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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0412280 | RCV35100.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 130 | 232 | 3.26e-67 | 211 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0412280 | sp|P0CG89|H4_SOYBN | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.06e-67 | 199 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0412280 | A0A7C8Z1D6 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 1.17e-64 | 199 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0222620 | Msa0412280 | 0.815255 | 1.015416e-51 | -8.615850e-47 |
| Msa0223080 | Msa0412280 | 0.854201 | 1.440667e-61 | -8.615850e-47 |
| Msa0412270 | Msa0412280 | 0.849118 | 3.969891e-60 | -8.615850e-47 |
| Msa0412280 | Msa1078170 | 0.823088 | 1.671779e-53 | -8.615850e-47 |
| Msa0412280 | Msa1085260 | 0.805329 | 1.407053e-49 | -8.615850e-47 |
| Msa0412280 | Msa1123380 | 0.813719 | 2.220179e-51 | -8.615850e-47 |
| Msa0412280 | Msa1221060 | 0.827860 | 1.238865e-54 | -8.615850e-47 |
| Msa0412280 | Msa1303240 | 0.829824 | 4.146141e-55 | -8.615850e-47 |
| Msa0412280 | Msa1361410 | 0.838039 | 3.644438e-57 | -8.615850e-47 |
| Msa0412280 | Msa1373100 | 0.808019 | 3.804059e-50 | -8.615850e-47 |
| Msa0412280 | Msa1422950 | 0.808011 | 3.818332e-50 | -8.615850e-47 |
| Msa0412280 | Msa1446820 | 0.850794 | 1.348387e-60 | -8.615850e-47 |
| Msa0412280 | Msa1451160 | 0.833133 | 6.354539e-56 | -8.615850e-47 |
| Msa0302160 | Msa0412280 | 0.850577 | 1.552172e-60 | -8.615850e-47 |
| Msa0339490 | Msa0412280 | 0.847973 | 8.236403e-60 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0412280 | MtrunA17_Chr4g0072411 | 100.000 | 103 | 0 | 0 | 1 | 103 | 59 | 161 | 5.39e-69 | 203 |
| Msa0412280 | MtrunA17_Chr5g0425951 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412280 | MtrunA17_Chr4g0030431 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412280 | MtrunA17_Chr3g0100121 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412280 | MtrunA17_Chr3g0113681 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412280 | MtrunA17_Chr2g0327641 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412280 | MtrunA17_Chr3g0103351 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412280 | MtrunA17_Chr8g0352791 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412280 | MtrunA17_Chr3g0103821 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412280 | MtrunA17_Chr3g0104031 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412280 | MtrunA17_Chr7g0225731 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412280 | MtrunA17_Chr3g0103801 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412280 | MtrunA17_Chr3g0103881 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412280 | MtrunA17_Chr7g0262791 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0412280 | AT3G53730.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412280 | AT1G07820.2 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412280 | AT1G07820.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412280 | AT5G59690.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412280 | AT3G46320.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412280 | AT2G28740.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412280 | AT1G07660.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412280 | AT3G45930.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412280 | AT5G59970.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412280 | AT5G59970.2 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412280 | AT1G07660.2 | 83.495 | 103 | 0 | 1 | 1 | 103 | 1 | 86 | 4.52e-51 | 155 |
Find 32 sgRNAs with CRISPR-Local
Find 35 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGAAGAACCCTCTATGGTTT+TGG | 0.304646 | 3_2:-55551777 | Msa0412280:CDS |
| AGGTGTCTTGAAGATCTTCT+TGG | 0.396647 | 3_2:-55551892 | Msa0412280:CDS |
| AAAATGTCAGGCCGTGGAAA+GGG | 0.408859 | 3_2:-55552062 | Msa0412280:CDS |
| TTCAACCTCCAAAACCATAG+AGG | 0.438439 | 3_2:+55551769 | None:intergenic |
| AGGCAGGGAAGAACCCTCTA+TGG | 0.447332 | 3_2:-55551783 | Msa0412280:CDS |
| CTCGCCAATCGGCGAATAGC+AGG | 0.453484 | 3_2:+55551963 | None:intergenic |
| GGTAAGGGTCTGGGAAAGGG+AGG | 0.476615 | 3_2:-55552038 | Msa0412280:CDS |
| TGTCTATGCTTTGAAGAGGC+AGG | 0.485721 | 3_2:-55551799 | Msa0412280:CDS |
| AGGGAGGTGCAAAGAGGCAT+AGG | 0.498985 | 3_2:-55552022 | Msa0412280:CDS |
| CACCACCTCTTCTCGCCAAT+CGG | 0.499060 | 3_2:+55551952 | None:intergenic |
| GGTTCTTCGTGACAACATCC+AGG | 0.501637 | 3_2:-55551997 | Msa0412280:CDS |
| CAAGCCTGCTATTCGCCGAT+TGG | 0.502152 | 3_2:-55551967 | Msa0412280:CDS |
| CAATCGGCGAATAGCAGGCT+TGG | 0.515998 | 3_2:+55551968 | None:intergenic |
| TTACATACACTGAGCATGCT+AGG | 0.520723 | 3_2:-55551848 | Msa0412280:CDS |
| CGCCGATTGGCGAGAAGAGG+TGG | 0.530277 | 3_2:-55551954 | Msa0412280:CDS |
| GTCTATGCTTTGAAGAGGCA+GGG | 0.532756 | 3_2:-55551798 | Msa0412280:CDS |
| GAAAATGTCAGGCCGTGGAA+AGG | 0.547267 | 3_2:-55552063 | None:intergenic |
| AATGTCAGGCCGTGGAAAGG+GGG | 0.551839 | 3_2:-55552060 | Msa0412280:CDS |
| GGTGGTGTGAAGAGAATCAG+TGG | 0.556654 | 3_2:-55551936 | Msa0412280:CDS |
| AAATGTCAGGCCGTGGAAAG+GGG | 0.566511 | 3_2:-55552061 | Msa0412280:CDS |
| GAGGAAGACTGTGACAGCCA+TGG | 0.570644 | 3_2:-55551826 | Msa0412280:CDS |
| TCAACCTCCAAAACCATAGA+GGG | 0.578325 | 3_2:+55551770 | None:intergenic |
| AGGTGCAAAGAGGCATAGGA+AGG | 0.586086 | 3_2:-55552018 | Msa0412280:CDS |
| TAGCAGGCTTGGTGATACCC+TGG | 0.594313 | 3_2:+55551979 | None:intergenic |
| ATGTCAGGCCGTGGAAAGGG+GGG | 0.596640 | 3_2:-55552059 | Msa0412280:CDS |
| ATTCGCCGATTGGCGAGAAG+AGG | 0.615284 | 3_2:-55551957 | Msa0412280:CDS |
| TTGATATATGAAGAAACAAG+AGG | 0.619131 | 3_2:-55551912 | Msa0412280:CDS |
| CAAAGCATAGACAACATCCA+TGG | 0.629842 | 3_2:+55551809 | None:intergenic |
| TGGGAAAGGGAGGTGCAAAG+AGG | 0.663580 | 3_2:-55552028 | Msa0412280:CDS |
| GTTCTTCGTGACAACATCCA+GGG | 0.676380 | 3_2:-55551996 | Msa0412280:CDS |
| ATGTTGTCTATGCTTTGAAG+AGG | 0.684273 | 3_2:-55551803 | Msa0412280:CDS |
| CATACACTGAGCATGCTAGG+AGG | 0.707859 | 3_2:-55551845 | Msa0412280:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TTGATATATGAAGAAACAAG+AGG | - | chr3_2:55551917-55551936 | Msa0412280:CDS | 25.0% |
| !! | ATGTTGTCTATGCTTTGAAG+AGG | - | chr3_2:55552026-55552045 | Msa0412280:CDS | 35.0% |
| AGGTGTCTTGAAGATCTTCT+TGG | - | chr3_2:55551937-55551956 | Msa0412280:CDS | 40.0% | |
| TTACATACACTGAGCATGCT+AGG | - | chr3_2:55551981-55552000 | Msa0412280:CDS | 40.0% | |
| CAAAGCATAGACAACATCCA+TGG | + | chr3_2:55552023-55552042 | None:intergenic | 40.0% | |
| TCAACCTCCAAAACCATAGA+GGG | + | chr3_2:55552062-55552081 | None:intergenic | 40.0% | |
| GTTCTTCGTGACAACATCCA+GGG | - | chr3_2:55551833-55551852 | Msa0412280:CDS | 45.0% | |
| !! | TGTCTATGCTTTGAAGAGGC+AGG | - | chr3_2:55552030-55552049 | Msa0412280:CDS | 45.0% |
| !! | GTCTATGCTTTGAAGAGGCA+GGG | - | chr3_2:55552031-55552050 | Msa0412280:CDS | 45.0% |
| ! | GGAAGAACCCTCTATGGTTT+TGG | - | chr3_2:55552052-55552071 | Msa0412280:CDS | 45.0% |
| !!! | AGAACCCTCTATGGTTTTGG+AGG | - | chr3_2:55552055-55552074 | Msa0412280:CDS | 45.0% |
| ! | AGGTGCAAAGAGGCATAGGA+AGG | - | chr3_2:55551811-55551830 | Msa0412280:CDS | 50.0% |
| GGTTCTTCGTGACAACATCC+AGG | - | chr3_2:55551832-55551851 | Msa0412280:CDS | 50.0% | |
| GGTGGTGTGAAGAGAATCAG+TGG | - | chr3_2:55551893-55551912 | Msa0412280:CDS | 50.0% | |
| CATACACTGAGCATGCTAGG+AGG | - | chr3_2:55551984-55552003 | Msa0412280:CDS | 50.0% | |
| ! | TGGGAAAGGGAGGTGCAAAG+AGG | - | chr3_2:55551801-55551820 | Msa0412280:CDS | 55.0% |
| ! | AGGGAGGTGCAAAGAGGCAT+AGG | - | chr3_2:55551807-55551826 | Msa0412280:CDS | 55.0% |
| !! | TAGCAGGCTTGGTGATACCC+TGG | + | chr3_2:55551853-55551872 | None:intergenic | 55.0% |
| CAATCGGCGAATAGCAGGCT+TGG | + | chr3_2:55551864-55551883 | None:intergenic | 55.0% | |
| CAAGCCTGCTATTCGCCGAT+TGG | - | chr3_2:55551862-55551881 | Msa0412280:CDS | 55.0% | |
| ! | ATTCGCCGATTGGCGAGAAG+AGG | - | chr3_2:55551872-55551891 | Msa0412280:CDS | 55.0% |
| CACCACCTCTTCTCGCCAAT+CGG | + | chr3_2:55551880-55551899 | None:intergenic | 55.0% | |
| GAGGAAGACTGTGACAGCCA+TGG | - | chr3_2:55552003-55552022 | Msa0412280:CDS | 55.0% | |
| AGGCAGGGAAGAACCCTCTA+TGG | - | chr3_2:55552046-55552065 | Msa0412280:CDS | 55.0% | |
| ATGTCAGGCCGTGGAAAGGG+GGG | - | chr3_2:55551770-55551789 | Msa0412280:CDS | 60.0% | |
| GACCCTTACCCCCCTTTCCA+CGG | + | chr3_2:55551781-55551800 | None:intergenic | 60.0% | |
| TGGAAAGGGGGGTAAGGGTC+TGG | - | chr3_2:55551781-55551800 | Msa0412280:CDS | 60.0% | |
| GGAAAGGGGGGTAAGGGTCT+GGG | - | chr3_2:55551782-55551801 | Msa0412280:CDS | 60.0% | |
| GGGGGTAAGGGTCTGGGAAA+GGG | - | chr3_2:55551788-55551807 | Msa0412280:CDS | 60.0% | |
| GGTAAGGGTCTGGGAAAGGG+AGG | - | chr3_2:55551791-55551810 | Msa0412280:CDS | 60.0% | |
| CTCGCCAATCGGCGAATAGC+AGG | + | chr3_2:55551869-55551888 | None:intergenic | 60.0% | |
| AGGCCGTGGAAAGGGGGGTA+AGG | - | chr3_2:55551775-55551794 | Msa0412280:CDS | 65.0% | |
| GGCCGTGGAAAGGGGGGTAA+GGG | - | chr3_2:55551776-55551795 | Msa0412280:CDS | 65.0% | |
| GGGGGGTAAGGGTCTGGGAA+AGG | - | chr3_2:55551787-55551806 | Msa0412280:CDS | 65.0% | |
| ! | CGCCGATTGGCGAGAAGAGG+TGG | - | chr3_2:55551875-55551894 | Msa0412280:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 55551770 | 55552081 | 55551770 | ID=Msa0412280;Name=Msa0412280 |
| chr3_2 | mRNA | 55551770 | 55552081 | 55551770 | ID=Msa0412280-mRNA-1;Parent=Msa0412280;Name=Msa0412280-mRNA-1;_AED=0.34;_eAED=0.35;_QI=0|-1|0|1|-1|1|1|0|103 |
| chr3_2 | exon | 55551770 | 55552081 | 55551770 | ID=Msa0412280-mRNA-1:exon:11305;Parent=Msa0412280-mRNA-1 |
| chr3_2 | CDS | 55551770 | 55552081 | 55551770 | ID=Msa0412280-mRNA-1:cds;Parent=Msa0412280-mRNA-1 |
| Gene Sequence |
| Protein sequence |
