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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0329460 | XP_013464264.1 | 97.414 | 116 | 3 | 0 | 1 | 116 | 1 | 116 | 4.80e-80 | 240 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0329460 | sp|Q8LC53|EPF2_ARATH | 45.217 | 115 | 57 | 2 | 6 | 115 | 5 | 118 | 5.60e-28 | 101 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0252630 | Msa0329460 | 0.828349 | 9.444300e-55 | -8.615850e-47 |
| Msa0291330 | Msa0329460 | 0.816948 | 4.250726e-52 | -8.615850e-47 |
| Msa0329460 | Msa0351770 | 0.801021 | 1.096044e-48 | -8.615850e-47 |
| Msa0329460 | Msa0373960 | 0.800319 | 1.523931e-48 | -8.615850e-47 |
| Msa0329460 | Msa0406000 | 0.808314 | 3.292220e-50 | -8.615850e-47 |
| Msa0329460 | Msa0451400 | 0.806179 | 9.326283e-50 | -8.615850e-47 |
| Msa0329460 | Msa0591800 | 0.855154 | 7.632239e-62 | -8.615850e-47 |
| Msa0329460 | Msa0669840 | 0.818227 | 2.187627e-52 | -8.615850e-47 |
| Msa0329460 | Msa0899950 | 0.814312 | 1.642917e-51 | -8.615850e-47 |
| Msa0329460 | Msa0927120 | 0.825662 | 4.148860e-54 | -8.615850e-47 |
| Msa0329460 | Msa0965310 | 0.812471 | 4.170132e-51 | -8.615850e-47 |
| Msa0329460 | Msa0999700 | 0.806885 | 6.619991e-50 | -8.615850e-47 |
| Msa0329460 | Msa1179360 | 0.821097 | 4.839698e-53 | -8.615850e-47 |
| Msa0329460 | Msa1294290 | 0.805129 | 1.549140e-49 | -8.615850e-47 |
| Msa0329460 | Msa1389050 | 0.832878 | 7.353184e-56 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0329460 | MtrunA17_Chr2g0311361 | 95.588 | 68 | 3 | 0 | 49 | 116 | 31 | 98 | 2.86e-45 | 142 |
| Msa0329460 | MtrunA17_Chr2g0324101 | 59.615 | 52 | 19 | 1 | 65 | 114 | 4 | 55 | 1.71e-14 | 62.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0329460 | AT1G34245.1 | 45.217 | 115 | 57 | 2 | 6 | 115 | 5 | 118 | 5.70e-29 | 101 |
| Msa0329460 | AT1G71866.2 | 66.667 | 51 | 16 | 1 | 65 | 115 | 85 | 134 | 2.84e-21 | 82.8 |
| Msa0329460 | AT1G71866.1 | 66.667 | 51 | 16 | 1 | 65 | 115 | 121 | 170 | 1.11e-20 | 82.0 |
| Msa0329460 | AT2G20875.1 | 59.615 | 52 | 19 | 1 | 65 | 114 | 53 | 104 | 2.49e-14 | 63.9 |
Find 32 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACAACAATTATAGACAAAA+AGG | 0.294093 | 2_4:-43063992 | Msa0329460:intron |
| ACATGTCACGTACCATGATT+TGG | 0.296793 | 2_4:+43064216 | None:intergenic |
| ACCTACCATGACTCTCTTGC+AGG | 0.346260 | 2_4:+43063777 | None:intergenic |
| CATGATTTGGGATCACTCTA+AGG | 0.418584 | 2_4:+43064229 | None:intergenic |
| CATGGCAGAGTCTTGCCCTA+TGG | 0.447128 | 2_4:-43063740 | Msa0329460:CDS |
| CATGTCACGTACCATGATTT+GGG | 0.459472 | 2_4:+43064217 | None:intergenic |
| TTGTAGGAAGGAGCAAGAGA+AGG | 0.472437 | 2_4:-43063874 | Msa0329460:intron |
| TAACAACTAGGAAAGATTTG+TGG | 0.480408 | 2_4:+43064283 | None:intergenic |
| AACAACTAGGAAAGATTTGT+GGG | 0.480667 | 2_4:+43064284 | None:intergenic |
| ACAATCTGGTATGGTGGAAC+CGG | 0.484793 | 2_4:+43063825 | None:intergenic |
| GTTTACAGATGCATTTGTAA+AGG | 0.486944 | 2_4:-43063718 | Msa0329460:CDS |
| CCACATGCATGGGAACAATC+TGG | 0.502954 | 2_4:+43063811 | None:intergenic |
| CAAATGCATCTGTAAACCAT+AGG | 0.504305 | 2_4:+43063724 | None:intergenic |
| TCGATCAATTCGACGGAACA+TGG | 0.509513 | 2_4:+43063686 | None:intergenic |
| GTGAACATGGTCCACATGCA+TGG | 0.516739 | 2_4:+43063800 | None:intergenic |
| GTAATGGAACTCTATCCAAC+CGG | 0.520621 | 2_4:-43063844 | Msa0329460:CDS |
| ACTCTCTTGCAGGGTGAACA+TGG | 0.521654 | 2_4:+43063787 | None:intergenic |
| AAGAGAAGGTAGCAATGTAA+TGG | 0.538637 | 2_4:-43063860 | Msa0329460:CDS |
| TGAACATGGTCCACATGCAT+GGG | 0.559386 | 2_4:+43063801 | None:intergenic |
| AAATGCATCTGTAAACCATA+GGG | 0.566896 | 2_4:+43063725 | None:intergenic |
| CTTAGAGTGATCCCAAATCA+TGG | 0.569820 | 2_4:-43064228 | Msa0329460:intron |
| AGGTTTCAACAAATGTTCCA+TGG | 0.576092 | 2_4:-43063758 | Msa0329460:CDS |
| CCGTGAAGAAAATAACAACT+AGG | 0.577940 | 2_4:+43064271 | None:intergenic |
| TCTGGTATGGTGGAACCGGT+TGG | 0.613355 | 2_4:+43063829 | None:intergenic |
| CCAGATTGTTCCCATGCATG+TGG | 0.632279 | 2_4:-43063811 | Msa0329460:CDS |
| TTCACCCTGCAAGAGAGTCA+TGG | 0.633528 | 2_4:-43063782 | Msa0329460:CDS |
| TGCATGGGAACAATCTGGTA+TGG | 0.634963 | 2_4:+43063816 | None:intergenic |
| CATAGGGCAAGACTCTGCCA+TGG | 0.645318 | 2_4:+43063741 | None:intergenic |
| CCTACCATGACTCTCTTGCA+GGG | 0.648814 | 2_4:+43063778 | None:intergenic |
| ACTACGATCGATCAATTCGA+CGG | 0.670288 | 2_4:+43063679 | None:intergenic |
| CCCTGCAAGAGAGTCATGGT+AGG | 0.689334 | 2_4:-43063778 | Msa0329460:CDS |
| ATGGGAACAATCTGGTATGG+TGG | 0.708219 | 2_4:+43063819 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AACAACAATTATAGACAAAA+AGG | - | chr2_4:43064004-43064023 | Msa0329460:CDS | 20.0% |
| !!! | TCAAATATTTGTGATTTTGT+AGG | - | chr2_4:43064106-43064125 | Msa0329460:intron | 20.0% |
| ! | AGTATCATGTAATGATGTAA+AGG | - | chr2_4:43063883-43063902 | Msa0329460:intron | 25.0% |
| !! | ATATTTGTGATTTTGTAGGA+AGG | - | chr2_4:43064110-43064129 | Msa0329460:intron | 25.0% |
| AACAACTAGGAAAGATTTGT+GGG | + | chr2_4:43063715-43063734 | None:intergenic | 30.0% | |
| TAACAACTAGGAAAGATTTG+TGG | + | chr2_4:43063716-43063735 | None:intergenic | 30.0% | |
| !!! | CCTAGTTGTTATTTTCTTCA+CGG | - | chr2_4:43063725-43063744 | Msa0329460:CDS | 30.0% |
| ! | TTCTTCACGGTATTTTCTAT+TGG | - | chr2_4:43063738-43063757 | Msa0329460:CDS | 30.0% |
| AAACGATTGTGAAATACTCA+AGG | + | chr2_4:43063939-43063958 | None:intergenic | 30.0% | |
| AAATGCATCTGTAAACCATA+GGG | + | chr2_4:43064274-43064293 | None:intergenic | 30.0% | |
| GTTTACAGATGCATTTGTAA+AGG | - | chr2_4:43064278-43064297 | Msa0329460:CDS | 30.0% | |
| CCGTGAAGAAAATAACAACT+AGG | + | chr2_4:43063728-43063747 | None:intergenic | 35.0% | |
| ! | TCACGGTATTTTCTATTGGT+TGG | - | chr2_4:43063742-43063761 | Msa0329460:CDS | 35.0% |
| TACTAGAACACTTATGCATG+AGG | + | chr2_4:43063867-43063886 | None:intergenic | 35.0% | |
| TGTAAGTGCATCAACTTATC+TGG | + | chr2_4:43063975-43063994 | None:intergenic | 35.0% | |
| AAGAGAAGGTAGCAATGTAA+TGG | - | chr2_4:43064136-43064155 | Msa0329460:intron | 35.0% | |
| AGGTTTCAACAAATGTTCCA+TGG | - | chr2_4:43064238-43064257 | Msa0329460:CDS | 35.0% | |
| CAAATGCATCTGTAAACCAT+AGG | + | chr2_4:43064275-43064294 | None:intergenic | 35.0% | |
| ! | CATGATTTGGGATCACTCTA+AGG | + | chr2_4:43063770-43063789 | None:intergenic | 40.0% |
| CTTAGAGTGATCCCAAATCA+TGG | - | chr2_4:43063768-43063787 | Msa0329460:CDS | 40.0% | |
| CATGTCACGTACCATGATTT+GGG | + | chr2_4:43063782-43063801 | None:intergenic | 40.0% | |
| ACATGTCACGTACCATGATT+TGG | + | chr2_4:43063783-43063802 | None:intergenic | 40.0% | |
| ! | GTAATGGAACTCTATCCAAC+CGG | - | chr2_4:43064152-43064171 | Msa0329460:intron | 40.0% |
| TTGTAGGAAGGAGCAAGAGA+AGG | - | chr2_4:43064122-43064141 | Msa0329460:intron | 45.0% | |
| ! | ACAATCTGGTATGGTGGAAC+CGG | + | chr2_4:43064174-43064193 | None:intergenic | 45.0% |
| ATGGGAACAATCTGGTATGG+TGG | + | chr2_4:43064180-43064199 | None:intergenic | 45.0% | |
| TGCATGGGAACAATCTGGTA+TGG | + | chr2_4:43064183-43064202 | None:intergenic | 45.0% | |
| TGAACATGGTCCACATGCAT+GGG | + | chr2_4:43064198-43064217 | None:intergenic | 45.0% | |
| CCACATGCATGGGAACAATC+TGG | + | chr2_4:43064188-43064207 | None:intergenic | 50.0% | |
| CCAGATTGTTCCCATGCATG+TGG | - | chr2_4:43064185-43064204 | Msa0329460:intron | 50.0% | |
| GTGAACATGGTCCACATGCA+TGG | + | chr2_4:43064199-43064218 | None:intergenic | 50.0% | |
| ACTCTCTTGCAGGGTGAACA+TGG | + | chr2_4:43064212-43064231 | None:intergenic | 50.0% | |
| TTCACCCTGCAAGAGAGTCA+TGG | - | chr2_4:43064214-43064233 | Msa0329460:intron | 50.0% | |
| CCTACCATGACTCTCTTGCA+GGG | + | chr2_4:43064221-43064240 | None:intergenic | 50.0% | |
| ACCTACCATGACTCTCTTGC+AGG | + | chr2_4:43064222-43064241 | None:intergenic | 50.0% | |
| ! | TCTGGTATGGTGGAACCGGT+TGG | + | chr2_4:43064170-43064189 | None:intergenic | 55.0% |
| CCCTGCAAGAGAGTCATGGT+AGG | - | chr2_4:43064218-43064237 | Msa0329460:intron | 55.0% | |
| CATAGGGCAAGACTCTGCCA+TGG | + | chr2_4:43064258-43064277 | None:intergenic | 55.0% | |
| CATGGCAGAGTCTTGCCCTA+TGG | - | chr2_4:43064256-43064275 | Msa0329460:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 43063690 | 43064328 | 43063690 | ID=Msa0329460;Name=Msa0329460 |
| chr2_4 | mRNA | 43063690 | 43064328 | 43063690 | ID=Msa0329460-mRNA-1;Parent=Msa0329460;Name=Msa0329460-mRNA-1;_AED=0.14;_eAED=0.14;_QI=0|0|0|1|1|1|3|0|116 |
| chr2_4 | exon | 43064229 | 43064328 | 43064229 | ID=Msa0329460-mRNA-1:exon:13182;Parent=Msa0329460-mRNA-1 |
| chr2_4 | exon | 43063993 | 43064042 | 43063993 | ID=Msa0329460-mRNA-1:exon:13181;Parent=Msa0329460-mRNA-1 |
| chr2_4 | exon | 43063690 | 43063890 | 43063690 | ID=Msa0329460-mRNA-1:exon:13180;Parent=Msa0329460-mRNA-1 |
| chr2_4 | CDS | 43064229 | 43064328 | 43064229 | ID=Msa0329460-mRNA-1:cds;Parent=Msa0329460-mRNA-1 |
| chr2_4 | CDS | 43063993 | 43064042 | 43063993 | ID=Msa0329460-mRNA-1:cds;Parent=Msa0329460-mRNA-1 |
| chr2_4 | CDS | 43063690 | 43063890 | 43063690 | ID=Msa0329460-mRNA-1:cds;Parent=Msa0329460-mRNA-1 |
| Gene Sequence |
| Protein sequence |
