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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0233440 | KEH22406.1 | 84.615 | 130 | 20 | 0 | 1 | 130 | 92 | 221 | 6.49e-72 | 228 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0233440 | sp|Q9SZL8|FRS5_ARATH | 32.653 | 147 | 80 | 3 | 1 | 128 | 77 | 223 | 1.04e-11 | 63.9 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0233440 | A0A072TZ24 | 84.615 | 130 | 20 | 0 | 1 | 130 | 92 | 221 | 3.10e-72 | 228 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0233440 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0233440 | MtrunA17_Chr2g0287651 | 61.905 | 147 | 38 | 1 | 1 | 129 | 79 | 225 | 8.87e-57 | 188 |
| Msa0233440 | MtrunA17_Chr1g0203051 | 31.034 | 145 | 82 | 1 | 3 | 129 | 85 | 229 | 1.01e-19 | 83.6 |
| Msa0233440 | MtrunA17_Chr5g0448761 | 33.784 | 148 | 78 | 3 | 1 | 128 | 64 | 211 | 8.97e-13 | 63.9 |
| Msa0233440 | MtrunA17_Chr8g0389811 | 33.333 | 96 | 46 | 1 | 3 | 80 | 90 | 185 | 5.19e-11 | 57.8 |
| Msa0233440 | MtrunA17_Chr1g0203721 | 36.275 | 102 | 48 | 4 | 3 | 87 | 69 | 170 | 5.93e-11 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0233440 | AT4G38180.1 | 32.653 | 147 | 80 | 3 | 1 | 128 | 77 | 223 | 1.06e-12 | 63.9 |
Find 26 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATAATAACTTGTCATATAA+TGG | 0.212464 | 2_2:-5769526 | Msa0233440:CDS |
| TGCATTTACACCCTGTTTAT+CGG | 0.264525 | 2_2:-5769599 | Msa0233440:CDS |
| TGTTCACTACAGACCCAAAA+AGG | 0.266221 | 2_2:-5769685 | Msa0233440:CDS |
| TTGTTAGGAAGAGTTATATT+AGG | 0.336688 | 2_2:-5769848 | Msa0233440:CDS |
| CATTGGTTGGAGTAGGTTCA+TGG | 0.364482 | 2_2:+5769625 | None:intergenic |
| ATAATAACTTGTCATATAAT+GGG | 0.400522 | 2_2:-5769525 | Msa0233440:CDS |
| GCTCAGAAGGGTGGATATCC+TGG | 0.409450 | 2_2:-5769492 | None:intergenic |
| TATATTAGGCACAATGTTAA+CGG | 0.434639 | 2_2:-5769834 | Msa0233440:CDS |
| TATAAGTACGGTAAGTGTAA+AGG | 0.460291 | 2_2:-5769876 | Msa0233440:CDS |
| GGGATACATGGTGGCTCAGA+AGG | 0.464555 | 2_2:-5769505 | Msa0233440:CDS |
| TAGAGAAGAAGCATTTATCA+AGG | 0.481687 | 2_2:-5769767 | Msa0233440:intron |
| GCAGTATGTATGCAACAAGC+AGG | 0.502107 | 2_2:-5769796 | Msa0233440:CDS |
| GTATATAAAGCACAGATTGA+TGG | 0.515508 | 2_2:-5769564 | Msa0233440:CDS |
| TTGTCATATAATGGGATACA+TGG | 0.555297 | 2_2:-5769517 | Msa0233440:CDS |
| TGTAAATGCACAGCATTGGT+TGG | 0.565762 | 2_2:+5769612 | None:intergenic |
| TACATGGTGGCTCAGAAGGG+TGG | 0.573659 | 2_2:-5769501 | Msa0233440:CDS |
| AGGGTGTAAATGCACAGCAT+TGG | 0.584309 | 2_2:+5769608 | None:intergenic |
| CAGTATGTATGCAACAAGCA+GGG | 0.584535 | 2_2:-5769795 | Msa0233440:CDS |
| GGATACATGGTGGCTCAGAA+GGG | 0.612576 | 2_2:-5769504 | Msa0233440:CDS |
| AATCTGTGCTTTATATACCT+CGG | 0.625433 | 2_2:+5769569 | None:intergenic |
| AGTATGTATGCAACAAGCAG+GGG | 0.634341 | 2_2:-5769794 | Msa0233440:CDS |
| TGCACAGCATTGGTTGGAGT+AGG | 0.638605 | 2_2:+5769618 | None:intergenic |
| TCATATAATGGGATACATGG+TGG | 0.669224 | 2_2:-5769514 | Msa0233440:CDS |
| TGTTTATCGGAAAATATCCG+AGG | 0.701344 | 2_2:-5769586 | Msa0233440:CDS |
| ATTGATGGTCTTCAGTCACA+CGG | 0.708259 | 2_2:-5769549 | Msa0233440:CDS |
| TTAACGGTGAGATTGTCATG+AGG | 0.744786 | 2_2:-5769818 | Msa0233440:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TACGATTTTTATTATAAGTA+CGG | - | chr2_2:5769521-5769540 | Msa0233440:CDS | 15.0% |
| !!! | AATAATAACTTGTCATATAA+TGG | - | chr2_2:5769883-5769902 | Msa0233440:CDS | 15.0% |
| !!! | ATAATAACTTGTCATATAAT+GGG | - | chr2_2:5769884-5769903 | Msa0233440:CDS | 15.0% |
| ! | TTGTTAGGAAGAGTTATATT+AGG | - | chr2_2:5769561-5769580 | Msa0233440:CDS | 25.0% |
| ! | TATATTAGGCACAATGTTAA+CGG | - | chr2_2:5769575-5769594 | Msa0233440:CDS | 25.0% |
| TATAAGTACGGTAAGTGTAA+AGG | - | chr2_2:5769533-5769552 | Msa0233440:CDS | 30.0% | |
| !!! | AGTGTAAAGGTTTTGTTGTT+AGG | - | chr2_2:5769546-5769565 | Msa0233440:CDS | 30.0% |
| !! | TAGAGAAGAAGCATTTATCA+AGG | - | chr2_2:5769642-5769661 | Msa0233440:CDS | 30.0% |
| AGCATTTATCAAGGTTAGAT+AGG | - | chr2_2:5769651-5769670 | Msa0233440:CDS | 30.0% | |
| ! | ACAACATATCTACCCTTTTT+GGG | + | chr2_2:5769740-5769759 | None:intergenic | 30.0% |
| !!! | TGTTGTGTCTATTTTTGAAG+AGG | - | chr2_2:5769754-5769773 | Msa0233440:intron | 30.0% |
| !!! | GTTGTGTCTATTTTTGAAGA+GGG | - | chr2_2:5769755-5769774 | Msa0233440:intron | 30.0% |
| AATCTGTGCTTTATATACCT+CGG | + | chr2_2:5769843-5769862 | None:intergenic | 30.0% | |
| GTATATAAAGCACAGATTGA+TGG | - | chr2_2:5769845-5769864 | Msa0233440:CDS | 30.0% | |
| ! | TTGTCATATAATGGGATACA+TGG | - | chr2_2:5769892-5769911 | Msa0233440:CDS | 30.0% |
| ! | CACAACATATCTACCCTTTT+TGG | + | chr2_2:5769741-5769760 | None:intergenic | 35.0% |
| TGCATTTACACCCTGTTTAT+CGG | - | chr2_2:5769810-5769829 | Msa0233440:CDS | 35.0% | |
| ! | CGGATATTTTCCGATAAACA+GGG | + | chr2_2:5769823-5769842 | None:intergenic | 35.0% |
| ! | TCGGATATTTTCCGATAAAC+AGG | + | chr2_2:5769824-5769843 | None:intergenic | 35.0% |
| TGTTTATCGGAAAATATCCG+AGG | - | chr2_2:5769823-5769842 | Msa0233440:CDS | 35.0% | |
| ! | TCATATAATGGGATACATGG+TGG | - | chr2_2:5769895-5769914 | Msa0233440:CDS | 35.0% |
| TTAACGGTGAGATTGTCATG+AGG | - | chr2_2:5769591-5769610 | Msa0233440:CDS | 40.0% | |
| CAGTATGTATGCAACAAGCA+GGG | - | chr2_2:5769614-5769633 | Msa0233440:CDS | 40.0% | |
| AGTATGTATGCAACAAGCAG+GGG | - | chr2_2:5769615-5769634 | Msa0233440:CDS | 40.0% | |
| !! | TTTTGGGTCTGTAGTGAACA+CGG | + | chr2_2:5769724-5769743 | None:intergenic | 40.0% |
| TGTTCACTACAGACCCAAAA+AGG | - | chr2_2:5769724-5769743 | Msa0233440:intron | 40.0% | |
| GTTCACTACAGACCCAAAAA+GGG | - | chr2_2:5769725-5769744 | Msa0233440:intron | 40.0% | |
| !! | TGTAAATGCACAGCATTGGT+TGG | + | chr2_2:5769800-5769819 | None:intergenic | 40.0% |
| ! | ATTGATGGTCTTCAGTCACA+CGG | - | chr2_2:5769860-5769879 | Msa0233440:CDS | 40.0% |
| GCAGTATGTATGCAACAAGC+AGG | - | chr2_2:5769613-5769632 | Msa0233440:CDS | 45.0% | |
| ! | CTTGTACAAAGTGTCCAGCT+AGG | - | chr2_2:5769696-5769715 | Msa0233440:intron | 45.0% |
| ! | CATTGGTTGGAGTAGGTTCA+TGG | + | chr2_2:5769787-5769806 | None:intergenic | 45.0% |
| AGGGTGTAAATGCACAGCAT+TGG | + | chr2_2:5769804-5769823 | None:intergenic | 45.0% | |
| !! | TGCACAGCATTGGTTGGAGT+AGG | + | chr2_2:5769794-5769813 | None:intergenic | 50.0% |
| GGATACATGGTGGCTCAGAA+GGG | - | chr2_2:5769905-5769924 | Msa0233440:CDS | 50.0% | |
| TAGTGAACACGGAGCCTAGC+TGG | + | chr2_2:5769713-5769732 | None:intergenic | 55.0% | |
| GGGATACATGGTGGCTCAGA+AGG | - | chr2_2:5769904-5769923 | Msa0233440:CDS | 55.0% | |
| TACATGGTGGCTCAGAAGGG+TGG | - | chr2_2:5769908-5769927 | Msa0233440:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 5769494 | 5769937 | 5769494 | ID=Msa0233440;Name=Msa0233440 |
| chr2_2 | mRNA | 5769494 | 5769937 | 5769494 | ID=Msa0233440-mRNA-1;Parent=Msa0233440;Name=Msa0233440-mRNA-1;_AED=0.32;_eAED=0.32;_QI=0|0|0|1|0|1|2|0|130 |
| chr2_2 | exon | 5769768 | 5769937 | 5769768 | ID=Msa0233440-mRNA-1:exon:2522;Parent=Msa0233440-mRNA-1 |
| chr2_2 | exon | 5769494 | 5769713 | 5769494 | ID=Msa0233440-mRNA-1:exon:2521;Parent=Msa0233440-mRNA-1 |
| chr2_2 | CDS | 5769768 | 5769937 | 5769768 | ID=Msa0233440-mRNA-1:cds;Parent=Msa0233440-mRNA-1 |
| chr2_2 | CDS | 5769494 | 5769713 | 5769494 | ID=Msa0233440-mRNA-1:cds;Parent=Msa0233440-mRNA-1 |
| Gene Sequence |
| Protein sequence |
