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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1355880 | XP_003603169.1 | 78.195 | 133 | 13 | 1 | 1 | 117 | 1 | 133 | 1.15e-67 | 210 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1355880 | G7J8B3 | 78.195 | 133 | 13 | 1 | 1 | 117 | 1 | 133 | 5.51e-68 | 210 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0065950 | Msa1355880 | 0.810337 | 1.211790e-50 | -8.615850e-47 |
| Msa0118540 | Msa1355880 | 0.804808 | 1.808664e-49 | -8.615850e-47 |
| Msa0626850 | Msa1355880 | 0.803408 | 3.535792e-49 | -8.615850e-47 |
| Msa0534410 | Msa1355880 | 0.805093 | 1.576492e-49 | -8.615850e-47 |
| Msa0590650 | Msa1355880 | 0.808865 | 2.510744e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1355880 | MtrunA17_Chr3g0135891 | 78.195 | 133 | 13 | 1 | 1 | 117 | 1 | 133 | 1.06e-71 | 210 |
| Msa1355880 | MtrunA17_Chr4g0025531 | 52.632 | 114 | 41 | 2 | 13 | 117 | 102 | 211 | 7.99e-30 | 107 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 20 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACAAATCCTCCTTGTGTCTT+TGG | 0.212278 | tig0015247:+30893 | Msa1355880:CDS |
| TTGAAGACATTGGCAAGTTT+TGG | 0.274845 | tig0015247:+30579 | Msa1355880:CDS |
| GACTCCATTGAGCTCATCTA+TGG | 0.333269 | tig0015247:-30867 | None:intergenic |
| ATATTCCATGCGAAGGTAAA+GGG | 0.458557 | tig0015247:+31157 | Msa1355880:intron |
| AAGGCTGTTACTGCTTCTCC+TGG | 0.501413 | tig0015247:+31180 | Msa1355880:CDS |
| CCAATATGACCAATTAGAAA+AGG | 0.504147 | tig0015247:+30635 | Msa1355880:CDS |
| ACATGAAAATTTGAAGACAT+TGG | 0.526101 | tig0015247:+30569 | Msa1355880:CDS |
| TCTTCCATAGATGAGCTCAA+TGG | 0.531440 | tig0015247:+30863 | Msa1355880:CDS |
| CATTCAGAATGACCTCGAAA+AGG | 0.537836 | tig0015247:+30493 | None:intergenic |
| ATTAATAATATCCTCATCAA+CGG | 0.581973 | tig0015247:+30693 | Msa1355880:CDS |
| ACCTCGAAAAGGACATCAAG+AGG | 0.590279 | tig0015247:+30504 | Msa1355880:CDS |
| TAATCTCTCCTCCGTTGATG+AGG | 0.590419 | tig0015247:-30704 | None:intergenic |
| ATATGACCAATTAGAAAAGG+TGG | 0.592242 | tig0015247:+30638 | Msa1355880:CDS |
| GGAGGAGAGATTAATCATCA+AGG | 0.627191 | tig0015247:+30714 | Msa1355880:CDS |
| TCCATGCGAAGGTAAAGGGA+AGG | 0.651685 | tig0015247:+31161 | Msa1355880:intron |
| CCTCGAAAAGGACATCAAGA+GGG | 0.654816 | tig0015247:+30505 | Msa1355880:CDS |
| AATAATATCCTCATCAACGG+AGG | 0.666530 | tig0015247:+30696 | Msa1355880:CDS |
| TTACTTGCACCAAAGACACA+AGG | 0.696992 | tig0015247:-30902 | None:intergenic |
| CTTGCACCAAAGACACAAGG+AGG | 0.714639 | tig0015247:-30899 | None:intergenic |
| AGTTATGAAGAAGCACGTCG+CGG | 0.740922 | tig0015247:+30539 | Msa1355880:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTAAATGAAAAACAAAAAAT+TGG | - | tig0015247:30939-30958 | None:intergenic | 10.0% |
| !! | CTAATTAATTTAAGTAAATG+TGG | + | tig0015247:30818-30837 | Msa1355880:intron | 15.0% |
| !! | ATCAAAATATTTACTATGTT+GGG | - | tig0015247:31029-31048 | None:intergenic | 15.0% |
| !! | ATTAATAATATCCTCATCAA+CGG | + | tig0015247:30693-30712 | Msa1355880:CDS | 20.0% |
| !! | GATCAAAATATTTACTATGT+TGG | - | tig0015247:31030-31049 | None:intergenic | 20.0% |
| ! | ACATGAAAATTTGAAGACAT+TGG | + | tig0015247:30569-30588 | Msa1355880:CDS | 25.0% |
| ! | CCTTTTCTAATTGGTCATAT+TGG | - | tig0015247:30638-30657 | None:intergenic | 30.0% |
| CCAATATGACCAATTAGAAA+AGG | + | tig0015247:30635-30654 | Msa1355880:CDS | 30.0% | |
| ATATGACCAATTAGAAAAGG+TGG | + | tig0015247:30638-30657 | Msa1355880:CDS | 30.0% | |
| AATTTGAATATTCCATGCGA+AGG | + | tig0015247:31150-31169 | Msa1355880:intron | 30.0% | |
| ! | TTGAAGACATTGGCAAGTTT+TGG | + | tig0015247:30579-30598 | Msa1355880:CDS | 35.0% |
| ! | ATGTGTCCACCTTTTCTAAT+TGG | - | tig0015247:30647-30666 | None:intergenic | 35.0% |
| AATAATATCCTCATCAACGG+AGG | + | tig0015247:30696-30715 | Msa1355880:CDS | 35.0% | |
| ATTCACACACACCAAATATG+TGG | + | tig0015247:30976-30995 | Msa1355880:intron | 35.0% | |
| AATGTTTGCATGTATTCTCG+TGG | - | tig0015247:31129-31148 | None:intergenic | 35.0% | |
| AATATTCCATGCGAAGGTAA+AGG | + | tig0015247:31156-31175 | Msa1355880:intron | 35.0% | |
| ATATTCCATGCGAAGGTAAA+GGG | + | tig0015247:31157-31176 | Msa1355880:intron | 35.0% | |
| !!! | CATTGGCAAGTTTTGGCTAT+TGG | + | tig0015247:30586-30605 | Msa1355880:CDS | 40.0% |
| GGAGGAGAGATTAATCATCA+AGG | + | tig0015247:30714-30733 | Msa1355880:CDS | 40.0% | |
| TCTTCCATAGATGAGCTCAA+TGG | + | tig0015247:30863-30882 | Msa1355880:CDS | 40.0% | |
| ACAAATCCTCCTTGTGTCTT+TGG | + | tig0015247:30893-30912 | Msa1355880:CDS | 40.0% | |
| TTACTTGCACCAAAGACACA+AGG | - | tig0015247:30905-30924 | None:intergenic | 40.0% | |
| ! | TTGTGTCTTTGGTGCAAGTA+AGG | + | tig0015247:30904-30923 | Msa1355880:intron | 40.0% |
| ACACACCAAATATGTGGAAG+AGG | + | tig0015247:30982-31001 | Msa1355880:intron | 40.0% | |
| CACACCAAATATGTGGAAGA+GGG | + | tig0015247:30983-31002 | Msa1355880:intron | 40.0% | |
| ACACCAAATATGTGGAAGAG+GGG | + | tig0015247:30984-31003 | Msa1355880:intron | 40.0% | |
| TAACTCGTGTAAGTGCAACA+CGG | - | tig0015247:31076-31095 | None:intergenic | 40.0% | |
| !! | GTTTGATTTTCTGCTAGTCC+AGG | - | tig0015247:31201-31220 | None:intergenic | 40.0% |
| ACCTCGAAAAGGACATCAAG+AGG | + | tig0015247:30504-30523 | Msa1355880:CDS | 45.0% | |
| CCTCGAAAAGGACATCAAGA+GGG | + | tig0015247:30505-30524 | Msa1355880:CDS | 45.0% | |
| ! | AGTTATGAAGAAGCACGTCG+CGG | + | tig0015247:30539-30558 | Msa1355880:CDS | 45.0% |
| TAATCTCTCCTCCGTTGATG+AGG | - | tig0015247:30707-30726 | None:intergenic | 45.0% | |
| GACTCCATTGAGCTCATCTA+TGG | - | tig0015247:30870-30889 | None:intergenic | 45.0% | |
| ACACCCCTCTTCCACATATT+TGG | - | tig0015247:30990-31009 | None:intergenic | 45.0% | |
| ! | CCCTCTTGATGTCCTTTTCG+AGG | - | tig0015247:30508-30527 | None:intergenic | 50.0% |
| CTTGCACCAAAGACACAAGG+AGG | - | tig0015247:30902-30921 | None:intergenic | 50.0% | |
| !! | TATGTGGAAGAGGGGTGTTG+TGG | + | tig0015247:30992-31011 | Msa1355880:intron | 50.0% |
| !! | ATGTGGAAGAGGGGTGTTGT+GGG | + | tig0015247:30993-31012 | Msa1355880:intron | 50.0% |
| TCCATGCGAAGGTAAAGGGA+AGG | + | tig0015247:31161-31180 | Msa1355880:intron | 50.0% | |
| AAGGCTGTTACTGCTTCTCC+TGG | + | tig0015247:31180-31199 | Msa1355880:CDS | 50.0% | |
| !! | GGGGTGTTGTGGGTTACTCT+CGG | + | tig0015247:31003-31022 | Msa1355880:intron | 55.0% |
| GCCTTCCCTTTACCTTCGCA+TGG | - | tig0015247:31165-31184 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0015247 | gene | 30501 | 31227 | 30501 | ID=Msa1355880;Name=Msa1355880 |
| tig0015247 | mRNA | 30501 | 31227 | 30501 | ID=Msa1355880-mRNA-1;Parent=Msa1355880;Name=Msa1355880-mRNA-1;_AED=0.09;_eAED=0.09;_QI=0|0|0|0.66|1|1|3|0|117 |
| tig0015247 | exon | 30501 | 30735 | 30501 | ID=Msa1355880-mRNA-1:exon:9644;Parent=Msa1355880-mRNA-1 |
| tig0015247 | exon | 30858 | 30920 | 30858 | ID=Msa1355880-mRNA-1:exon:9645;Parent=Msa1355880-mRNA-1 |
| tig0015247 | exon | 31172 | 31227 | 31172 | ID=Msa1355880-mRNA-1:exon:9646;Parent=Msa1355880-mRNA-1 |
| tig0015247 | CDS | 30501 | 30735 | 30501 | ID=Msa1355880-mRNA-1:cds;Parent=Msa1355880-mRNA-1 |
| tig0015247 | CDS | 30858 | 30920 | 30858 | ID=Msa1355880-mRNA-1:cds;Parent=Msa1355880-mRNA-1 |
| tig0015247 | CDS | 31172 | 31227 | 31172 | ID=Msa1355880-mRNA-1:cds;Parent=Msa1355880-mRNA-1 |
| Gene Sequence |
| Protein sequence |
