Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0417030 | AES71259.1 | 98.592 | 71 | 1 | 0 | 1 | 71 | 1 | 71 | 1.05e-41 | 140 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0417030 | G7J2F4 | 98.592 | 71 | 1 | 0 | 1 | 71 | 1 | 71 | 5.01e-42 | 140 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0072420 | Msa0417030 | 0.814761 | 1.306454e-51 | -8.615850e-47 |
| Msa0104670 | Msa0417030 | 0.800308 | 1.532064e-48 | -8.615850e-47 |
| Msa0120880 | Msa0417030 | 0.817309 | 3.525109e-52 | -8.615850e-47 |
| Msa0173800 | Msa0417030 | 0.827604 | 1.427672e-54 | -8.615850e-47 |
| Msa0204960 | Msa0417030 | 0.857393 | 1.682522e-62 | -8.615850e-47 |
| Msa0217670 | Msa0417030 | 0.837237 | 5.852591e-57 | -8.615850e-47 |
| Msa0223330 | Msa0417030 | 0.805886 | 1.074799e-49 | -8.615850e-47 |
| Msa0369610 | Msa0417030 | 0.984528 | 8.030678e-161 | -8.615850e-47 |
| Msa0385500 | Msa0417030 | 0.834857 | 2.351504e-56 | -8.615850e-47 |
| Msa0417030 | Msa0463850 | 0.916023 | 2.929716e-85 | -8.615850e-47 |
| Msa0417030 | Msa0482940 | 0.803981 | 2.689089e-49 | -8.615850e-47 |
| Msa0417030 | Msa0547160 | 0.803823 | 2.899860e-49 | -8.615850e-47 |
| Msa0417030 | Msa0622790 | 0.800901 | 1.159762e-48 | -8.615850e-47 |
| Msa0417030 | Msa0682680 | 0.810814 | 9.561420e-51 | -8.615850e-47 |
| Msa0417030 | Msa0958000 | 0.818119 | 2.314483e-52 | -8.615850e-47 |
| Msa0417030 | Msa1002960 | 0.803811 | 2.917552e-49 | -8.615850e-47 |
| Msa0417030 | Msa1037520 | 0.809914 | 1.494782e-50 | -8.615850e-47 |
| Msa0417030 | Msa1271130 | 0.803527 | 3.340995e-49 | -8.615850e-47 |
| Msa0417030 | Msa1370590 | 0.802886 | 4.534661e-49 | -8.615850e-47 |
| Msa0417030 | Msa1384100 | 0.805634 | 1.214012e-49 | -8.615850e-47 |
| Msa0417030 | Msa1392980 | 0.801718 | 7.887525e-49 | -8.615850e-47 |
| Msa0417030 | Msa1444120 | 0.803799 | 2.933566e-49 | -8.615850e-47 |
| Msa0257490 | Msa0417030 | 0.822660 | 2.103601e-53 | -8.615850e-47 |
| Msa0281530 | Msa0417030 | 0.829889 | 3.997957e-55 | -8.615850e-47 |
| Msa0296790 | Msa0417030 | 0.839143 | 1.889588e-57 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0417030 | MtrunA17_Chr3g0114271 | 98.592 | 71 | 1 | 0 | 1 | 71 | 1 | 71 | 9.64e-46 | 140 |
| Msa0417030 | MtrunA17_Chr5g0437891 | 85.507 | 69 | 10 | 0 | 1 | 69 | 1 | 69 | 6.75e-28 | 95.5 |
| Msa0417030 | MtrunA17_Chr1g0198341 | 32.857 | 70 | 47 | 0 | 2 | 71 | 3 | 72 | 2.34e-11 | 53.9 |
| Msa0417030 | MtrunA17_Chr4g0067291 | 44.828 | 58 | 32 | 0 | 7 | 64 | 78 | 135 | 2.96e-11 | 57.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0417030 | AT5G05365.1 | 73.529 | 68 | 18 | 0 | 1 | 68 | 1 | 68 | 1.94e-30 | 102 |
Find 12 sgRNAs with CRISPR-Local
Find 25 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTAAACTAAAATTTCAATTA+TGG | 0.153724 | 3_2:+64112730 | None:intergenic |
| ATTAGAGTCCTTCACAAAAT+TGG | 0.192675 | 3_2:-64112789 | Msa0417030:CDS |
| TAAACTAAAATTTCAATTAT+GGG | 0.274782 | 3_2:+64112731 | None:intergenic |
| TTATATAATATATATGTTCA+TGG | 0.362890 | 3_2:-64112650 | Msa0417030:three_prime_UTR |
| CTGAACAAGGTTATTGTTAC+GGG | 0.372260 | 3_2:-64112834 | Msa0417030:CDS |
| GCTGAACAAGGTTATTGTTA+CGG | 0.424660 | 3_2:-64112835 | Msa0417030:CDS |
| GGTTTAAGCAGCATCTTCAA+AGG | 0.529778 | 3_2:+64112752 | None:intergenic |
| GTTTAAGCAGCATCTTCAAA+GGG | 0.559014 | 3_2:+64112753 | None:intergenic |
| CGTGGACACAAAGCTGAACA+AGG | 0.593500 | 3_2:-64112847 | Msa0417030:CDS |
| CAGGTGGTGGAAGTCAAAGT+CGG | 0.656628 | 3_2:-64113074 | Msa0417030:CDS |
| TTGTATCAAGAAAATCCTCA+AGG | 0.661316 | 3_2:-64113036 | Msa0417030:CDS |
| AGATATTGAAACGTATAACG+TGG | 0.667545 | 3_2:-64112865 | Msa0417030:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAAACTAAAATTTCAATTAT+GGG | + | chr3_2:64113096-64113115 | None:intergenic | 10.0% |
| !! | TTATATAATATATATGTTCA+TGG | - | chr3_2:64113174-64113193 | Msa0417030:intron | 10.0% |
| !! | ATATTATATAAGAACAACTA+AGG | + | chr3_2:64112926-64112945 | None:intergenic | 15.0% |
| !! | CTAAACTAAAATTTCAATTA+TGG | + | chr3_2:64113097-64113116 | None:intergenic | 15.0% |
| !! | TAGAAATTTTACAATCAGCA+TGG | - | chr3_2:64112633-64112652 | Msa0417030:three_prime_UTR | 25.0% |
| ! | AACAAAAGAAAGATGTTCAA+TGG | + | chr3_2:64112675-64112694 | None:intergenic | 25.0% |
| !!! | AGAACCTTGAATTTTTTTGA+TGG | + | chr3_2:64112814-64112833 | None:intergenic | 25.0% |
| !!! | GTAGCTATGTTAGATTTTTT+GGG | + | chr3_2:64112851-64112870 | None:intergenic | 25.0% |
| !!! | AGTAGCTATGTTAGATTTTT+TGG | + | chr3_2:64112852-64112871 | None:intergenic | 25.0% |
| !!! | TGTTTTTGAGAAAATTAAGC+AGG | + | chr3_2:64113145-64113164 | None:intergenic | 25.0% |
| ! | TTTTCTTATGTGTCATCATC+AGG | - | chr3_2:64112731-64112750 | Msa0417030:three_prime_UTR | 30.0% |
| TTGTATCAAGAAAATCCTCA+AGG | - | chr3_2:64112788-64112807 | Msa0417030:CDS | 30.0% | |
| AAGGCCATCAAAAAAATTCA+AGG | - | chr3_2:64112807-64112826 | Msa0417030:CDS | 30.0% | |
| AGATATTGAAACGTATAACG+TGG | - | chr3_2:64112959-64112978 | Msa0417030:intron | 30.0% | |
| ATTAGAGTCCTTCACAAAAT+TGG | - | chr3_2:64113035-64113054 | Msa0417030:CDS | 30.0% | |
| ! | CATTCTTTCCAATTTTGTGA+AGG | + | chr3_2:64113046-64113065 | None:intergenic | 30.0% |
| !!! | GAATTTTTTTGATGGCCTTG+AGG | + | chr3_2:64112806-64112825 | None:intergenic | 35.0% |
| GCTGAACAAGGTTATTGTTA+CGG | - | chr3_2:64112989-64113008 | Msa0417030:intron | 35.0% | |
| CTGAACAAGGTTATTGTTAC+GGG | - | chr3_2:64112990-64113009 | Msa0417030:intron | 35.0% | |
| GTTTAAGCAGCATCTTCAAA+GGG | + | chr3_2:64113074-64113093 | None:intergenic | 35.0% | |
| TCTTATGTGTCATCATCAGG+TGG | - | chr3_2:64112734-64112753 | Msa0417030:three_prime_UTR | 40.0% | |
| GGTTTAAGCAGCATCTTCAA+AGG | + | chr3_2:64113075-64113094 | None:intergenic | 40.0% | |
| TATGTGTCATCATCAGGTGG+TGG | - | chr3_2:64112737-64112756 | Msa0417030:exon | 45.0% | |
| !! | CAGGTGGTGGAAGTCAAAGT+CGG | - | chr3_2:64112750-64112769 | Msa0417030:exon | 50.0% |
| CGTGGACACAAAGCTGAACA+AGG | - | chr3_2:64112977-64112996 | Msa0417030:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 64112612 | 64113234 | 64112612 | ID=Msa0417030;Name=Msa0417030 |
| chr3_2 | mRNA | 64112612 | 64113234 | 64112612 | ID=Msa0417030-mRNA-1;Parent=Msa0417030;Name=Msa0417030-mRNA-1;_AED=0.13;_eAED=0.13;_QI=40|1|1|1|1|1|3|143|71 |
| chr3_2 | exon | 64112612 | 64112885 | 64112612 | ID=Msa0417030-mRNA-1:exon:14139;Parent=Msa0417030-mRNA-1 |
| chr3_2 | exon | 64113018 | 64113093 | 64113018 | ID=Msa0417030-mRNA-1:exon:14138;Parent=Msa0417030-mRNA-1 |
| chr3_2 | exon | 64113186 | 64113234 | 64113186 | ID=Msa0417030-mRNA-1:exon:14137;Parent=Msa0417030-mRNA-1 |
| chr3_2 | five_prime_UTR | 64113195 | 64113234 | 64113195 | ID=Msa0417030-mRNA-1:five_prime_utr;Parent=Msa0417030-mRNA-1 |
| chr3_2 | CDS | 64113186 | 64113194 | 64113186 | ID=Msa0417030-mRNA-1:cds;Parent=Msa0417030-mRNA-1 |
| chr3_2 | CDS | 64113018 | 64113093 | 64113018 | ID=Msa0417030-mRNA-1:cds;Parent=Msa0417030-mRNA-1 |
| chr3_2 | CDS | 64112755 | 64112885 | 64112755 | ID=Msa0417030-mRNA-1:cds;Parent=Msa0417030-mRNA-1 |
| chr3_2 | three_prime_UTR | 64112612 | 64112754 | 64112612 | ID=Msa0417030-mRNA-1:three_prime_utr;Parent=Msa0417030-mRNA-1 |
| Gene Sequence |
| Protein sequence |
