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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1211030 | 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0636170 | Msa1211030 | 0.803543 | 3.316066e-49 | -8.615850e-47 |
| Msa0689390 | Msa1211030 | 0.874473 | 6.572919e-68 | -8.615850e-47 |
| Msa0743810 | Msa1211030 | 0.821250 | 4.461717e-53 | -8.615850e-47 |
| Msa0766630 | Msa1211030 | 0.800476 | 1.415731e-48 | -8.615850e-47 |
| Msa0806090 | Msa1211030 | 0.804846 | 1.775168e-49 | -8.615850e-47 |
| Msa0142220 | Msa1211030 | 0.800424 | 1.450622e-48 | -8.615850e-47 |
| Msa0232850 | Msa1211030 | 0.806718 | 7.180615e-50 | -8.615850e-47 |
| Msa0233300 | Msa1211030 | 0.801935 | 7.119826e-49 | -8.615850e-47 |
| Msa0384800 | Msa1211030 | 0.805144 | 1.538378e-49 | -8.615850e-47 |
| Msa0453120 | Msa1211030 | 0.802977 | 4.343358e-49 | -8.615850e-47 |
| Msa0989060 | Msa1211030 | 0.818945 | 1.503677e-52 | -8.615850e-47 |
| Msa1087490 | Msa1211030 | 0.859558 | 3.806953e-63 | -8.615850e-47 |
| Msa1092990 | Msa1211030 | 0.807327 | 5.335726e-50 | -8.615850e-47 |
| Msa0270520 | Msa1211030 | 0.804665 | 1.937254e-49 | -8.615850e-47 |
| Msa1182090 | Msa1211030 | 0.804801 | 1.814683e-49 | -8.615850e-47 |
| Msa1211030 | Msa1249490 | 0.804910 | 1.721757e-49 | -8.615850e-47 |
| Msa1211030 | Msa1310120 | 0.860752 | 1.659196e-63 | -8.615850e-47 |
| Msa1211030 | Msa1408780 | 0.856494 | 3.096791e-62 | -8.615850e-47 |
| Msa1211030 | Msa1422180 | 0.800174 | 1.631226e-48 | -8.615850e-47 |
| Msa0907260 | Msa1211030 | 0.845759 | 3.322830e-59 | -8.615850e-47 |
| Msa0956270 | Msa1211030 | 0.837255 | 5.791198e-57 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1211030 | MtrunA17_Chr8g0336901 | 66.176 | 136 | 36 | 3 | 28 | 155 | 1 | 134 | 2.38e-52 | 162 |
| Msa1211030 | MtrunA17_Chr8g0336891 | 67.742 | 124 | 36 | 3 | 13 | 134 | 101 | 222 | 7.68e-44 | 144 |
| Msa1211030 | MtrunA17_Chr8g0336921 | 43.590 | 117 | 61 | 4 | 16 | 130 | 37 | 150 | 2.84e-18 | 78.2 |
| Msa1211030 | 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 | 8_1:-70399771 | Msa1211030:CDS |
| TCTGATCAATTTGGCCTTAT+GGG | 0.206934 | 8_1:-70399770 | Msa1211030:CDS |
| AACAAGAGTAAGAGTGAAAT+TGG | 0.208263 | 8_1:+70399844 | None:intergenic |
| GAACATTGCTCTGATCAATT+TGG | 0.249003 | 8_1:-70399779 | Msa1211030:CDS |
| TAAAGAAGTGTTTAAAGATT+TGG | 0.260488 | 8_1:-70400055 | Msa1211030:CDS |
| ATTTCACTCTTACTCTTGTT+GGG | 0.276326 | 8_1:-70399841 | Msa1211030:CDS |
| TTTCTCAGACAGTACTTTGC+TGG | 0.310858 | 8_1:+70399705 | None:intergenic |
| AATTTCACTCTTACTCTTGT+TGG | 0.319682 | 8_1:-70399842 | Msa1211030:CDS |
| GTTGTAGTTGCAAGAGAGTT+TGG | 0.331524 | 8_1:+70399884 | None:intergenic |
| AAAATTCCTCCGCAACTTAG+AGG | 0.340276 | 8_1:-70399655 | Msa1211030:CDS |
| TAGCCTTGACACTGATTTCA+AGG | 0.344509 | 8_1:-70399801 | Msa1211030:CDS |
| GAAATTGGGAAAATAGTAAC+AGG | 0.404325 | 8_1:+70399859 | None:intergenic |
| TTCTCAGACAGTACTTTGCT+GGG | 0.420636 | 8_1:+70399706 | None:intergenic |
| GCAATGAAGTGCACAAATGA+TGG | 0.482030 | 8_1:-70399988 | Msa1211030:CDS |
| TGTGAAAATAAGAACCCATA+AGG | 0.488209 | 8_1:+70399756 | None:intergenic |
| GCAACTTAGAGGTAGATTGC+CGG | 0.494987 | 8_1:-70399644 | Msa1211030:CDS |
| CCGATAGCAATGCGGTTTCA+AGG | 0.497144 | 8_1:-70400191 | Msa1211030:intron |
| TTTCACTCTTACTCTTGTTG+GGG | 0.497838 | 8_1:-70399840 | Msa1211030:CDS |
| CCTTGAAACCGCATTGCTAT+CGG | 0.508859 | 8_1:+70400191 | None:intergenic |
| ACAAGAGTAAGAGTGAAATT+GGG | 0.519071 | 8_1:+70399845 | None:intergenic |
| AATCAGTGTCAAGGCTAGAA+AGG | 0.525707 | 8_1:+70399807 | None:intergenic |
| CAATGAAGTGCACAAATGAT+GGG | 0.531410 | 8_1:-70399987 | Msa1211030:CDS |
| GTTCACAACTTTAGCCGCAA+TGG | 0.546781 | 8_1:-70400013 | Msa1211030:CDS |
| AGCAAGTGTCTACATCATCA+TGG | 0.594333 | 8_1:-70399929 | Msa1211030:CDS |
| GTTCCTTGAAATCAGTGTCA+AGG | 0.600166 | 8_1:+70399798 | None:intergenic |
| GGCAATCTACCTCTAAGTTG+CGG | 0.630114 | 8_1:+70399646 | None:intergenic |
| GCACTTCATTGCAACCATTG+CGG | 0.643939 | 8_1:+70399999 | None:intergenic |
| AATCTACCTCTAAGTTGCGG+AGG | 0.644985 | 8_1:+70399649 | None:intergenic |
| AAGCATTCTACAATCTACAC+CGG | 0.658127 | 8_1:+70399625 | None:intergenic |
| AATGAAGTGCACAAATGATG+GGG | 0.734597 | 8_1:-70399986 | Msa1211030:CDS |
| TTGCAGCTCCGATAGCAATG+CGG | 0.739864 | 8_1:-70400199 | Msa1211030:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAAAAAAAACACCTTGTT+TGG | - | chr8_1:70399737-70399756 | Msa1211030:CDS | 20.0% |
| !!! | AAAAAAAAAACACCTTGTTT+GGG | - | chr8_1:70399738-70399757 | Msa1211030:CDS | 20.0% |
| !!! | TAAAGAAGTGTTTAAAGATT+TGG | - | chr8_1:70399788-70399807 | Msa1211030:CDS | 20.0% |
| ! | GAAAATGAATATCATAGTTG+AGG | + | chr8_1:70399693-70399712 | None:intergenic | 25.0% |
| !!! | AAATCAAACAGATTTTTGAG+AGG | - | chr8_1:70400159-70400178 | Msa1211030:intron | 25.0% |
| GAAATTGGGAAAATAGTAAC+AGG | + | chr8_1:70399987-70400006 | None:intergenic | 30.0% | |
| ACAAGAGTAAGAGTGAAATT+GGG | + | chr8_1:70400001-70400020 | None:intergenic | 30.0% | |
| AACAAGAGTAAGAGTGAAAT+TGG | + | chr8_1:70400002-70400021 | None:intergenic | 30.0% | |
| AATTTCACTCTTACTCTTGT+TGG | - | chr8_1:70400001-70400020 | Msa1211030:CDS | 30.0% | |
| ATTTCACTCTTACTCTTGTT+GGG | - | chr8_1:70400002-70400021 | Msa1211030:CDS | 30.0% | |
| TGTGAAAATAAGAACCCATA+AGG | + | chr8_1:70400090-70400109 | None:intergenic | 30.0% | |
| CAATGAAGTGCACAAATGAT+GGG | - | chr8_1:70399856-70399875 | Msa1211030:CDS | 35.0% | |
| AATGAAGTGCACAAATGATG+GGG | - | chr8_1:70399857-70399876 | Msa1211030:CDS | 35.0% | |
| TTTCACTCTTACTCTTGTTG+GGG | - | chr8_1:70400003-70400022 | Msa1211030:CDS | 35.0% | |
| GAACATTGCTCTGATCAATT+TGG | - | chr8_1:70400064-70400083 | Msa1211030:CDS | 35.0% | |
| !! | TCTGATCAATTTGGCCTTAT+GGG | - | chr8_1:70400073-70400092 | Msa1211030:intron | 35.0% |
| ATGCATCAATCACCCAAACA+AGG | + | chr8_1:70399753-70399772 | None:intergenic | 40.0% | |
| GTGATTGATGCATGTGAAAC+AGG | - | chr8_1:70399760-70399779 | Msa1211030:CDS | 40.0% | |
| GCAATGAAGTGCACAAATGA+TGG | - | chr8_1:70399855-70399874 | Msa1211030:CDS | 40.0% | |
| AGCAAGTGTCTACATCATCA+TGG | - | chr8_1:70399914-70399933 | Msa1211030:CDS | 40.0% | |
| GTTGTAGTTGCAAGAGAGTT+TGG | + | chr8_1:70399962-70399981 | None:intergenic | 40.0% | |
| AATCAGTGTCAAGGCTAGAA+AGG | + | chr8_1:70400039-70400058 | None:intergenic | 40.0% | |
| !! | TAGCCTTGACACTGATTTCA+AGG | - | chr8_1:70400042-70400061 | Msa1211030:CDS | 40.0% |
| GTTCCTTGAAATCAGTGTCA+AGG | + | chr8_1:70400048-70400067 | None:intergenic | 40.0% | |
| !! | CTCTGATCAATTTGGCCTTA+TGG | - | chr8_1:70400072-70400091 | Msa1211030:intron | 40.0% |
| TTCTCAGACAGTACTTTGCT+GGG | + | chr8_1:70400140-70400159 | None:intergenic | 40.0% | |
| TTTCTCAGACAGTACTTTGC+TGG | + | chr8_1:70400141-70400160 | None:intergenic | 40.0% | |
| AAAATTCCTCCGCAACTTAG+AGG | - | chr8_1:70400188-70400207 | Msa1211030:intron | 40.0% | |
| CCTTGAAACCGCATTGCTAT+CGG | + | chr8_1:70399655-70399674 | None:intergenic | 45.0% | |
| GTTCACAACTTTAGCCGCAA+TGG | - | chr8_1:70399830-70399849 | Msa1211030:CDS | 45.0% | |
| GCACTTCATTGCAACCATTG+CGG | + | chr8_1:70399847-70399866 | None:intergenic | 45.0% | |
| AATCTACCTCTAAGTTGCGG+AGG | + | chr8_1:70400197-70400216 | None:intergenic | 45.0% | |
| GGCAATCTACCTCTAAGTTG+CGG | + | chr8_1:70400200-70400219 | None:intergenic | 45.0% | |
| GCAACTTAGAGGTAGATTGC+CGG | - | chr8_1:70400199-70400218 | Msa1211030:CDS | 45.0% | |
| !!! | TTTTTTTTTTTTTTTAGAAT+TGG | + | chr8_1:70399727-70399746 | None:intergenic | 5.0% |
| TTGCAGCTCCGATAGCAATG+CGG | - | chr8_1:70399644-70399663 | Msa1211030:CDS | 50.0% | |
| CCGATAGCAATGCGGTTTCA+AGG | - | chr8_1:70399652-70399671 | Msa1211030:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 70399639 | 70400226 | 70399639 | ID=Msa1211030;Name=Msa1211030 |
| chr8_1 | mRNA | 70399639 | 70400226 | 70399639 | ID=Msa1211030-mRNA-1;Parent=Msa1211030;Name=Msa1211030-mRNA-1;_AED=0.59;_eAED=0.59;_QI=0|0|0|0.5|1|1|2|0|159 |
| chr8_1 | exon | 70400192 | 70400226 | 70400192 | ID=Msa1211030-mRNA-1:exon:23606;Parent=Msa1211030-mRNA-1 |
| chr8_1 | exon | 70399639 | 70400083 | 70399639 | ID=Msa1211030-mRNA-1:exon:23605;Parent=Msa1211030-mRNA-1 |
| chr8_1 | CDS | 70400192 | 70400226 | 70400192 | ID=Msa1211030-mRNA-1:cds;Parent=Msa1211030-mRNA-1 |
| chr8_1 | CDS | 70399639 | 70400083 | 70399639 | ID=Msa1211030-mRNA-1:cds;Parent=Msa1211030-mRNA-1 |
| Gene Sequence |
| Protein sequence |
