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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1000330 | GFY98366.1 | 45.402 | 174 | 63 | 4 | 9 | 150 | 605 | 778 | 4.70e-34 | 137 |
| Msa1000330 | GFY98366.1 | 65.957 | 141 | 36 | 2 | 9 | 149 | 817 | 945 | 1.69e-47 | 175 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1000330 | sp|Q9SZD6|PETS_ARATH | 46.465 | 198 | 45 | 4 | 8 | 144 | 754 | 951 | 7.37e-41 | 148 |
| Msa1000330 | sp|Q9SZD6|PETS_ARATH | 41.791 | 201 | 56 | 5 | 11 | 150 | 519 | 719 | 6.96e-35 | 131 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1000330 | A0A7J0FIU7 | 45.402 | 174 | 63 | 4 | 9 | 150 | 605 | 778 | 2.25e-34 | 137 |
| Msa1000330 | A0A7J0FIU7 | 65.957 | 141 | 36 | 2 | 9 | 149 | 817 | 945 | 8.05e-48 | 175 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1000330 | Msa1163540 | 0.802395 | 5.725137e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1000330 | MtrunA17_Chr6g0486531 | 94.118 | 85 | 5 | 0 | 70 | 154 | 970 | 1054 | 6.20e-48 | 165 |
| Msa1000330 | MtrunA17_Chr6g0486531 | 39.024 | 205 | 64 | 4 | 7 | 150 | 605 | 809 | 1.31e-36 | 133 |
| Msa1000330 | MtrunA17_Chr6g0486531 | 82.353 | 34 | 6 | 0 | 5 | 38 | 844 | 877 | 7.91e-11 | 59.3 |
| Msa1000330 | MtrunA17_Chr2g0299581 | 84.884 | 86 | 11 | 2 | 70 | 154 | 106 | 190 | 6.56e-41 | 135 |
| Msa1000330 | MtrunA17_Chr6g0484381 | 80.488 | 82 | 16 | 0 | 65 | 146 | 91 | 172 | 8.52e-40 | 132 |
| Msa1000330 | MtrunA17_Chr6g0486461 | 68.932 | 103 | 24 | 3 | 48 | 142 | 1 | 103 | 2.03e-37 | 124 |
| Msa1000330 | MtrunA17_Chr6g0486321 | 50.318 | 157 | 47 | 4 | 1 | 126 | 30 | 186 | 3.93e-36 | 123 |
| Msa1000330 | MtrunA17_Chr6g0486241 | 41.250 | 160 | 54 | 4 | 1 | 137 | 34 | 176 | 3.82e-24 | 92.8 |
| Msa1000330 | MtrunA17_Chr2g0299591 | 84.211 | 38 | 6 | 0 | 1 | 38 | 11 | 48 | 1.07e-14 | 64.7 |
| Msa1000330 | MtrunA17_Chr6g0486211 | 82.353 | 34 | 6 | 0 | 5 | 38 | 13 | 46 | 2.20e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1000330 | AT4G29060.2 | 44.974 | 189 | 49 | 3 | 11 | 144 | 519 | 707 | 1.28e-42 | 150 |
| Msa1000330 | AT4G29060.1 | 46.465 | 198 | 45 | 4 | 8 | 144 | 754 | 951 | 7.50e-42 | 148 |
| Msa1000330 | AT4G29060.1 | 41.791 | 201 | 56 | 5 | 11 | 150 | 519 | 719 | 7.07e-36 | 131 |
Find 29 sgRNAs with CRISPR-Local
Find 46 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTGTATCTCAAGTTCTTTC+AGG | 0.177267 | 6_4:+83152075 | None:intergenic |
| ACACTGTCATCCTTAATAAA+AGG | 0.283711 | 6_4:+83151957 | None:intergenic |
| ATTGTTCAATGTTGTGTTGC+AGG | 0.379086 | 6_4:-83152449 | None:intergenic |
| GGTAATGGTCTCGGCCTCTT+TGG | 0.405089 | 6_4:-83152418 | Msa1000330:CDS |
| GGAAGAATCTCAAAGAGGTT+AGG | 0.444573 | 6_4:-83152002 | Msa1000330:CDS |
| AGGCAAAGTATAGCTGCTAT+TGG | 0.446332 | 6_4:-83151915 | Msa1000330:CDS |
| AGAAACCGGTGCAGGGATGA+TGG | 0.478121 | 6_4:-83152379 | Msa1000330:CDS |
| GAAATCAACGGTAATGGTCT+CGG | 0.490019 | 6_4:-83152427 | Msa1000330:CDS |
| TGGCAGAAGTGATAAATTCA+AGG | 0.502150 | 6_4:-83152169 | Msa1000330:intron |
| GAAAGCCTTGTAAGCTATGC+CGG | 0.513071 | 6_4:+83151822 | None:intergenic |
| CTCTTTGGTTAAGAAACTAC+AGG | 0.514921 | 6_4:-83152403 | Msa1000330:CDS |
| AAGTGATAAATTCAAGGAGT+TGG | 0.522521 | 6_4:-83152163 | Msa1000330:CDS |
| CTGTAGTTTCTTAACCAAAG+AGG | 0.529906 | 6_4:+83152404 | None:intergenic |
| AAGAAACTACAGGAAGAAAC+CGG | 0.530601 | 6_4:-83152393 | Msa1000330:CDS |
| TGTTCTCGGGTTTCGAAGCA+AGG | 0.537039 | 6_4:+83152045 | None:intergenic |
| TTGCAGGAAATCAACGGTAA+TGG | 0.538322 | 6_4:-83152433 | Msa1000330:CDS |
| CTACAGGAAGAAACCGGTGC+AGG | 0.539828 | 6_4:-83152387 | Msa1000330:CDS |
| CCTTGTAAGCTATGCCGGTA+CGG | 0.542931 | 6_4:+83151827 | None:intergenic |
| ACAGTCCATCATCCCTGCAC+CGG | 0.573161 | 6_4:+83152374 | None:intergenic |
| CATTAGAGAGAAAATTGTCA+AGG | 0.599736 | 6_4:-83152024 | Msa1000330:CDS |
| ACAGATACAAACTGAACCTG+TGG | 0.609443 | 6_4:+83152108 | None:intergenic |
| ATTAGAGAGAAAATTGTCAA+GGG | 0.612866 | 6_4:-83152023 | Msa1000330:CDS |
| TACAGGAAGAAACCGGTGCA+GGG | 0.614137 | 6_4:-83152386 | Msa1000330:CDS |
| AATCTCAAAGAGGTTAGGAG+AGG | 0.655486 | 6_4:-83151997 | Msa1000330:CDS |
| CAGTGTTGTAGTGAAAGACT+TGG | 0.668834 | 6_4:-83151940 | Msa1000330:CDS |
| TCAAGGGAAGAATCTCAAAG+AGG | 0.678233 | 6_4:-83152007 | Msa1000330:CDS |
| TTGTAGTGAAAGACTTGGTG+AGG | 0.687704 | 6_4:-83151935 | Msa1000330:CDS |
| GTTGTGTTGCAGGAAATCAA+CGG | 0.691087 | 6_4:-83152439 | Msa1000330:CDS |
| TTGGAGAGAATATTAAAGTG+CGG | 0.701032 | 6_4:-83151896 | Msa1000330:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATGAAATTTCCTTTTTTCTG+AGG | + | chr6_4:83151979-83151998 | None:intergenic | 25.0% |
| !! | AATTTTCTCTCTAATGTTCT+CGG | + | chr6_4:83152249-83152268 | None:intergenic | 25.0% |
| ! | ATTAGAGAGAAAATTGTCAA+GGG | - | chr6_4:83152254-83152273 | Msa1000330:intron | 25.0% |
| AAGTGATAAATTCAAGGAGT+TGG | - | chr6_4:83152114-83152133 | Msa1000330:CDS | 30.0% | |
| TTTGTATCTCAAGTTCTTTC+AGG | + | chr6_4:83152205-83152224 | None:intergenic | 30.0% | |
| ! | ATTTTCTCTCTAATGTTCTC+GGG | + | chr6_4:83152248-83152267 | None:intergenic | 30.0% |
| CATTAGAGAGAAAATTGTCA+AGG | - | chr6_4:83152253-83152272 | Msa1000330:intron | 30.0% | |
| !! | TCTAGAGCATCCTTTTATTA+AGG | - | chr6_4:83152310-83152329 | Msa1000330:intron | 30.0% |
| ACACTGTCATCCTTAATAAA+AGG | + | chr6_4:83152323-83152342 | None:intergenic | 30.0% | |
| TTGGAGAGAATATTAAAGTG+CGG | - | chr6_4:83152381-83152400 | Msa1000330:CDS | 30.0% | |
| CTGTAGTTTCTTAACCAAAG+AGG | + | chr6_4:83151876-83151895 | None:intergenic | 35.0% | |
| CTCTTTGGTTAAGAAACTAC+AGG | - | chr6_4:83151874-83151893 | Msa1000330:CDS | 35.0% | |
| AAGAAACTACAGGAAGAAAC+CGG | - | chr6_4:83151884-83151903 | Msa1000330:CDS | 35.0% | |
| AAAGCTCTTGCAAAAACAGA+AGG | - | chr6_4:83151929-83151948 | Msa1000330:CDS | 35.0% | |
| AACAGAAGGTGATCTTGAAA+AGG | - | chr6_4:83151943-83151962 | Msa1000330:CDS | 35.0% | |
| TCATCTGCTGATAAGAAATC+CGG | - | chr6_4:83151995-83152014 | Msa1000330:CDS | 35.0% | |
| !! | AACTGTGAAACCGATTTTGT+TGG | - | chr6_4:83152088-83152107 | Msa1000330:CDS | 35.0% |
| ATCACTTCTGCCAACAAAAT+CGG | + | chr6_4:83152101-83152120 | None:intergenic | 35.0% | |
| TGGCAGAAGTGATAAATTCA+AGG | - | chr6_4:83152108-83152127 | Msa1000330:CDS | 35.0% | |
| GTTGTGTTGCAGGAAATCAA+CGG | - | chr6_4:83151838-83151857 | Msa1000330:CDS | 40.0% | |
| TTGCAGGAAATCAACGGTAA+TGG | - | chr6_4:83151844-83151863 | Msa1000330:CDS | 40.0% | |
| ! | GAAATCAACGGTAATGGTCT+CGG | - | chr6_4:83151850-83151869 | Msa1000330:CDS | 40.0% |
| GCAAGCATACCTCAGAAAAA+AGG | - | chr6_4:83151967-83151986 | Msa1000330:CDS | 40.0% | |
| !! | GTATGTACCGATTCTTCCTT+AGG | + | chr6_4:83152032-83152051 | None:intergenic | 40.0% |
| TACAATCACGATTCACGCAT+TGG | - | chr6_4:83152049-83152068 | Msa1000330:CDS | 40.0% | |
| ACAGATACAAACTGAACCTG+TGG | + | chr6_4:83152172-83152191 | None:intergenic | 40.0% | |
| TCAAGGGAAGAATCTCAAAG+AGG | - | chr6_4:83152270-83152289 | Msa1000330:intron | 40.0% | |
| GGAAGAATCTCAAAGAGGTT+AGG | - | chr6_4:83152275-83152294 | Msa1000330:intron | 40.0% | |
| AATCTCAAAGAGGTTAGGAG+AGG | - | chr6_4:83152280-83152299 | Msa1000330:intron | 40.0% | |
| CAGTGTTGTAGTGAAAGACT+TGG | - | chr6_4:83152337-83152356 | Msa1000330:intron | 40.0% | |
| !! | TTGTAGTGAAAGACTTGGTG+AGG | - | chr6_4:83152342-83152361 | Msa1000330:intron | 40.0% |
| AGGCAAAGTATAGCTGCTAT+TGG | - | chr6_4:83152362-83152381 | Msa1000330:CDS | 40.0% | |
| !! | TTAAAGTGCGGCGTTTTGTT+CGG | - | chr6_4:83152393-83152412 | Msa1000330:CDS | 40.0% |
| TCAAAAAGAAACAGCCGTAC+CGG | - | chr6_4:83152436-83152455 | Msa1000330:CDS | 40.0% | |
| CTACCAGCCTAAGGAAGAAT+CGG | - | chr6_4:83152022-83152041 | Msa1000330:CDS | 45.0% | |
| ! | GCAAGTTTTTGCTTGTCCAC+AGG | - | chr6_4:83152153-83152172 | Msa1000330:CDS | 45.0% |
| !! | CGTTTTGTTCGGTTCACTCT+CGG | - | chr6_4:83152404-83152423 | Msa1000330:CDS | 45.0% |
| TACAGGAAGAAACCGGTGCA+GGG | - | chr6_4:83151891-83151910 | Msa1000330:CDS | 50.0% | |
| ! | TCCTTAGGCTGGTAGTGTTC+CGG | + | chr6_4:83152017-83152036 | None:intergenic | 50.0% |
| !! | GTACCGATTCTTCCTTAGGC+TGG | + | chr6_4:83152028-83152047 | None:intergenic | 50.0% |
| TGTTCTCGGGTTTCGAAGCA+AGG | + | chr6_4:83152235-83152254 | None:intergenic | 50.0% | |
| ! | GGTAATGGTCTCGGCCTCTT+TGG | - | chr6_4:83151859-83151878 | Msa1000330:CDS | 55.0% |
| CTACAGGAAGAAACCGGTGC+AGG | - | chr6_4:83151890-83151909 | Msa1000330:CDS | 55.0% | |
| AGAAACCGGTGCAGGGATGA+TGG | - | chr6_4:83151898-83151917 | Msa1000330:CDS | 55.0% | |
| ACAGTCCATCATCCCTGCAC+CGG | + | chr6_4:83151906-83151925 | None:intergenic | 55.0% | |
| TCCGGAACACTACCAGCCTA+AGG | - | chr6_4:83152013-83152032 | Msa1000330:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_4 | gene | 83151836 | 83152463 | 83151836 | ID=Msa1000330;Name=Msa1000330 |
| chr6_4 | mRNA | 83151836 | 83152463 | 83151836 | ID=Msa1000330-mRNA-1;Parent=Msa1000330;Name=Msa1000330-mRNA-1;_AED=0.48;_eAED=0.48;_QI=0|0|0|1|1|1|2|0|154 |
| chr6_4 | exon | 83152349 | 83152463 | 83152349 | ID=Msa1000330-mRNA-1:exon:16066;Parent=Msa1000330-mRNA-1 |
| chr6_4 | exon | 83151836 | 83152185 | 83151836 | ID=Msa1000330-mRNA-1:exon:16065;Parent=Msa1000330-mRNA-1 |
| chr6_4 | CDS | 83152349 | 83152463 | 83152349 | ID=Msa1000330-mRNA-1:cds;Parent=Msa1000330-mRNA-1 |
| chr6_4 | CDS | 83151836 | 83152185 | 83151836 | ID=Msa1000330-mRNA-1:cds;Parent=Msa1000330-mRNA-1 |
| Gene Sequence |
| Protein sequence |
