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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1124920 | XP_003625443.1 | 99.074 | 108 | 0 | 1 | 1 | 108 | 1 | 107 | 1.02e-69 | 214 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1124920 | G7KYK0 | 99.074 | 108 | 0 | 1 | 1 | 108 | 1 | 107 | 4.88e-70 | 214 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0145430 | Msa1124920 | 0.803434 | 3.492382e-49 | -8.615850e-47 |
| Msa1037070 | Msa1124920 | 0.942266 | 9.749222e-102 | -8.615850e-47 |
| Msa1124920 | Msa1400690 | 0.982438 | 4.313849e-155 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1124920 | MtrunA17_Chr7g0262501 | 99.074 | 108 | 0 | 1 | 1 | 108 | 1 | 107 | 9.39e-74 | 214 |
| Msa1124920 | MtrunA17_Chr1g0183081 | 92.784 | 97 | 7 | 0 | 3 | 99 | 7 | 103 | 8.28e-65 | 191 |
| Msa1124920 | MtrunA17_Chr1g0188281 | 56.842 | 95 | 41 | 0 | 1 | 95 | 38 | 132 | 6.34e-38 | 124 |
| Msa1124920 | MtrunA17_Chr6g0476661 | 55.789 | 95 | 42 | 0 | 1 | 95 | 4 | 98 | 1.22e-37 | 122 |
| Msa1124920 | MtrunA17_Chr6g0476721 | 47.674 | 86 | 45 | 0 | 7 | 92 | 40 | 125 | 7.11e-25 | 90.9 |
| Msa1124920 | MtrunA17_Chr5g0394191 | 44.706 | 85 | 47 | 0 | 7 | 91 | 9 | 93 | 6.13e-23 | 85.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1124920 | AT3G04300.1 | 67.368 | 95 | 31 | 0 | 5 | 99 | 1 | 95 | 6.44e-46 | 143 |
| Msa1124920 | AT4G28703.1 | 63.366 | 101 | 28 | 1 | 6 | 97 | 7 | 107 | 2.27e-41 | 132 |
| Msa1124920 | AT4G10300.1 | 61.538 | 91 | 35 | 0 | 5 | 95 | 44 | 134 | 9.30e-40 | 129 |
| Msa1124920 | AT4G10280.1 | 36.559 | 93 | 56 | 1 | 7 | 96 | 48 | 140 | 7.32e-18 | 73.9 |
| Msa1124920 | AT4G10290.1 | 34.343 | 99 | 62 | 1 | 7 | 102 | 20 | 118 | 2.64e-13 | 61.6 |
Find 25 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGTCTGAAGCCATGAGGTTT+TGG | 0.241413 | 7_3:-76159368 | None:intergenic |
| GATTTATGAGAGAGAGAAAT+AGG | 0.274714 | 7_3:+76159847 | Msa1124920:three_prime_UTR |
| TTACATGCAATGTGGGATTT+TGG | 0.280274 | 7_3:-76159289 | None:intergenic |
| AATTTCAATTGGTACTTTCC+TGG | 0.284978 | 7_3:-76159588 | None:intergenic |
| CAAGTACAACTGAGTCCTTT+TGG | 0.330475 | 7_3:-76159714 | None:intergenic |
| CAAAAGGACTCAGTTGTACT+TGG | 0.347089 | 7_3:+76159715 | Msa1124920:CDS |
| AATGTTGTATTTCTTCAGTT+TGG | 0.354328 | 7_3:+76159890 | Msa1124920:three_prime_UTR |
| CTGAGAAGGGTTTCTTTCAA+TGG | 0.378765 | 7_3:-76159400 | None:intergenic |
| CTTCTGCATCAAATTTCAAT+TGG | 0.414470 | 7_3:-76159599 | None:intergenic |
| AATTACTATTACAGTGTGTT+TGG | 0.416553 | 7_3:+76159817 | Msa1124920:exon |
| AAAAGATGGGGTTGTTCTCC+AGG | 0.417937 | 7_3:+76159570 | Msa1124920:intron |
| AAACATGTTATTTATTGAAA+GGG | 0.428832 | 7_3:+76159622 | Msa1124920:CDS |
| GAAACATGTTATTTATTGAA+AGG | 0.444821 | 7_3:+76159621 | Msa1124920:CDS |
| AAAGTGAAAGCATACACAAA+AGG | 0.467313 | 7_3:+76159645 | Msa1124920:CDS |
| TATTACAGTGTGTTTGGTAG+AGG | 0.471016 | 7_3:+76159823 | Msa1124920:three_prime_UTR |
| TTCTTTCAATGGTGATTCGA+AGG | 0.500926 | 7_3:-76159389 | None:intergenic |
| CAGCTAAACGTGACTGAGAA+GGG | 0.513726 | 7_3:-76159413 | None:intergenic |
| GACCTTGTCACCATTCCAAA+AGG | 0.519526 | 7_3:+76159699 | Msa1124920:CDS |
| AAGTGAAAGCATACACAAAA+GGG | 0.539574 | 7_3:+76159646 | Msa1124920:CDS |
| GTTCTCTTCCCAAAACCTCA+TGG | 0.549774 | 7_3:+76159359 | Msa1124920:exon |
| CTGAATTGAACATCAAGTGC+TGG | 0.553924 | 7_3:+76159433 | Msa1124920:CDS |
| TCAGCTAAACGTGACTGAGA+AGG | 0.572317 | 7_3:-76159414 | None:intergenic |
| TGTAATAGTAATTAACAAGA+TGG | 0.576521 | 7_3:-76159807 | None:intergenic |
| AAAAGGACTCAGTTGTACTT+GGG | 0.580307 | 7_3:+76159716 | Msa1124920:CDS |
| TTCGAAGGTCTGAAGCCATG+AGG | 0.682433 | 7_3:-76159374 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAACATGTTATTTATTGAAA+GGG | + | chr7_3:76159622-76159641 | Msa1124920:CDS | 15.0% |
| !! | TTAAGAAAGAATACATACTT+GGG | - | chr7_3:76159459-76159478 | None:intergenic | 20.0% |
| !! | ATTAAGAAAGAATACATACT+TGG | - | chr7_3:76159460-76159479 | None:intergenic | 20.0% |
| !!! | TTTTTGCATTAATCTAACAA+AGG | + | chr7_3:76159508-76159527 | Msa1124920:intron | 20.0% |
| !!! | GAAACATGTTATTTATTGAA+AGG | + | chr7_3:76159621-76159640 | Msa1124920:CDS | 20.0% |
| !! | TGTAATAGTAATTAACAAGA+TGG | - | chr7_3:76159810-76159829 | None:intergenic | 20.0% |
| !!! | TTTTTTGTTACATGCAATGT+GGG | - | chr7_3:76159299-76159318 | None:intergenic | 25.0% |
| !!! | TTTTTTTGTTACATGCAATG+TGG | - | chr7_3:76159300-76159319 | None:intergenic | 25.0% |
| ! | AATTACTATTACAGTGTGTT+TGG | + | chr7_3:76159817-76159836 | Msa1124920:exon | 25.0% |
| ! | AATGTTGTATTTCTTCAGTT+TGG | + | chr7_3:76159890-76159909 | Msa1124920:three_prime_UTR | 25.0% |
| GGGGTGTAAAAATAAAAGAT+GGG | + | chr7_3:76159557-76159576 | Msa1124920:intron | 30.0% | |
| GGGTGTAAAAATAAAAGATG+GGG | + | chr7_3:76159558-76159577 | Msa1124920:intron | 30.0% | |
| AATTTCAATTGGTACTTTCC+TGG | - | chr7_3:76159591-76159610 | None:intergenic | 30.0% | |
| CTTCTGCATCAAATTTCAAT+TGG | - | chr7_3:76159602-76159621 | None:intergenic | 30.0% | |
| ! | AAAGTGAAAGCATACACAAA+AGG | + | chr7_3:76159645-76159664 | Msa1124920:CDS | 30.0% |
| ! | AAGTGAAAGCATACACAAAA+GGG | + | chr7_3:76159646-76159665 | Msa1124920:CDS | 30.0% |
| ! | TCATCAGATTTTGTAGAGTT+TGG | + | chr7_3:76159669-76159688 | Msa1124920:CDS | 30.0% |
| GATTTATGAGAGAGAGAAAT+AGG | + | chr7_3:76159847-76159866 | Msa1124920:three_prime_UTR | 30.0% | |
| TTCTTTCAATGGTGATTCGA+AGG | - | chr7_3:76159392-76159411 | None:intergenic | 35.0% | |
| !!! | GGTCCTTTTGTTTTGTAATG+TGG | + | chr7_3:76159529-76159548 | Msa1124920:intron | 35.0% |
| CAGCCACATTACAAAACAAA+AGG | - | chr7_3:76159535-76159554 | None:intergenic | 35.0% | |
| !!! | TTTGTTTTGTAATGTGGCTG+TGG | + | chr7_3:76159535-76159554 | Msa1124920:intron | 35.0% |
| !! | TTGTTTTGTAATGTGGCTGT+GGG | + | chr7_3:76159536-76159555 | Msa1124920:intron | 35.0% |
| ! | GGGGGTGTAAAAATAAAAGA+TGG | + | chr7_3:76159556-76159575 | Msa1124920:intron | 35.0% |
| AAAAGGACTCAGTTGTACTT+GGG | + | chr7_3:76159716-76159735 | Msa1124920:CDS | 35.0% | |
| TATTACAGTGTGTTTGGTAG+AGG | + | chr7_3:76159823-76159842 | Msa1124920:three_prime_UTR | 35.0% | |
| CTGAGAAGGGTTTCTTTCAA+TGG | - | chr7_3:76159403-76159422 | None:intergenic | 40.0% | |
| CTGAATTGAACATCAAGTGC+TGG | + | chr7_3:76159433-76159452 | Msa1124920:CDS | 40.0% | |
| ! | TGTTTTGTAATGTGGCTGTG+GGG | + | chr7_3:76159537-76159556 | Msa1124920:intron | 40.0% |
| !! | GATTTTGTAGAGTTTGGAGC+TGG | + | chr7_3:76159675-76159694 | Msa1124920:CDS | 40.0% |
| !! | ACAACTGAGTCCTTTTGGAA+TGG | - | chr7_3:76159712-76159731 | None:intergenic | 40.0% |
| ! | CAAGTACAACTGAGTCCTTT+TGG | - | chr7_3:76159717-76159736 | None:intergenic | 40.0% |
| CAAAAGGACTCAGTTGTACT+TGG | + | chr7_3:76159715-76159734 | Msa1124920:CDS | 40.0% | |
| GTTCTCTTCCCAAAACCTCA+TGG | + | chr7_3:76159359-76159378 | Msa1124920:exon | 45.0% | |
| !! | GTCTGAAGCCATGAGGTTTT+GGG | - | chr7_3:76159370-76159389 | None:intergenic | 45.0% |
| CAGCTAAACGTGACTGAGAA+GGG | - | chr7_3:76159416-76159435 | None:intergenic | 45.0% | |
| TCAGCTAAACGTGACTGAGA+AGG | - | chr7_3:76159417-76159436 | None:intergenic | 45.0% | |
| ! | GTTTTGTAATGTGGCTGTGG+GGG | + | chr7_3:76159538-76159557 | Msa1124920:intron | 45.0% |
| AAAAGATGGGGTTGTTCTCC+AGG | + | chr7_3:76159570-76159589 | Msa1124920:intron | 45.0% | |
| GACCTTGTCACCATTCCAAA+AGG | + | chr7_3:76159699-76159718 | Msa1124920:CDS | 45.0% | |
| !!! | GTCCTTTTGGAATGGTGACA+AGG | - | chr7_3:76159704-76159723 | None:intergenic | 45.0% |
| !! | GGTCTGAAGCCATGAGGTTT+TGG | - | chr7_3:76159371-76159390 | None:intergenic | 50.0% |
| ! | TTCGAAGGTCTGAAGCCATG+AGG | - | chr7_3:76159377-76159396 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 76159290 | 76159941 | 76159290 | ID=Msa1124920;Name=Msa1124920 |
| chr7_3 | mRNA | 76159290 | 76159941 | 76159290 | ID=Msa1124920-mRNA-1;Parent=Msa1124920;Name=Msa1124920-mRNA-1;_AED=0.09;_eAED=0.09;_QI=88|1|1|1|1|1|2|123|108 |
| chr7_3 | exon | 76159290 | 76159460 | 76159290 | ID=Msa1124920-mRNA-1:exon:20673;Parent=Msa1124920-mRNA-1 |
| chr7_3 | exon | 76159575 | 76159941 | 76159575 | ID=Msa1124920-mRNA-1:exon:20674;Parent=Msa1124920-mRNA-1 |
| chr7_3 | five_prime_UTR | 76159290 | 76159377 | 76159290 | ID=Msa1124920-mRNA-1:five_prime_utr;Parent=Msa1124920-mRNA-1 |
| chr7_3 | CDS | 76159378 | 76159460 | 76159378 | ID=Msa1124920-mRNA-1:cds;Parent=Msa1124920-mRNA-1 |
| chr7_3 | CDS | 76159575 | 76159818 | 76159575 | ID=Msa1124920-mRNA-1:cds;Parent=Msa1124920-mRNA-1 |
| chr7_3 | three_prime_UTR | 76159819 | 76159941 | 76159819 | ID=Msa1124920-mRNA-1:three_prime_utr;Parent=Msa1124920-mRNA-1 |
| Gene Sequence |
| Protein sequence |
