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.gene85213.t1 | RHN76270.1 | 89.7 | 224 | 14 | 4 | 1 | 224 | 63 | 277 | 1.60E-82 | 315.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene85213.t1 | Q9SSM9 | 46.8 | 62 | 33 | 0 | 1 | 62 | 57 | 118 | 4.4e-09 | 63.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene85213.t1 | A0A396JDL2 | 89.7 | 224 | 14 | 4 | 1 | 224 | 63 | 277 | 1.1e-82 | 315.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene85213.t1 | TF | LOB |
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.gene85213.t1 | MTR_2g100020 | 87.892 | 223 | 18 | 4 | 1 | 223 | 63 | 276 | 1.25e-125 | 357 |
| MS.gene85213.t1 | MTR_8g017090 | 59.016 | 61 | 25 | 0 | 1 | 61 | 56 | 116 | 1.94e-17 | 79.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene85213.t1 | AT1G72980 | 45.570 | 79 | 42 | 1 | 1 | 78 | 57 | 135 | 7.76e-16 | 73.9 |
| MS.gene85213.t1 | AT3G13850 | 43.662 | 71 | 40 | 0 | 1 | 71 | 80 | 150 | 1.39e-11 | 62.8 |
Find 35 sgRNAs with CRISPR-Local
Find 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTTGTAAAGGAACATAATT+AGG | 0.133443 | 2.4:+4308143 | None:intergenic |
| AATCAATGAAATGAATTCTT+TGG | 0.228002 | 2.4:-4307976 | MS.gene85213:CDS |
| AAGAATTCATTTCATTGATT+AGG | 0.332115 | 2.4:+4307979 | None:intergenic |
| GCAACATGTTCATATTCAAT+TGG | 0.430357 | 2.4:+4308231 | None:intergenic |
| CTTGTAAAGGAACATAATTA+GGG | 0.440777 | 2.4:+4308144 | None:intergenic |
| TCAATCTGATATGCGTGCTA+TGG | 0.454015 | 2.4:-4308525 | MS.gene85213:CDS |
| CAGCAGAAGTAGTATTGATC+CGG | 0.456820 | 2.4:-4307946 | MS.gene85213:CDS |
| ACCGCTGTCGCCGTTGACAT+TGG | 0.480229 | 2.4:-4308087 | MS.gene85213:CDS |
| TAGTATTGATCCGGGGCACC+AGG | 0.481958 | 2.4:-4307937 | MS.gene85213:CDS |
| AATCGATAACAACCACCAAC+AGG | 0.487385 | 2.4:+4308500 | None:intergenic |
| CATAATAATAACGATGATGA+TGG | 0.501827 | 2.4:-4308314 | MS.gene85213:CDS |
| AGCAGAAGTAGTATTGATCC+GGG | 0.521215 | 2.4:-4307945 | MS.gene85213:CDS |
| AATTAACAAACCTGGTGCCC+CGG | 0.523440 | 2.4:+4307927 | None:intergenic |
| GTATTAAAATCCTCTTGTAA+AGG | 0.525655 | 2.4:+4308131 | None:intergenic |
| GAACGTGTTGGTGATGATCA+AGG | 0.525830 | 2.4:-4308026 | MS.gene85213:CDS |
| TGCAGCAGTTGCAGTTGTTG+AGG | 0.538937 | 2.4:+4308200 | None:intergenic |
| TCATCATTATAATGACATGC+AGG | 0.554364 | 2.4:-4308345 | MS.gene85213:CDS |
| ATCAATACTACTTCTGCTGT+TGG | 0.557959 | 2.4:+4307950 | None:intergenic |
| TAATTATGTTCCTTTACAAG+AGG | 0.560978 | 2.4:-4308141 | MS.gene85213:CDS |
| CACCAACTAATTAACAAACC+TGG | 0.563620 | 2.4:+4307919 | None:intergenic |
| TGCAGTTGTTGAGGTTGTTG+AGG | 0.566132 | 2.4:+4308209 | None:intergenic |
| GCTGTCGCCGTTGACATTGG+AGG | 0.577848 | 2.4:-4308084 | MS.gene85213:CDS |
| GACATTGGAGGGTAACAAGA+AGG | 0.582425 | 2.4:-4308072 | MS.gene85213:CDS |
| CTGTCGCCGTTGACATTGGA+GGG | 0.585568 | 2.4:-4308083 | MS.gene85213:CDS |
| CGTGCTATGGATCCTGTTGG+TGG | 0.590598 | 2.4:-4308512 | MS.gene85213:CDS |
| CAATATGTTGTTGATGATGT+CGG | 0.594144 | 2.4:-4308173 | MS.gene85213:CDS |
| TTGTTACCCTCCAATGTCAA+CGG | 0.595962 | 2.4:+4308077 | None:intergenic |
| GTATGATCTCTAAGATGAGG+TGG | 0.598062 | 2.4:+4308566 | None:intergenic |
| TCCAATGTCAACGGCGACAG+CGG | 0.601203 | 2.4:+4308086 | None:intergenic |
| ATAGTATGATCTCTAAGATG+AGG | 0.624071 | 2.4:+4308563 | None:intergenic |
| GGTAACAAGAAGGAGGAAGA+CGG | 0.630879 | 2.4:-4308062 | MS.gene85213:CDS |
| GAACAAGATCAAGAACGTGT+TGG | 0.646768 | 2.4:-4308038 | MS.gene85213:CDS |
| ATGCGTGCTATGGATCCTGT+TGG | 0.652692 | 2.4:-4308515 | MS.gene85213:CDS |
| ATTGGAGGGTAACAAGAAGG+AGG | 0.688764 | 2.4:-4308069 | MS.gene85213:CDS |
| GCAGAAGTAGTATTGATCCG+GGG | 0.729367 | 2.4:-4307944 | MS.gene85213:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATCAATGAAATGAATTCTT+TGG | - | chr2.4:4308534-4308553 | MS.gene85213:CDS | 20.0% |
| !!! | AAGAATTCATTTCATTGATT+AGG | + | chr2.4:4308534-4308553 | None:intergenic | 20.0% |
| ! | CATAATAATAACGATGATGA+TGG | - | chr2.4:4308196-4308215 | MS.gene85213:CDS | 25.0% |
| ! | CTTGTAAAGGAACATAATTA+GGG | + | chr2.4:4308369-4308388 | None:intergenic | 25.0% |
| ! | GTATTAAAATCCTCTTGTAA+AGG | + | chr2.4:4308382-4308401 | None:intergenic | 25.0% |
| ! | TAATTATGTTCCTTTACAAG+AGG | - | chr2.4:4308369-4308388 | MS.gene85213:CDS | 25.0% |
| ! | TCTTGTAAAGGAACATAATT+AGG | + | chr2.4:4308370-4308389 | None:intergenic | 25.0% |
| !! | TTCATTGATTAGGTCAAAAA+CGG | + | chr2.4:4308524-4308543 | None:intergenic | 25.0% |
| !!! | ACAAGAGGATTTTAATACAT+GGG | - | chr2.4:4308384-4308403 | MS.gene85213:CDS | 25.0% |
| !!! | TACAAGAGGATTTTAATACA+TGG | - | chr2.4:4308383-4308402 | MS.gene85213:CDS | 25.0% |
| GCAACATGTTCATATTCAAT+TGG | + | chr2.4:4308282-4308301 | None:intergenic | 30.0% | |
| TCATCATTATAATGACATGC+AGG | - | chr2.4:4308165-4308184 | MS.gene85213:CDS | 30.0% | |
| ! | TCATTGATTAGGTCAAAAAC+GGG | + | chr2.4:4308523-4308542 | None:intergenic | 30.0% |
| !! | ATAGTATGATCTCTAAGATG+AGG | + | chr2.4:4307950-4307969 | None:intergenic | 30.0% |
| !! | CAATATGTTGTTGATGATGT+CGG | - | chr2.4:4308337-4308356 | MS.gene85213:CDS | 30.0% |
| ATCAATACTACTTCTGCTGT+TGG | + | chr2.4:4308563-4308582 | None:intergenic | 35.0% | |
| AATCGATAACAACCACCAAC+AGG | + | chr2.4:4308013-4308032 | None:intergenic | 40.0% | |
| GAACAAGATCAAGAACGTGT+TGG | - | chr2.4:4308472-4308491 | MS.gene85213:CDS | 40.0% | |
| TCAATCTGATATGCGTGCTA+TGG | - | chr2.4:4307985-4308004 | MS.gene85213:CDS | 40.0% | |
| TTGTTACCCTCCAATGTCAA+CGG | + | chr2.4:4308436-4308455 | None:intergenic | 40.0% | |
| !! | AGCAGAAGTAGTATTGATCC+GGG | - | chr2.4:4308565-4308584 | MS.gene85213:CDS | 40.0% |
| !! | CAGCAGAAGTAGTATTGATC+CGG | - | chr2.4:4308564-4308583 | MS.gene85213:CDS | 40.0% |
| !! | GTATGATCTCTAAGATGAGG+TGG | + | chr2.4:4307947-4307966 | None:intergenic | 40.0% |
| ATTGGAGGGTAACAAGAAGG+AGG | - | chr2.4:4308441-4308460 | MS.gene85213:CDS | 45.0% | |
| GACATTGGAGGGTAACAAGA+AGG | - | chr2.4:4308438-4308457 | MS.gene85213:CDS | 45.0% | |
| GGTAACAAGAAGGAGGAAGA+CGG | - | chr2.4:4308448-4308467 | MS.gene85213:CDS | 45.0% | |
| TGCAGTTGTTGAGGTTGTTG+AGG | + | chr2.4:4308304-4308323 | None:intergenic | 45.0% | |
| !! | GAACGTGTTGGTGATGATCA+AGG | - | chr2.4:4308484-4308503 | MS.gene85213:CDS | 45.0% |
| !! | GCAGAAGTAGTATTGATCCG+GGG | - | chr2.4:4308566-4308585 | MS.gene85213:CDS | 45.0% |
| ATGCGTGCTATGGATCCTGT+TGG | - | chr2.4:4307995-4308014 | MS.gene85213:CDS | 50.0% | |
| TGCAGCAGTTGCAGTTGTTG+AGG | + | chr2.4:4308313-4308332 | None:intergenic | 50.0% | |
| CGTGCTATGGATCCTGTTGG+TGG | - | chr2.4:4307998-4308017 | MS.gene85213:CDS | 55.0% | |
| CTGTCGCCGTTGACATTGGA+GGG | - | chr2.4:4308427-4308446 | MS.gene85213:CDS | 55.0% | |
| TCCAATGTCAACGGCGACAG+CGG | + | chr2.4:4308427-4308446 | None:intergenic | 55.0% | |
| !! | TAGTATTGATCCGGGGCACC+AGG | - | chr2.4:4308573-4308592 | MS.gene85213:CDS | 55.0% |
| ACCGCTGTCGCCGTTGACAT+TGG | - | chr2.4:4308423-4308442 | MS.gene85213:CDS | 60.0% | |
| GCTGTCGCCGTTGACATTGG+AGG | - | chr2.4:4308426-4308445 | MS.gene85213:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2.4 | gene | 4307929 | 4308603 | 4307929 | ID=MS.gene85213 |
| chr2.4 | mRNA | 4307929 | 4308603 | 4307929 | ID=MS.gene85213.t1;Parent=MS.gene85213 |
| chr2.4 | exon | 4307929 | 4308603 | 4307929 | ID=MS.gene85213.t1.exon1;Parent=MS.gene85213.t1 |
| chr2.4 | CDS | 4307929 | 4308603 | 4307929 | ID=cds.MS.gene85213.t1;Parent=MS.gene85213.t1 |
| Gene Sequence |
| Protein sequence |
