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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0689390 | RHN38783.1 | 66.176 | 136 | 36 | 3 | 28 | 155 | 1 | 134 | 2.58e-48 | 162 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0689390 | A0A396GD97 | 66.176 | 136 | 36 | 3 | 28 | 155 | 1 | 134 | 1.23e-48 | 162 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0636170 | Msa0689390 | 0.808125 | 3.611343e-50 | -8.615850e-47 |
| Msa0689390 | Msa0743810 | 0.837075 | 6.436576e-57 | -8.615850e-47 |
| Msa0689390 | Msa0787600 | 0.810898 | 9.167706e-51 | -8.615850e-47 |
| Msa0689390 | Msa0907260 | 0.824707 | 6.976977e-54 | -8.615850e-47 |
| Msa0689390 | Msa0956270 | 0.806702 | 7.234684e-50 | -8.615850e-47 |
| Msa0689390 | Msa0989060 | 0.814932 | 1.197663e-51 | -8.615850e-47 |
| Msa0689390 | Msa1087490 | 0.853777 | 1.910012e-61 | -8.615850e-47 |
| Msa0689390 | Msa1100980 | 0.826445 | 2.702203e-54 | -8.615850e-47 |
| Msa0689390 | Msa1135740 | 0.804014 | 2.646413e-49 | -8.615850e-47 |
| Msa0689390 | Msa1146110 | 0.801223 | 9.962871e-49 | -8.615850e-47 |
| Msa0689390 | Msa1187950 | 0.809035 | 2.308397e-50 | -8.615850e-47 |
| Msa0689390 | Msa1192640 | 0.804119 | 2.517404e-49 | -8.615850e-47 |
| Msa0689390 | Msa1211030 | 0.874473 | 6.572919e-68 | -8.615850e-47 |
| Msa0689390 | Msa1270230 | 0.807856 | 4.119538e-50 | -8.615850e-47 |
| Msa0689390 | Msa1285930 | 0.811560 | 6.587297e-51 | -8.615850e-47 |
| Msa0689390 | Msa1287810 | 0.805848 | 1.094774e-49 | -8.615850e-47 |
| Msa0689390 | Msa1310120 | 0.863640 | 2.155305e-64 | -8.615850e-47 |
| Msa0689390 | Msa1408780 | 0.869928 | 2.142652e-66 | -8.615850e-47 |
| Msa0142220 | Msa0689390 | 0.812121 | 4.970938e-51 | -8.615850e-47 |
| Msa0436780 | Msa0689390 | 0.804579 | 2.019152e-49 | -8.615850e-47 |
| Msa0452900 | Msa0689390 | 0.800789 | 1.222003e-48 | -8.615850e-47 |
| Msa0453120 | Msa0689390 | 0.816549 | 5.221046e-52 | -8.615850e-47 |
| Msa0360510 | Msa0689390 | 0.816293 | 5.960354e-52 | -8.615850e-47 |
| Msa0506270 | Msa0689390 | 0.800283 | 1.549487e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0689390 | MtrunA17_Chr8g0336901 | 66.176 | 136 | 36 | 3 | 28 | 155 | 1 | 134 | 2.38e-52 | 162 |
| Msa0689390 | MtrunA17_Chr8g0336891 | 67.742 | 124 | 36 | 3 | 13 | 134 | 101 | 222 | 7.68e-44 | 144 |
| Msa0689390 | MtrunA17_Chr8g0336921 | 43.590 | 117 | 61 | 4 | 16 | 130 | 37 | 150 | 2.84e-18 | 78.2 |
| Msa0689390 | MtrunA17_Chr7g0221241 | 34.058 | 138 | 81 | 4 | 8 | 144 | 34 | 162 | 9.82e-13 | 62.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 31 sgRNAs with CRISPR-Local
Find 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCTGATCAATTTGGCCTTA+TGG | 0.174747 | 4_4:-56440867 | Msa0689390:CDS |
| TCTGATCAATTTGGCCTTAT+GGG | 0.206934 | 4_4:-56440866 | Msa0689390:CDS |
| AACAAGAGTAAGAGTGAAAT+TGG | 0.208263 | 4_4:+56440940 | None:intergenic |
| GAACATTGCTCTGATCAATT+TGG | 0.249003 | 4_4:-56440875 | Msa0689390:CDS |
| TAAAGAAGTGTTTAAAGATT+TGG | 0.260488 | 4_4:-56441151 | Msa0689390:CDS |
| ATTTCACTCTTACTCTTGTT+GGG | 0.276326 | 4_4:-56440937 | Msa0689390:CDS |
| TTTCTCAGACAGTACTTTGC+TGG | 0.310858 | 4_4:+56440801 | None:intergenic |
| AATTTCACTCTTACTCTTGT+TGG | 0.319682 | 4_4:-56440938 | Msa0689390:CDS |
| GTTGTAGTTGCAAGAGAGTT+TGG | 0.331524 | 4_4:+56440980 | None:intergenic |
| AAAATTCCTCCGCAACTTAG+AGG | 0.340276 | 4_4:-56440751 | Msa0689390:CDS |
| TAGCCTTGACACTGATTTCA+AGG | 0.344509 | 4_4:-56440897 | Msa0689390:CDS |
| GAAATTGGGAAAATAGTAAC+AGG | 0.404325 | 4_4:+56440955 | None:intergenic |
| TTCTCAGACAGTACTTTGCT+GGG | 0.420636 | 4_4:+56440802 | None:intergenic |
| GCAATGAAGTGCACAAATGA+TGG | 0.482030 | 4_4:-56441084 | Msa0689390:CDS |
| TGTGAAAATAAGAACCCATA+AGG | 0.488209 | 4_4:+56440852 | None:intergenic |
| GCAACTTAGAGGTAGATTGC+CGG | 0.494987 | 4_4:-56440740 | Msa0689390:CDS |
| CCGATAGCAATGCGGTTTCA+AGG | 0.497144 | 4_4:-56441287 | Msa0689390:intron |
| TTTCACTCTTACTCTTGTTG+GGG | 0.497838 | 4_4:-56440936 | Msa0689390:CDS |
| CCTTGAAACCGCATTGCTAT+CGG | 0.508859 | 4_4:+56441287 | None:intergenic |
| ACAAGAGTAAGAGTGAAATT+GGG | 0.519071 | 4_4:+56440941 | None:intergenic |
| AATCAGTGTCAAGGCTAGAA+AGG | 0.525707 | 4_4:+56440903 | None:intergenic |
| CAATGAAGTGCACAAATGAT+GGG | 0.531410 | 4_4:-56441083 | Msa0689390:CDS |
| GTTCACAACTTTAGCCGCAA+TGG | 0.546781 | 4_4:-56441109 | Msa0689390:CDS |
| AGCAAGTGTCTACATCATCA+TGG | 0.594333 | 4_4:-56441025 | Msa0689390:CDS |
| GTTCCTTGAAATCAGTGTCA+AGG | 0.600166 | 4_4:+56440894 | None:intergenic |
| GGCAATCTACCTCTAAGTTG+CGG | 0.630114 | 4_4:+56440742 | None:intergenic |
| GCACTTCATTGCAACCATTG+CGG | 0.643939 | 4_4:+56441095 | None:intergenic |
| AATCTACCTCTAAGTTGCGG+AGG | 0.644985 | 4_4:+56440745 | None:intergenic |
| AAGCATTCTACAATCTACAC+CGG | 0.658127 | 4_4:+56440721 | None:intergenic |
| AATGAAGTGCACAAATGATG+GGG | 0.734597 | 4_4:-56441082 | Msa0689390:CDS |
| TTGCAGCTCCGATAGCAATG+CGG | 0.739864 | 4_4:-56441295 | Msa0689390:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAAAAAAAACACCTTGTT+TGG | - | chr4_4:56440833-56440852 | Msa0689390:CDS | 20.0% |
| !!! | AAAAAAAAAACACCTTGTTT+GGG | - | chr4_4:56440834-56440853 | Msa0689390:CDS | 20.0% |
| !!! | TAAAGAAGTGTTTAAAGATT+TGG | - | chr4_4:56440884-56440903 | Msa0689390:CDS | 20.0% |
| ! | GAAAATGAATATCATAGTTG+AGG | + | chr4_4:56440789-56440808 | None:intergenic | 25.0% |
| !!! | AAATCAAACAGATTTTTGAG+AGG | - | chr4_4:56441255-56441274 | Msa0689390:intron | 25.0% |
| GAAATTGGGAAAATAGTAAC+AGG | + | chr4_4:56441083-56441102 | None:intergenic | 30.0% | |
| ACAAGAGTAAGAGTGAAATT+GGG | + | chr4_4:56441097-56441116 | None:intergenic | 30.0% | |
| AACAAGAGTAAGAGTGAAAT+TGG | + | chr4_4:56441098-56441117 | None:intergenic | 30.0% | |
| AATTTCACTCTTACTCTTGT+TGG | - | chr4_4:56441097-56441116 | Msa0689390:CDS | 30.0% | |
| ATTTCACTCTTACTCTTGTT+GGG | - | chr4_4:56441098-56441117 | Msa0689390:CDS | 30.0% | |
| TGTGAAAATAAGAACCCATA+AGG | + | chr4_4:56441186-56441205 | None:intergenic | 30.0% | |
| CAATGAAGTGCACAAATGAT+GGG | - | chr4_4:56440952-56440971 | Msa0689390:CDS | 35.0% | |
| AATGAAGTGCACAAATGATG+GGG | - | chr4_4:56440953-56440972 | Msa0689390:CDS | 35.0% | |
| TTTCACTCTTACTCTTGTTG+GGG | - | chr4_4:56441099-56441118 | Msa0689390:CDS | 35.0% | |
| GAACATTGCTCTGATCAATT+TGG | - | chr4_4:56441160-56441179 | Msa0689390:CDS | 35.0% | |
| !! | TCTGATCAATTTGGCCTTAT+GGG | - | chr4_4:56441169-56441188 | Msa0689390:intron | 35.0% |
| ATGCATCAATCACCCAAACA+AGG | + | chr4_4:56440849-56440868 | None:intergenic | 40.0% | |
| GTGATTGATGCATGTGAAAC+AGG | - | chr4_4:56440856-56440875 | Msa0689390:CDS | 40.0% | |
| GCAATGAAGTGCACAAATGA+TGG | - | chr4_4:56440951-56440970 | Msa0689390:CDS | 40.0% | |
| AGCAAGTGTCTACATCATCA+TGG | - | chr4_4:56441010-56441029 | Msa0689390:CDS | 40.0% | |
| GTTGTAGTTGCAAGAGAGTT+TGG | + | chr4_4:56441058-56441077 | None:intergenic | 40.0% | |
| AATCAGTGTCAAGGCTAGAA+AGG | + | chr4_4:56441135-56441154 | None:intergenic | 40.0% | |
| !! | TAGCCTTGACACTGATTTCA+AGG | - | chr4_4:56441138-56441157 | Msa0689390:CDS | 40.0% |
| GTTCCTTGAAATCAGTGTCA+AGG | + | chr4_4:56441144-56441163 | None:intergenic | 40.0% | |
| !! | CTCTGATCAATTTGGCCTTA+TGG | - | chr4_4:56441168-56441187 | Msa0689390:intron | 40.0% |
| TTCTCAGACAGTACTTTGCT+GGG | + | chr4_4:56441236-56441255 | None:intergenic | 40.0% | |
| TTTCTCAGACAGTACTTTGC+TGG | + | chr4_4:56441237-56441256 | None:intergenic | 40.0% | |
| AAAATTCCTCCGCAACTTAG+AGG | - | chr4_4:56441284-56441303 | Msa0689390:intron | 40.0% | |
| CCTTGAAACCGCATTGCTAT+CGG | + | chr4_4:56440751-56440770 | None:intergenic | 45.0% | |
| GTTCACAACTTTAGCCGCAA+TGG | - | chr4_4:56440926-56440945 | Msa0689390:CDS | 45.0% | |
| GCACTTCATTGCAACCATTG+CGG | + | chr4_4:56440943-56440962 | None:intergenic | 45.0% | |
| AATCTACCTCTAAGTTGCGG+AGG | + | chr4_4:56441293-56441312 | None:intergenic | 45.0% | |
| GGCAATCTACCTCTAAGTTG+CGG | + | chr4_4:56441296-56441315 | None:intergenic | 45.0% | |
| GCAACTTAGAGGTAGATTGC+CGG | - | chr4_4:56441295-56441314 | Msa0689390:CDS | 45.0% | |
| !!! | TTTTTTTTTTTTTTTAGAAT+TGG | + | chr4_4:56440823-56440842 | None:intergenic | 5.0% |
| TTGCAGCTCCGATAGCAATG+CGG | - | chr4_4:56440740-56440759 | Msa0689390:CDS | 50.0% | |
| CCGATAGCAATGCGGTTTCA+AGG | - | chr4_4:56440748-56440767 | Msa0689390:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 56440735 | 56441322 | 56440735 | ID=Msa0689390;Name=Msa0689390 |
| chr4_4 | mRNA | 56440735 | 56441322 | 56440735 | ID=Msa0689390-mRNA-1;Parent=Msa0689390;Name=Msa0689390-mRNA-1;_AED=0.53;_eAED=0.53;_QI=0|0|0|0.5|1|1|2|0|159 |
| chr4_4 | exon | 56441288 | 56441322 | 56441288 | ID=Msa0689390-mRNA-1:exon:14929;Parent=Msa0689390-mRNA-1 |
| chr4_4 | exon | 56440735 | 56441179 | 56440735 | ID=Msa0689390-mRNA-1:exon:14928;Parent=Msa0689390-mRNA-1 |
| chr4_4 | CDS | 56441288 | 56441322 | 56441288 | ID=Msa0689390-mRNA-1:cds;Parent=Msa0689390-mRNA-1 |
| chr4_4 | CDS | 56440735 | 56441179 | 56440735 | ID=Msa0689390-mRNA-1:cds;Parent=Msa0689390-mRNA-1 |
| Gene Sequence |
| Protein sequence |
