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.gene53939.t1 | XP_012568375.1 | 70.7 | 92 | 26 | 1 | 1 | 91 | 1 | 92 | 1.10E-26 | 129.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene53939.t1 | Q9SB61 | 44.2 | 86 | 41 | 2 | 8 | 93 | 5 | 83 | 7.7e-10 | 65.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene53939.t1 | A0A1S3DY42 | 70.7 | 92 | 26 | 1 | 1 | 91 | 1 | 92 | 7.6e-27 | 129.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene53939.t1 | TF | zf-HD |
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.gene53939.t1 | MTR_5g065440 | 80.851 | 94 | 17 | 1 | 1 | 94 | 1 | 93 | 3.34e-37 | 128 |
| MS.gene53939.t1 | MTR_7g070643 | 67.073 | 82 | 25 | 1 | 31 | 112 | 54 | 133 | 1.23e-31 | 111 |
| MS.gene53939.t1 | MTR_6g080300 | 70.690 | 58 | 17 | 0 | 37 | 94 | 32 | 89 | 2.67e-24 | 90.5 |
| MS.gene53939.t1 | MTR_3g100650 | 53.012 | 83 | 30 | 2 | 20 | 94 | 34 | 115 | 1.82e-17 | 77.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene53939.t1 | AT4G24660 | 45.349 | 86 | 40 | 2 | 8 | 93 | 5 | 83 | 8.49e-12 | 60.8 |
| MS.gene53939.t1 | AT4G24660 | 45.349 | 86 | 40 | 2 | 8 | 93 | 5 | 83 | 9.79e-12 | 60.8 |
| MS.gene53939.t1 | AT3G50890 | 67.568 | 37 | 12 | 0 | 57 | 93 | 58 | 94 | 5.06e-11 | 59.3 |
Find 26 sgRNAs with CRISPR-Local
Find 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAATCTCATCATAGAGAATT+TGG | 0.197551 | 3.2:+1098647 | None:intergenic |
| CATCATAGAGAATTTGGATT+TGG | 0.235332 | 3.2:+1098653 | None:intergenic |
| TGACGGTTGTTGCGAGTTTA+TGG | 0.243395 | 3.2:-1098826 | MS.gene53939:CDS |
| CGTGATTCTTCTGACATTCT+TGG | 0.260175 | 3.2:+1098874 | None:intergenic |
| GCTTGGAGAATTCAGAATTC+TGG | 0.289840 | 3.2:-1098763 | MS.gene53939:CDS |
| ATCATAGAGAATTTGGATTT+GGG | 0.356435 | 3.2:+1098654 | None:intergenic |
| TTCGGTGGCCACGCTGTTGA+CGG | 0.414354 | 3.2:-1098843 | MS.gene53939:CDS |
| AAGCTGTTATTTGCGCTGCT+TGG | 0.453807 | 3.2:-1098780 | MS.gene53939:CDS |
| CGAATCAGATTCGCTTATGT+TGG | 0.484764 | 3.2:-1098684 | MS.gene53939:CDS |
| GTTTATGGCTGCCGGTGAAA+AGG | 0.487572 | 3.2:-1098811 | MS.gene53939:CDS |
| AATGGAATTTGATGAACAAA+CGG | 0.488408 | 3.2:-1099051 | MS.gene53939:CDS |
| AAGAATCACGCTGTTAGCTT+CGG | 0.499674 | 3.2:-1098861 | MS.gene53939:CDS |
| AAACTCACCATCGTAGTTGA+CGG | 0.531063 | 3.2:-1098942 | MS.gene53939:CDS |
| AACGGAACAAGAAGAGGAGA+TGG | 0.536127 | 3.2:-1099033 | MS.gene53939:CDS |
| GAGTCATAACTCGTTGGCAC+TGG | 0.537593 | 3.2:+1098990 | None:intergenic |
| AATCACGCTGTTAGCTTCGG+TGG | 0.563601 | 3.2:-1098858 | MS.gene53939:CDS |
| ATCGTAGTTGACGGAAGGAA+AGG | 0.583477 | 3.2:-1098933 | MS.gene53939:CDS |
| TGAACAAACGGAACAAGAAG+AGG | 0.590353 | 3.2:-1099039 | MS.gene53939:CDS |
| CCAACGAGTTATGACTCACT+TGG | 0.611073 | 3.2:-1098984 | MS.gene53939:CDS |
| TGTTGCGAGTTTATGGCTGC+CGG | 0.619539 | 3.2:-1098819 | MS.gene53939:CDS |
| TTTCCTTCCGTCAACTACGA+TGG | 0.621872 | 3.2:+1098935 | None:intergenic |
| TCACCATCGTAGTTGACGGA+AGG | 0.639038 | 3.2:-1098938 | MS.gene53939:CDS |
| CCAAGTGAGTCATAACTCGT+TGG | 0.644449 | 3.2:+1098984 | None:intergenic |
| CGCAACAACCGTCAACAGCG+TGG | 0.700015 | 3.2:+1098835 | None:intergenic |
| GGAAGGAAAGGTAACGACAA+CGG | 0.717401 | 3.2:-1098921 | MS.gene53939:CDS |
| AGGAAAGGTAACGACAACGG+CGG | 0.798323 | 3.2:-1098918 | MS.gene53939:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ATCATAGAGAATTTGGATTT+GGG | + | chr3.2:1099019-1099038 | None:intergenic | 25.0% |
| ! | TAATCTCATCATAGAGAATT+TGG | + | chr3.2:1099026-1099045 | None:intergenic | 25.0% |
| CATCATAGAGAATTTGGATT+TGG | + | chr3.2:1099020-1099039 | None:intergenic | 30.0% | |
| AACAACACAAAAACAGGAAG+GGG | + | chr3.2:1098950-1098969 | None:intergenic | 35.0% | |
| ACAACAACACAAAAACAGGA+AGG | + | chr3.2:1098952-1098971 | None:intergenic | 35.0% | |
| CAACAACACAAAAACAGGAA+GGG | + | chr3.2:1098951-1098970 | None:intergenic | 35.0% | |
| !!! | TTCCTGTTTTTGTGTTGTTG+TGG | - | chr3.2:1098951-1098970 | MS.gene53939:CDS | 35.0% |
| AAACTCACCATCGTAGTTGA+CGG | - | chr3.2:1098728-1098747 | MS.gene53939:CDS | 40.0% | |
| ACAACACAAAAACAGGAAGG+GGG | + | chr3.2:1098949-1098968 | None:intergenic | 40.0% | |
| AGGAAGGGGGAATAAGAATT+CGG | + | chr3.2:1098936-1098955 | None:intergenic | 40.0% | |
| CACCACAACAACACAAAAAC+AGG | + | chr3.2:1098956-1098975 | None:intergenic | 40.0% | |
| CGAATCAGATTCGCTTATGT+TGG | - | chr3.2:1098986-1099005 | MS.gene53939:CDS | 40.0% | |
| CGTGATTCTTCTGACATTCT+TGG | + | chr3.2:1098799-1098818 | None:intergenic | 40.0% | |
| GCTTGGAGAATTCAGAATTC+TGG | - | chr3.2:1098907-1098926 | MS.gene53939:CDS | 40.0% | |
| TGAACAAACGGAACAAGAAG+AGG | - | chr3.2:1098631-1098650 | MS.gene53939:CDS | 40.0% | |
| ! | AAGAATCACGCTGTTAGCTT+CGG | - | chr3.2:1098809-1098828 | MS.gene53939:CDS | 40.0% |
| ! | CTTCAAGTGTTCCTTTTCAC+CGG | + | chr3.2:1098873-1098892 | None:intergenic | 40.0% |
| !!! | CTGTTTTTGTGTTGTTGTGG+TGG | - | chr3.2:1098954-1098973 | MS.gene53939:CDS | 40.0% |
| AACGGAACAAGAAGAGGAGA+TGG | - | chr3.2:1098637-1098656 | MS.gene53939:CDS | 45.0% | |
| ATCGTAGTTGACGGAAGGAA+AGG | - | chr3.2:1098737-1098756 | MS.gene53939:CDS | 45.0% | |
| CCAACGAGTTATGACTCACT+TGG | - | chr3.2:1098686-1098705 | MS.gene53939:CDS | 45.0% | |
| CCAAGTGAGTCATAACTCGT+TGG | + | chr3.2:1098689-1098708 | None:intergenic | 45.0% | |
| GGAAGGAAAGGTAACGACAA+CGG | - | chr3.2:1098749-1098768 | MS.gene53939:CDS | 45.0% | |
| TGACGGTTGTTGCGAGTTTA+TGG | - | chr3.2:1098844-1098863 | MS.gene53939:CDS | 45.0% | |
| TTTCCTTCCGTCAACTACGA+TGG | + | chr3.2:1098738-1098757 | None:intergenic | 45.0% | |
| ! | AAGCTGTTATTTGCGCTGCT+TGG | - | chr3.2:1098890-1098909 | MS.gene53939:CDS | 45.0% |
| !!! | GGCACTGGTGTTTGTGTTTT+TGG | + | chr3.2:1098668-1098687 | None:intergenic | 45.0% |
| AGGAAAGGTAACGACAACGG+CGG | - | chr3.2:1098752-1098771 | MS.gene53939:CDS | 50.0% | |
| GAGTCATAACTCGTTGGCAC+TGG | + | chr3.2:1098683-1098702 | None:intergenic | 50.0% | |
| GTTTATGGCTGCCGGTGAAA+AGG | - | chr3.2:1098859-1098878 | MS.gene53939:CDS | 50.0% | |
| TCACCATCGTAGTTGACGGA+AGG | - | chr3.2:1098732-1098751 | MS.gene53939:CDS | 50.0% | |
| TGTTGCGAGTTTATGGCTGC+CGG | - | chr3.2:1098851-1098870 | MS.gene53939:CDS | 50.0% | |
| ! | AATCACGCTGTTAGCTTCGG+TGG | - | chr3.2:1098812-1098831 | MS.gene53939:CDS | 50.0% |
| !!! | CAACGGCGGTTTTGTTTCGA+CGG | - | chr3.2:1098766-1098785 | MS.gene53939:CDS | 50.0% |
| !!! | GCGGTTTTGTTTCGACGGTG+AGG | - | chr3.2:1098771-1098790 | MS.gene53939:CDS | 55.0% |
| CGCAACAACCGTCAACAGCG+TGG | + | chr3.2:1098838-1098857 | None:intergenic | 60.0% | |
| TTCGGTGGCCACGCTGTTGA+CGG | - | chr3.2:1098827-1098846 | MS.gene53939:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 1098620 | 1099072 | 1098620 | ID=MS.gene53939 |
| chr3.2 | mRNA | 1098620 | 1099072 | 1098620 | ID=MS.gene53939.t1;Parent=MS.gene53939 |
| chr3.2 | exon | 1098620 | 1099072 | 1098620 | ID=MS.gene53939.t1.exon1;Parent=MS.gene53939.t1 |
| chr3.2 | CDS | 1098620 | 1099072 | 1098620 | ID=cds.MS.gene53939.t1;Parent=MS.gene53939.t1 |
| Gene Sequence |
| Protein sequence |
