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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0275720 | XP_013462780.1 | 72.973 | 185 | 38 | 2 | 8 | 180 | 11 | 195 | 4.86e-69 | 218 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0275720 | A0A072V585 | 72.973 | 185 | 38 | 2 | 8 | 180 | 11 | 195 | 2.32e-69 | 218 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0043980 | Msa0275720 | 0.816894 | 4.371368e-52 | -8.615850e-47 |
| Msa0151180 | Msa0275720 | 0.815166 | 1.062588e-51 | -8.615850e-47 |
| Msa0196410 | Msa0275720 | 0.817793 | 2.742179e-52 | -8.615850e-47 |
| Msa0206010 | Msa0275720 | 0.814521 | 1.476903e-51 | -8.615850e-47 |
| Msa0238320 | Msa0275720 | 0.834218 | 3.402536e-56 | -8.615850e-47 |
| Msa0275720 | Msa0287410 | 0.805354 | 1.389836e-49 | -8.615850e-47 |
| Msa0275720 | Msa0326110 | 0.825461 | 4.628703e-54 | -8.615850e-47 |
| Msa0275720 | Msa0426900 | 0.801658 | 8.115399e-49 | -8.615850e-47 |
| Msa0275720 | Msa0617640 | 0.804945 | 1.692620e-49 | -8.615850e-47 |
| Msa0275720 | Msa0999100 | 0.813824 | 2.104343e-51 | -8.615850e-47 |
| Msa0275720 | Msa1305660 | 0.804038 | 2.616406e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0275720 | MtrunA17_Chr2g0288061 | 72.316 | 177 | 37 | 2 | 8 | 172 | 11 | 187 | 3.30e-67 | 203 |
| Msa0275720 | MtrunA17_Chr2g0287321 | 32.222 | 180 | 91 | 3 | 1 | 172 | 11 | 167 | 1.56e-17 | 75.9 |
| Msa0275720 | MtrunA17_Chr2g0286581 | 32.620 | 187 | 104 | 5 | 1 | 174 | 12 | 189 | 3.06e-16 | 73.2 |
| Msa0275720 | MtrunA17_Chr2g0287371 | 54.430 | 79 | 28 | 1 | 1 | 71 | 5 | 83 | 1.18e-15 | 72.0 |
| Msa0275720 | MtrunA17_Chr2g0287401 | 31.319 | 182 | 92 | 2 | 1 | 174 | 2 | 158 | 3.80e-15 | 69.3 |
| Msa0275720 | MtrunA17_Chr2g0287311 | 47.297 | 74 | 31 | 1 | 1 | 66 | 12 | 85 | 2.24e-12 | 62.8 |
| Msa0275720 | MtrunA17_Chr2g0287391 | 34.043 | 188 | 97 | 6 | 2 | 174 | 3 | 178 | 7.22e-12 | 60.8 |
| Msa0275720 | MtrunA17_Chr1g0156951 | 31.330 | 233 | 91 | 9 | 1 | 174 | 1 | 223 | 3.37e-11 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 28 sgRNAs with CRISPR-Local
Find 76 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCTTCGAAAAGAAGAGGATT+TGG | 0.329420 | 2_3:+7893040 | Msa0275720:CDS |
| AACGGACCTGCAGAATGTTT+TGG | 0.341546 | 2_3:-7893553 | None:intergenic |
| GGAAGACTTTAATCGTTTAA+CGG | 0.443117 | 2_3:-7893012 | None:intergenic |
| CATTCATGACTTGAGATAAA+CGG | 0.459596 | 2_3:-7893571 | None:intergenic |
| GGCGCTGATGGCGGAAGGCA+CGG | 0.460933 | 2_3:+7892803 | None:intergenic |
| CGCTTGGTTCAACTCTAGAA+AGG | 0.462208 | 2_3:-7892872 | None:intergenic |
| CGAGTTGCTTCGAAAAGAAG+AGG | 0.487698 | 2_3:+7893034 | Msa0275720:CDS |
| CAAGCGTTTATCTGCAATTG+AGG | 0.488368 | 2_3:+7892889 | Msa0275720:CDS |
| ATTTCGATAATCAGATCCTC+CGG | 0.496089 | 2_3:-7892849 | None:intergenic |
| CTCAATTGCAGATAAACGCT+TGG | 0.514934 | 2_3:-7892888 | None:intergenic |
| GTGTCTCCAAAACATTCTGC+AGG | 0.545478 | 2_3:+7893547 | Msa0275720:CDS |
| TATTGAGTTTCTGCGGCAGA+AGG | 0.548094 | 2_3:+7893424 | Msa0275720:CDS |
| GCAGAAGGAGGCAGTTCCGT+TGG | 0.553372 | 2_3:+7893439 | Msa0275720:CDS |
| TGAAGAAGAGGAGAAAGAAT+CGG | 0.556114 | 2_3:+7893388 | Msa0275720:intron |
| GTCACAGAACGCGATACTCC+CGG | 0.563110 | 2_3:+7892830 | Msa0275720:CDS |
| CGAAAAGAAGAGGATTTGGA+TGG | 0.572187 | 2_3:+7893044 | Msa0275720:CDS |
| AATTGAGGTGCGTATGCAAA+TGG | 0.587049 | 2_3:+7892904 | Msa0275720:CDS |
| ACGACGGCGCTGATGGCGGA+AGG | 0.604197 | 2_3:+7892798 | None:intergenic |
| TGAGTTTCTGCGGCAGAAGG+AGG | 0.614751 | 2_3:+7893427 | Msa0275720:CDS |
| TGAAGAAGAGGAAGATGACG+AGG | 0.620285 | 2_3:+7893127 | Msa0275720:CDS |
| TTTCGATAATCAGATCCTCC+GGG | 0.622988 | 2_3:-7892848 | None:intergenic |
| CAGAGATGAAATGCAAATAG+CGG | 0.644769 | 2_3:+7893511 | Msa0275720:CDS |
| AAGTAGTTATTGAGTTTCTG+CGG | 0.650429 | 2_3:+7893417 | Msa0275720:CDS |
| AGATGAAATGCAAATAGCGG+AGG | 0.653702 | 2_3:+7893514 | Msa0275720:CDS |
| TGAGGTGCGTATGCAAATGG+TGG | 0.665483 | 2_3:+7892907 | Msa0275720:CDS |
| AAGAGGAGAAAGAATCGGCG+TGG | 0.679826 | 2_3:+7893393 | Msa0275720:intron |
| GCTGATGGCGGAAGGCACGG+CGG | 0.728631 | 2_3:+7892806 | None:intergenic |
| ACAGAACGCGATACTCCCGG+AGG | 0.809853 | 2_3:+7892833 | Msa0275720:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATAATTTTTTGAAGATTTTG+AGG | + | chr2_3:7893462-7893481 | Msa0275720:CDS | 15.0% |
| !!! | TAATTTTTTGAAGATTTTGA+GGG | + | chr2_3:7893463-7893482 | Msa0275720:CDS | 15.0% |
| !!! | ATAATTTTTTGAAGATTTTG+AGG | + | chr2_3:7893462-7893481 | Msa0275720:CDS | 15.0% |
| !!! | TAATTTTTTGAAGATTTTGA+GGG | + | chr2_3:7893463-7893482 | Msa0275720:CDS | 15.0% |
| !!! | TGTTTTTGATCGTTATTTAT+TGG | + | chr2_3:7892938-7892957 | Msa0275720:intron | 20.0% |
| !! | ATCTTCAAAAAATTATCCAA+CGG | - | chr2_3:7893458-7893477 | None:intergenic | 20.0% |
| !!! | AATTTTTTGAAGATTTTGAG+GGG | + | chr2_3:7893464-7893483 | Msa0275720:CDS | 20.0% |
| !!! | TGTTTTTGATCGTTATTTAT+TGG | + | chr2_3:7892938-7892957 | Msa0275720:intron | 20.0% |
| !! | ATCTTCAAAAAATTATCCAA+CGG | - | chr2_3:7893458-7893477 | None:intergenic | 20.0% |
| !!! | AATTTTTTGAAGATTTTGAG+GGG | + | chr2_3:7893464-7893483 | Msa0275720:CDS | 20.0% |
| GGAAGACTTTAATCGTTTAA+CGG | - | chr2_3:7893015-7893034 | None:intergenic | 30.0% | |
| !! | AGAAGATTTTGATGAAGAAG+AGG | + | chr2_3:7893115-7893134 | Msa0275720:CDS | 30.0% |
| AAGTAGTTATTGAGTTTCTG+CGG | + | chr2_3:7893417-7893436 | Msa0275720:CDS | 30.0% | |
| CATTCATGACTTGAGATAAA+CGG | - | chr2_3:7893574-7893593 | None:intergenic | 30.0% | |
| GGAAGACTTTAATCGTTTAA+CGG | - | chr2_3:7893015-7893034 | None:intergenic | 30.0% | |
| !! | AGAAGATTTTGATGAAGAAG+AGG | + | chr2_3:7893115-7893134 | Msa0275720:CDS | 30.0% |
| AAGTAGTTATTGAGTTTCTG+CGG | + | chr2_3:7893417-7893436 | Msa0275720:CDS | 30.0% | |
| CATTCATGACTTGAGATAAA+CGG | - | chr2_3:7893574-7893593 | None:intergenic | 30.0% | |
| ATTTCGATAATCAGATCCTC+CGG | - | chr2_3:7892852-7892871 | None:intergenic | 35.0% | |
| AGAAGAAGAAGAAGATGAAG+AGG | + | chr2_3:7893073-7893092 | Msa0275720:CDS | 35.0% | |
| !! | TGACGAGGAAAATTTTGATG+AGG | + | chr2_3:7893142-7893161 | Msa0275720:CDS | 35.0% |
| ! | GAGAATGTTGATGAAGACAA+TGG | + | chr2_3:7893356-7893375 | Msa0275720:intron | 35.0% |
| ! | AATGTTGATGAAGACAATGG+TGG | + | chr2_3:7893359-7893378 | Msa0275720:intron | 35.0% |
| TGAAGAAGAGGAGAAAGAAT+CGG | + | chr2_3:7893388-7893407 | Msa0275720:intron | 35.0% | |
| CAGAGATGAAATGCAAATAG+CGG | + | chr2_3:7893511-7893530 | Msa0275720:CDS | 35.0% | |
| ATTTCGATAATCAGATCCTC+CGG | - | chr2_3:7892852-7892871 | None:intergenic | 35.0% | |
| AGAAGAAGAAGAAGATGAAG+AGG | + | chr2_3:7893073-7893092 | Msa0275720:CDS | 35.0% | |
| !! | TGACGAGGAAAATTTTGATG+AGG | + | chr2_3:7893142-7893161 | Msa0275720:CDS | 35.0% |
| ! | GAGAATGTTGATGAAGACAA+TGG | + | chr2_3:7893356-7893375 | Msa0275720:intron | 35.0% |
| ! | AATGTTGATGAAGACAATGG+TGG | + | chr2_3:7893359-7893378 | Msa0275720:intron | 35.0% |
| TGAAGAAGAGGAGAAAGAAT+CGG | + | chr2_3:7893388-7893407 | Msa0275720:intron | 35.0% | |
| CAGAGATGAAATGCAAATAG+CGG | + | chr2_3:7893511-7893530 | Msa0275720:CDS | 35.0% | |
| TTTCGATAATCAGATCCTCC+GGG | - | chr2_3:7892851-7892870 | None:intergenic | 40.0% | |
| CTCAATTGCAGATAAACGCT+TGG | - | chr2_3:7892891-7892910 | None:intergenic | 40.0% | |
| CAAGCGTTTATCTGCAATTG+AGG | + | chr2_3:7892889-7892908 | Msa0275720:CDS | 40.0% | |
| AATTGAGGTGCGTATGCAAA+TGG | + | chr2_3:7892904-7892923 | Msa0275720:CDS | 40.0% | |
| ! | CTCTTCTTTTCGAAGCAACT+CGG | - | chr2_3:7893036-7893055 | None:intergenic | 40.0% |
| GCTTCGAAAAGAAGAGGATT+TGG | + | chr2_3:7893040-7893059 | Msa0275720:CDS | 40.0% | |
| CGAAAAGAAGAGGATTTGGA+TGG | + | chr2_3:7893044-7893063 | Msa0275720:CDS | 40.0% | |
| AGATGAAATGCAAATAGCGG+AGG | + | chr2_3:7893514-7893533 | Msa0275720:CDS | 40.0% | |
| TTTCGATAATCAGATCCTCC+GGG | - | chr2_3:7892851-7892870 | None:intergenic | 40.0% | |
| CTCAATTGCAGATAAACGCT+TGG | - | chr2_3:7892891-7892910 | None:intergenic | 40.0% | |
| CAAGCGTTTATCTGCAATTG+AGG | + | chr2_3:7892889-7892908 | Msa0275720:CDS | 40.0% | |
| AATTGAGGTGCGTATGCAAA+TGG | + | chr2_3:7892904-7892923 | Msa0275720:CDS | 40.0% | |
| ! | CTCTTCTTTTCGAAGCAACT+CGG | - | chr2_3:7893036-7893055 | None:intergenic | 40.0% |
| GCTTCGAAAAGAAGAGGATT+TGG | + | chr2_3:7893040-7893059 | Msa0275720:CDS | 40.0% | |
| CGAAAAGAAGAGGATTTGGA+TGG | + | chr2_3:7893044-7893063 | Msa0275720:CDS | 40.0% | |
| AGATGAAATGCAAATAGCGG+AGG | + | chr2_3:7893514-7893533 | Msa0275720:CDS | 40.0% | |
| ! | CGCTTGGTTCAACTCTAGAA+AGG | - | chr2_3:7892875-7892894 | None:intergenic | 45.0% |
| CGAGTTGCTTCGAAAAGAAG+AGG | + | chr2_3:7893034-7893053 | Msa0275720:CDS | 45.0% | |
| TGAAGAAGAGGAAGATGACG+AGG | + | chr2_3:7893127-7893146 | Msa0275720:CDS | 45.0% | |
| ! | GTTGATGAAGACAATGGTGG+TGG | + | chr2_3:7893362-7893381 | Msa0275720:intron | 45.0% |
| TATTGAGTTTCTGCGGCAGA+AGG | + | chr2_3:7893424-7893443 | Msa0275720:CDS | 45.0% | |
| GTGTCTCCAAAACATTCTGC+AGG | + | chr2_3:7893547-7893566 | Msa0275720:CDS | 45.0% | |
| ! | AACGGACCTGCAGAATGTTT+TGG | - | chr2_3:7893556-7893575 | None:intergenic | 45.0% |
| ! | CGCTTGGTTCAACTCTAGAA+AGG | - | chr2_3:7892875-7892894 | None:intergenic | 45.0% |
| CGAGTTGCTTCGAAAAGAAG+AGG | + | chr2_3:7893034-7893053 | Msa0275720:CDS | 45.0% | |
| TGAAGAAGAGGAAGATGACG+AGG | + | chr2_3:7893127-7893146 | Msa0275720:CDS | 45.0% | |
| ! | GTTGATGAAGACAATGGTGG+TGG | + | chr2_3:7893362-7893381 | Msa0275720:intron | 45.0% |
| TATTGAGTTTCTGCGGCAGA+AGG | + | chr2_3:7893424-7893443 | Msa0275720:CDS | 45.0% | |
| GTGTCTCCAAAACATTCTGC+AGG | + | chr2_3:7893547-7893566 | Msa0275720:CDS | 45.0% | |
| ! | AACGGACCTGCAGAATGTTT+TGG | - | chr2_3:7893556-7893575 | None:intergenic | 45.0% |
| TGAGGTGCGTATGCAAATGG+TGG | + | chr2_3:7892907-7892926 | Msa0275720:CDS | 50.0% | |
| !! | TGGTGGTGGTTCTGAAGAAG+AGG | + | chr2_3:7893376-7893395 | Msa0275720:intron | 50.0% |
| AAGAGGAGAAAGAATCGGCG+TGG | + | chr2_3:7893393-7893412 | Msa0275720:intron | 50.0% | |
| TGAGGTGCGTATGCAAATGG+TGG | + | chr2_3:7892907-7892926 | Msa0275720:CDS | 50.0% | |
| !! | TGGTGGTGGTTCTGAAGAAG+AGG | + | chr2_3:7893376-7893395 | Msa0275720:intron | 50.0% |
| AAGAGGAGAAAGAATCGGCG+TGG | + | chr2_3:7893393-7893412 | Msa0275720:intron | 50.0% | |
| GTCACAGAACGCGATACTCC+CGG | + | chr2_3:7892830-7892849 | Msa0275720:CDS | 55.0% | |
| TGAGTTTCTGCGGCAGAAGG+AGG | + | chr2_3:7893427-7893446 | Msa0275720:CDS | 55.0% | |
| GTCACAGAACGCGATACTCC+CGG | + | chr2_3:7892830-7892849 | Msa0275720:CDS | 55.0% | |
| TGAGTTTCTGCGGCAGAAGG+AGG | + | chr2_3:7893427-7893446 | Msa0275720:CDS | 55.0% | |
| ACAGAACGCGATACTCCCGG+AGG | + | chr2_3:7892833-7892852 | Msa0275720:CDS | 60.0% | |
| GCAGAAGGAGGCAGTTCCGT+TGG | + | chr2_3:7893439-7893458 | Msa0275720:CDS | 60.0% | |
| ACAGAACGCGATACTCCCGG+AGG | + | chr2_3:7892833-7892852 | Msa0275720:CDS | 60.0% | |
| GCAGAAGGAGGCAGTTCCGT+TGG | + | chr2_3:7893439-7893458 | Msa0275720:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 7892810 | 7893598 | 7892810 | ID=Msa0275720;Name=Msa0275720 |
| chr2_3 | mRNA | 7892810 | 7893598 | 7892810 | ID=Msa0275720-mRNA-1;Parent=Msa0275720;Name=Msa0275720-mRNA-1;_AED=0.07;_eAED=0.07;_QI=0|0|0|1|0|0|3|0|180 |
| chr2_3 | exon | 7892810 | 7892938 | 7892810 | ID=Msa0275720-mRNA-1:exon:3657;Parent=Msa0275720-mRNA-1 |
| chr2_3 | exon | 7892963 | 7893175 | 7892963 | ID=Msa0275720-mRNA-1:exon:3658;Parent=Msa0275720-mRNA-1 |
| chr2_3 | exon | 7893398 | 7893598 | 7893398 | ID=Msa0275720-mRNA-1:exon:3659;Parent=Msa0275720-mRNA-1 |
| chr2_3 | CDS | 7892810 | 7892938 | 7892810 | ID=Msa0275720-mRNA-1:cds;Parent=Msa0275720-mRNA-1 |
| chr2_3 | CDS | 7892963 | 7893175 | 7892963 | ID=Msa0275720-mRNA-1:cds;Parent=Msa0275720-mRNA-1 |
| chr2_3 | CDS | 7893398 | 7893598 | 7893398 | ID=Msa0275720-mRNA-1:cds;Parent=Msa0275720-mRNA-1 |
| Gene Sequence |
| Protein sequence |
