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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0191350 | KEH22406.1 | 85.417 | 144 | 21 | 0 | 1 | 144 | 78 | 221 | 8.74e-83 | 256 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0191350 | sp|Q9SZL8|FRS5_ARATH | 33.758 | 157 | 81 | 4 | 7 | 142 | 69 | 223 | 2.26e-12 | 66.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0191350 | A0A072TZ24 | 85.417 | 144 | 21 | 0 | 1 | 144 | 78 | 221 | 4.17e-83 | 256 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0191350 | TF | FAR1 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0191350 | MtrunA17_Chr2g0287651 | 59.006 | 161 | 48 | 1 | 1 | 143 | 65 | 225 | 1.89e-60 | 199 |
| Msa0191350 | MtrunA17_Chr1g0203051 | 29.375 | 160 | 95 | 1 | 2 | 143 | 70 | 229 | 5.36e-22 | 90.9 |
| Msa0191350 | MtrunA17_Chr6g0458391 | 36.066 | 122 | 58 | 4 | 2 | 104 | 214 | 334 | 1.32e-14 | 69.7 |
| Msa0191350 | MtrunA17_Chr5g0448761 | 34.459 | 148 | 77 | 3 | 15 | 142 | 64 | 211 | 1.47e-13 | 66.6 |
| Msa0191350 | MtrunA17_Chr8g0389811 | 31.532 | 111 | 58 | 1 | 2 | 94 | 75 | 185 | 5.06e-13 | 63.5 |
| Msa0191350 | MtrunA17_Chr1g0171741 | 32.673 | 101 | 51 | 2 | 12 | 95 | 134 | 234 | 9.55e-12 | 60.8 |
| Msa0191350 | MtrunA17_Chr1g0203721 | 36.207 | 116 | 54 | 5 | 8 | 104 | 61 | 175 | 4.24e-11 | 59.7 |
| Msa0191350 | MtrunA17_Chr1g0202341 | 27.941 | 136 | 81 | 2 | 9 | 127 | 49 | 184 | 4.76e-11 | 59.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0191350 | AT4G38180.1 | 33.758 | 157 | 81 | 4 | 7 | 142 | 69 | 223 | 2.30e-13 | 66.6 |
| Msa0191350 | AT3G07500.1 | 37.000 | 100 | 47 | 3 | 15 | 98 | 37 | 136 | 3.63e-11 | 58.9 |
Find 31 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATTAACTGTTGAAGGAATA+AGG | 0.186899 | 2_1:-6964192 | Msa0191350:CDS |
| AATAATAACTTGTCATATAA+TGG | 0.212464 | 2_1:-6963777 | Msa0191350:CDS |
| TGTTCACTACAGACCCAAAA+AGG | 0.266221 | 2_1:-6963936 | Msa0191350:CDS |
| TGCATTTACACCCTGTTTAT+CGG | 0.290641 | 2_1:-6963850 | Msa0191350:CDS |
| TTGTTAGGAAGAGTTATATT+AGG | 0.336688 | 2_1:-6964099 | Msa0191350:CDS |
| CATTGGTTGGAGTAGGTTCA+TGG | 0.373380 | 2_1:+6963876 | None:intergenic |
| ATTAACTGTTGAAGGAATAA+GGG | 0.385158 | 2_1:-6964191 | Msa0191350:CDS |
| ATAATAACTTGTCATATAAT+GGG | 0.400522 | 2_1:-6963776 | Msa0191350:CDS |
| GCTCAGAAGGGTGGATATCC+TGG | 0.409450 | 2_1:-6963743 | None:intergenic |
| TGTTGAAGGAATAAGGGAAA+TGG | 0.424439 | 2_1:-6964185 | Msa0191350:CDS |
| ATAAATTCATTAACTGTTGA+AGG | 0.431188 | 2_1:-6964199 | Msa0191350:CDS |
| TATATTAGGCACAATGTTAA+CGG | 0.434639 | 2_1:-6964085 | Msa0191350:CDS |
| GAGAGAAGAAGCATTTATCA+AGG | 0.445750 | 2_1:-6964018 | Msa0191350:intron |
| GGGATACATGGTGGCTCAGA+AGG | 0.464555 | 2_1:-6963756 | Msa0191350:CDS |
| GCAGTATGTATGCAACAAGC+AGG | 0.502107 | 2_1:-6964047 | Msa0191350:CDS |
| GTATATAAAGCACAGATTGA+TGG | 0.515508 | 2_1:-6963815 | Msa0191350:CDS |
| TTGTCATATAATGGGATACA+TGG | 0.555297 | 2_1:-6963768 | Msa0191350:CDS |
| TGTAAATGCACAACATTGGT+TGG | 0.560698 | 2_1:+6963863 | None:intergenic |
| TATAAGTACGGTAAGTGTGA+AGG | 0.565527 | 2_1:-6964127 | Msa0191350:CDS |
| TTGTTGGTGAGGAAATGGTA+AGG | 0.572827 | 2_1:-6964222 | None:intergenic |
| TACATGGTGGCTCAGAAGGG+TGG | 0.573659 | 2_1:-6963752 | Msa0191350:CDS |
| CAGTATGTATGCAACAAGCA+GGG | 0.584535 | 2_1:-6964046 | Msa0191350:CDS |
| GGATACATGGTGGCTCAGAA+GGG | 0.612576 | 2_1:-6963755 | Msa0191350:CDS |
| AATCTGTGCTTTATATACCT+CGG | 0.625433 | 2_1:+6963820 | None:intergenic |
| AGGGTGTAAATGCACAACAT+TGG | 0.627835 | 2_1:+6963859 | None:intergenic |
| AGTATGTATGCAACAAGCAG+GGG | 0.634341 | 2_1:-6964045 | Msa0191350:CDS |
| TGCACAACATTGGTTGGAGT+AGG | 0.634569 | 2_1:+6963869 | None:intergenic |
| TCATATAATGGGATACATGG+TGG | 0.669224 | 2_1:-6963765 | Msa0191350:CDS |
| TGTTTATCGGAAAATATCCG+AGG | 0.701344 | 2_1:-6963837 | Msa0191350:CDS |
| ATTGATGGTCTTCAGTCACA+CGG | 0.708259 | 2_1:-6963800 | Msa0191350:CDS |
| TTAACGGTGAGATTGTCATG+AGG | 0.744786 | 2_1:-6964069 | Msa0191350:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TACGATTTTTATTATAAGTA+CGG | - | chr2_1:6963814-6963833 | Msa0191350:CDS | 15.0% |
| !!! | AATAATAACTTGTCATATAA+TGG | - | chr2_1:6964176-6964195 | Msa0191350:CDS | 15.0% |
| !!! | ATAATAACTTGTCATATAAT+GGG | - | chr2_1:6964177-6964196 | Msa0191350:CDS | 15.0% |
| !! | ATAAATTCATTAACTGTTGA+AGG | - | chr2_1:6963754-6963773 | Msa0191350:CDS | 20.0% |
| ! | ATTAACTGTTGAAGGAATAA+GGG | - | chr2_1:6963762-6963781 | Msa0191350:CDS | 25.0% |
| ! | TTGTTAGGAAGAGTTATATT+AGG | - | chr2_1:6963854-6963873 | Msa0191350:CDS | 25.0% |
| ! | TATATTAGGCACAATGTTAA+CGG | - | chr2_1:6963868-6963887 | Msa0191350:CDS | 25.0% |
| CATTAACTGTTGAAGGAATA+AGG | - | chr2_1:6963761-6963780 | Msa0191350:CDS | 30.0% | |
| AGCATTTATCAAGGTTAGAT+AGG | - | chr2_1:6963944-6963963 | Msa0191350:CDS | 30.0% | |
| ! | ACAACATATCTACCCTTTTT+GGG | + | chr2_1:6964033-6964052 | None:intergenic | 30.0% |
| !!! | TGTTGTGTCTATTTTTGAAG+AGG | - | chr2_1:6964047-6964066 | Msa0191350:CDS | 30.0% |
| !!! | GTTGTGTCTATTTTTGAAGA+GGG | - | chr2_1:6964048-6964067 | Msa0191350:CDS | 30.0% |
| AATCTGTGCTTTATATACCT+CGG | + | chr2_1:6964136-6964155 | None:intergenic | 30.0% | |
| GTATATAAAGCACAGATTGA+TGG | - | chr2_1:6964138-6964157 | Msa0191350:CDS | 30.0% | |
| ! | TTGTCATATAATGGGATACA+TGG | - | chr2_1:6964185-6964204 | Msa0191350:CDS | 30.0% |
| TGTTGAAGGAATAAGGGAAA+TGG | - | chr2_1:6963768-6963787 | Msa0191350:CDS | 35.0% | |
| TATAAGTACGGTAAGTGTGA+AGG | - | chr2_1:6963826-6963845 | Msa0191350:CDS | 35.0% | |
| !!! | AGTGTGAAGGTTTTGTTGTT+AGG | - | chr2_1:6963839-6963858 | Msa0191350:CDS | 35.0% |
| !! | GAGAGAAGAAGCATTTATCA+AGG | - | chr2_1:6963935-6963954 | Msa0191350:CDS | 35.0% |
| ! | CACAACATATCTACCCTTTT+TGG | + | chr2_1:6964034-6964053 | None:intergenic | 35.0% |
| TGTAAATGCACAACATTGGT+TGG | + | chr2_1:6964093-6964112 | None:intergenic | 35.0% | |
| TGCATTTACACCCTGTTTAT+CGG | - | chr2_1:6964103-6964122 | Msa0191350:CDS | 35.0% | |
| ! | CGGATATTTTCCGATAAACA+GGG | + | chr2_1:6964116-6964135 | None:intergenic | 35.0% |
| ! | TCGGATATTTTCCGATAAAC+AGG | + | chr2_1:6964117-6964136 | None:intergenic | 35.0% |
| TGTTTATCGGAAAATATCCG+AGG | - | chr2_1:6964116-6964135 | Msa0191350:CDS | 35.0% | |
| ! | TCATATAATGGGATACATGG+TGG | - | chr2_1:6964188-6964207 | Msa0191350:CDS | 35.0% |
| TTAACGGTGAGATTGTCATG+AGG | - | chr2_1:6963884-6963903 | Msa0191350:CDS | 40.0% | |
| CAGTATGTATGCAACAAGCA+GGG | - | chr2_1:6963907-6963926 | Msa0191350:CDS | 40.0% | |
| AGTATGTATGCAACAAGCAG+GGG | - | chr2_1:6963908-6963927 | Msa0191350:CDS | 40.0% | |
| !! | TTTTGGGTCTGTAGTGAACA+CGG | + | chr2_1:6964017-6964036 | None:intergenic | 40.0% |
| TGTTCACTACAGACCCAAAA+AGG | - | chr2_1:6964017-6964036 | Msa0191350:intron | 40.0% | |
| GTTCACTACAGACCCAAAAA+GGG | - | chr2_1:6964018-6964037 | Msa0191350:intron | 40.0% | |
| AGGGTGTAAATGCACAACAT+TGG | + | chr2_1:6964097-6964116 | None:intergenic | 40.0% | |
| ! | ATTGATGGTCTTCAGTCACA+CGG | - | chr2_1:6964153-6964172 | Msa0191350:CDS | 40.0% |
| GCAGTATGTATGCAACAAGC+AGG | - | chr2_1:6963906-6963925 | Msa0191350:CDS | 45.0% | |
| ! | CTTGTACAAAGTGTCCAGCT+AGG | - | chr2_1:6963989-6964008 | Msa0191350:intron | 45.0% |
| ! | CATTGGTTGGAGTAGGTTCA+TGG | + | chr2_1:6964080-6964099 | None:intergenic | 45.0% |
| ! | TGCACAACATTGGTTGGAGT+AGG | + | chr2_1:6964087-6964106 | None:intergenic | 45.0% |
| GGATACATGGTGGCTCAGAA+GGG | - | chr2_1:6964198-6964217 | Msa0191350:CDS | 50.0% | |
| TAGTGAACACGGAGCCTAGC+TGG | + | chr2_1:6964006-6964025 | None:intergenic | 55.0% | |
| GGGATACATGGTGGCTCAGA+AGG | - | chr2_1:6964197-6964216 | Msa0191350:CDS | 55.0% | |
| TACATGGTGGCTCAGAAGGG+TGG | - | chr2_1:6964201-6964220 | Msa0191350:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 6963745 | 6964230 | 6963745 | ID=Msa0191350;Name=Msa0191350 |
| chr2_1 | mRNA | 6963745 | 6964230 | 6963745 | ID=Msa0191350-mRNA-1;Parent=Msa0191350;Name=Msa0191350-mRNA-1;_AED=0.32;_eAED=0.32;_QI=0|0|0|1|0|1|2|0|144 |
| chr2_1 | exon | 6964019 | 6964230 | 6964019 | ID=Msa0191350-mRNA-1:exon:3186;Parent=Msa0191350-mRNA-1 |
| chr2_1 | exon | 6963745 | 6963964 | 6963745 | ID=Msa0191350-mRNA-1:exon:3185;Parent=Msa0191350-mRNA-1 |
| chr2_1 | CDS | 6964019 | 6964230 | 6964019 | ID=Msa0191350-mRNA-1:cds;Parent=Msa0191350-mRNA-1 |
| chr2_1 | CDS | 6963745 | 6963964 | 6963745 | ID=Msa0191350-mRNA-1:cds;Parent=Msa0191350-mRNA-1 |
| Gene Sequence |
| Protein sequence |
