 | 1 | 84 | 7.68e-33 | 120 |
| MS.gene063230.t1 | MTR_4g097130 | 67.857 | 84 | 25 | 1 | 1 | 82 | 1 | 84 | 8.57e-33 | 120 |
| MS.gene063230.t1 | MTR_4g097130 | 67.857 | 84 | 25 | 1 | 1 | 82 | 1 | 84 | 8.89e-33 | 119 |
| MS.gene063230.t1 | MTR_0095s0040 | 79.310 | 58 | 12 | 0 | 1 | 58 | 1 | 58 | 1.75e-27 | 104 |
| MS.gene063230.t1 | MTR_8g494240 | 79.310 | 58 | 12 | 0 | 1 | 58 | 1 | 58 | 4.72e-27 | 104 |
| MS.gene063230.t1 | MTR_8g494240 | 79.310 | 58 | 12 | 0 | 1 | 58 | 1 | 58 | 4.95e-27 | 104 |
| MS.gene063230.t1 | MTR_2g031870 | 72.131 | 61 | 17 | 0 | 1 | 61 | 1 | 61 | 1.99e-26 | 102 |
| MS.gene063230.t1 | MTR_8g494240 | 57.447 | 94 | 36 | 2 | 1 | 90 | 1 | 94 | 2.50e-26 | 104 |
| MS.gene063230.t1 | MTR_8g092810 | 71.930 | 57 | 16 | 0 | 1 | 57 | 1 | 57 | 1.95e-23 | 97.1 |
| MS.gene063230.t1 | MTR_2g099610 | 67.857 | 56 | 18 | 0 | 1 | 56 | 1 | 56 | 8.52e-21 | 87.8 |
| MS.gene063230.t1 | MTR_8g018410 | 62.500 | 56 | 21 | 0 | 1 | 56 | 1 | 56 | 2.06e-18 | 81.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene063230.t1 | AT5G67580 | 58.621 | 87 | 36 | 0 | 1 | 87 | 1 | 87 | 8.07e-29 | 109 |
| MS.gene063230.t1 | AT5G67580 | 58.621 | 87 | 36 | 0 | 1 | 87 | 1 | 87 | 8.07e-29 | 109 |
| MS.gene063230.t1 | AT3G49850 | 68.657 | 67 | 21 | 0 | 1 | 67 | 1 | 67 | 4.95e-27 | 104 |
| MS.gene063230.t1 | AT3G49850 | 68.657 | 67 | 21 | 0 | 1 | 67 | 1 | 67 | 4.95e-27 | 104 |
| MS.gene063230.t1 | AT1G49950 | 74.138 | 58 | 15 | 0 | 1 | 58 | 1 | 58 | 1.21e-25 | 100 |
| MS.gene063230.t1 | AT1G49950 | 74.138 | 58 | 15 | 0 | 1 | 58 | 1 | 58 | 1.21e-25 | 100 |
| MS.gene063230.t1 | AT1G49950 | 74.138 | 58 | 15 | 0 | 1 | 58 | 1 | 58 | 1.21e-25 | 100 |
| MS.gene063230.t1 | AT1G72740 | 63.793 | 58 | 21 | 0 | 1 | 58 | 1 | 58 | 5.83e-20 | 85.5 |
| MS.gene063230.t1 | AT1G72740 | 63.793 | 58 | 21 | 0 | 1 | 58 | 1 | 58 | 5.96e-20 | 85.5 |
| MS.gene063230.t1 | AT1G17520 | 57.576 | 66 | 28 | 0 | 1 | 66 | 1 | 66 | 1.22e-19 | 84.7 |
| MS.gene063230.t1 | AT1G17520 | 57.576 | 66 | 28 | 0 | 1 | 66 | 1 | 66 | 1.26e-19 | 84.7 |
| MS.gene063230.t1 | AT1G17520 | 57.576 | 66 | 28 | 0 | 1 | 66 | 1 | 66 | 1.26e-19 | 84.7 |
| MS.gene063230.t1 | AT1G17520 | 57.576 | 66 | 28 | 0 | 1 | 66 | 1 | 66 | 1.27e-19 | 84.7 |
Find 33 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGCAAACTAGTGTTGAATTC+TGG | 0.175108 | 1.3:+25039110 | None:intergenic |
| TCATTTCTCCCAGTTGCTTT+TGG | 0.271270 | 1.3:+25038879 | None:intergenic |
| AATGATTCTCCAAAAGCAAC+TGG | 0.374694 | 1.3:-25038888 | MS.gene063230:CDS |
| GGCTGAGGAAGCAACTTATA+AGG | 0.388838 | 1.3:-25038724 | MS.gene063230:CDS |
| GCAAACTAGTGTTGAATTCT+GGG | 0.405933 | 1.3:+25039111 | None:intergenic |
| TAAGGGTCTCACACCTCAAC+AGG | 0.416868 | 1.3:-25038799 | MS.gene063230:CDS |
| CAGAGCTGCCTCTTCTTCTC+CGG | 0.417460 | 1.3:+25039187 | None:intergenic |
| TTCAAGTGGAATATCAAGAT+TGG | 0.425860 | 1.3:-25038958 | MS.gene063230:CDS |
| ATGTAGACCTCAAGGACAAA+TGG | 0.452440 | 1.3:-25039076 | MS.gene063230:CDS |
| GAAGAGGCAGCTCTGAAAGC+GGG | 0.486977 | 1.3:-25039179 | MS.gene063230:CDS |
| GGCAGAAGCTGCCATGACTA+AGG | 0.496803 | 1.3:-25038745 | MS.gene063230:CDS |
| GGAGTAGTCAAACACGGAGC+TGG | 0.501232 | 1.3:-25039158 | MS.gene063230:CDS |
| AGTTCCTCCATTTGTCCTTG+AGG | 0.505844 | 1.3:+25039069 | None:intergenic |
| GGAATATCAAGATTGGATCA+TGG | 0.518631 | 1.3:-25038951 | MS.gene063230:CDS |
| AGCTGCAACAGCAATGGAGG+AGG | 0.521506 | 1.3:-25038766 | MS.gene063230:CDS |
| TCAAACACGGAGCTGGAAGA+TGG | 0.524401 | 1.3:-25039151 | MS.gene063230:CDS |
| CGACGACAACATTTAGATCA+AGG | 0.524618 | 1.3:-25039040 | MS.gene063230:CDS |
| GAATATCAAGATTGGATCAT+GGG | 0.528468 | 1.3:-25038950 | MS.gene063230:CDS |
| AATAATAATCAAGATTCAAG+TGG | 0.550012 | 1.3:-25038972 | MS.gene063230:CDS |
| AGAAGCTGCAACAGCAATGG+AGG | 0.559301 | 1.3:-25038769 | MS.gene063230:CDS |
| AAAATGGACCGGAGAAGAAG+AGG | 0.564638 | 1.3:-25039195 | MS.gene063230:CDS |
| AGCTGCCATGACTAAGGCTG+AGG | 0.573794 | 1.3:-25038739 | MS.gene063230:CDS |
| AGAAGAAGCTGCAACAGCAA+TGG | 0.574917 | 1.3:-25038772 | MS.gene063230:CDS |
| GGAAGCAACTTATAAGGCAG+AGG | 0.583297 | 1.3:-25038718 | MS.gene063230:CDS |
| TGCTTCCTCAGCCTTAGTCA+TGG | 0.584066 | 1.3:+25038734 | None:intergenic |
| TGCAAAAGCAGAAATGAAGA+AGG | 0.586897 | 1.3:-25038661 | MS.gene063230:CDS |
| GCTTCTTCTATCGCCTGTTG+AGG | 0.590627 | 1.3:+25038786 | None:intergenic |
| TCGTTCAAATGTAGACCTCA+AGG | 0.605301 | 1.3:-25039084 | MS.gene063230:CDS |
| AGAAGAGGCAGCTCTGAAAG+CGG | 0.618500 | 1.3:-25039180 | MS.gene063230:CDS |
| ATGATTCTCCAAAAGCAACT+GGG | 0.625879 | 1.3:-25038887 | MS.gene063230:CDS |
| TAGACCTCAAGGACAAATGG+AGG | 0.657376 | 1.3:-25039073 | MS.gene063230:CDS |
| AACTTCAACAAATATACGCG+AGG | 0.665452 | 1.3:-25038919 | MS.gene063230:CDS |
| AAAGCGGGAGTAGTCAAACA+CGG | 0.721145 | 1.3:-25039164 | MS.gene063230:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TGATTATTATTTTCAACTTT+AGG | + | chr1.3:25038869-25038888 | None:intergenic | 15.0% |
| !! | AATAATAATCAAGATTCAAG+TGG | - | chr1.3:25038878-25038897 | MS.gene063230:CDS | 20.0% |
| !!! | AGAGATTTTTAAGATGATTA+AGG | - | chr1.3:25039033-25039052 | MS.gene063230:CDS | 20.0% |
| !!! | GAGATTTTTAAGATGATTAA+GGG | - | chr1.3:25039034-25039053 | MS.gene063230:CDS | 20.0% |
| !!! | TAATTTCTTCGTATTTTGAA+AGG | + | chr1.3:25039009-25039028 | None:intergenic | 20.0% |
| !!! | TTATTATTTTCAACTTTAGG+TGG | + | chr1.3:25038866-25038885 | None:intergenic | 20.0% |
| GAATATCAAGATTGGATCAT+GGG | - | chr1.3:25038900-25038919 | MS.gene063230:CDS | 30.0% | |
| TTCAAGTGGAATATCAAGAT+TGG | - | chr1.3:25038892-25038911 | MS.gene063230:CDS | 30.0% | |
| ! | TTATTTTCAACTTTAGGTGG+AGG | + | chr1.3:25038863-25038882 | None:intergenic | 30.0% |
| AACTTCAACAAATATACGCG+AGG | - | chr1.3:25038931-25038950 | MS.gene063230:CDS | 35.0% | |
| AATGATTCTCCAAAAGCAAC+TGG | - | chr1.3:25038962-25038981 | MS.gene063230:CDS | 35.0% | |
| ATGATTCTCCAAAAGCAACT+GGG | - | chr1.3:25038963-25038982 | MS.gene063230:CDS | 35.0% | |
| GGAATATCAAGATTGGATCA+TGG | - | chr1.3:25038899-25038918 | MS.gene063230:CDS | 35.0% | |
| TGCAAAAGCAGAAATGAAGA+AGG | - | chr1.3:25039189-25039208 | MS.gene063230:CDS | 35.0% | |
| ! | GCAAACTAGTGTTGAATTCT+GGG | + | chr1.3:25038742-25038761 | None:intergenic | 35.0% |
| ATGTAGACCTCAAGGACAAA+TGG | - | chr1.3:25038774-25038793 | MS.gene063230:CDS | 40.0% | |
| CGACGACAACATTTAGATCA+AGG | - | chr1.3:25038810-25038829 | MS.gene063230:CDS | 40.0% | |
| TCGTTCAAATGTAGACCTCA+AGG | - | chr1.3:25038766-25038785 | MS.gene063230:CDS | 40.0% | |
| ! | CGCAAACTAGTGTTGAATTC+TGG | + | chr1.3:25038743-25038762 | None:intergenic | 40.0% |
| !! | TCATTTCTCCCAGTTGCTTT+TGG | + | chr1.3:25038974-25038993 | None:intergenic | 40.0% |
| AAAATGGACCGGAGAAGAAG+AGG | - | chr1.3:25038655-25038674 | MS.gene063230:CDS | 45.0% | |
| AAAGCGGGAGTAGTCAAACA+CGG | - | chr1.3:25038686-25038705 | MS.gene063230:CDS | 45.0% | |
| AGAAGAAGCTGCAACAGCAA+TGG | - | chr1.3:25039078-25039097 | MS.gene063230:CDS | 45.0% | |
| AGTTCCTCCATTTGTCCTTG+AGG | + | chr1.3:25038784-25038803 | None:intergenic | 45.0% | |
| GCTCCTAAGCAAAAATGGAC+CGG | - | chr1.3:25038644-25038663 | MS.gene063230:CDS | 45.0% | |
| GGAAGCAACTTATAAGGCAG+AGG | - | chr1.3:25039132-25039151 | MS.gene063230:CDS | 45.0% | |
| GGCTGAGGAAGCAACTTATA+AGG | - | chr1.3:25039126-25039145 | MS.gene063230:CDS | 45.0% | |
| TAGACCTCAAGGACAAATGG+AGG | - | chr1.3:25038777-25038796 | MS.gene063230:CDS | 45.0% | |
| TGGGTGCTCCTAAGCAAAAA+TGG | - | chr1.3:25038639-25038658 | MS.gene063230:CDS | 45.0% | |
| !! | TCTCCGGTCCATTTTTGCTT+AGG | + | chr1.3:25038650-25038669 | None:intergenic | 45.0% |
| AGAAGCTGCAACAGCAATGG+AGG | - | chr1.3:25039081-25039100 | MS.gene063230:CDS | 50.0% | |
| GCTTCTTCTATCGCCTGTTG+AGG | + | chr1.3:25039067-25039086 | None:intergenic | 50.0% | |
| TAAGGGTCTCACACCTCAAC+AGG | - | chr1.3:25039051-25039070 | MS.gene063230:CDS | 50.0% | |
| TCAAACACGGAGCTGGAAGA+TGG | - | chr1.3:25038699-25038718 | MS.gene063230:CDS | 50.0% | |
| TGCTTCCTCAGCCTTAGTCA+TGG | + | chr1.3:25039119-25039138 | None:intergenic | 50.0% | |
| !! | AGAAGAGGCAGCTCTGAAAG+CGG | - | chr1.3:25038670-25038689 | MS.gene063230:CDS | 50.0% |
| AGCTGCAACAGCAATGGAGG+AGG | - | chr1.3:25039084-25039103 | MS.gene063230:CDS | 55.0% | |
| AGCTGCCATGACTAAGGCTG+AGG | - | chr1.3:25039111-25039130 | MS.gene063230:CDS | 55.0% | |
| CAGAGCTGCCTCTTCTTCTC+CGG | + | chr1.3:25038666-25038685 | None:intergenic | 55.0% | |
| GGAGTAGTCAAACACGGAGC+TGG | - | chr1.3:25038692-25038711 | MS.gene063230:CDS | 55.0% | |
| GGCAGAAGCTGCCATGACTA+AGG | - | chr1.3:25039105-25039124 | MS.gene063230:CDS | 55.0% | |
| !! | GAAGAGGCAGCTCTGAAAGC+GGG | - | chr1.3:25038671-25038690 | MS.gene063230:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.3 | gene | 25038638 | 25039234 | 25038638 | ID=MS.gene063230 |
| chr1.3 | mRNA | 25038638 | 25039234 | 25038638 | ID=MS.gene063230.t1;Parent=MS.gene063230 |
| chr1.3 | exon | 25038638 | 25039234 | 25038638 | ID=MS.gene063230.t1.exon1;Parent=MS.gene063230.t1 |
| chr1.3 | CDS | 25038638 | 25039234 | 25038638 | ID=cds.MS.gene063230.t1;Parent=MS.gene063230.t1 |
| Gene Sequence |
| Protein sequence |
