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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0919990 | PNX59720.1 | 93.443 | 61 | 4 | 0 | 1 | 61 | 1 | 61 | 2.37e-31 | 115 |
| 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 |
|---|---|---|---|---|
| Msa0069510 | Msa0919990 | 0.963139 | 1.014168e-121 | -8.615850e-47 |
| Msa0069520 | Msa0919990 | 0.904550 | 1.091820e-79 | -8.615850e-47 |
| Msa0908850 | Msa0919990 | 0.836163 | 1.099192e-56 | -8.615850e-47 |
| Msa0908870 | Msa0919990 | 0.807216 | 5.631987e-50 | -8.615850e-47 |
| Msa0919980 | Msa0919990 | 0.863323 | 2.702885e-64 | -8.615850e-47 |
| Msa0919990 | Msa0920060 | 0.840909 | 6.546354e-58 | -8.615850e-47 |
| Msa0919990 | Msa0944900 | 0.812222 | 4.725694e-51 | -8.615850e-47 |
| Msa0919990 | Msa0944920 | 0.822717 | 2.039683e-53 | -8.615850e-47 |
| Msa0919990 | Msa0983190 | 0.823892 | 1.084686e-53 | -8.615850e-47 |
| Msa0919990 | Msa0983300 | 0.855249 | 7.162284e-62 | -8.615850e-47 |
| Msa0919990 | Msa0983360 | 0.967857 | 7.374125e-128 | -8.615850e-47 |
| Msa0919990 | Msa0983370 | 0.805598 | 1.235469e-49 | -8.615850e-47 |
| Msa0919990 | Msa0983460 | 0.848962 | 4.385442e-60 | -8.615850e-47 |
| Msa0919990 | Msa0983500 | 0.809899 | 1.506170e-50 | -8.615850e-47 |
| Msa0919990 | Msa0983520 | 0.822841 | 1.909061e-53 | -8.615850e-47 |
| Msa0919990 | Msa1391940 | 0.807071 | 6.045350e-50 | -8.615850e-47 |
| Msa0919990 | Msa1391950 | 0.823952 | 1.049842e-53 | -8.615850e-47 |
| Msa0919990 | Msa1391960 | 0.967571 | 1.840745e-127 | -8.615850e-47 |
| Msa0919990 | Msa1392030 | 0.862607 | 4.495548e-64 | -8.615850e-47 |
| Msa0919990 | Msa1392120 | 0.835083 | 2.062131e-56 | -8.615850e-47 |
| Msa0919990 | Msa1392160 | 0.834576 | 2.767564e-56 | -8.615850e-47 |
| Msa0919990 | Msa1453840 | 0.807488 | 4.933238e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0919990 | MtrunA17_MTg0491641 | 100.000 | 61 | 0 | 0 | 1 | 61 | 1 | 61 | 1.43e-38 | 124 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 32 sgRNAs with CRISPR-Local
Find 83 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTCGCTTGCGACCACTTAC+TGG | 0.288643 | 6_2:+53397410 | None:intergenic |
| CTTTGTTTGAGATCCGTTGC+AGG | 0.351440 | 6_2:+53397348 | None:intergenic |
| TCATGATATTTCGACACATT+GGG | 0.368458 | 6_2:+53396933 | None:intergenic |
| ATCTCATAAGAGAAGGAAAT+GGG | 0.384650 | 6_2:-53396989 | Msa0919990:intron |
| ATTTCGACACATTGGGGCTA+TGG | 0.405887 | 6_2:+53396940 | None:intergenic |
| ATGCGATCTAACAGACTAAC+AGG | 0.406018 | 6_2:-53397507 | Msa0919990:CDS |
| ATGTGTCGAAATATCATGAT+TGG | 0.419168 | 6_2:-53396929 | Msa0919990:CDS |
| GGTATGCCGCTCCGCGAGAA+TGG | 0.452469 | 6_2:-53396872 | Msa0919990:CDS |
| ATCATGATATTTCGACACAT+TGG | 0.474146 | 6_2:+53396932 | None:intergenic |
| GCAAACAAGGGATAGGGATA+AGG | 0.477141 | 6_2:-53397442 | Msa0919990:CDS |
| TTTCGACACATTGGGGCTAT+GGG | 0.487488 | 6_2:+53396941 | None:intergenic |
| ATTCTCGCGGAGCGGCATAC+CGG | 0.489485 | 6_2:+53396874 | None:intergenic |
| AAATAAAGCAAACAAGGGAT+AGG | 0.490289 | 6_2:-53397449 | Msa0919990:CDS |
| ATGATTGGGTCGACCAGGCC+CGG | 0.504241 | 6_2:-53396914 | Msa0919990:CDS |
| TGTTAGTCTGTTAGATCGCA+TGG | 0.517397 | 6_2:+53397509 | None:intergenic |
| CGAAAGAACCAAGTGGTTTG+TGG | 0.519040 | 6_2:-53396847 | Msa0919990:CDS |
| TGTGTCGAAATATCATGATT+GGG | 0.525122 | 6_2:-53396928 | Msa0919990:CDS |
| CAAGGAAAATAAAGCAAACA+AGG | 0.529144 | 6_2:-53397455 | Msa0919990:CDS |
| AGGCAAGTCTTTCCAGTAAG+TGG | 0.534859 | 6_2:-53397422 | Msa0919990:CDS |
| AATAAAGCAAACAAGGGATA+GGG | 0.539946 | 6_2:-53397448 | Msa0919990:CDS |
| TGACATTACCACAAACCACT+TGG | 0.551237 | 6_2:+53396839 | None:intergenic |
| ATATCATGATTGGGTCGACC+AGG | 0.554356 | 6_2:-53396919 | Msa0919990:CDS |
| TTTGTTTGAGATCCGTTGCA+GGG | 0.568630 | 6_2:+53397349 | None:intergenic |
| GAAGTTCACATGCCCTGCAA+CGG | 0.594986 | 6_2:-53397361 | Msa0919990:CDS |
| CATGATATTTCGACACATTG+GGG | 0.606924 | 6_2:+53396934 | None:intergenic |
| GTTCTTTCGCTCCATTCTCG+CGG | 0.608615 | 6_2:+53396861 | None:intergenic |
| TGGTCGCAAGCGAATGACCT+AGG | 0.611364 | 6_2:-53397402 | Msa0919990:CDS |
| TTCGCTCCATTCTCGCGGAG+CGG | 0.629055 | 6_2:+53396866 | None:intergenic |
| CTCATAAGAGAAGGAAATGG+GGG | 0.630592 | 6_2:-53396987 | Msa0919990:intron |
| TCTCATAAGAGAAGGAAATG+GGG | 0.646592 | 6_2:-53396988 | Msa0919990:intron |
| AAGGAAAATAAAGCAAACAA+GGG | 0.651484 | 6_2:-53397454 | Msa0919990:CDS |
| AATGGAGCGAAAGAACCAAG+TGG | 0.751382 | 6_2:-53396854 | Msa0919990:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATAAAATCTCATAAGAGA+AGG | - | chr6_2:53397355-53397374 | Msa0919990:CDS | 20.0% |
| ! | AAGGAAAATAAAGCAAACAA+GGG | - | chr6_2:53396897-53396916 | Msa0919990:CDS | 25.0% |
| !! | ATGTGAACTTCTTTTTAAAC+GGG | + | chr6_2:53396981-53397000 | None:intergenic | 25.0% |
| !! | CATGTGAACTTCTTTTTAAA+CGG | + | chr6_2:53396982-53397001 | None:intergenic | 25.0% |
| ! | AACTCTTTATAAGTCCAATT+AGG | + | chr6_2:53397123-53397142 | None:intergenic | 25.0% |
| ! | GAAAAAAAGAAAAAAGATCC+GGG | + | chr6_2:53397458-53397477 | None:intergenic | 25.0% |
| ! | GGAAAAAAAGAAAAAAGATC+CGG | + | chr6_2:53397459-53397478 | None:intergenic | 25.0% |
| !!! | GGATCTTTTTTCTTTTTTTC+CGG | - | chr6_2:53397458-53397477 | Msa0919990:CDS | 25.0% |
| !!! | AGTAGTTTTGAAAGGAAATC+TGG | - | chr6_2:53396873-53396892 | Msa0919990:CDS | 30.0% |
| CAAGGAAAATAAAGCAAACA+AGG | - | chr6_2:53396896-53396915 | Msa0919990:CDS | 30.0% | |
| AAATAAAGCAAACAAGGGAT+AGG | - | chr6_2:53396902-53396921 | Msa0919990:CDS | 30.0% | |
| AATAAAGCAAACAAGGGATA+GGG | - | chr6_2:53396903-53396922 | Msa0919990:CDS | 30.0% | |
| ! | TAAAGAGTTTTCAGTCACAA+AGG | - | chr6_2:53397134-53397153 | Msa0919990:intron | 30.0% |
| ATTATTCCTTTCAAGCAAGA+AGG | - | chr6_2:53397166-53397185 | Msa0919990:intron | 30.0% | |
| TGCAGATGAAATAAAGAAGA+AGG | - | chr6_2:53397252-53397271 | Msa0919990:intron | 30.0% | |
| ! | TATATGAGGAGCTTTCTTTT+TGG | - | chr6_2:53397309-53397328 | Msa0919990:intron | 30.0% |
| !! | AGCTTTCTTTTTGGTATGAA+AGG | - | chr6_2:53397318-53397337 | Msa0919990:intron | 30.0% |
| AATCTCATAAGAGAAGGAAA+TGG | - | chr6_2:53397361-53397380 | Msa0919990:CDS | 30.0% | |
| ATCTCATAAGAGAAGGAAAT+GGG | - | chr6_2:53397362-53397381 | Msa0919990:CDS | 30.0% | |
| TCATGATATTTCGACACATT+GGG | + | chr6_2:53397421-53397440 | None:intergenic | 30.0% | |
| ATCATGATATTTCGACACAT+TGG | + | chr6_2:53397422-53397441 | None:intergenic | 30.0% | |
| ATGTGTCGAAATATCATGAT+TGG | - | chr6_2:53397422-53397441 | Msa0919990:CDS | 30.0% | |
| TGTGTCGAAATATCATGATT+GGG | - | chr6_2:53397423-53397442 | Msa0919990:CDS | 30.0% | |
| !! | TTTTGAAAGGAAATCTGGCA+AGG | - | chr6_2:53396878-53396897 | Msa0919990:CDS | 35.0% |
| AAGTGTAAGCCATACTTTCT+TGG | + | chr6_2:53397043-53397062 | None:intergenic | 35.0% | |
| GCATTCTCTACTTCTATCAT+TGG | - | chr6_2:53397278-53397297 | Msa0919990:intron | 35.0% | |
| TCTCATAAGAGAAGGAAATG+GGG | - | chr6_2:53397363-53397382 | Msa0919990:CDS | 35.0% | |
| CATGATATTTCGACACATTG+GGG | + | chr6_2:53397420-53397439 | None:intergenic | 35.0% | |
| ATGCGATCTAACAGACTAAC+AGG | - | chr6_2:53396844-53396863 | Msa0919990:CDS | 40.0% | |
| !!! | GGACAAGCAGTAGTTTTGAA+AGG | - | chr6_2:53396865-53396884 | Msa0919990:CDS | 40.0% |
| !! | TTTTAAACGGGCTTCTTCCT+AGG | + | chr6_2:53396969-53396988 | None:intergenic | 40.0% |
| ! | TTTGTTTGAGATCCGTTGCA+GGG | + | chr6_2:53397005-53397024 | None:intergenic | 40.0% |
| AGTATGGCTTACACTTCCTT+AGG | - | chr6_2:53397047-53397066 | Msa0919990:intron | 40.0% | |
| !! | CATTGGTGCTATCGTATATG+AGG | - | chr6_2:53397295-53397314 | Msa0919990:intron | 40.0% |
| CTCATAAGAGAAGGAAATGG+GGG | - | chr6_2:53397364-53397383 | Msa0919990:CDS | 40.0% | |
| GCAAACAAGGGATAGGGATA+AGG | - | chr6_2:53396909-53396928 | Msa0919990:CDS | 45.0% | |
| AGGCAAGTCTTTCCAGTAAG+TGG | - | chr6_2:53396929-53396948 | Msa0919990:CDS | 45.0% | |
| ! | CTTTGTTTGAGATCCGTTGC+AGG | + | chr6_2:53397006-53397025 | None:intergenic | 45.0% |
| AACGGATCTCAAACAAAGCG+TGG | - | chr6_2:53397008-53397027 | Msa0919990:intron | 45.0% | |
| CTTCCTTAGGAAGTCAGAAC+TGG | - | chr6_2:53397060-53397079 | Msa0919990:intron | 45.0% | |
| AAGTCAGAACTGGTGGAAGT+GGG | - | chr6_2:53397070-53397089 | Msa0919990:intron | 45.0% | |
| ! | GGCTGGCTAATTTACCACAA+GGG | - | chr6_2:53397091-53397110 | Msa0919990:intron | 45.0% |
| CTAATTTACCACAAGGGCTC+AGG | - | chr6_2:53397097-53397116 | Msa0919990:intron | 45.0% | |
| CCTTTCAAGCAAGAAGGACT+CGG | - | chr6_2:53397172-53397191 | Msa0919990:intron | 45.0% | |
| AGGAATGCACCCTAACCTAA+GGG | - | chr6_2:53397205-53397224 | Msa0919990:intron | 45.0% | |
| TTTCGACACATTGGGGCTAT+GGG | + | chr6_2:53397413-53397432 | None:intergenic | 45.0% | |
| ATTTCGACACATTGGGGCTA+TGG | + | chr6_2:53397414-53397433 | None:intergenic | 45.0% | |
| ATATCATGATTGGGTCGACC+AGG | - | chr6_2:53397432-53397451 | Msa0919990:CDS | 45.0% | |
| AAAGAAAAAAGATCCGGGCC+TGG | + | chr6_2:53397453-53397472 | None:intergenic | 45.0% | |
| AATGGAGCGAAAGAACCAAG+TGG | - | chr6_2:53397497-53397516 | Msa0919990:CDS | 45.0% | |
| CGAAAGAACCAAGTGGTTTG+TGG | - | chr6_2:53397504-53397523 | Msa0919990:CDS | 45.0% | |
| ATTCGCTTGCGACCACTTAC+TGG | + | chr6_2:53396944-53396963 | None:intergenic | 50.0% | |
| GAAGTTCACATGCCCTGCAA+CGG | - | chr6_2:53396990-53397009 | Msa0919990:intron | 50.0% | |
| CTGACAGCGCCAAGAAAGTA+TGG | - | chr6_2:53397031-53397050 | Msa0919990:intron | 50.0% | |
| ! | CCACCAGTTCTGACTTCCTA+AGG | + | chr6_2:53397066-53397085 | None:intergenic | 50.0% |
| CCTTAGGAAGTCAGAACTGG+TGG | - | chr6_2:53397063-53397082 | Msa0919990:intron | 50.0% | |
| GAAGTCAGAACTGGTGGAAG+TGG | - | chr6_2:53397069-53397088 | Msa0919990:intron | 50.0% | |
| !! | GGGCTGGCTAATTTACCACA+AGG | - | chr6_2:53397090-53397109 | Msa0919990:intron | 50.0% |
| CCGAGTCCTTCTTGCTTGAA+AGG | + | chr6_2:53397175-53397194 | None:intergenic | 50.0% | |
| CTTAGGTTAGGGTGCATTCC+TGG | + | chr6_2:53397206-53397225 | None:intergenic | 50.0% | |
| CAGGAATGCACCCTAACCTA+AGG | - | chr6_2:53397204-53397223 | Msa0919990:intron | 50.0% | |
| TTCCCCTCTCCCTTAGGTTA+GGG | + | chr6_2:53397217-53397236 | None:intergenic | 50.0% | |
| TTTCCCCTCTCCCTTAGGTT+AGG | + | chr6_2:53397218-53397237 | None:intergenic | 50.0% | |
| ACCTAAGGGAGAGGGGAAAA+AGG | - | chr6_2:53397219-53397238 | Msa0919990:intron | 50.0% | |
| CCTAAGGGAGAGGGGAAAAA+GGG | - | chr6_2:53397220-53397239 | Msa0919990:intron | 50.0% | |
| GGAGAGGGGAAAAAGGGATT+AGG | - | chr6_2:53397226-53397245 | Msa0919990:intron | 50.0% | |
| AATGGGGGTCGTGGAAGAAT+TGG | - | chr6_2:53397379-53397398 | Msa0919990:CDS | 50.0% | |
| ATGGGGGTCGTGGAAGAATT+GGG | - | chr6_2:53397380-53397399 | Msa0919990:CDS | 50.0% | |
| GTTCTTTCGCTCCATTCTCG+CGG | + | chr6_2:53397493-53397512 | None:intergenic | 50.0% | |
| TGGTCGCAAGCGAATGACCT+AGG | - | chr6_2:53396949-53396968 | Msa0919990:CDS | 55.0% | |
| CAATTAGGCCTGAGCCCTTG+TGG | + | chr6_2:53397108-53397127 | None:intergenic | 55.0% | |
| CACAAGGGCTCAGGCCTAAT+TGG | - | chr6_2:53397106-53397125 | Msa0919990:intron | 55.0% | |
| AAGGACTCGGCTTACTCACC+AGG | - | chr6_2:53397185-53397204 | Msa0919990:intron | 55.0% | |
| TGCACCCTAACCTAAGGGAG+AGG | - | chr6_2:53397210-53397229 | Msa0919990:intron | 55.0% | |
| GCACCCTAACCTAAGGGAGA+GGG | - | chr6_2:53397211-53397230 | Msa0919990:intron | 55.0% | |
| CACCCTAACCTAAGGGAGAG+GGG | - | chr6_2:53397212-53397231 | Msa0919990:intron | 55.0% | |
| ! | CCCTTTTTCCCCTCTCCCTT+AGG | + | chr6_2:53397223-53397242 | None:intergenic | 55.0% |
| AGAGAAGGAAATGGGGGTCG+TGG | - | chr6_2:53397370-53397389 | Msa0919990:CDS | 55.0% | |
| CAGAACTGGTGGAAGTGGGC+TGG | - | chr6_2:53397074-53397093 | Msa0919990:intron | 60.0% | |
| ATGATTGGGTCGACCAGGCC+CGG | - | chr6_2:53397437-53397456 | Msa0919990:CDS | 60.0% | |
| ATTCTCGCGGAGCGGCATAC+CGG | + | chr6_2:53397480-53397499 | None:intergenic | 60.0% | |
| TTCGCTCCATTCTCGCGGAG+CGG | + | chr6_2:53397488-53397507 | None:intergenic | 60.0% | |
| GGTATGCCGCTCCGCGAGAA+TGG | - | chr6_2:53397479-53397498 | Msa0919990:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_2 | gene | 53396844 | 53397529 | 53396844 | ID=Msa0919990;Name=Msa0919990 |
| chr6_2 | mRNA | 53396844 | 53397529 | 53396844 | ID=Msa0919990-mRNA-1;Parent=Msa0919990;Name=Msa0919990-mRNA-1;_AED=0.35;_eAED=0.65;_QI=0|0|0|1|0|0|2|0|111 |
| chr6_2 | exon | 53397347 | 53397529 | 53397347 | ID=Msa0919990-mRNA-1:exon:8005;Parent=Msa0919990-mRNA-1 |
| chr6_2 | exon | 53396844 | 53396996 | 53396844 | ID=Msa0919990-mRNA-1:exon:8004;Parent=Msa0919990-mRNA-1 |
| chr6_2 | CDS | 53397347 | 53397529 | 53397347 | ID=Msa0919990-mRNA-1:cds;Parent=Msa0919990-mRNA-1 |
| chr6_2 | CDS | 53396844 | 53396996 | 53396844 | ID=Msa0919990-mRNA-1:cds;Parent=Msa0919990-mRNA-1 |
| Gene Sequence |
| Protein sequence |
