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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1263880 | XP_039689784.1 | 91.367 | 139 | 7 | 2 | 1 | 138 | 1 | 135 | 3.70e-74 | 227 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1263880 | G7JJ62 | 91.367 | 139 | 7 | 2 | 1 | 138 | 1 | 135 | 1.77e-74 | 227 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0132550 | Msa1263880 | 0.802967 | 4.362440e-49 | -8.615850e-47 |
| Msa1263840 | Msa1263880 | 0.920499 | 1.184559e-87 | -8.615850e-47 |
| Msa1263880 | Msa1367250 | 0.874797 | 5.099862e-68 | -8.615850e-47 |
| Msa1263880 | Msa1430360 | 0.814363 | 1.600653e-51 | -8.615850e-47 |
| Msa1223290 | Msa1263880 | 0.934467 | 3.859364e-96 | -8.615850e-47 |
| Msa0887620 | Msa1263880 | 0.807256 | 5.523252e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1263880 | MtrunA17_Chr4g0074761 | 91.367 | 139 | 7 | 2 | 1 | 138 | 1 | 135 | 3.40e-78 | 227 |
| Msa1263880 | MtrunA17_Chr4g0074741 | 69.014 | 142 | 34 | 5 | 1 | 138 | 1 | 136 | 1.36e-57 | 175 |
| Msa1263880 | MtrunA17_Chr2g0288321 | 49.650 | 143 | 49 | 6 | 1 | 138 | 1 | 125 | 1.52e-30 | 106 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 29 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGCTTTGCCTTCCTTGATTC+AGG | 0.178873 | 8_2:+67259911 | None:intergenic |
| GATGATTATTTGTAATTTCA+TGG | 0.249624 | 8_2:+67259624 | None:intergenic |
| GAGCGAACTCGCTGAATTAT+TGG | 0.258439 | 8_2:-67259762 | Msa1263880:CDS |
| AAGTTAATTAACATTCATTC+AGG | 0.322588 | 8_2:+67259575 | None:intergenic |
| CAGAAGGAGATTGATGTATT+AGG | 0.330408 | 8_2:-67259839 | Msa1263880:CDS |
| CTGCAGAAGAAGTTCTGTTT+AGG | 0.332908 | 8_2:-67259664 | Msa1263880:CDS |
| GCAGCAGATGAAGAAGAAAA+AGG | 0.371748 | 8_2:-67259696 | Msa1263880:CDS |
| AGCGAACTCGCTGAATTATT+GGG | 0.393306 | 8_2:-67259761 | Msa1263880:CDS |
| TGGAGTGGGTCGGAGAGGAC+TGG | 0.403882 | 8_2:-67259952 | Msa1263880:CDS |
| ACCTTGCTTGATGATGGATA+TGG | 0.406319 | 8_2:+67259890 | None:intergenic |
| TCAAACACCTTGCTTGATGA+TGG | 0.416575 | 8_2:+67259884 | None:intergenic |
| TTCTTCTTCATCTGCTGCTG+TGG | 0.454237 | 8_2:+67259701 | None:intergenic |
| GGAGTGGGTCGGAGAGGACT+GGG | 0.460819 | 8_2:-67259951 | Msa1263880:CDS |
| GAGAGGACTGGGAATCTTTG+AGG | 0.465583 | 8_2:-67259940 | Msa1263880:CDS |
| TTGCAAACCATCATCTTCAA+TGG | 0.494191 | 8_2:-67259972 | Msa1263880:CDS |
| ACCCACTCCATTGAAGATGA+TGG | 0.494750 | 8_2:+67259965 | None:intergenic |
| AAATTACAAATAATCATCAC+TGG | 0.529214 | 8_2:-67259619 | Msa1263880:CDS |
| AACCATCATCTTCAATGGAG+TGG | 0.534475 | 8_2:-67259967 | Msa1263880:CDS |
| TGAGGTCTAAACCTGAATCA+AGG | 0.541762 | 8_2:-67259922 | Msa1263880:CDS |
| TCAGGAATAGTCTCTAGCAC+TGG | 0.560488 | 8_2:+67259593 | None:intergenic |
| ACCATCATCTTCAATGGAGT+GGG | 0.563387 | 8_2:-67259966 | Msa1263880:CDS |
| GAGCTTCTTGTGACGCAAGT+GGG | 0.570204 | 8_2:-67259808 | Msa1263880:CDS |
| AGAGCTTCTTGTGACGCAAG+TGG | 0.586202 | 8_2:-67259809 | Msa1263880:CDS |
| TTCTTGTGACGCAAGTGGGA+AGG | 0.592803 | 8_2:-67259804 | Msa1263880:CDS |
| GTCTAAACCTGAATCAAGGA+AGG | 0.611894 | 8_2:-67259918 | Msa1263880:CDS |
| GCCATATCCATCATCAAGCA+AGG | 0.615763 | 8_2:-67259891 | Msa1263880:CDS |
| TAGTCTTGATCATCATCAGA+AGG | 0.617267 | 8_2:-67259855 | Msa1263880:CDS |
| TTCAATGGAGTGGGTCGGAG+AGG | 0.622877 | 8_2:-67259957 | Msa1263880:CDS |
| TCATCTTCAATGGAGTGGGT+CGG | 0.639140 | 8_2:-67259962 | Msa1263880:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTGTAATTTCATGGTTTT+TGG | + | chr8_2:67259944-67259963 | None:intergenic | 20.0% |
| !! | GATGATTATTTGTAATTTCA+TGG | + | chr8_2:67259951-67259970 | None:intergenic | 20.0% |
| !! | AAATTACAAATAATCATCAC+TGG | - | chr8_2:67259953-67259972 | Msa1263880:CDS | 20.0% |
| TTGCAAACCATCATCTTCAA+TGG | - | chr8_2:67259600-67259619 | Msa1263880:CDS | 35.0% | |
| ! | TAGTCTTGATCATCATCAGA+AGG | - | chr8_2:67259717-67259736 | Msa1263880:CDS | 35.0% |
| CAGAAGGAGATTGATGTATT+AGG | - | chr8_2:67259733-67259752 | Msa1263880:CDS | 35.0% | |
| AACCATCATCTTCAATGGAG+TGG | - | chr8_2:67259605-67259624 | Msa1263880:CDS | 40.0% | |
| ACCATCATCTTCAATGGAGT+GGG | - | chr8_2:67259606-67259625 | Msa1263880:CDS | 40.0% | |
| TGAGGTCTAAACCTGAATCA+AGG | - | chr8_2:67259650-67259669 | Msa1263880:CDS | 40.0% | |
| GTCTAAACCTGAATCAAGGA+AGG | - | chr8_2:67259654-67259673 | Msa1263880:CDS | 40.0% | |
| !! | ACCTTGCTTGATGATGGATA+TGG | + | chr8_2:67259685-67259704 | None:intergenic | 40.0% |
| TCAAACACCTTGCTTGATGA+TGG | + | chr8_2:67259691-67259710 | None:intergenic | 40.0% | |
| AGCGAACTCGCTGAATTATT+GGG | - | chr8_2:67259811-67259830 | Msa1263880:CDS | 40.0% | |
| GCAGCAGATGAAGAAGAAAA+AGG | - | chr8_2:67259876-67259895 | Msa1263880:CDS | 40.0% | |
| CTGCAGAAGAAGTTCTGTTT+AGG | - | chr8_2:67259908-67259927 | Msa1263880:CDS | 40.0% | |
| ACCCACTCCATTGAAGATGA+TGG | + | chr8_2:67259610-67259629 | None:intergenic | 45.0% | |
| TCATCTTCAATGGAGTGGGT+CGG | - | chr8_2:67259610-67259629 | Msa1263880:CDS | 45.0% | |
| GCCATATCCATCATCAAGCA+AGG | - | chr8_2:67259681-67259700 | Msa1263880:CDS | 45.0% | |
| GAGCGAACTCGCTGAATTAT+TGG | - | chr8_2:67259810-67259829 | Msa1263880:CDS | 45.0% | |
| TTCTTCTTCATCTGCTGCTG+TGG | + | chr8_2:67259874-67259893 | None:intergenic | 45.0% | |
| TCAGGAATAGTCTCTAGCAC+TGG | + | chr8_2:67259982-67260001 | None:intergenic | 45.0% | |
| GAGAGGACTGGGAATCTTTG+AGG | - | chr8_2:67259632-67259651 | Msa1263880:CDS | 50.0% | |
| GGCTTTGCCTTCCTTGATTC+AGG | + | chr8_2:67259664-67259683 | None:intergenic | 50.0% | |
| AGAGCTTCTTGTGACGCAAG+TGG | - | chr8_2:67259763-67259782 | Msa1263880:CDS | 50.0% | |
| GAGCTTCTTGTGACGCAAGT+GGG | - | chr8_2:67259764-67259783 | Msa1263880:CDS | 50.0% | |
| TTCTTGTGACGCAAGTGGGA+AGG | - | chr8_2:67259768-67259787 | Msa1263880:CDS | 50.0% | |
| TTCAATGGAGTGGGTCGGAG+AGG | - | chr8_2:67259615-67259634 | Msa1263880:CDS | 55.0% | |
| TGGAGTGGGTCGGAGAGGAC+TGG | - | chr8_2:67259620-67259639 | Msa1263880:CDS | 65.0% | |
| GGAGTGGGTCGGAGAGGACT+GGG | - | chr8_2:67259621-67259640 | Msa1263880:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 67259589 | 67260005 | 67259589 | ID=Msa1263880;Name=Msa1263880 |
| chr8_2 | mRNA | 67259589 | 67260005 | 67259589 | ID=Msa1263880-mRNA-1;Parent=Msa1263880;Name=Msa1263880-mRNA-1;_AED=0.26;_eAED=0.26;_QI=0|-1|0|1|-1|1|1|0|138 |
| chr8_2 | exon | 67259589 | 67260005 | 67259589 | ID=Msa1263880-mRNA-1:exon:22070;Parent=Msa1263880-mRNA-1 |
| chr8_2 | CDS | 67259589 | 67260005 | 67259589 | ID=Msa1263880-mRNA-1:cds;Parent=Msa1263880-mRNA-1 |
| Gene Sequence |
| Protein sequence |
