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.gene69942.t1 | XP_013468974.1 | 95.8 | 144 | 6 | 0 | 1 | 144 | 1 | 144 | 3.00E-75 | 291.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene69942.t1 | P29062 | 71.7 | 138 | 37 | 1 | 8 | 145 | 11 | 146 | 2.1e-56 | 219.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene69942.t1 | A0A072VN05 | 95.8 | 144 | 6 | 0 | 1 | 144 | 1 | 144 | 2.2e-75 | 291.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049993 | MS.gene69942 | 0.85105 | 1.14E-60 | -1.69E-46 |
| MS.gene052011 | MS.gene69942 | -0.81625 | 6.09E-52 | -1.69E-46 |
| MS.gene054183 | MS.gene69942 | 0.817448 | 3.28E-52 | -1.69E-46 |
| MS.gene055369 | MS.gene69942 | 0.800535 | 1.38E-48 | -1.69E-46 |
| MS.gene056514 | MS.gene69942 | 0.808505 | 3.00E-50 | -1.69E-46 |
| MS.gene056981 | MS.gene69942 | 0.80655 | 7.79E-50 | -1.69E-46 |
| MS.gene057476 | MS.gene69942 | 0.829156 | 6.03E-55 | -1.69E-46 |
| MS.gene057841 | MS.gene69942 | 0.805897 | 1.07E-49 | -1.69E-46 |
| MS.gene057888 | MS.gene69942 | 0.815547 | 8.74E-52 | -1.69E-46 |
| MS.gene058220 | MS.gene69942 | 0.809486 | 1.85E-50 | -1.69E-46 |
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.gene69942.t1 | MTR_1g080800 | 95.833 | 144 | 6 | 0 | 1 | 144 | 1 | 144 | 5.25e-100 | 284 |
| MS.gene69942.t1 | MTR_1g080820 | 90.278 | 144 | 14 | 0 | 1 | 144 | 1 | 144 | 9.23e-94 | 268 |
| MS.gene69942.t1 | MTR_1g080810 | 84.722 | 144 | 22 | 0 | 1 | 144 | 1 | 144 | 7.94e-90 | 258 |
| MS.gene69942.t1 | MTR_7g115220 | 70.000 | 120 | 36 | 0 | 29 | 148 | 69 | 188 | 1.43e-59 | 184 |
| MS.gene69942.t1 | MTR_1g080780 | 59.124 | 137 | 55 | 1 | 8 | 144 | 4 | 139 | 4.33e-57 | 175 |
| MS.gene69942.t1 | MTR_6g083270 | 52.866 | 157 | 53 | 5 | 10 | 149 | 11 | 163 | 8.28e-47 | 158 |
| MS.gene69942.t1 | MTR_6g083200 | 51.799 | 139 | 60 | 3 | 9 | 145 | 10 | 143 | 1.70e-45 | 148 |
| MS.gene69942.t1 | MTR_6g083310 | 49.333 | 150 | 56 | 5 | 10 | 144 | 11 | 155 | 1.54e-38 | 129 |
| MS.gene69942.t1 | MTR_6g083290 | 46.479 | 142 | 62 | 3 | 10 | 144 | 11 | 145 | 2.12e-38 | 133 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene69942.t1 | AT3G04720 | 65.468 | 139 | 48 | 0 | 24 | 162 | 71 | 209 | 8.10e-63 | 192 |
Find 40 sgRNAs with CRISPR-Local
Find 57 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGTCATGGCGTAGCAAATA+TGG | 0.308099 | 1.4:-65752470 | MS.gene69942:CDS |
| TCTCTGCCTGTTGGCCCAGC+TGG | 0.347389 | 1.4:+65752428 | None:intergenic |
| ACAGAGAACTTTGAGCTTGT+TGG | 0.365729 | 1.4:-65752642 | MS.gene69942:CDS |
| ACAACCCTCAGAATATTAAC+TGG | 0.383186 | 1.4:-65752544 | MS.gene69942:CDS |
| GTCAGAGTGCAAACAACGTT+AGG | 0.437077 | 1.4:-65752583 | MS.gene69942:CDS |
| TGTGGACCAGCTGGGCCAAC+AGG | 0.437465 | 1.4:-65752434 | MS.gene69942:CDS |
| CCAGTGTATACTGTGCTACT+TGG | 0.451011 | 1.4:-65752508 | MS.gene69942:CDS |
| TAACTGTAAGGTGACCCTTC+TGG | 0.462881 | 1.4:+65752005 | None:intergenic |
| TCAAATTGATACCAATGGAC+AGG | 0.479120 | 1.4:-65752032 | MS.gene69942:CDS |
| CAAAGCTATAGTTAACTGTA+AGG | 0.486461 | 1.4:+65751993 | None:intergenic |
| GAATACTGCAACTGGTGCTC+AGG | 0.493434 | 1.4:-65752119 | MS.gene69942:CDS |
| TGCTACGCCATGACAAGGGC+TGG | 0.498360 | 1.4:+65752477 | None:intergenic |
| ATAGTGGACCAGTGCTCAAA+TGG | 0.501061 | 1.4:-65752085 | MS.gene69942:CDS |
| CAGGTGACGAATACTGCAAC+TGG | 0.524837 | 1.4:-65752127 | MS.gene69942:CDS |
| CCGCAAGAATCTCTGCCTGT+TGG | 0.525418 | 1.4:+65752419 | None:intergenic |
| CAGTGTATACTGTGCTACTT+GGG | 0.526139 | 1.4:-65752507 | MS.gene69942:CDS |
| TATAGCTTTGTTAATTGCAA+CGG | 0.526692 | 1.4:-65751980 | MS.gene69942:CDS |
| TTCAATCAAATTGATACCAA+TGG | 0.541175 | 1.4:-65752037 | MS.gene69942:CDS |
| CCAGTGCTCAAATGGTGGAC+TGG | 0.542110 | 1.4:-65752077 | MS.gene69942:CDS |
| CTTCTGGTAACCCTGTCCAT+TGG | 0.545362 | 1.4:+65752021 | None:intergenic |
| CCAGTCCACCATTTGAGCAC+TGG | 0.554865 | 1.4:+65752077 | None:intergenic |
| TAATCCCAGTTAATATTCTG+AGG | 0.556889 | 1.4:+65752539 | None:intergenic |
| AATGGACAGGGTTACCAGAA+GGG | 0.563174 | 1.4:-65752019 | MS.gene69942:CDS |
| GTGATTTATTGACTCATCAC+AGG | 0.576885 | 1.4:-65751958 | MS.gene69942:CDS |
| TGCAACTGGTGCTCAGGTAA+CGG | 0.577038 | 1.4:-65752113 | MS.gene69942:CDS |
| TCAGAGTGCAAACAACGTTA+GGG | 0.580216 | 1.4:-65752582 | MS.gene69942:CDS |
| CAACCCTCAGAATATTAACT+GGG | 0.582070 | 1.4:-65752543 | MS.gene69942:CDS |
| ATGCAAACCAGCCCTTGTCA+TGG | 0.583448 | 1.4:-65752484 | MS.gene69942:CDS |
| ATATTTGCTACGCCATGACA+AGG | 0.584472 | 1.4:+65752472 | None:intergenic |
| CAAATTGATACCAATGGACA+GGG | 0.591064 | 1.4:-65752031 | MS.gene69942:CDS |
| CATGGCGTAGCAAATATGGT+TGG | 0.604474 | 1.4:-65752466 | MS.gene69942:CDS |
| TCAGGTAACGGTGAGAATAG+TGG | 0.610066 | 1.4:-65752101 | MS.gene69942:CDS |
| CAATGGACAGGGTTACCAGA+AGG | 0.617429 | 1.4:-65752020 | MS.gene69942:CDS |
| GTGGACCAGTGCTCAAATGG+TGG | 0.625188 | 1.4:-65752082 | MS.gene69942:CDS |
| AATCCCAGTTAATATTCTGA+GGG | 0.629321 | 1.4:+65752540 | None:intergenic |
| CCAAGTAGCACAGTATACAC+TGG | 0.657659 | 1.4:+65752508 | None:intergenic |
| TCACTAGCATCGTTCCCACA+AGG | 0.659432 | 1.4:+65752609 | None:intergenic |
| TATTTGCTACGCCATGACAA+GGG | 0.664421 | 1.4:+65752473 | None:intergenic |
| CCAACAGGCAGAGATTCTTG+CGG | 0.667208 | 1.4:-65752419 | MS.gene69942:CDS |
| GTGGGAACGATGCTAGTGAG+TGG | 0.745826 | 1.4:-65752605 | MS.gene69942:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTCAATTAATGATAGTATTG+TGG | - | chr1.4:65752410-65752429 | MS.gene69942:CDS | 20.0% |
| ! | TTCAATCAAATTGATACCAA+TGG | - | chr1.4:65752538-65752557 | MS.gene69942:CDS | 25.0% |
| !! | ACTCACTAATTTCTTCATTT+TGG | - | chr1.4:65752295-65752314 | MS.gene69942:intron | 25.0% |
| !! | CTCACTAATTTCTTCATTTT+GGG | - | chr1.4:65752296-65752315 | MS.gene69942:intron | 25.0% |
| !! | TCACTAATTTCTTCATTTTG+GGG | - | chr1.4:65752297-65752316 | MS.gene69942:intron | 25.0% |
| !!! | TATAGCTTTGTTAATTGCAA+CGG | - | chr1.4:65752595-65752614 | MS.gene69942:CDS | 25.0% |
| !!! | TTTTTCTAAAATGAGAGAAG+TGG | + | chr1.4:65752201-65752220 | None:intergenic | 25.0% |
| AATCCCAGTTAATATTCTGA+GGG | + | chr1.4:65752038-65752057 | None:intergenic | 30.0% | |
| AGAAATTAGTGAGTTTGTGT+TGG | + | chr1.4:65752289-65752308 | None:intergenic | 30.0% | |
| CAAAGCTATAGTTAACTGTA+AGG | + | chr1.4:65752585-65752604 | None:intergenic | 30.0% | |
| TAATCCCAGTTAATATTCTG+AGG | + | chr1.4:65752039-65752058 | None:intergenic | 30.0% | |
| ! | ATTCTCTTTGACTAGCTAAT+TGG | + | chr1.4:65752371-65752390 | None:intergenic | 30.0% |
| ACAACCCTCAGAATATTAAC+TGG | - | chr1.4:65752031-65752050 | MS.gene69942:CDS | 35.0% | |
| CAAATTGATACCAATGGACA+GGG | - | chr1.4:65752544-65752563 | MS.gene69942:CDS | 35.0% | |
| CAACCCTCAGAATATTAACT+GGG | - | chr1.4:65752032-65752051 | MS.gene69942:CDS | 35.0% | |
| TAGCTAGTCAAAGAGAATTG+TGG | - | chr1.4:65752373-65752392 | MS.gene69942:intron | 35.0% | |
| TCAAATTGATACCAATGGAC+AGG | - | chr1.4:65752543-65752562 | MS.gene69942:CDS | 35.0% | |
| !! | GTGATTTATTGACTCATCAC+AGG | - | chr1.4:65752617-65752636 | MS.gene69942:CDS | 35.0% |
| !! | TGTGTTGGTCAGATTTTAGA+GGG | + | chr1.4:65752274-65752293 | None:intergenic | 35.0% |
| !! | TTGTGTTGGTCAGATTTTAG+AGG | + | chr1.4:65752275-65752294 | None:intergenic | 35.0% |
| !!! | TTGGTTTTGTGTTTCCTTGT+GGG | - | chr1.4:65751952-65751971 | MS.gene69942:CDS | 35.0% |
| ACAGAGAACTTTGAGCTTGT+TGG | - | chr1.4:65751933-65751952 | MS.gene69942:CDS | 40.0% | |
| TCAGAGTGCAAACAACGTTA+GGG | - | chr1.4:65751993-65752012 | MS.gene69942:CDS | 40.0% | |
| TTGTCATGGCGTAGCAAATA+TGG | - | chr1.4:65752105-65752124 | MS.gene69942:CDS | 40.0% | |
| ! | ATATTTGCTACGCCATGACA+AGG | + | chr1.4:65752106-65752125 | None:intergenic | 40.0% |
| ! | TATTTGCTACGCCATGACAA+GGG | + | chr1.4:65752105-65752124 | None:intergenic | 40.0% |
| !! | CAGTGTATACTGTGCTACTT+GGG | - | chr1.4:65752068-65752087 | MS.gene69942:CDS | 40.0% |
| !!! | GTTGGTTTTGTGTTTCCTTG+TGG | - | chr1.4:65751951-65751970 | MS.gene69942:CDS | 40.0% |
| !!! | TATGGTTGGACTGCTTTTTG+TGG | - | chr1.4:65752123-65752142 | MS.gene69942:CDS | 40.0% |
| AATGGACAGGGTTACCAGAA+GGG | - | chr1.4:65752556-65752575 | MS.gene69942:CDS | 45.0% | |
| CATGGCGTAGCAAATATGGT+TGG | - | chr1.4:65752109-65752128 | MS.gene69942:CDS | 45.0% | |
| CCAAGTAGCACAGTATACAC+TGG | + | chr1.4:65752070-65752089 | None:intergenic | 45.0% | |
| GTATTCGTCACCTGCATCAT+CGG | + | chr1.4:65752442-65752461 | None:intergenic | 45.0% | |
| GTCAGAGTGCAAACAACGTT+AGG | - | chr1.4:65751992-65752011 | MS.gene69942:CDS | 45.0% | |
| TAACTGTAAGGTGACCCTTC+TGG | + | chr1.4:65752573-65752592 | None:intergenic | 45.0% | |
| ! | CCAGTGTATACTGTGCTACT+TGG | - | chr1.4:65752067-65752086 | MS.gene69942:CDS | 45.0% |
| ! | TCAGGTAACGGTGAGAATAG+TGG | - | chr1.4:65752474-65752493 | MS.gene69942:CDS | 45.0% |
| !! | ATAGTGGACCAGTGCTCAAA+TGG | - | chr1.4:65752490-65752509 | MS.gene69942:CDS | 45.0% |
| ATGCAAACCAGCCCTTGTCA+TGG | - | chr1.4:65752091-65752110 | MS.gene69942:CDS | 50.0% | |
| CAATGGACAGGGTTACCAGA+AGG | - | chr1.4:65752555-65752574 | MS.gene69942:CDS | 50.0% | |
| CAGGTGACGAATACTGCAAC+TGG | - | chr1.4:65752448-65752467 | MS.gene69942:CDS | 50.0% | |
| CCAACAGGCAGAGATTCTTG+CGG | - | chr1.4:65752156-65752175 | MS.gene69942:intron | 50.0% | |
| CTTCTGGTAACCCTGTCCAT+TGG | + | chr1.4:65752557-65752576 | None:intergenic | 50.0% | |
| GAATACTGCAACTGGTGCTC+AGG | - | chr1.4:65752456-65752475 | MS.gene69942:CDS | 50.0% | |
| TCACTAGCATCGTTCCCACA+AGG | + | chr1.4:65751969-65751988 | None:intergenic | 50.0% | |
| TGCAACTGGTGCTCAGGTAA+CGG | - | chr1.4:65752462-65752481 | MS.gene69942:CDS | 50.0% | |
| !!! | ACTGCTTTTTGTGGACCAGC+TGG | - | chr1.4:65752132-65752151 | MS.gene69942:intron | 50.0% |
| !!! | CTGCTTTTTGTGGACCAGCT+GGG | - | chr1.4:65752133-65752152 | MS.gene69942:intron | 50.0% |
| CCAGTCCACCATTTGAGCAC+TGG | + | chr1.4:65752501-65752520 | None:intergenic | 55.0% | |
| CCGCAAGAATCTCTGCCTGT+TGG | + | chr1.4:65752159-65752178 | None:intergenic | 55.0% | |
| GTGGACCAGTGCTCAAATGG+TGG | - | chr1.4:65752493-65752512 | MS.gene69942:CDS | 55.0% | |
| GTGGGAACGATGCTAGTGAG+TGG | - | chr1.4:65751970-65751989 | MS.gene69942:CDS | 55.0% | |
| ! | GTGGTGATGACCGATGATGC+AGG | - | chr1.4:65752429-65752448 | MS.gene69942:CDS | 55.0% |
| !! | CCAGTGCTCAAATGGTGGAC+TGG | - | chr1.4:65752498-65752517 | MS.gene69942:CDS | 55.0% |
| TGCTACGCCATGACAAGGGC+TGG | + | chr1.4:65752101-65752120 | None:intergenic | 60.0% | |
| TCTCTGCCTGTTGGCCCAGC+TGG | + | chr1.4:65752150-65752169 | None:intergenic | 65.0% | |
| TGTGGACCAGCTGGGCCAAC+AGG | - | chr1.4:65752141-65752160 | MS.gene69942:intron | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 65751922 | 65752675 | 65751922 | ID=MS.gene69942 |
| chr1.4 | mRNA | 65751922 | 65752675 | 65751922 | ID=MS.gene69942.t1;Parent=MS.gene69942 |
| chr1.4 | exon | 65752406 | 65752675 | 65752406 | ID=MS.gene69942.t1.exon1;Parent=MS.gene69942.t1 |
| chr1.4 | CDS | 65752406 | 65752675 | 65752406 | ID=cds.MS.gene69942.t1;Parent=MS.gene69942.t1 |
| chr1.4 | exon | 65751922 | 65752146 | 65751922 | ID=MS.gene69942.t1.exon2;Parent=MS.gene69942.t1 |
| chr1.4 | CDS | 65751922 | 65752146 | 65751922 | ID=cds.MS.gene69942.t1;Parent=MS.gene69942.t1 |
| Gene Sequence |
| Protein sequence |
