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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0908060 | KEH35037.1 | 93.137 | 102 | 7 | 0 | 1 | 102 | 1213 | 1314 | 5.46e-58 | 203 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0017510 | Msa0908060 | 0.802626 | 5.132291e-49 | -8.615850e-47 |
| Msa0610430 | Msa0908060 | 0.809784 | 1.594286e-50 | -8.615850e-47 |
| Msa0157290 | Msa0908060 | 0.802443 | 5.596719e-49 | -8.615850e-47 |
| Msa0398710 | Msa0908060 | 0.804657 | 1.944676e-49 | -8.615850e-47 |
| Msa0336420 | Msa0908060 | 0.804256 | 2.357440e-49 | -8.615850e-47 |
| Msa0880140 | Msa0908060 | 0.800573 | 1.352981e-48 | -8.615850e-47 |
| Msa0908060 | Msa0947660 | 0.821550 | 3.804870e-53 | -8.615850e-47 |
| Msa0908060 | Msa0968680 | 0.801979 | 6.974077e-49 | -8.615850e-47 |
| Msa0908060 | Msa0993290 | 0.802299 | 5.991220e-49 | -8.615850e-47 |
| Msa0908060 | Msa1222970 | 0.803412 | 3.530102e-49 | -8.615850e-47 |
| Msa0908060 | Msa1359040 | 0.801466 | 8.886588e-49 | -8.615850e-47 |
| Msa0908060 | Msa1367080 | 0.805168 | 1.520668e-49 | -8.615850e-47 |
| Msa0908060 | Msa1429150 | 0.809003 | 2.345517e-50 | -8.615850e-47 |
| Msa0908060 | Msa1457240 | 0.842877 | 1.977093e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0908060 | MtrunA17_Chr3g0117291 | 93.137 | 102 | 7 | 0 | 1 | 102 | 1397 | 1498 | 6.09e-62 | 202 |
| Msa0908060 | MtrunA17_Chr3g0117281 | 70.642 | 109 | 23 | 4 | 1 | 101 | 1417 | 1524 | 8.66e-37 | 131 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 36 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATGGAAACCAAAGTCATTT+TGG | 0.202642 | 6_2:+9039793 | Msa0908060:CDS |
| GACATGAATCTCAGGGAAAT+TGG | 0.294553 | 6_2:+9039821 | Msa0908060:CDS |
| CATCAACATCACCCATCATC+TGG | 0.352737 | 6_2:+9039760 | Msa0908060:CDS |
| GCATGATAGTTACCATCTTT+AGG | 0.362230 | 6_2:-9039964 | None:intergenic |
| TCATCTGGGGTGAGGAGAAA+TGG | 0.398903 | 6_2:+9039775 | Msa0908060:CDS |
| ATTATGAGCACCACTCTGTT+TGG | 0.412436 | 6_2:+9039905 | Msa0908060:CDS |
| TTTCTCCTCACCCCAGATGA+TGG | 0.422225 | 6_2:-9039772 | None:intergenic |
| TGGAAAGGGACATGAATCTC+AGG | 0.424024 | 6_2:+9039813 | Msa0908060:CDS |
| TGGTGCTCATAATGAAAGTT+TGG | 0.427558 | 6_2:-9039895 | None:intergenic |
| GTCCCTTTCCAAAATGACTT+TGG | 0.430611 | 6_2:-9039801 | None:intergenic |
| AGGATGACAGATATCACATC+TGG | 0.435300 | 6_2:+9039857 | Msa0908060:CDS |
| ATATCACATCTGGGAAAGAC+AGG | 0.483342 | 6_2:+9039867 | Msa0908060:CDS |
| CTCCAAGAAGTATGGATCCT+AGG | 0.500316 | 6_2:+9039737 | None:intergenic |
| TTCTCCTCACCCCAGATGAT+GGG | 0.506964 | 6_2:-9039771 | None:intergenic |
| ATCAACATCACCCATCATCT+GGG | 0.511289 | 6_2:+9039761 | Msa0908060:CDS |
| AAAGATGGTAACTATCATGC+CGG | 0.519820 | 6_2:+9039967 | Msa0908060:CDS |
| CACCACTCTGTTTGGCCACA+TGG | 0.524488 | 6_2:+9039913 | Msa0908060:CDS |
| GGAAAGGGACATGAATCTCA+GGG | 0.553028 | 6_2:+9039814 | Msa0908060:CDS |
| AAGATGGTAACTATCATGCC+GGG | 0.557604 | 6_2:+9039968 | Msa0908060:CDS |
| ACTCACTCAAGACGAGGTGG+TGG | 0.563482 | 6_2:+9040015 | Msa0908060:CDS |
| AACTCGGAACGACCTAAAGA+TGG | 0.568557 | 6_2:+9039952 | Msa0908060:CDS |
| GATGGGTGATGTTGATGCCT+AGG | 0.579857 | 6_2:-9039754 | None:intergenic |
| AAATTGGAAAACACGTGCGC+AGG | 0.583641 | 6_2:+9039837 | Msa0908060:CDS |
| TGCTCATAATGAAAGTTTGG+AGG | 0.583875 | 6_2:-9039892 | None:intergenic |
| CCTCTCCCTAAATCTTCCCC+CGG | 0.589725 | 6_2:-9039986 | None:intergenic |
| ATCACCCATCATCTGGGGTG+AGG | 0.600369 | 6_2:+9039767 | Msa0908060:CDS |
| GGATGACAGATATCACATCT+GGG | 0.647366 | 6_2:+9039858 | Msa0908060:CDS |
| AGATGGTAACTATCATGCCG+GGG | 0.647966 | 6_2:+9039969 | Msa0908060:CDS |
| TCTGATTTGCTGTCACCATG+TGG | 0.657621 | 6_2:-9039928 | None:intergenic |
| TGACAGCAAATCAGACAACT+CGG | 0.659365 | 6_2:+9039936 | Msa0908060:CDS |
| TCAACATCACCCATCATCTG+GGG | 0.674232 | 6_2:+9039762 | Msa0908060:CDS |
| TATCACATCTGGGAAAGACA+GGG | 0.682716 | 6_2:+9039868 | Msa0908060:CDS |
| GATGGTAACTATCATGCCGG+GGG | 0.710495 | 6_2:+9039970 | Msa0908060:CDS |
| CACCATGTGGCCAAACAGAG+TGG | 0.713835 | 6_2:-9039915 | None:intergenic |
| GGTCAAACTCACTCAAGACG+AGG | 0.721007 | 6_2:+9040009 | Msa0908060:CDS |
| CAAACTCACTCAAGACGAGG+TGG | 0.732103 | 6_2:+9040012 | Msa0908060:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AATGGAAACCAAAGTCATTT+TGG | + | chr6_2:9039793-9039812 | Msa0908060:CDS | 30.0% |
| !! | AAACCAAAGTCATTTTGGAA+AGG | + | chr6_2:9039798-9039817 | Msa0908060:CDS | 30.0% |
| !! | AACCAAAGTCATTTTGGAAA+GGG | + | chr6_2:9039799-9039818 | Msa0908060:CDS | 30.0% |
| TGCTCATAATGAAAGTTTGG+AGG | - | chr6_2:9039895-9039914 | None:intergenic | 35.0% | |
| TGGTGCTCATAATGAAAGTT+TGG | - | chr6_2:9039898-9039917 | None:intergenic | 35.0% | |
| GCATGATAGTTACCATCTTT+AGG | - | chr6_2:9039967-9039986 | None:intergenic | 35.0% | |
| AAAGATGGTAACTATCATGC+CGG | + | chr6_2:9039967-9039986 | Msa0908060:CDS | 35.0% | |
| ATCAACATCACCCATCATCT+GGG | + | chr6_2:9039761-9039780 | Msa0908060:CDS | 40.0% | |
| GTCCCTTTCCAAAATGACTT+TGG | - | chr6_2:9039804-9039823 | None:intergenic | 40.0% | |
| GACATGAATCTCAGGGAAAT+TGG | + | chr6_2:9039821-9039840 | Msa0908060:CDS | 40.0% | |
| AGGATGACAGATATCACATC+TGG | + | chr6_2:9039857-9039876 | Msa0908060:CDS | 40.0% | |
| GGATGACAGATATCACATCT+GGG | + | chr6_2:9039858-9039877 | Msa0908060:CDS | 40.0% | |
| ATATCACATCTGGGAAAGAC+AGG | + | chr6_2:9039867-9039886 | Msa0908060:CDS | 40.0% | |
| TATCACATCTGGGAAAGACA+GGG | + | chr6_2:9039868-9039887 | Msa0908060:CDS | 40.0% | |
| ATTATGAGCACCACTCTGTT+TGG | + | chr6_2:9039905-9039924 | Msa0908060:CDS | 40.0% | |
| TGACAGCAAATCAGACAACT+CGG | + | chr6_2:9039936-9039955 | Msa0908060:CDS | 40.0% | |
| AAGATGGTAACTATCATGCC+GGG | + | chr6_2:9039968-9039987 | Msa0908060:CDS | 40.0% | |
| CATCAACATCACCCATCATC+TGG | + | chr6_2:9039760-9039779 | Msa0908060:CDS | 45.0% | |
| TCAACATCACCCATCATCTG+GGG | + | chr6_2:9039762-9039781 | Msa0908060:CDS | 45.0% | |
| TGGAAAGGGACATGAATCTC+AGG | + | chr6_2:9039813-9039832 | Msa0908060:CDS | 45.0% | |
| GGAAAGGGACATGAATCTCA+GGG | + | chr6_2:9039814-9039833 | Msa0908060:CDS | 45.0% | |
| AAATTGGAAAACACGTGCGC+AGG | + | chr6_2:9039837-9039856 | Msa0908060:CDS | 45.0% | |
| !! | TCTGATTTGCTGTCACCATG+TGG | - | chr6_2:9039931-9039950 | None:intergenic | 45.0% |
| AACTCGGAACGACCTAAAGA+TGG | + | chr6_2:9039952-9039971 | Msa0908060:CDS | 45.0% | |
| AGATGGTAACTATCATGCCG+GGG | + | chr6_2:9039969-9039988 | Msa0908060:CDS | 45.0% | |
| GATGGGTGATGTTGATGCCT+AGG | - | chr6_2:9039757-9039776 | None:intergenic | 50.0% | |
| TTCTCCTCACCCCAGATGAT+GGG | - | chr6_2:9039774-9039793 | None:intergenic | 50.0% | |
| TTTCTCCTCACCCCAGATGA+TGG | - | chr6_2:9039775-9039794 | None:intergenic | 50.0% | |
| ! | TCATCTGGGGTGAGGAGAAA+TGG | + | chr6_2:9039775-9039794 | Msa0908060:CDS | 50.0% |
| GATGGTAACTATCATGCCGG+GGG | + | chr6_2:9039970-9039989 | Msa0908060:CDS | 50.0% | |
| ATCATGCCGGGGGAAGATTT+AGG | + | chr6_2:9039980-9039999 | Msa0908060:CDS | 50.0% | |
| TCATGCCGGGGGAAGATTTA+GGG | + | chr6_2:9039981-9040000 | Msa0908060:CDS | 50.0% | |
| GGTCAAACTCACTCAAGACG+AGG | + | chr6_2:9040009-9040028 | Msa0908060:CDS | 50.0% | |
| CAAACTCACTCAAGACGAGG+TGG | + | chr6_2:9040012-9040031 | Msa0908060:CDS | 50.0% | |
| ! | ATCACCCATCATCTGGGGTG+AGG | + | chr6_2:9039767-9039786 | Msa0908060:CDS | 55.0% |
| CACCACTCTGTTTGGCCACA+TGG | + | chr6_2:9039913-9039932 | Msa0908060:CDS | 55.0% | |
| CACCATGTGGCCAAACAGAG+TGG | - | chr6_2:9039918-9039937 | None:intergenic | 55.0% | |
| CCTCTCCCTAAATCTTCCCC+CGG | - | chr6_2:9039989-9040008 | None:intergenic | 55.0% | |
| CGGGGGAAGATTTAGGGAGA+GGG | + | chr6_2:9039987-9040006 | Msa0908060:CDS | 55.0% | |
| GGGGGAAGATTTAGGGAGAG+GGG | + | chr6_2:9039988-9040007 | Msa0908060:CDS | 55.0% | |
| ACTCACTCAAGACGAGGTGG+TGG | + | chr6_2:9040015-9040034 | Msa0908060:CDS | 55.0% | |
| CCGGGGGAAGATTTAGGGAG+AGG | + | chr6_2:9039986-9040005 | Msa0908060:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_2 | gene | 9039748 | 9040056 | 9039748 | ID=Msa0908060;Name=Msa0908060 |
| chr6_2 | mRNA | 9039748 | 9040056 | 9039748 | ID=Msa0908060-mRNA-1;Parent=Msa0908060;Name=Msa0908060-mRNA-1;_AED=0.46;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|102 |
| chr6_2 | exon | 9039748 | 9040056 | 9039748 | ID=Msa0908060-mRNA-1:exon:2216;Parent=Msa0908060-mRNA-1 |
| chr6_2 | CDS | 9039748 | 9040056 | 9039748 | ID=Msa0908060-mRNA-1:cds;Parent=Msa0908060-mRNA-1 |
| Gene Sequence |
| Protein sequence |
