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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0187010 | XP_003610742.1 | 87.565 | 193 | 22 | 1 | 1 | 193 | 1 | 191 | 2.80e-118 | 344 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0187010 | sp|P05332|YP20_BACLI | 32.386 | 176 | 107 | 4 | 19 | 187 | 2 | 172 | 7.59e-21 | 88.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0187010 | G7K3P7 | 87.565 | 193 | 22 | 1 | 1 | 193 | 1 | 191 | 1.34e-118 | 344 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0187010 | TR | GNAT |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0187010 | MtrunA17_Chr5g0394631 | 85.204 | 196 | 24 | 3 | 1 | 193 | 208 | 401 | 1.00e-114 | 332 |
| Msa0187010 | MtrunA17_Chr5g0394631 | 66.484 | 182 | 54 | 3 | 9 | 184 | 1 | 181 | 1.69e-75 | 232 |
| Msa0187010 | MtrunA17_Chr5g0394621 | 70.681 | 191 | 49 | 3 | 9 | 193 | 1 | 190 | 3.04e-89 | 260 |
| Msa0187010 | MtrunA17_Chr1g0204951 | 61.538 | 182 | 63 | 4 | 16 | 193 | 12 | 190 | 2.96e-74 | 222 |
| Msa0187010 | MtrunA17_Chr1g0204971 | 59.659 | 176 | 66 | 3 | 20 | 193 | 18 | 190 | 1.45e-71 | 215 |
| Msa0187010 | MtrunA17_Chr7g0223361 | 45.349 | 172 | 89 | 3 | 20 | 190 | 3 | 170 | 2.23e-42 | 140 |
| Msa0187010 | MtrunA17_Chr7g0223351 | 44.379 | 169 | 86 | 4 | 24 | 190 | 7 | 169 | 1.35e-39 | 134 |
| Msa0187010 | MtrunA17_Chr7g0273661 | 43.312 | 157 | 83 | 3 | 21 | 175 | 4 | 156 | 1.39e-37 | 128 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0187010 | AT2G32030.1 | 48.705 | 193 | 86 | 6 | 1 | 190 | 3 | 185 | 2.25e-54 | 172 |
| Msa0187010 | AT2G32020.1 | 51.765 | 170 | 72 | 5 | 24 | 190 | 18 | 180 | 3.35e-52 | 166 |
| Msa0187010 | AT3G22560.1 | 38.857 | 175 | 99 | 4 | 20 | 190 | 2 | 172 | 5.54e-34 | 119 |
Find 36 sgRNAs with CRISPR-Local
Find 47 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGTTGATGTGGATAATTTA+AGG | 0.203228 | 2_1:-1753748 | Msa0187010:CDS |
| CAAATCAATGATCTCTTCTT+TGG | 0.204931 | 2_1:+1754135 | None:intergenic |
| GTTGATGCCTTGGTCTTTGC+TGG | 0.262298 | 2_1:+1754012 | None:intergenic |
| GCTTGAAGCCTTTCCAAGTA+TGG | 0.276638 | 2_1:+1753773 | None:intergenic |
| TGCCATAACGATCATGCTAT+TGG | 0.288303 | 2_1:-1753944 | Msa0187010:CDS |
| GCAGAACTTGGGTATGTTCT+AGG | 0.307665 | 2_1:-1753869 | Msa0187010:CDS |
| ATGTTCTAGGCTCTAAATAC+TGG | 0.313478 | 2_1:-1753856 | Msa0187010:CDS |
| CCTTGGTCTTTGCTGGTGTA+AGG | 0.327596 | 2_1:+1754019 | None:intergenic |
| GAAAAGATCGGAGTGTGATT+TGG | 0.386444 | 2_1:+1754110 | None:intergenic |
| ACCTCGATGATCTCATGGTT+TGG | 0.401354 | 2_1:-1754078 | Msa0187010:CDS |
| GGCTCTAAATACTGGGGTAA+AGG | 0.409375 | 2_1:-1753848 | Msa0187010:CDS |
| ATTCAGTGAATTTCCATACT+TGG | 0.413337 | 2_1:-1753786 | Msa0187010:CDS |
| GCCATAACGATCATGCTATT+GGG | 0.423146 | 2_1:-1753943 | Msa0187010:CDS |
| TTCTGACCTCGATGATCTCA+TGG | 0.433346 | 2_1:-1754083 | Msa0187010:CDS |
| GCTCTAAATACTGGGGTAAA+GGG | 0.442106 | 2_1:-1753847 | Msa0187010:CDS |
| TGAGTTCACTTGATGATAAG+AGG | 0.442621 | 2_1:-1753904 | Msa0187010:CDS |
| CAAAGAGTAGTTGAGAAAGT+TGG | 0.450786 | 2_1:-1753722 | Msa0187010:CDS |
| AGGATCGCATGTGCAGAACT+TGG | 0.454084 | 2_1:-1753881 | Msa0187010:CDS |
| ACCCAATAGCATGATCGTTA+TGG | 0.457877 | 2_1:+1753942 | None:intergenic |
| CTACTGATCTTAAACTAATG+AGG | 0.474389 | 2_1:-1753619 | Msa0187010:CDS |
| GTAAGGTTCACCCCAGAACT+TGG | 0.480302 | 2_1:+1754036 | None:intergenic |
| TAAACTAATGAGGATGTTCA+AGG | 0.483858 | 2_1:-1753609 | Msa0187010:CDS |
| GTGAATTTCCATACTTGGAA+AGG | 0.490341 | 2_1:-1753781 | Msa0187010:CDS |
| TGCTGTGAAACAAATGGTTA+AGG | 0.500098 | 2_1:-1753813 | Msa0187010:CDS |
| TGTTCTAGGCTCTAAATACT+GGG | 0.526941 | 2_1:-1753855 | Msa0187010:CDS |
| CTTATCATCAAGTGAACTCA+AGG | 0.556721 | 2_1:+1753907 | None:intergenic |
| GCTTCAAGCTCTTGTTGATG+TGG | 0.560091 | 2_1:-1753759 | Msa0187010:CDS |
| GGATCGCATGTGCAGAACTT+GGG | 0.585194 | 2_1:-1753880 | Msa0187010:CDS |
| GGTCAGAAAGATGAAAAGAT+CGG | 0.592412 | 2_1:+1754098 | None:intergenic |
| CATTTGTTTCACAGCACATG+TGG | 0.625218 | 2_1:+1753820 | None:intergenic |
| TAATGAGGATGTTCAAGGTG+AGG | 0.626914 | 2_1:-1753604 | Msa0187010:CDS |
| CACATGTGCTGTGAAACAAA+TGG | 0.647600 | 2_1:-1753819 | Msa0187010:CDS |
| GTTCACTTGATGATAAGAGG+AGG | 0.664638 | 2_1:-1753901 | Msa0187010:CDS |
| CCTTACACCAGCAAAGACCA+AGG | 0.673207 | 2_1:-1754019 | Msa0187010:CDS |
| GTTCTAGGCTCTAAATACTG+GGG | 0.712321 | 2_1:-1753854 | Msa0187010:CDS |
| GCCAAACCATGAGATCATCG+AGG | 0.781144 | 2_1:+1754077 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CATCAACTTCATTAAAAATA+TGG | - | chr2_1:1753765-1753784 | Msa0187010:CDS | 20.0% |
| !!! | AGGAAGTATGTATTTTTTAA+AGG | - | chr2_1:1754084-1754103 | Msa0187010:CDS | 20.0% |
| ! | TTGTTGATGTGGATAATTTA+AGG | - | chr2_1:1754013-1754032 | Msa0187010:CDS | 25.0% |
| !!! | AAAGTTGGTTTTCAAAAAGA+GGG | - | chr2_1:1754054-1754073 | Msa0187010:CDS | 25.0% |
| CAAATCAATGATCTCTTCTT+TGG | + | chr2_1:1753629-1753648 | None:intergenic | 30.0% | |
| !!! | TTTTAATGAAGTTGATGCCT+TGG | + | chr2_1:1753762-1753781 | None:intergenic | 30.0% |
| TCATTAAAAATATGGCAAGC+AGG | - | chr2_1:1753773-1753792 | Msa0187010:CDS | 30.0% | |
| ATTCAGTGAATTTCCATACT+TGG | - | chr2_1:1753975-1753994 | Msa0187010:CDS | 30.0% | |
| !!! | GAAAGTTGGTTTTCAAAAAG+AGG | - | chr2_1:1754053-1754072 | Msa0187010:CDS | 30.0% |
| CTACTGATCTTAAACTAATG+AGG | - | chr2_1:1754142-1754161 | Msa0187010:CDS | 30.0% | |
| TAAACTAATGAGGATGTTCA+AGG | - | chr2_1:1754152-1754171 | Msa0187010:CDS | 30.0% | |
| GGTCAGAAAGATGAAAAGAT+CGG | + | chr2_1:1753666-1753685 | None:intergenic | 35.0% | |
| TTGGCATACTGATGAAAAAG+TGG | - | chr2_1:1753702-1753721 | Msa0187010:CDS | 35.0% | |
| CTTATCATCAAGTGAACTCA+AGG | + | chr2_1:1753857-1753876 | None:intergenic | 35.0% | |
| ! | TGAGTTCACTTGATGATAAG+AGG | - | chr2_1:1753857-1753876 | Msa0187010:CDS | 35.0% |
| !! | ATGTTCTAGGCTCTAAATAC+TGG | - | chr2_1:1753905-1753924 | Msa0187010:CDS | 35.0% |
| !! | TGTTCTAGGCTCTAAATACT+GGG | - | chr2_1:1753906-1753925 | Msa0187010:CDS | 35.0% |
| TGCTGTGAAACAAATGGTTA+AGG | - | chr2_1:1753948-1753967 | Msa0187010:CDS | 35.0% | |
| GTGAATTTCCATACTTGGAA+AGG | - | chr2_1:1753980-1753999 | Msa0187010:CDS | 35.0% | |
| CAAAGAGTAGTTGAGAAAGT+TGG | - | chr2_1:1754039-1754058 | Msa0187010:CDS | 35.0% | |
| TTCAAAAAGAGGGAGTTCTT+AGG | - | chr2_1:1754064-1754083 | Msa0187010:CDS | 35.0% | |
| GAAAAGATCGGAGTGTGATT+TGG | + | chr2_1:1753654-1753673 | None:intergenic | 40.0% | |
| ATGAAAAAGTGGCCAAGTTC+TGG | - | chr2_1:1753713-1753732 | Msa0187010:CDS | 40.0% | |
| TGAAAAAGTGGCCAAGTTCT+GGG | - | chr2_1:1753714-1753733 | Msa0187010:CDS | 40.0% | |
| TGCCATAACGATCATGCTAT+TGG | - | chr2_1:1753817-1753836 | Msa0187010:CDS | 40.0% | |
| GCCATAACGATCATGCTATT+GGG | - | chr2_1:1753818-1753837 | Msa0187010:CDS | 40.0% | |
| ACCCAATAGCATGATCGTTA+TGG | + | chr2_1:1753822-1753841 | None:intergenic | 40.0% | |
| ! | GTTCACTTGATGATAAGAGG+AGG | - | chr2_1:1753860-1753879 | Msa0187010:CDS | 40.0% |
| !! | GTTCTAGGCTCTAAATACTG+GGG | - | chr2_1:1753907-1753926 | Msa0187010:CDS | 40.0% |
| ! | GCTCTAAATACTGGGGTAAA+GGG | - | chr2_1:1753914-1753933 | Msa0187010:CDS | 40.0% |
| CATTTGTTTCACAGCACATG+TGG | + | chr2_1:1753944-1753963 | None:intergenic | 40.0% | |
| CACATGTGCTGTGAAACAAA+TGG | - | chr2_1:1753942-1753961 | Msa0187010:CDS | 40.0% | |
| TAATGAGGATGTTCAAGGTG+AGG | - | chr2_1:1754157-1754176 | Msa0187010:CDS | 40.0% | |
| TTCTGACCTCGATGATCTCA+TGG | - | chr2_1:1753678-1753697 | Msa0187010:CDS | 45.0% | |
| ACCTCGATGATCTCATGGTT+TGG | - | chr2_1:1753683-1753702 | Msa0187010:CDS | 45.0% | |
| GAAAAAGTGGCCAAGTTCTG+GGG | - | chr2_1:1753715-1753734 | Msa0187010:CDS | 45.0% | |
| GCAGAACTTGGGTATGTTCT+AGG | - | chr2_1:1753892-1753911 | Msa0187010:CDS | 45.0% | |
| !! | GGCTCTAAATACTGGGGTAA+AGG | - | chr2_1:1753913-1753932 | Msa0187010:CDS | 45.0% |
| GCTTGAAGCCTTTCCAAGTA+TGG | + | chr2_1:1753991-1754010 | None:intergenic | 45.0% | |
| GCTTCAAGCTCTTGTTGATG+TGG | - | chr2_1:1754002-1754021 | Msa0187010:CDS | 45.0% | |
| GCCAAACCATGAGATCATCG+AGG | + | chr2_1:1753687-1753706 | None:intergenic | 50.0% | |
| GTAAGGTTCACCCCAGAACT+TGG | + | chr2_1:1753728-1753747 | None:intergenic | 50.0% | |
| ! | CCTTGGTCTTTGCTGGTGTA+AGG | + | chr2_1:1753745-1753764 | None:intergenic | 50.0% |
| CCTTACACCAGCAAAGACCA+AGG | - | chr2_1:1753742-1753761 | Msa0187010:CDS | 50.0% | |
| ! | GTTGATGCCTTGGTCTTTGC+TGG | + | chr2_1:1753752-1753771 | None:intergenic | 50.0% |
| AGGATCGCATGTGCAGAACT+TGG | - | chr2_1:1753880-1753899 | Msa0187010:CDS | 50.0% | |
| GGATCGCATGTGCAGAACTT+GGG | - | chr2_1:1753881-1753900 | Msa0187010:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 1753580 | 1754203 | 1753580 | ID=Msa0187010;Name=Msa0187010 |
| chr2_1 | mRNA | 1753580 | 1754203 | 1753580 | ID=Msa0187010-mRNA-1;Parent=Msa0187010;Name=Msa0187010-mRNA-1;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|207 |
| chr2_1 | exon | 1753580 | 1754203 | 1753580 | ID=Msa0187010-mRNA-1:exon:776;Parent=Msa0187010-mRNA-1 |
| chr2_1 | CDS | 1753580 | 1754203 | 1753580 | ID=Msa0187010-mRNA-1:cds;Parent=Msa0187010-mRNA-1 |
| Gene Sequence |
| Protein sequence |
