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.gene60023.t1 | XP_003604376.2 | 97.9 | 145 | 3 | 0 | 1 | 145 | 1 | 145 | 2.10E-72 | 281.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene60023.t1 | Q9SSC9 | 77.5 | 142 | 32 | 0 | 1 | 142 | 13 | 154 | 6.2e-57 | 221.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene60023.t1 | G7JGY0 | 97.9 | 145 | 3 | 0 | 1 | 145 | 1 | 145 | 1.5e-72 | 281.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene60023 | MS.gene002811 | PPI |
| MS.gene60023 | MS.gene049808 | PPI |
| MS.gene004497 | MS.gene60023 | PPI |
| MS.gene60023 | MS.gene00955 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene60023.t1 | MTR_4g010160 | 97.931 | 145 | 3 | 0 | 1 | 145 | 1 | 145 | 6.51e-104 | 293 |
| MS.gene60023.t1 | MTR_2g103870 | 87.413 | 143 | 18 | 0 | 1 | 143 | 13 | 155 | 1.69e-84 | 244 |
| MS.gene60023.t1 | MTR_7g114020 | 47.794 | 136 | 70 | 1 | 6 | 141 | 12 | 146 | 5.38e-38 | 126 |
| MS.gene60023.t1 | MTR_1g082290 | 45.161 | 124 | 67 | 1 | 8 | 131 | 18 | 140 | 9.85e-36 | 121 |
| MS.gene60023.t1 | MTR_1g089130 | 48.462 | 130 | 64 | 2 | 8 | 136 | 15 | 142 | 8.27e-34 | 116 |
| MS.gene60023.t1 | MTR_2g100900 | 41.935 | 124 | 71 | 1 | 8 | 131 | 17 | 139 | 4.45e-30 | 106 |
| MS.gene60023.t1 | MTR_2g020770 | 48.148 | 135 | 68 | 2 | 8 | 142 | 17 | 149 | 5.94e-30 | 106 |
| MS.gene60023.t1 | MTR_2g100880 | 41.935 | 124 | 71 | 1 | 8 | 131 | 17 | 139 | 8.00e-30 | 105 |
| MS.gene60023.t1 | MTR_2g020770 | 47.154 | 123 | 64 | 1 | 8 | 130 | 17 | 138 | 9.83e-27 | 97.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene60023.t1 | AT1G80100 | 77.465 | 142 | 32 | 0 | 1 | 142 | 13 | 154 | 1.61e-59 | 181 |
| MS.gene60023.t1 | AT1G80100 | 76.562 | 128 | 30 | 0 | 1 | 128 | 13 | 140 | 1.29e-49 | 156 |
| MS.gene60023.t1 | AT1G80100 | 65.493 | 142 | 27 | 1 | 1 | 142 | 13 | 132 | 3.39e-49 | 154 |
| MS.gene60023.t1 | AT5G39340 | 46.269 | 134 | 71 | 1 | 8 | 141 | 19 | 151 | 3.32e-38 | 127 |
| MS.gene60023.t1 | AT5G39340 | 46.269 | 134 | 71 | 1 | 8 | 141 | 52 | 184 | 1.65e-37 | 126 |
| MS.gene60023.t1 | AT5G39340 | 46.269 | 134 | 71 | 1 | 8 | 141 | 68 | 200 | 4.00e-37 | 126 |
| MS.gene60023.t1 | AT5G39340 | 46.269 | 134 | 71 | 1 | 8 | 141 | 68 | 200 | 4.00e-37 | 126 |
| MS.gene60023.t1 | AT1G03430 | 43.284 | 134 | 75 | 1 | 8 | 141 | 20 | 152 | 2.16e-36 | 122 |
| MS.gene60023.t1 | AT3G29350 | 42.748 | 131 | 75 | 0 | 8 | 138 | 19 | 149 | 6.16e-36 | 121 |
| MS.gene60023.t1 | AT1G03430 | 42.975 | 121 | 69 | 0 | 8 | 128 | 20 | 140 | 9.75e-34 | 116 |
| MS.gene60023.t1 | AT3G21510 | 47.328 | 131 | 68 | 1 | 8 | 138 | 17 | 146 | 9.79e-32 | 110 |
| MS.gene60023.t1 | AT3G16360 | 41.045 | 134 | 78 | 1 | 8 | 141 | 12 | 144 | 2.07e-31 | 110 |
| MS.gene60023.t1 | AT3G16360 | 42.500 | 120 | 68 | 1 | 11 | 130 | 9 | 127 | 1.08e-28 | 102 |
| MS.gene60023.t1 | AT3G29350 | 43.750 | 96 | 54 | 0 | 8 | 103 | 19 | 114 | 2.35e-25 | 93.6 |
| MS.gene60023.t1 | AT4G04402 | 31.690 | 142 | 82 | 5 | 12 | 141 | 24 | 162 | 1.75e-13 | 64.3 |
Find 29 sgRNAs with CRISPR-Local
Find 67 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GATTGATTTGAATCAGTTTA+TGG | 0.142653 | 4.3:-86497090 | MS.gene60023:CDS |
| CAGGATGGAGAGGGAGTTTA+TGG | 0.186128 | 4.3:-86497129 | MS.gene60023:CDS |
| GTTTATGGACTATAAGAAAA+TGG | 0.254500 | 4.3:-86497114 | MS.gene60023:CDS |
| TTTATGGACTATAAGAAAAT+GGG | 0.355203 | 4.3:-86497113 | MS.gene60023:CDS |
| GATTGAACAGCAACGAGCTT+TGG | 0.383140 | 4.3:-86496209 | MS.gene60023:CDS |
| ATTGATTTGAATCAGTTTAT+GGG | 0.393080 | 4.3:-86497089 | MS.gene60023:CDS |
| ATGTCTCATCTTGTAGCTGC+TGG | 0.413122 | 4.3:+86497333 | None:intergenic |
| ACGAATCTGAGAAGCTTCTC+AGG | 0.417214 | 4.3:-86497271 | MS.gene60023:CDS |
| CTTCAGAGCGTTGGAAATGC+TGG | 0.427599 | 4.3:-86496669 | MS.gene60023:CDS |
| TGAGAAGCTTCTCAGATTCG+TGG | 0.428630 | 4.3:+86497273 | None:intergenic |
| ACAACCTCAGAGACAAAGTT+TGG | 0.431005 | 4.3:+86497308 | None:intergenic |
| CAGCAACGAGCTTTGGCAGC+TGG | 0.433005 | 4.3:-86496202 | MS.gene60023:CDS |
| ATACTTTATTCATTCTGCAC+TGG | 0.452579 | 4.3:+86496169 | None:intergenic |
| ACTGAAAAGAACAACCGTGC+TGG | 0.494777 | 4.3:-86497005 | MS.gene60023:CDS |
| GGAAGAGGAAGGAGAGGAGG+CGG | 0.501898 | 4.3:+86497594 | None:intergenic |
| TTGCAGATGCTTCAGAGCGT+TGG | 0.502520 | 4.3:-86496678 | MS.gene60023:intron |
| CCTCTCCTTCCTCTTCCACC+AGG | 0.516920 | 4.3:-86497588 | MS.gene60023:intron |
| CTGAAAAGAACAACCGTGCT+GGG | 0.528776 | 4.3:-86497004 | MS.gene60023:intron |
| ACATACGTACCTGGTGGAAG+AGG | 0.530544 | 4.3:+86497579 | None:intergenic |
| ATGGGAAGCAGTTCAAGCAT+TGG | 0.534409 | 4.3:-86497071 | MS.gene60023:CDS |
| GGTGGAAGAGGAAGGAGAGG+AGG | 0.572375 | 4.3:+86497591 | None:intergenic |
| GAATTTATTCAGGATGGAGA+GGG | 0.582561 | 4.3:-86497138 | MS.gene60023:intron |
| CCTGGTGGAAGAGGAAGGAG+AGG | 0.593472 | 4.3:+86497588 | None:intergenic |
| TTATGGACTATAAGAAAATG+GGG | 0.594506 | 4.3:-86497112 | MS.gene60023:CDS |
| ATCACCAAACTTTGTCTCTG+AGG | 0.606924 | 4.3:-86497312 | MS.gene60023:CDS |
| TGAATTTATTCAGGATGGAG+AGG | 0.608177 | 4.3:-86497139 | MS.gene60023:intron |
| GAGCTTTGGCAGCTGGAGTG+AGG | 0.614608 | 4.3:-86496195 | MS.gene60023:CDS |
| ACGTACCTGGTGGAAGAGGA+AGG | 0.619941 | 4.3:+86497583 | None:intergenic |
| GTATAGGCACCCACCCAGCA+CGG | 0.691862 | 4.3:+86496991 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CAAATTATATTAAATGAAAT+AGG | - | chr4.3:86497269-86497288 | MS.gene60023:CDS | 10.0% |
| !!! | ATATATAGTTTTTTTCTTAT+AGG | - | chr4.3:86496389-86496408 | MS.gene60023:intron | 10.0% |
| !!! | TATATAGTTTTTTTCTTATA+GGG | - | chr4.3:86496390-86496409 | MS.gene60023:intron | 10.0% |
| !! | TAAAAAAACAAAAATTAGCA+AGG | + | chr4.3:86497475-86497494 | None:intergenic | 15.0% |
| !! | TATTAAGATAATTACTTGTT+AGG | + | chr4.3:86496566-86496585 | None:intergenic | 15.0% |
| !!! | ATTTTTACATGAATTTATTC+AGG | - | chr4.3:86496625-86496644 | MS.gene60023:CDS | 15.0% |
| !! | ATTTAGAGACAAAATTATAG+TGG | - | chr4.3:86497422-86497441 | MS.gene60023:intron | 20.0% |
| !! | TGATAAACATTAATAATGAG+AGG | + | chr4.3:86497521-86497540 | None:intergenic | 20.0% |
| !! | TTAGTGTATGTTTGATATTA+AGG | - | chr4.3:86496851-86496870 | MS.gene60023:intron | 20.0% |
| !!! | ATTGATTTGAATCAGTTTAT+GGG | - | chr4.3:86496684-86496703 | MS.gene60023:intron | 20.0% |
| !!! | TAGTTTTTAAAAAACCATAG+TGG | - | chr4.3:86496934-86496953 | MS.gene60023:intron | 20.0% |
| !!! | TTTATGGACTATAAGAAAAT+GGG | - | chr4.3:86496660-86496679 | MS.gene60023:CDS | 20.0% |
| ! | CAAAACTTTGTAGATATACT+AGG | + | chr4.3:86497213-86497232 | None:intergenic | 25.0% |
| ! | TACAAAATCACGATAAAACA+TGG | + | chr4.3:86496894-86496913 | None:intergenic | 25.0% |
| ! | TTACATGAATTTATTCAGGA+TGG | - | chr4.3:86496629-86496648 | MS.gene60023:CDS | 25.0% |
| ! | TTTATTCGTGCATTCTTTAT+TGG | - | chr4.3:86496811-86496830 | MS.gene60023:intron | 25.0% |
| !! | GTTTATGGACTATAAGAAAA+TGG | - | chr4.3:86496659-86496678 | MS.gene60023:CDS | 25.0% |
| !! | TTATGGACTATAAGAAAATG+GGG | - | chr4.3:86496661-86496680 | MS.gene60023:CDS | 25.0% |
| !!! | GATTGATTTGAATCAGTTTA+TGG | - | chr4.3:86496683-86496702 | MS.gene60023:intron | 25.0% |
| !!! | TTTTTTCTTATAGGGAGTAT+TGG | - | chr4.3:86496398-86496417 | MS.gene60023:intron | 25.0% |
| AAAGAATGCACGAATAAAGA+GGG | + | chr4.3:86496809-86496828 | None:intergenic | 30.0% | |
| ATTAGCAAGGAAATTTAGAG+AGG | + | chr4.3:86497462-86497481 | None:intergenic | 30.0% | |
| GTGTATGTTTGATATTAAGG+TGG | - | chr4.3:86496854-86496873 | MS.gene60023:intron | 30.0% | |
| TAAAGAATGCACGAATAAAG+AGG | + | chr4.3:86496810-86496829 | None:intergenic | 30.0% | |
| TTAGCAAGGAAATTTAGAGA+GGG | + | chr4.3:86497461-86497480 | None:intergenic | 30.0% | |
| ! | ATGCTAGTTAGTGTTCTTTT+TGG | - | chr4.3:86496281-86496300 | MS.gene60023:intron | 30.0% |
| AAAATCACAACGATCCACTA+TGG | + | chr4.3:86496951-86496970 | None:intergenic | 35.0% | |
| CTACATATCACAGTGCATAA+TGG | + | chr4.3:86497003-86497022 | None:intergenic | 35.0% | |
| GAATTTATTCAGGATGGAGA+GGG | - | chr4.3:86496635-86496654 | MS.gene60023:CDS | 35.0% | |
| TGAATTTATTCAGGATGGAG+AGG | - | chr4.3:86496634-86496653 | MS.gene60023:CDS | 35.0% | |
| ! | CGTGATTTTGTAGATGTAGA+AGG | - | chr4.3:86496902-86496921 | MS.gene60023:intron | 35.0% |
| ACAACCTCAGAGACAAAGTT+TGG | + | chr4.3:86496468-86496487 | None:intergenic | 40.0% | |
| AGGTTGAGTGCAACTTTACT+TGG | + | chr4.3:86497173-86497192 | None:intergenic | 40.0% | |
| ATAGAAAATAGACGTGCGCA+TGG | - | chr4.3:86497313-86497332 | MS.gene60023:CDS | 40.0% | |
| ATCACCAAACTTTGTCTCTG+AGG | - | chr4.3:86496461-86496480 | MS.gene60023:intron | 40.0% | |
| ! | CACGAATAAAGAGGGAGTAT+AGG | + | chr4.3:86496801-86496820 | None:intergenic | 40.0% |
| ! | GATAGTGTTTGATAGCACGA+TGG | + | chr4.3:86496981-86497000 | None:intergenic | 40.0% |
| ! | TGTTTGATAGCACGATGGAT+AGG | + | chr4.3:86496976-86496995 | None:intergenic | 40.0% |
| ACGAATCTGAGAAGCTTCTC+AGG | - | chr4.3:86496502-86496521 | MS.gene60023:intron | 45.0% | |
| ACTGAAAAGAACAACCGTGC+TGG | - | chr4.3:86496768-86496787 | MS.gene60023:intron | 45.0% | |
| AGCATCTGCAATTGGTTGGA+TGG | + | chr4.3:86497086-86497105 | None:intergenic | 45.0% | |
| ATGGGAAGCAGTTCAAGCAT+TGG | - | chr4.3:86496702-86496721 | MS.gene60023:intron | 45.0% | |
| ATGTCTCATCTTGTAGCTGC+TGG | + | chr4.3:86496443-86496462 | None:intergenic | 45.0% | |
| CTGAAAAGAACAACCGTGCT+GGG | - | chr4.3:86496769-86496788 | MS.gene60023:intron | 45.0% | |
| GATTGAACAGCAACGAGCTT+TGG | - | chr4.3:86497564-86497583 | MS.gene60023:intron | 45.0% | |
| GCATCTGCAATTGGTTGGAT+GGG | + | chr4.3:86497085-86497104 | None:intergenic | 45.0% | |
| TGAGAAGCTTCTCAGATTCG+TGG | + | chr4.3:86496503-86496522 | None:intergenic | 45.0% | |
| ! | AGGCTGCTAGCTAGCTTAAT+AGG | + | chr4.3:86497193-86497212 | None:intergenic | 45.0% |
| ! | CTGAAGCATCTGCAATTGGT+TGG | + | chr4.3:86497090-86497109 | None:intergenic | 45.0% |
| ! | CTTTTCAGTAGCGACACGAA+AGG | + | chr4.3:86496757-86496776 | None:intergenic | 45.0% |
| ! | TCTGAAACATACGTACCTGG+TGG | + | chr4.3:86496203-86496222 | None:intergenic | 45.0% |
| !! | GTCTCTGAAACATACGTACC+TGG | + | chr4.3:86496206-86496225 | None:intergenic | 45.0% |
| AAAAGAACAACCGTGCTGGG+TGG | - | chr4.3:86496772-86496791 | MS.gene60023:intron | 50.0% | |
| AAAGAACAACCGTGCTGGGT+GGG | - | chr4.3:86496773-86496792 | MS.gene60023:intron | 50.0% | |
| ACATACGTACCTGGTGGAAG+AGG | + | chr4.3:86496197-86496216 | None:intergenic | 50.0% | |
| CAGGATGGAGAGGGAGTTTA+TGG | - | chr4.3:86496644-86496663 | MS.gene60023:CDS | 50.0% | |
| TTGCAGATGCTTCAGAGCGT+TGG | - | chr4.3:86497095-86497114 | MS.gene60023:CDS | 50.0% | |
| !! | CGCTCTGAAGCATCTGCAAT+TGG | + | chr4.3:86497094-86497113 | None:intergenic | 50.0% |
| !! | CTTCAGAGCGTTGGAAATGC+TGG | - | chr4.3:86497104-86497123 | MS.gene60023:CDS | 50.0% |
| ACGTACCTGGTGGAAGAGGA+AGG | + | chr4.3:86496193-86496212 | None:intergenic | 55.0% | |
| CCTCTCCTTCCTCTTCCACC+AGG | - | chr4.3:86496185-86496204 | MS.gene60023:CDS | 60.0% | |
| CCTGGTGGAAGAGGAAGGAG+AGG | + | chr4.3:86496188-86496207 | None:intergenic | 60.0% | |
| GGAAGAGGAAGGAGAGGAGG+CGG | + | chr4.3:86496182-86496201 | None:intergenic | 60.0% | |
| GGTGGAAGAGGAAGGAGAGG+AGG | + | chr4.3:86496185-86496204 | None:intergenic | 60.0% | |
| GTATAGGCACCCACCCAGCA+CGG | + | chr4.3:86496785-86496804 | None:intergenic | 60.0% | |
| ! | CAGCAACGAGCTTTGGCAGC+TGG | - | chr4.3:86497571-86497590 | MS.gene60023:intron | 60.0% |
| ! | GAGCTTTGGCAGCTGGAGTG+AGG | - | chr4.3:86497578-86497597 | MS.gene60023:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.3 | gene | 86496174 | 86497621 | 86496174 | ID=MS.gene60023 |
| chr4.3 | mRNA | 86496174 | 86497621 | 86496174 | ID=MS.gene60023.t1;Parent=MS.gene60023 |
| chr4.3 | exon | 86497589 | 86497621 | 86497589 | ID=MS.gene60023.t1.exon1;Parent=MS.gene60023.t1 |
| chr4.3 | CDS | 86497589 | 86497621 | 86497589 | ID=cds.MS.gene60023.t1;Parent=MS.gene60023.t1 |
| chr4.3 | exon | 86497254 | 86497384 | 86497254 | ID=MS.gene60023.t1.exon2;Parent=MS.gene60023.t1 |
| chr4.3 | CDS | 86497254 | 86497384 | 86497254 | ID=cds.MS.gene60023.t1;Parent=MS.gene60023.t1 |
| chr4.3 | exon | 86497005 | 86497148 | 86497005 | ID=MS.gene60023.t1.exon3;Parent=MS.gene60023.t1 |
| chr4.3 | CDS | 86497005 | 86497148 | 86497005 | ID=cds.MS.gene60023.t1;Parent=MS.gene60023.t1 |
| chr4.3 | exon | 86496622 | 86496694 | 86496622 | ID=MS.gene60023.t1.exon4;Parent=MS.gene60023.t1 |
| chr4.3 | CDS | 86496622 | 86496694 | 86496622 | ID=cds.MS.gene60023.t1;Parent=MS.gene60023.t1 |
| chr4.3 | exon | 86496174 | 86496230 | 86496174 | ID=MS.gene60023.t1.exon5;Parent=MS.gene60023.t1 |
| chr4.3 | CDS | 86496174 | 86496230 | 86496174 | ID=cds.MS.gene60023.t1;Parent=MS.gene60023.t1 |
| Gene Sequence |
| Protein sequence |
