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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0386930 | XP_039688140.1 | 79.897 | 194 | 7 | 2 | 1 | 162 | 1 | 194 | 8.06e-100 | 296 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0386930 | sp|Q9LQZ7|BBX21_ARATH | 41.748 | 206 | 76 | 5 | 1 | 162 | 1 | 206 | 4.99e-36 | 130 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0386930 | G7J7R4 | 79.897 | 194 | 7 | 2 | 1 | 162 | 1 | 194 | 3.86e-100 | 296 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0386930 | TR | Others |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0386930 | Msa0475960 | 0.883232 | 5.340496e-71 | -8.615850e-47 |
| Msa0386930 | Msa0523850 | 0.842314 | 2.789440e-58 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0386930 | MtrunA17_Chr3g0145061 | 79.897 | 194 | 7 | 2 | 1 | 162 | 1 | 194 | 7.43e-104 | 296 |
| Msa0386930 | MtrunA17_Chr4g0035651 | 47.668 | 193 | 62 | 5 | 1 | 161 | 1 | 186 | 5.12e-46 | 150 |
| Msa0386930 | MtrunA17_Chr1g0155811 | 41.451 | 193 | 72 | 4 | 1 | 162 | 1 | 183 | 3.66e-33 | 118 |
| Msa0386930 | MtrunA17_Chr3g0142221 | 40.000 | 185 | 37 | 4 | 1 | 153 | 1 | 143 | 7.69e-33 | 116 |
| Msa0386930 | MtrunA17_Chr2g0329511 | 38.608 | 158 | 85 | 3 | 1 | 152 | 1 | 152 | 3.51e-22 | 89.0 |
| Msa0386930 | MtrunA17_Chr2g0314671 | 40.164 | 122 | 41 | 2 | 1 | 91 | 1 | 121 | 2.22e-19 | 82.4 |
| Msa0386930 | MtrunA17_Chr4g0033641 | 47.573 | 103 | 53 | 1 | 1 | 103 | 1 | 102 | 3.65e-19 | 80.9 |
| Msa0386930 | MtrunA17_Chr5g0405151 | 47.059 | 68 | 34 | 1 | 1 | 68 | 1 | 66 | 8.07e-15 | 68.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0386930 | AT1G75540.1 | 41.748 | 206 | 76 | 5 | 1 | 162 | 1 | 206 | 5.08e-37 | 130 |
| Msa0386930 | AT4G39070.1 | 41.500 | 200 | 69 | 6 | 1 | 152 | 1 | 200 | 2.26e-29 | 108 |
| Msa0386930 | AT1G06040.2 | 40.741 | 135 | 47 | 3 | 1 | 104 | 1 | 133 | 2.49e-21 | 85.5 |
| Msa0386930 | AT4G10240.1 | 42.742 | 124 | 38 | 3 | 1 | 91 | 1 | 124 | 2.01e-20 | 82.8 |
| Msa0386930 | AT1G06040.1 | 40.741 | 135 | 47 | 3 | 1 | 104 | 1 | 133 | 2.11e-20 | 84.7 |
| Msa0386930 | AT1G78600.1 | 40.678 | 118 | 38 | 2 | 1 | 87 | 1 | 117 | 1.65e-19 | 83.2 |
| Msa0386930 | AT2G31380.1 | 42.857 | 119 | 63 | 2 | 1 | 119 | 1 | 114 | 1.66e-19 | 82.4 |
| Msa0386930 | AT1G78600.2 | 40.678 | 118 | 38 | 2 | 1 | 87 | 1 | 117 | 2.54e-19 | 83.2 |
| Msa0386930 | AT4G38960.1 | 31.250 | 144 | 91 | 4 | 1 | 140 | 1 | 140 | 3.93e-15 | 69.7 |
| Msa0386930 | AT4G38960.6 | 31.250 | 144 | 91 | 4 | 1 | 140 | 1 | 140 | 3.93e-15 | 69.7 |
| Msa0386930 | AT2G21320.1 | 41.237 | 97 | 53 | 3 | 1 | 97 | 1 | 93 | 2.00e-14 | 67.4 |
Find 34 sgRNAs with CRISPR-Local
Find 53 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTGATCTAGAGTGGTTTCT+TGG | 0.257986 | 3_1:+90767566 | None:intergenic |
| GAAGCTTTCAAGCAATTCTT+TGG | 0.294858 | 3_1:-90767624 | Msa0386930:CDS |
| GATGCTTCTTTCCCACCTAA+TGG | 0.309132 | 3_1:-90767386 | Msa0386930:CDS |
| CCCACCTAATGGTTTCTGTA+AGG | 0.391077 | 3_1:-90767375 | Msa0386930:CDS |
| TAAACCTTACAGAAACCATT+AGG | 0.399460 | 3_1:+90767371 | None:intergenic |
| TCTTGGTTCAGAGCCAATAC+TGG | 0.407926 | 3_1:+90767583 | None:intergenic |
| ATCACAAAGAGGGTAGTCTT+TGG | 0.421009 | 3_1:+90767938 | None:intergenic |
| AACCAGGTATTGTTTCAATC+AGG | 0.422845 | 3_1:+90767429 | None:intergenic |
| AACATACACAGAAACATAAC+AGG | 0.440782 | 3_1:-90767664 | Msa0386930:intron |
| CATAACAGGTTTCTTCTCTC+TGG | 0.447881 | 3_1:-90767650 | Msa0386930:CDS |
| GTGTTTGGTTGCAAGCTTGT+TGG | 0.456215 | 3_1:+90767989 | None:intergenic |
| ATACTGGTGGATGATGAATC+TGG | 0.490828 | 3_1:+90767599 | None:intergenic |
| GATTCATCATCCACCAGTAT+TGG | 0.497576 | 3_1:-90767596 | Msa0386930:CDS |
| GAGGGTAGTCTTTGGAGTTG+AGG | 0.523182 | 3_1:+90767946 | None:intergenic |
| GATGAAGCTGCTCTTTGCCA+TGG | 0.528890 | 3_1:-90768035 | Msa0386930:CDS |
| GACAACATGGCTAGTGACAC+TGG | 0.532967 | 3_1:-90767482 | Msa0386930:CDS |
| AAATGCAAGTTCTTCTTGCA+TGG | 0.564285 | 3_1:-90767510 | Msa0386930:CDS |
| CTTTCTCACACACATCACAT+TGG | 0.572968 | 3_1:+90768084 | None:intergenic |
| TGGTTCAGAGCCAATACTGG+TGG | 0.580417 | 3_1:+90767586 | None:intergenic |
| TGGTTGCAAGCTTGTTGGCA+CGG | 0.580653 | 3_1:+90767994 | None:intergenic |
| GGTAGTCTTTGGAGTTGAGG+TGG | 0.585466 | 3_1:+90767949 | None:intergenic |
| TTCATCTGAAGGACAGAACA+TGG | 0.588007 | 3_1:+90768052 | None:intergenic |
| ACCTTACAGAAACCATTAGG+TGG | 0.591397 | 3_1:+90767374 | None:intergenic |
| CAAAGAGCAGCTTCATCTGA+AGG | 0.591587 | 3_1:+90768041 | None:intergenic |
| GGATTGTATGATCACATCCA+TGG | 0.608665 | 3_1:+90768018 | None:intergenic |
| TACTGGTGGATGATGAATCT+GGG | 0.618443 | 3_1:+90767600 | None:intergenic |
| TACCTGATTGAAACAATACC+TGG | 0.621076 | 3_1:-90767431 | Msa0386930:CDS |
| TTGCATGGCTGAAGACAACA+TGG | 0.623591 | 3_1:-90767495 | Msa0386930:CDS |
| CCTTACAGAAACCATTAGGT+GGG | 0.623605 | 3_1:+90767375 | None:intergenic |
| CTTGACAGATATCACAAAGA+GGG | 0.634180 | 3_1:+90767928 | None:intergenic |
| AAGTCTTCAAAACAGTAACC+AGG | 0.647020 | 3_1:+90767413 | None:intergenic |
| ACTTGACAGATATCACAAAG+AGG | 0.665459 | 3_1:+90767927 | None:intergenic |
| TTGCAAGCTTGTTGGCACGG+TGG | 0.712576 | 3_1:+90767997 | None:intergenic |
| TGATGTGTGTGAGAAAGCTG+AGG | 0.739027 | 3_1:-90768078 | Msa0386930:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CCGTTTTTATAAAAAAATGA+CGG | + | chr3_1:90767570-90767589 | None:intergenic | 20.0% |
| !!! | CCGTCATTTTTTTATAAAAA+CGG | - | chr3_1:90767567-90767586 | Msa0386930:CDS | 20.0% |
| !!! | ATGTGACTAATGTTTTAAAA+TGG | - | chr3_1:90767648-90767667 | Msa0386930:CDS | 20.0% |
| !!! | TTTTTTTATAAAAACGGTCG+CGG | - | chr3_1:90767573-90767592 | Msa0386930:CDS | 25.0% |
| AACATACACAGAAACATAAC+AGG | - | chr3_1:90767798-90767817 | Msa0386930:intron | 30.0% | |
| ! | TTTTCATTGGAAACTGATCT+TGG | + | chr3_1:90767935-90767954 | None:intergenic | 30.0% |
| ! | AGAAGAACTTGCATTTTCAT+TGG | + | chr3_1:90767948-90767967 | None:intergenic | 30.0% |
| TAAACCTTACAGAAACCATT+AGG | + | chr3_1:90768094-90768113 | None:intergenic | 30.0% | |
| AAGAGAAAAACGAGTGTGTT+TGG | + | chr3_1:90767491-90767510 | None:intergenic | 35.0% | |
| CTTGACAGATATCACAAAGA+GGG | + | chr3_1:90767537-90767556 | None:intergenic | 35.0% | |
| ACTTGACAGATATCACAAAG+AGG | + | chr3_1:90767538-90767557 | None:intergenic | 35.0% | |
| TATTAAAGATCCAGATGCGA+CGG | + | chr3_1:90767608-90767627 | None:intergenic | 35.0% | |
| ATAGAATCGCTCTATCTTCT+TGG | + | chr3_1:90767742-90767761 | None:intergenic | 35.0% | |
| GAAGCTTTCAAGCAATTCTT+TGG | - | chr3_1:90767838-90767857 | Msa0386930:intron | 35.0% | |
| ! | TTTGATCTAGAGTGGTTTCT+TGG | + | chr3_1:90767899-90767918 | None:intergenic | 35.0% |
| !! | TGTTTGCTTTTGATCTAGAG+TGG | + | chr3_1:90767907-90767926 | None:intergenic | 35.0% |
| AAATGCAAGTTCTTCTTGCA+TGG | - | chr3_1:90767952-90767971 | Msa0386930:CDS | 35.0% | |
| TACCTGATTGAAACAATACC+TGG | - | chr3_1:90768031-90768050 | Msa0386930:CDS | 35.0% | |
| ! | AACCAGGTATTGTTTCAATC+AGG | + | chr3_1:90768036-90768055 | None:intergenic | 35.0% |
| AAGTCTTCAAAACAGTAACC+AGG | + | chr3_1:90768052-90768071 | None:intergenic | 35.0% | |
| CTTTCTCACACACATCACAT+TGG | + | chr3_1:90767381-90767400 | None:intergenic | 40.0% | |
| TTCATCTGAAGGACAGAACA+TGG | + | chr3_1:90767413-90767432 | None:intergenic | 40.0% | |
| GGATTGTATGATCACATCCA+TGG | + | chr3_1:90767447-90767466 | None:intergenic | 40.0% | |
| ATCACAAAGAGGGTAGTCTT+TGG | + | chr3_1:90767527-90767546 | None:intergenic | 40.0% | |
| TATAAAAACGGTCGCGGTAA+AGG | - | chr3_1:90767579-90767598 | Msa0386930:CDS | 40.0% | |
| ! | AATATCGTGCGCTTTTGTAC+AGG | - | chr3_1:90767694-90767713 | Msa0386930:intron | 40.0% |
| TGTTCATTTGCTCCATGGAT+TGG | + | chr3_1:90767782-90767801 | None:intergenic | 40.0% | |
| GTGTATGTTCATTTGCTCCA+TGG | + | chr3_1:90767787-90767806 | None:intergenic | 40.0% | |
| CATAACAGGTTTCTTCTCTC+TGG | - | chr3_1:90767812-90767831 | Msa0386930:intron | 40.0% | |
| ! | TACTGGTGGATGATGAATCT+GGG | + | chr3_1:90767865-90767884 | None:intergenic | 40.0% |
| ! | ATACTGGTGGATGATGAATC+TGG | + | chr3_1:90767866-90767885 | None:intergenic | 40.0% |
| GATTCATCATCCACCAGTAT+TGG | - | chr3_1:90767866-90767885 | Msa0386930:intron | 40.0% | |
| CCTTACAGAAACCATTAGGT+GGG | + | chr3_1:90768090-90768109 | None:intergenic | 40.0% | |
| ACCTTACAGAAACCATTAGG+TGG | + | chr3_1:90768091-90768110 | None:intergenic | 40.0% | |
| TGATGTGTGTGAGAAAGCTG+AGG | - | chr3_1:90767384-90767403 | Msa0386930:CDS | 45.0% | |
| CAAAGAGCAGCTTCATCTGA+AGG | + | chr3_1:90767424-90767443 | None:intergenic | 45.0% | |
| GTGTTTGGTTGCAAGCTTGT+TGG | + | chr3_1:90767476-90767495 | None:intergenic | 45.0% | |
| GAATGTGACCTTCCAATCCA+TGG | - | chr3_1:90767767-90767786 | Msa0386930:intron | 45.0% | |
| !! | CATTTGCTCCATGGATTGGA+AGG | + | chr3_1:90767778-90767797 | None:intergenic | 45.0% |
| TCTTGGTTCAGAGCCAATAC+TGG | + | chr3_1:90767882-90767901 | None:intergenic | 45.0% | |
| TTGCATGGCTGAAGACAACA+TGG | - | chr3_1:90767967-90767986 | Msa0386930:CDS | 45.0% | |
| GATGCTTCTTTCCCACCTAA+TGG | - | chr3_1:90768076-90768095 | Msa0386930:CDS | 45.0% | |
| CCCACCTAATGGTTTCTGTA+AGG | - | chr3_1:90768087-90768106 | Msa0386930:CDS | 45.0% | |
| GATGAAGCTGCTCTTTGCCA+TGG | - | chr3_1:90767427-90767446 | Msa0386930:CDS | 50.0% | |
| !! | TGGTTGCAAGCTTGTTGGCA+CGG | + | chr3_1:90767471-90767490 | None:intergenic | 50.0% |
| !! | GGTAGTCTTTGGAGTTGAGG+TGG | + | chr3_1:90767516-90767535 | None:intergenic | 50.0% |
| !! | GAGGGTAGTCTTTGGAGTTG+AGG | + | chr3_1:90767519-90767538 | None:intergenic | 50.0% |
| TGGTTCAGAGCCAATACTGG+TGG | + | chr3_1:90767879-90767898 | None:intergenic | 50.0% | |
| GACAACATGGCTAGTGACAC+TGG | - | chr3_1:90767980-90767999 | Msa0386930:CDS | 50.0% | |
| !! | TTGCAAGCTTGTTGGCACGG+TGG | + | chr3_1:90767468-90767487 | None:intergenic | 55.0% |
| GTAAAGGTTGCCGTCGCATC+TGG | - | chr3_1:90767595-90767614 | Msa0386930:CDS | 55.0% | |
| ! | CGTGCGCTTTTGTACAGGAG+AGG | - | chr3_1:90767699-90767718 | Msa0386930:intron | 55.0% |
| ! | GCTTTTGTACAGGAGAGGCG+TGG | - | chr3_1:90767704-90767723 | Msa0386930:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 90767370 | 90768114 | 90767370 | ID=Msa0386930;Name=Msa0386930 |
| chr3_1 | mRNA | 90767370 | 90768114 | 90767370 | ID=Msa0386930-mRNA-1;Parent=Msa0386930;Name=Msa0386930-mRNA-1;_AED=0.11;_eAED=0.11;_QI=0|0|0|1|0|0.5|2|0|163 |
| chr3_1 | exon | 90767929 | 90768114 | 90767929 | ID=Msa0386930-mRNA-1:exon:25137;Parent=Msa0386930-mRNA-1 |
| chr3_1 | exon | 90767370 | 90767675 | 90767370 | ID=Msa0386930-mRNA-1:exon:25136;Parent=Msa0386930-mRNA-1 |
| chr3_1 | CDS | 90767929 | 90768114 | 90767929 | ID=Msa0386930-mRNA-1:cds;Parent=Msa0386930-mRNA-1 |
| chr3_1 | CDS | 90767370 | 90767675 | 90767370 | ID=Msa0386930-mRNA-1:cds;Parent=Msa0386930-mRNA-1 |
| Gene Sequence |
| Protein sequence |
