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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0207010 | XP_039686497.1 | 98.291 | 117 | 2 | 0 | 1 | 117 | 1 | 117 | 1.79e-74 | 237 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0207010 | A0A396J7H0 | 98.291 | 117 | 2 | 0 | 1 | 117 | 44 | 160 | 1.35e-73 | 236 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0207010 | Msa0288400 | 0.873342 | 1.583939e-67 | -8.615850e-47 |
| Msa0207010 | Msa0342220 | 0.857529 | 1.534473e-62 | -8.615850e-47 |
| Msa0207010 | Msa1372030 | 0.802655 | 5.061789e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0207010 | MtrunA17_Chr2g0305371 | 98.291 | 117 | 2 | 0 | 1 | 117 | 44 | 160 | 2.59e-77 | 236 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0207010 | AT4G30860.1 | 55.319 | 47 | 21 | 0 | 71 | 117 | 109 | 155 | 6.57e-11 | 58.2 |
Find 42 sgRNAs with CRISPR-Local
Find 50 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACCATTACCATGCTAGATT+CGG | 0.344093 | 2_1:-37202684 | Msa0207010:exon |
| GAAGAACCAGAGGCGGCATT+GGG | 0.355376 | 2_1:+37202596 | None:intergenic |
| TATAGTGTACGTACCATCTT+TGG | 0.387074 | 2_1:+37202443 | None:intergenic |
| ACCATTACCATGCTAGATTC+GGG | 0.417224 | 2_1:-37202683 | Msa0207010:exon |
| CTGAAACCCTAGCAAGGAAA+AGG | 0.426713 | 2_1:+37202712 | None:intergenic |
| AGAAGAACCAGAGGCGGCAT+TGG | 0.430477 | 2_1:+37202595 | None:intergenic |
| ATGGCTCCTCTGCCTATGCT+AGG | 0.442398 | 2_1:-37202568 | Msa0207010:CDS |
| AATGTGCTAAACAAGCTGTT+GGG | 0.442474 | 2_1:-37202267 | Msa0207010:CDS |
| CAGACAAGCACAAGAGTTTG+TGG | 0.477053 | 2_1:-37202511 | Msa0207010:CDS |
| TCTCGTTGCTGCTCCAAAGA+TGG | 0.479820 | 2_1:-37202456 | Msa0207010:intron |
| AGCGCCTTCTCCGCCTCTCT+CGG | 0.480646 | 2_1:-37202654 | Msa0207010:CDS |
| GGTGCCGAGAGAGGCGGAGA+AGG | 0.483724 | 2_1:+37202650 | None:intergenic |
| TTTGGAGCAGCAACGAGAAA+AGG | 0.487671 | 2_1:+37202461 | None:intergenic |
| CCCCGAATCTAGCATGGTAA+TGG | 0.521237 | 2_1:+37202682 | None:intergenic |
| GAATGTGCTAAACAAGCTGT+TGG | 0.523121 | 2_1:-37202268 | Msa0207010:CDS |
| ACGAGAAAAGGAAGAGATTG+AGG | 0.524595 | 2_1:+37202473 | None:intergenic |
| GCCTCTGGTTCTTCTGACAA+TGG | 0.526067 | 2_1:-37202587 | Msa0207010:CDS |
| TGGCTCCTCTGCCTATGCTA+GGG | 0.540628 | 2_1:-37202567 | Msa0207010:CDS |
| GAACATAACAGCTCATCCTC+AGG | 0.542594 | 2_1:+37202322 | None:intergenic |
| GAGCTGTTATGTTCTGTTCG+TGG | 0.546935 | 2_1:-37202313 | Msa0207010:CDS |
| TGAAACCCTAGCAAGGAAAA+GGG | 0.553710 | 2_1:+37202713 | None:intergenic |
| GAATCTAGCATGGTAATGGT+TGG | 0.561885 | 2_1:+37202686 | None:intergenic |
| GAAGAGATTGAGGATCTGTA+AGG | 0.562216 | 2_1:+37202483 | None:intergenic |
| AGAACCAGAGGCGGCATTGG+GGG | 0.573474 | 2_1:+37202598 | None:intergenic |
| AGACAAGCACAAGAGTTTGT+GGG | 0.574774 | 2_1:-37202510 | Msa0207010:CDS |
| AAGAACCAGAGGCGGCATTG+GGG | 0.587159 | 2_1:+37202597 | None:intergenic |
| TCACCATGCTTTGTGTCCTG+AGG | 0.591704 | 2_1:-37202338 | Msa0207010:CDS |
| ATGGAGCACGGTGCCGAGAG+AGG | 0.591713 | 2_1:+37202641 | None:intergenic |
| GCAAGGAAAAGGGTTTCAGA+TGG | 0.598612 | 2_1:+37202723 | None:intergenic |
| CCTCTTCAAAACCCTAGCAT+AGG | 0.606642 | 2_1:+37202556 | None:intergenic |
| GCAGCATCAGTGATGGAGCA+CGG | 0.607054 | 2_1:+37202629 | None:intergenic |
| CAAAACCCTAGCATAGGCAG+AGG | 0.607585 | 2_1:+37202562 | None:intergenic |
| GCCATTGTCAGAAGAACCAG+AGG | 0.607630 | 2_1:+37202586 | None:intergenic |
| ATGTGCTAAACAAGCTGTTG+GGG | 0.619516 | 2_1:-37202266 | None:intergenic |
| CATCCTCAGGACACAAAGCA+TGG | 0.619888 | 2_1:+37202335 | None:intergenic |
| TAAGTTCCCCGAATCTAGCA+TGG | 0.629311 | 2_1:+37202676 | None:intergenic |
| GAGCACGGTGCCGAGAGAGG+CGG | 0.639125 | 2_1:+37202644 | None:intergenic |
| TGGAATCTGAAACCCTAGCA+AGG | 0.644609 | 2_1:+37202706 | None:intergenic |
| ACAACTGTGAGTTGAATGAA+AGG | 0.648042 | 2_1:+37202746 | None:intergenic |
| CAACTGTGAGTTGAATGAAA+GGG | 0.676527 | 2_1:+37202747 | None:intergenic |
| ATTGTCAGAAGAACCAGAGG+CGG | 0.677652 | 2_1:+37202589 | None:intergenic |
| CCATTACCATGCTAGATTCG+GGG | 0.697562 | 2_1:-37202682 | Msa0207010:exon |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ACTTTTGATTTGAATTTTTT+AGG | - | chr2_1:37202635-37202654 | Msa0207010:CDS | 15.0% |
| AACCATTACCATGCTAGATT+CGG | - | chr2_1:37202328-37202347 | Msa0207010:CDS | 35.0% | |
| ! | TCTTGTGCTTGTCTGTTTTA+CGG | + | chr2_1:37202496-37202515 | None:intergenic | 35.0% |
| TATAGTGTACGTACCATCTT+TGG | + | chr2_1:37202572-37202591 | None:intergenic | 35.0% | |
| ! | TGAAACCCTTTTCCTTGCTA+GGG | - | chr2_1:37202294-37202313 | Msa0207010:CDS | 40.0% |
| TGAAACCCTAGCAAGGAAAA+GGG | + | chr2_1:37202302-37202321 | None:intergenic | 40.0% | |
| !! | GAATCTAGCATGGTAATGGT+TGG | + | chr2_1:37202329-37202348 | None:intergenic | 40.0% |
| ACCATTACCATGCTAGATTC+GGG | - | chr2_1:37202329-37202348 | Msa0207010:CDS | 40.0% | |
| AGACAAGCACAAGAGTTTGT+GGG | - | chr2_1:37202502-37202521 | Msa0207010:CDS | 40.0% | |
| GAAGAGATTGAGGATCTGTA+AGG | + | chr2_1:37202532-37202551 | None:intergenic | 40.0% | |
| ACGAGAAAAGGAAGAGATTG+AGG | + | chr2_1:37202542-37202561 | None:intergenic | 40.0% | |
| GAATGTGCTAAACAAGCTGT+TGG | - | chr2_1:37202744-37202763 | Msa0207010:five_prime_UTR | 40.0% | |
| GCAAGGAAAAGGGTTTCAGA+TGG | + | chr2_1:37202292-37202311 | None:intergenic | 45.0% | |
| ! | CTGAAACCCTTTTCCTTGCT+AGG | - | chr2_1:37202293-37202312 | Msa0207010:CDS | 45.0% |
| CTGAAACCCTAGCAAGGAAA+AGG | + | chr2_1:37202303-37202322 | None:intergenic | 45.0% | |
| ! | TGGAATCTGAAACCCTAGCA+AGG | + | chr2_1:37202309-37202328 | None:intergenic | 45.0% |
| CCATTACCATGCTAGATTCG+GGG | - | chr2_1:37202330-37202349 | Msa0207010:CDS | 45.0% | |
| TAAGTTCCCCGAATCTAGCA+TGG | + | chr2_1:37202339-37202358 | None:intergenic | 45.0% | |
| ATTGTCAGAAGAACCAGAGG+CGG | + | chr2_1:37202426-37202445 | None:intergenic | 45.0% | |
| CCTCTTCAAAACCCTAGCAT+AGG | + | chr2_1:37202459-37202478 | None:intergenic | 45.0% | |
| !!! | CCTATGCTAGGGTTTTGAAG+AGG | - | chr2_1:37202456-37202475 | Msa0207010:intron | 45.0% |
| CAGACAAGCACAAGAGTTTG+TGG | - | chr2_1:37202501-37202520 | Msa0207010:CDS | 45.0% | |
| ! | TTTGGAGCAGCAACGAGAAA+AGG | + | chr2_1:37202554-37202573 | None:intergenic | 45.0% |
| GAACATAACAGCTCATCCTC+AGG | + | chr2_1:37202693-37202712 | None:intergenic | 45.0% | |
| GAGCTGTTATGTTCTGTTCG+TGG | - | chr2_1:37202699-37202718 | Msa0207010:five_prime_UTR | 45.0% | |
| CCCCGAATCTAGCATGGTAA+TGG | + | chr2_1:37202333-37202352 | None:intergenic | 50.0% | |
| !! | GCCTCTGGTTCTTCTGACAA+TGG | - | chr2_1:37202425-37202444 | Msa0207010:intron | 50.0% |
| GCCATTGTCAGAAGAACCAG+AGG | + | chr2_1:37202429-37202448 | None:intergenic | 50.0% | |
| CAAAACCCTAGCATAGGCAG+AGG | + | chr2_1:37202453-37202472 | None:intergenic | 50.0% | |
| !!! | AGGGTTTTGAAGAGGACTCG+AGG | - | chr2_1:37202464-37202483 | Msa0207010:CDS | 50.0% |
| TCTCGTTGCTGCTCCAAAGA+TGG | - | chr2_1:37202556-37202575 | Msa0207010:CDS | 50.0% | |
| TCACCATGCTTTGTGTCCTG+AGG | - | chr2_1:37202674-37202693 | Msa0207010:CDS | 50.0% | |
| CATCCTCAGGACACAAAGCA+TGG | + | chr2_1:37202680-37202699 | None:intergenic | 50.0% | |
| ! | GCAGCATCAGTGATGGAGCA+CGG | + | chr2_1:37202386-37202405 | None:intergenic | 55.0% |
| AAGAACCAGAGGCGGCATTG+GGG | + | chr2_1:37202418-37202437 | None:intergenic | 55.0% | |
| GAAGAACCAGAGGCGGCATT+GGG | + | chr2_1:37202419-37202438 | None:intergenic | 55.0% | |
| AGAAGAACCAGAGGCGGCAT+TGG | + | chr2_1:37202420-37202439 | None:intergenic | 55.0% | |
| ATGGCTCCTCTGCCTATGCT+AGG | - | chr2_1:37202444-37202463 | Msa0207010:intron | 55.0% | |
| TGGCTCCTCTGCCTATGCTA+GGG | - | chr2_1:37202445-37202464 | Msa0207010:intron | 55.0% | |
| ! | AGAACCAGAGGCGGCATTGG+GGG | + | chr2_1:37202417-37202436 | None:intergenic | 60.0% |
| AGCGCCTTCTCCGCCTCTCT+CGG | - | chr2_1:37202358-37202377 | Msa0207010:CDS | 65.0% | |
| ! | ATGGAGCACGGTGCCGAGAG+AGG | + | chr2_1:37202374-37202393 | None:intergenic | 65.0% |
| AGCGGGGGCAGCATCAGTGA+TGG | + | chr2_1:37202393-37202412 | None:intergenic | 65.0% | |
| ! | GGTGCCGAGAGAGGCGGAGA+AGG | + | chr2_1:37202365-37202384 | None:intergenic | 70.0% |
| ! | GAGCACGGTGCCGAGAGAGG+CGG | + | chr2_1:37202371-37202390 | None:intergenic | 70.0% |
| ! | AGAGGCGGCATTGGGGGCAG+CGG | + | chr2_1:37202411-37202430 | None:intergenic | 70.0% |
| ! | AGGCGGCATTGGGGGCAGCG+GGG | + | chr2_1:37202409-37202428 | None:intergenic | 75.0% |
| ! | GAGGCGGCATTGGGGGCAGC+GGG | + | chr2_1:37202410-37202429 | None:intergenic | 75.0% |
| GCTGCCCCCAATGCCGCCTC+TGG | - | chr2_1:37202410-37202429 | Msa0207010:intron | 75.0% | |
| !! | GGCGGCATTGGGGGCAGCGG+GGG | + | chr2_1:37202408-37202427 | None:intergenic | 80.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 37202267 | 37202767 | 37202267 | ID=Msa0207010;Name=Msa0207010 |
| chr2_1 | mRNA | 37202267 | 37202767 | 37202267 | ID=Msa0207010-mRNA-1;Parent=Msa0207010;Name=Msa0207010-mRNA-1;_AED=0.00;_eAED=0.00;_QI=71|1|0.5|1|1|1|2|0|117 |
| chr2_1 | exon | 37202267 | 37202377 | 37202267 | ID=Msa0207010-mRNA-1:exon:12071;Parent=Msa0207010-mRNA-1 |
| chr2_1 | exon | 37202457 | 37202767 | 37202457 | ID=Msa0207010-mRNA-1:exon:12070;Parent=Msa0207010-mRNA-1 |
| chr2_1 | five_prime_UTR | 37202697 | 37202767 | 37202697 | ID=Msa0207010-mRNA-1:five_prime_utr;Parent=Msa0207010-mRNA-1 |
| chr2_1 | CDS | 37202457 | 37202696 | 37202457 | ID=Msa0207010-mRNA-1:cds;Parent=Msa0207010-mRNA-1 |
| chr2_1 | CDS | 37202267 | 37202377 | 37202267 | ID=Msa0207010-mRNA-1:cds;Parent=Msa0207010-mRNA-1 |
| Gene Sequence |
| Protein sequence |
