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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG015935 | XP_003601834.1 | 93.333 | 390 | 7 | 2 | 1 | 371 | 1 | 390 | 0.0 | 748 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG015935 | sp|Q9FX53|TGT1_ARATH | 63.971 | 408 | 99 | 12 | 5 | 370 | 4 | 405 | 6.77e-164 | 467 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG015935 | tr|G7J2H9|G7J2H9_MEDTR | 93.333 | 390 | 7 | 2 | 1 | 371 | 1 | 390 | 0.0 | 748 |
| Gene ID | Type | Classification |
|---|---|---|
| MsaG015935 | TF | Trihelix |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsaG002146 | MsaG015935 | 0.812991 | 5.522458e-51 | 1.015060e-48 |
| MsaG008603 | MsaG015935 | 0.820658 | 1.070867e-52 | 2.396535e-50 |
| MsaG014145 | MsaG015935 | 0.821992 | 5.291010e-53 | 1.226771e-50 |
| MsaG015935 | MsaG022609 | 0.808965 | 4.074866e-50 | 6.787178e-48 |
| MsaG015935 | MsaG032000 | 0.803313 | 6.227462e-49 | 9.079223e-47 |
| MsaG015935 | MsaG035391 | 0.825541 | 7.871961e-54 | 2.009936e-51 |
| MsaG015935 | MsaG037774 | 0.800463 | 2.382336e-48 | 3.254938e-46 |
| MsaG015935 | MsaG038298 | 0.800238 | 2.646020e-48 | 3.596778e-46 |
| MsaG015935 | MsaG038776 | 0.826480 | 4.719193e-54 | 1.236869e-51 |
| MsaG015935 | MsaG043347 | 0.809329 | 3.407930e-50 | 5.725942e-48 |
| MsaG015935 | MsaG044874 | 0.802273 | 1.018750e-48 | 1.450193e-46 |
| MsaG015935 | MsaG003294 | 0.806139 | 1.611243e-49 | 2.508670e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG015935 | MtrunA17_Chr3g0123021 | 93.333 | 390 | 7 | 2 | 1 | 371 | 1 | 390 | 0.0 | 748 |
| MsaG015935 | MtrunA17_Chr5g0409071 | 36.000 | 125 | 72 | 3 | 50 | 172 | 19 | 137 | 1.55e-14 | 73.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG015935 | AT1G13450.1 | 63.971 | 408 | 99 | 12 | 5 | 370 | 4 | 405 | 6.88e-165 | 467 |
| MsaG015935 | AT3G25990.1 | 61.930 | 373 | 102 | 7 | 21 | 370 | 16 | 371 | 3.99e-159 | 451 |
| MsaG015935 | AT1G13450.3 | 65.918 | 267 | 64 | 10 | 1 | 246 | 1 | 261 | 5.85e-100 | 297 |
| MsaG015935 | AT1G13450.2 | 65.918 | 267 | 64 | 10 | 1 | 246 | 1 | 261 | 5.85e-100 | 297 |
| MsaG015935 | AT1G13450.4 | 63.964 | 222 | 56 | 8 | 5 | 207 | 4 | 220 | 1.79e-74 | 231 |
| MsaG015935 | AT2G38250.1 | 43.878 | 98 | 43 | 2 | 40 | 137 | 17 | 102 | 2.07e-15 | 76.3 |
| MsaG015935 | AT5G01380.1 | 31.579 | 114 | 75 | 1 | 77 | 190 | 52 | 162 | 1.15e-12 | 68.6 |
| MsaG015935 | AT1G76880.1 | 34.188 | 117 | 71 | 3 | 55 | 169 | 388 | 500 | 7.97e-11 | 63.9 |
Find 103 sgRNAs with CRISPR-Local
Find sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAGGTTTCCGCGCGTTTCTT+TGG | 0.225470 | 3:+92455847 | None:intergenic |
| GATGATGCCAACATTTCTTT+TGG | 0.253442 | 3:-92453568 | MsaT015935.1:CDS |
| CGAAGTCGAATAAGCATCTT+TGG | 0.254316 | 3:-92455759 | MsaT015935.1:CDS |
| CGACTATGTGTACTGATAAA+TGG | 0.279079 | 3:-92455690 | MsaT015935.1:CDS |
| TCAACTCACGCCTCGGTATA+TGG | 0.284610 | 3:+92451372 | None:intergenic |
| CGAGGTGGTGGAAGTGGTTC+TGG | 0.294738 | 3:-92455625 | MsaT015935.1:CDS |
| TCTTACATGCAATTTGATAA+AGG | 0.310587 | 3:-92455499 | MsaT015935.1:intron |
| TAAGAGAATTTGATGGTTAT+AGG | 0.317322 | 3:-92451429 | MsaT015935.1:CDS |
| ATAGCATAGCTTACCATTTC+CGG | 0.321641 | 3:+92452087 | None:intergenic |
| TTATAGGAATATTGACAATA+TGG | 0.365204 | 3:-92451413 | MsaT015935.1:CDS |
| CAAAGAAACGCGCGGAAACC+TGG | 0.365216 | 3:-92455846 | MsaT015935.1:CDS |
| CTTCAGTATGCACAGGGATA+TGG | 0.367649 | 3:+92451515 | None:intergenic |
| ACTCAATCTTGAGAGAAGTT+TGG | 0.367954 | 3:-92452190 | MsaT015935.1:CDS |
| GCGGAGTCCCTCCTTGGAAT+TGG | 0.368477 | 3:-92452119 | MsaT015935.1:CDS |
| TGAGAACTAAGCGTGCATTT+TGG | 0.385862 | 3:-92451862 | MsaT015935.1:CDS |
| CTGGCACGTCGGGCTTGGAC+AGG | 0.391303 | 3:-92451454 | MsaT015935.1:CDS |
| TGGTGGTGGTGTTGCGGCGG+TGG | 0.393366 | 3:+92455946 | None:intergenic |
| TGTTGCGGCGGTGGCGGTGG+TGG | 0.396652 | 3:+92455955 | None:intergenic |
| TGCAACATCTGCTGCGGCAA+TGG | 0.406749 | 3:+92452146 | None:intergenic |
| ATTGACCGTGACATGCCTAT+TGG | 0.408632 | 3:-92451809 | MsaT015935.1:CDS |
| TGGTGTTGCGGCGGTGGCGG+TGG | 0.409366 | 3:+92455952 | None:intergenic |
| GAAGGGTTATATCAGTCAAA+TGG | 0.412587 | 3:-92451958 | MsaT015935.1:CDS |
| TTCAGCGAAGATGAGAGAAA+AGG | 0.415899 | 3:-92455728 | MsaT015935.1:CDS |
| GTCATATAGGCATACTTTGA+TGG | 0.420087 | 3:+92451546 | None:intergenic |
| TGGTGGTGTTGCGGCGGTGG+CGG | 0.425610 | 3:+92455949 | None:intergenic |
| TCTTCTTTGTAGAAATCGAT+TGG | 0.427495 | 3:+92456027 | None:intergenic |
| TGCGGCGGTGGCGGTGGTGG+TGG | 0.431040 | 3:+92455958 | None:intergenic |
| GACGAGACACGAAGCCTCAT+TGG | 0.438362 | 3:-92455817 | MsaT015935.1:CDS |
| GGAGCTTTGATCTCCATCTC+AGG | 0.439885 | 3:+92455868 | None:intergenic |
| GGAGGCAATTAGGGCCGCTT+AGG | 0.445154 | 3:-92451886 | MsaT015935.1:intron |
| GAAGATTCAACTTTAGAAGT+AGG | 0.449628 | 3:+92455520 | None:intergenic |
| TCGTGTCTCGTCTTGAACCC+AGG | 0.453965 | 3:+92455828 | None:intergenic |
| GTTGTTGTTGAAGGTGGTGG+TGG | 0.455795 | 3:+92455932 | None:intergenic |
| TTTGCGGTTGTTGTTGTTGA+AGG | 0.456172 | 3:+92455923 | None:intergenic |
| TTGGAGAGAAACTCCGGAAA+TGG | 0.456947 | 3:-92452100 | MsaT015935.1:intron |
| AAGGGTTATATCAGTCAAAT+GGG | 0.461970 | 3:-92451957 | MsaT015935.1:CDS |
| TGAAGAGTGTAATTTCCAAT+AGG | 0.462773 | 3:+92451794 | None:intergenic |
| TATGGTCAGACTCGTCATAT+AGG | 0.466782 | 3:+92451533 | None:intergenic |
| TCAGCGAAGATGAGAGAAAA+GGG | 0.467180 | 3:-92455727 | MsaT015935.1:CDS |
| TACACTCTTCACCTTGATGA+AGG | 0.469365 | 3:-92451782 | MsaT015935.1:intron |
| ATCTTCTCTTCAGTATGCAC+AGG | 0.472173 | 3:+92451508 | None:intergenic |
| CATGATCGAGGTGGTGGAAG+TGG | 0.472652 | 3:-92455631 | MsaT015935.1:CDS |
| CAGCAAGCGGAGTCCCTCCT+TGG | 0.479134 | 3:-92452125 | MsaT015935.1:CDS |
| CGGTGGTGGTGGTTGAAGAT+CGG | 0.482702 | 3:+92455969 | None:intergenic |
| CTTCTTTGTAGAAATCGATT+GGG | 0.484762 | 3:+92456028 | None:intergenic |
| TTCAAAGACATACCTTCAAC+GGG | 0.487539 | 3:+92453544 | None:intergenic |
| ACAGGTCTAAGAGAATTTGA+TGG | 0.489101 | 3:-92451436 | MsaT015935.1:CDS |
| GTTGTTGTTGTTGAAGGTGG+TGG | 0.490511 | 3:+92455929 | None:intergenic |
| TATACCGAGGCGTGAGTTGA+GGG | 0.493005 | 3:-92451369 | None:intergenic |
| CATTGGTCTACGACGCGAGA+TGG | 0.494860 | 3:-92455800 | MsaT015935.1:CDS |
| AGAAGCACGCGACATGATGA+TGG | 0.494994 | 3:-92456007 | MsaT015935.1:CDS |
| AGGATCGTCGCCGCTGCTCT+CGG | 0.501790 | 3:+92455888 | None:intergenic |
| AAGCATCATGATCGAGGTGG+TGG | 0.503110 | 3:-92455637 | MsaT015935.1:CDS |
| TTGACAATATGGATGATCTT+CGG | 0.509969 | 3:-92451402 | MsaT015935.1:CDS |
| GCGGTTGTTGTTGTTGAAGG+TGG | 0.510579 | 3:+92455926 | None:intergenic |
| GCAGCAGATGTTGCAGCAAG+CGG | 0.510852 | 3:-92452138 | MsaT015935.1:CDS |
| GAAGTCGAATAAGCATCTTT+GGG | 0.511026 | 3:-92455758 | MsaT015935.1:CDS |
| GAGAGAAGTTTGGATCATGA+TGG | 0.523270 | 3:-92452180 | MsaT015935.1:CDS |
| CCTGCCCTCAACTCACGCCT+CGG | 0.526894 | 3:+92451365 | None:intergenic |
| CTTCAAAGACATACCTTCAA+CGG | 0.531616 | 3:+92453543 | None:intergenic |
| AAAGTCAGTCTTGCTGTGGA+AGG | 0.533418 | 3:-92451976 | MsaT015935.1:intron |
| ATATACCGAGGCGTGAGTTG+AGG | 0.537639 | 3:-92451370 | None:intergenic |
| AACGGGTCCAAAAGAAATGT+TGG | 0.546852 | 3:+92453561 | None:intergenic |
| AGAGAAGTTTGGATCATGAT+GGG | 0.549925 | 3:-92452179 | MsaT015935.1:CDS |
| GGAGTTTCTCTCCAATTCCA+AGG | 0.550734 | 3:+92452108 | None:intergenic |
| AAAGAAACGCGCGGAAACCT+GGG | 0.551251 | 3:-92455845 | MsaT015935.1:CDS |
| TTGGAATTGGAGAGAAACTC+CGG | 0.552288 | 3:-92452106 | MsaT015935.1:CDS |
| TGAAGGTGGTGGTGGTGTTG+CGG | 0.562582 | 3:+92455940 | None:intergenic |
| GGTGGTGGAAGTGGTTCTGG+TGG | 0.566673 | 3:-92455622 | MsaT015935.1:CDS |
| CTTCTCTCAAGATTGAGTGT+TGG | 0.567585 | 3:+92452195 | None:intergenic |
| TTGTAGAAATCGATTGGGCG+AGG | 0.569863 | 3:+92456033 | None:intergenic |
| AGGTGGTGGTGGTGTTGCGG+CGG | 0.579610 | 3:+92455943 | None:intergenic |
| AAAATCACGGTAATCATCCT+CGG | 0.581502 | 3:+92451477 | None:intergenic |
| TTAAGAGAGAGAAGTAAGTG+TGG | 0.586827 | 3:-92455565 | MsaT015935.1:CDS |
| TCGGCGGTGAGAATCATTTG+CGG | 0.586996 | 3:+92455907 | None:intergenic |
| ATTCTCACCGCCGAGAGCAG+CGG | 0.587631 | 3:-92455898 | MsaT015935.1:CDS |
| TTTCTCTCCAATTCCAAGGA+GGG | 0.589209 | 3:+92452112 | None:intergenic |
| CAGCGGCGACGATCCTGAGA+TGG | 0.596039 | 3:-92455881 | MsaT015935.1:CDS |
| AATATGGATGATCTTCGGCC+TGG | 0.596618 | 3:-92451397 | MsaT015935.1:CDS |
| GGTGATTATACAAGACGGAT+AGG | 0.598109 | 3:-92451935 | MsaT015935.1:intron |
| AAGTCAGTCTTGCTGTGGAA+GGG | 0.603947 | 3:-92451975 | MsaT015935.1:intron |
| ATTGAGCCCAACCTTCATCA+AGG | 0.614772 | 3:+92451771 | None:intergenic |
| GGGGAAAGTCAGTCTTGCTG+TGG | 0.620628 | 3:-92451980 | MsaT015935.1:intron |
| CATTTATCAGTACACATAGT+CGG | 0.622025 | 3:+92455691 | None:intergenic |
| GTGGTGGAAGTGGTTCTGGT+GGG | 0.625269 | 3:-92455621 | MsaT015935.1:CDS |
| TCTGCTGCGGCAATGGCAAG+AGG | 0.628811 | 3:+92452153 | None:intergenic |
| ACGCCTCGGTATATGGCACC+AGG | 0.628824 | 3:+92451379 | None:intergenic |
| GCTTGCTGCAACATCTGCTG+CGG | 0.629023 | 3:+92452140 | None:intergenic |
| TGGTGGTTGAAGATCGGTGT+TGG | 0.640907 | 3:+92455975 | None:intergenic |
| CTATGTGTACTGATAAATGG+AGG | 0.647821 | 3:-92455687 | MsaT015935.1:CDS |
| CCCGACGTGCCAGAAAATCA+CGG | 0.651686 | 3:+92451464 | None:intergenic |
| ATCGTCGCCGCTGCTCTCGG+CGG | 0.657648 | 3:+92455891 | None:intergenic |
| CGCTTAGTTCTCAACCTAAG+CGG | 0.658428 | 3:+92451872 | None:intergenic |
| CGGCCTGGTGCCATATACCG+AGG | 0.668670 | 3:-92451382 | MsaT015935.1:CDS |
| AATTTCCAATAGGCATGTCA+CGG | 0.669198 | 3:+92451804 | None:intergenic |
| AATGGGGTGATTATACAAGA+CGG | 0.669804 | 3:-92451940 | MsaT015935.1:CDS |
| AAAGCGAAGCATCATGATCG+AGG | 0.672309 | 3:-92455643 | MsaT015935.1:CDS |
| TCTTCTCTTCAGTATGCACA+GGG | 0.678271 | 3:+92451509 | None:intergenic |
| GTTTCTCTCCAATTCCAAGG+AGG | 0.688298 | 3:+92452111 | None:intergenic |
| TCTCGCGTCGTAGACCAATG+AGG | 0.690034 | 3:+92455803 | None:intergenic |
| CAAAGCTCCAAAGAAACGCG+CGG | 0.692450 | 3:-92455854 | MsaT015935.1:CDS |
| GCGAAGCATCATGATCGAGG+TGG | 0.709157 | 3:-92455640 | MsaT015935.1:CDS |
| AGGGTTATATCAGTCAAATG+GGG | 0.717478 | 3:-92451956 | MsaT015935.1:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr3 | gene | 92451372 | 92456076 | 92451372 | ID=MsaG015935 |
| Chr3 | mRNA | 92451372 | 92456076 | 92451372 | ID=MsaT015935.1;Parent=MsaG015935 |
| Chr3 | exon | 92451372 | 92451574 | 92451372 | ID=MsaT015935.1.exon6;Parent=MsaT015935.1 |
| Chr3 | CDS | 92451372 | 92451574 | 92451372 | ID=cds.MsaT015935.1;Parent=MsaT015935.1 |
| Chr3 | exon | 92451783 | 92451896 | 92451783 | ID=MsaT015935.1.exon5;Parent=MsaT015935.1 |
| Chr3 | CDS | 92451783 | 92451896 | 92451783 | ID=cds.MsaT015935.1;Parent=MsaT015935.1 |
| Chr3 | exon | 92451936 | 92451990 | 92451936 | ID=MsaT015935.1.exon4;Parent=MsaT015935.1 |
| Chr3 | CDS | 92451936 | 92451990 | 92451936 | ID=cds.MsaT015935.1;Parent=MsaT015935.1 |
| Chr3 | exon | 92452101 | 92452228 | 92452101 | ID=MsaT015935.1.exon3;Parent=MsaT015935.1 |
| Chr3 | CDS | 92452101 | 92452228 | 92452101 | ID=cds.MsaT015935.1;Parent=MsaT015935.1 |
| Chr3 | exon | 92453557 | 92453595 | 92453557 | ID=MsaT015935.1.exon2;Parent=MsaT015935.1 |
| Chr3 | CDS | 92453557 | 92453595 | 92453557 | ID=cds.MsaT015935.1;Parent=MsaT015935.1 |
| Chr3 | exon | 92455500 | 92456076 | 92455500 | ID=MsaT015935.1.exon1;Parent=MsaT015935.1 |
| Chr3 | CDS | 92455500 | 92456076 | 92455500 | ID=cds.MsaT015935.1;Parent=MsaT015935.1 |
| Gene Sequence |
| Protein sequence |
