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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0080890 | KEH16426.1 | 96.629 | 89 | 3 | 0 | 1 | 89 | 1 | 89 | 1.25e-56 | 179 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0080890 | A0A072TFW8 | 96.629 | 89 | 3 | 0 | 1 | 89 | 1 | 89 | 5.96e-57 | 179 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0080890 | Msa0132040 | 0.939836 | 6.491850e-100 | -8.615850e-47 |
| Msa0080890 | Msa1339590 | 0.806016 | 1.009173e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0080890 | MtrunA17_Chr1g0193291 | 96.629 | 89 | 3 | 0 | 1 | 89 | 1 | 89 | 1.15e-60 | 179 |
| Msa0080890 | MtrunA17_Chr1g0193231 | 85.714 | 91 | 11 | 2 | 1 | 89 | 1 | 91 | 1.75e-44 | 138 |
| Msa0080890 | MtrunA17_Chr1g0193301 | 78.261 | 92 | 17 | 2 | 1 | 89 | 1 | 92 | 8.20e-44 | 137 |
| Msa0080890 | MtrunA17_Chr1g0193261 | 84.615 | 91 | 12 | 2 | 1 | 89 | 1 | 91 | 1.44e-42 | 134 |
| Msa0080890 | MtrunA17_Chr7g0271321 | 62.069 | 87 | 27 | 3 | 1 | 86 | 1 | 82 | 3.52e-30 | 102 |
| Msa0080890 | MtrunA17_Chr1g0193271 | 51.724 | 87 | 36 | 4 | 1 | 87 | 1 | 81 | 1.11e-20 | 78.2 |
| Msa0080890 | MtrunA17_Chr1g0193251 | 50.000 | 86 | 36 | 4 | 2 | 87 | 3 | 81 | 3.45e-15 | 64.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 17 sgRNAs with CRISPR-Local
Find 13 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGATGAAGATAGAGGTAGTT+GGG | 0.344602 | 1_2:+59310938 | Msa0080890:CDS |
| TTTCTGAATCTGAAATTCAT+TGG | 0.368562 | 1_2:+59311024 | Msa0080890:CDS |
| AGTCTTCTAAATCATCATTC+AGG | 0.386784 | 1_2:+59310820 | Msa0080890:CDS |
| GTAGCTCTCATGTCAATAAC+AGG | 0.406659 | 1_2:-59310972 | None:intergenic |
| TTGTTCCTATCCTACTGCTC+AGG | 0.487990 | 1_2:-59311056 | None:intergenic |
| CTACCTCTATCTTCATCACT+TGG | 0.508941 | 1_2:-59310933 | None:intergenic |
| AGTAACAAGCAAAGAGGTGG+AGG | 0.512782 | 1_2:+59310870 | Msa0080890:CDS |
| GTGATGAAGATAGAGGTAGT+TGG | 0.534465 | 1_2:+59310937 | Msa0080890:CDS |
| GGAGGAGAGTATTATGATCA+TGG | 0.541749 | 1_2:+59310888 | Msa0080890:CDS |
| GCAAGCTCAACCTGAGCAGT+AGG | 0.571489 | 1_2:+59311046 | Msa0080890:CDS |
| TGGCCAAGTGATGAAGATAG+AGG | 0.579214 | 1_2:+59310930 | Msa0080890:CDS |
| AGCAGTAACAAGCAAAGAGG+TGG | 0.595597 | 1_2:+59310867 | Msa0080890:CDS |
| GATGAAGATAGAGGTAGTTG+GGG | 0.608901 | 1_2:+59310939 | Msa0080890:CDS |
| TTTCTCTCTTGTAAAATGGG+AGG | 0.608993 | 1_2:+59310783 | None:intergenic |
| AAATGGGAGGAAACAATCAA+AGG | 0.621803 | 1_2:+59310796 | None:intergenic |
| TCTAGCAGTAACAAGCAAAG+AGG | 0.646145 | 1_2:+59310864 | Msa0080890:CDS |
| GTGCTTATGCTAACAAAGTG+TGG | 0.723534 | 1_2:+59310910 | Msa0080890:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTCTGAATCTGAAATTCAT+TGG | + | chr1_2:59311024-59311043 | Msa0080890:CDS | 25.0% |
| AGTCTTCTAAATCATCATTC+AGG | + | chr1_2:59310820-59310839 | Msa0080890:CDS | 30.0% | |
| TGATGAAGATAGAGGTAGTT+GGG | + | chr1_2:59310938-59310957 | Msa0080890:CDS | 35.0% | |
| TCTAGCAGTAACAAGCAAAG+AGG | + | chr1_2:59310864-59310883 | Msa0080890:CDS | 40.0% | |
| !! | GGAGGAGAGTATTATGATCA+TGG | + | chr1_2:59310888-59310907 | Msa0080890:CDS | 40.0% |
| GTGCTTATGCTAACAAAGTG+TGG | + | chr1_2:59310910-59310929 | Msa0080890:CDS | 40.0% | |
| CTACCTCTATCTTCATCACT+TGG | - | chr1_2:59310936-59310955 | None:intergenic | 40.0% | |
| GTGATGAAGATAGAGGTAGT+TGG | + | chr1_2:59310937-59310956 | Msa0080890:CDS | 40.0% | |
| GATGAAGATAGAGGTAGTTG+GGG | + | chr1_2:59310939-59310958 | Msa0080890:CDS | 40.0% | |
| GTAGCTCTCATGTCAATAAC+AGG | - | chr1_2:59310975-59310994 | None:intergenic | 40.0% | |
| AGCAGTAACAAGCAAAGAGG+TGG | + | chr1_2:59310867-59310886 | Msa0080890:CDS | 45.0% | |
| AGTAACAAGCAAAGAGGTGG+AGG | + | chr1_2:59310870-59310889 | Msa0080890:CDS | 45.0% | |
| TGGCCAAGTGATGAAGATAG+AGG | + | chr1_2:59310930-59310949 | Msa0080890:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 59310798 | 59311067 | 59310798 | ID=Msa0080890;Name=Msa0080890 |
| chr1_2 | mRNA | 59310798 | 59311067 | 59310798 | ID=Msa0080890-mRNA-1;Parent=Msa0080890;Name=Msa0080890-mRNA-1;_AED=0.34;_eAED=0.34;_QI=0|-1|0|1|-1|1|1|0|89 |
| chr1_2 | exon | 59310798 | 59311067 | 59310798 | ID=Msa0080890-mRNA-1:exon:19182;Parent=Msa0080890-mRNA-1 |
| chr1_2 | CDS | 59310798 | 59311067 | 59310798 | ID=Msa0080890-mRNA-1:cds;Parent=Msa0080890-mRNA-1 |
| Gene Sequence |
| Protein sequence |
