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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0161990 | KEH42748.1 | 94.030 | 67 | 4 | 0 | 1 | 67 | 1 | 67 | 2.10e-31 | 123 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0161990 | A0A072VMT4 | 94.030 | 67 | 4 | 0 | 1 | 67 | 1 | 67 | 1.00e-31 | 123 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0030010 | Msa0161990 | 0.859643 | 3.588983e-63 | -8.615850e-47 |
| Msa0125240 | Msa0161990 | 0.859111 | 5.184305e-63 | -8.615850e-47 |
| Msa0161990 | Msa0162020 | 0.859508 | 3.941672e-63 | -8.615850e-47 |
| Msa0161990 | Msa0162060 | 0.810509 | 1.112832e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0161990 | MtrunA17_Chr1g0187021 | 94.030 | 67 | 4 | 0 | 1 | 67 | 1 | 67 | 7.56e-35 | 122 |
| Msa0161990 | MtrunA17_Chr1g0187031 | 88.462 | 52 | 6 | 0 | 17 | 68 | 4 | 55 | 1.43e-27 | 94.7 |
| Msa0161990 | MtrunA17_Chr1g0187051 | 71.014 | 69 | 17 | 2 | 1 | 68 | 1 | 67 | 2.44e-23 | 90.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 30 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGGCTGCTGCCTCGCGTTAC+CGG | 0.199019 | 1_4:+38136808 | Msa0161990:CDS |
| GTCAGCTACAGCTTCTTCTT+TGG | 0.273218 | 1_4:+38136568 | Msa0161990:five_prime_UTR |
| GTTCTGGCTGCCTCCTTTGC+CGG | 0.296647 | 1_4:+38136774 | Msa0161990:CDS |
| ATATGTAAGTAGATGAAATA+TGG | 0.325496 | 1_4:+38136463 | Msa0161990:five_prime_UTR |
| AGCAGCCGCGGCAATCAAAC+CGG | 0.340708 | 1_4:-38136793 | None:intergenic |
| CGTCCGCCTCACACATGTTC+TGG | 0.358002 | 1_4:+38136758 | Msa0161990:CDS |
| CAAGTTGATAAAACAGAATC+TGG | 0.373214 | 1_4:+38136873 | Msa0161990:CDS |
| TAAAACAGAATCTGGTCGTT+TGG | 0.388807 | 1_4:+38136881 | Msa0161990:CDS |
| AATACCTTGCTCCATCTTGT+TGG | 0.394670 | 1_4:-38136636 | None:intergenic |
| CTTTGGCTCTAGTCTATTTG+TGG | 0.405028 | 1_4:+38136585 | Msa0161990:five_prime_UTR |
| CGCGGCAATCAAACCGGCAA+AGG | 0.461673 | 1_4:-38136787 | None:intergenic |
| CCACCGTCGACTCTTGCTTC+CGG | 0.496739 | 1_4:-38136827 | None:intergenic |
| GGCAATCAAACCGGCAAAGG+AGG | 0.512110 | 1_4:-38136784 | None:intergenic |
| ACTTACATATATTAAATAAG+TGG | 0.515405 | 1_4:-38136450 | None:intergenic |
| GTAACGCGAGGCAGCAGCCG+CGG | 0.551342 | 1_4:-38136805 | None:intergenic |
| CCACTTGATTTGAGTGCTAG+AGG | 0.560233 | 1_4:+38136531 | Msa0161990:five_prime_UTR |
| AATCTCAATCTCCAACAAGA+TGG | 0.572542 | 1_4:+38136625 | Msa0161990:exon |
| AGTGCTAGAGGTAACAATCA+AGG | 0.575528 | 1_4:+38136543 | Msa0161990:five_prime_UTR |
| GAAAAGTTCTCCCACTATGT+TGG | 0.580569 | 1_4:+38136912 | Msa0161990:CDS |
| GCATTACATACCAACATAGT+GGG | 0.583296 | 1_4:-38136922 | None:intergenic |
| CAGAACATGTGTGAGGCGGA+CGG | 0.590928 | 1_4:-38136757 | None:intergenic |
| ATCTCCAACAAGATGGAGCA+AGG | 0.592137 | 1_4:+38136632 | Msa0161990:exon |
| CCTCTAGCACTCAAATCAAG+TGG | 0.612479 | 1_4:-38136531 | None:intergenic |
| AGCATTACATACCAACATAG+TGG | 0.615576 | 1_4:-38136923 | None:intergenic |
| CTCTTGCTTCCGGTAACGCG+AGG | 0.623457 | 1_4:-38136817 | None:intergenic |
| CTTTGCCGGTTTGATTGCCG+CGG | 0.633840 | 1_4:+38136788 | Msa0161990:CDS |
| CAGCCAGAACATGTGTGAGG+CGG | 0.646050 | 1_4:-38136761 | None:intergenic |
| TTACCGGAAGCAAGAGTCGA+CGG | 0.658682 | 1_4:+38136824 | Msa0161990:CDS |
| AGGCAGCCAGAACATGTGTG+AGG | 0.672431 | 1_4:-38136764 | None:intergenic |
| CCGGAAGCAAGAGTCGACGG+TGG | 0.756030 | 1_4:+38136827 | Msa0161990:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ACTTACATATATTAAATAAG+TGG | - | chr1_4:38136453-38136472 | None:intergenic | 15.0% |
| !! | ATATGTAAGTAGATGAAATA+TGG | + | chr1_4:38136463-38136482 | Msa0161990:five_prime_UTR | 20.0% |
| !!! | AGTTCATAATGTTTTTCAGA+TGG | + | chr1_4:38136723-38136742 | Msa0161990:intron | 25.0% |
| !!! | TAATGTTTTTCAGATGGTAT+TGG | + | chr1_4:38136729-38136748 | Msa0161990:intron | 25.0% |
| !!! | ATGTAATGCTTCACTTTTTT+TGG | + | chr1_4:38136936-38136955 | Msa0161990:exon | 25.0% |
| !!! | TGTAATGCTTCACTTTTTTT+GGG | + | chr1_4:38136937-38136956 | Msa0161990:exon | 25.0% |
| ! | GATTCTGTTTTATCAACTTG+AGG | - | chr1_4:38136873-38136892 | None:intergenic | 30.0% |
| !! | CAAGTTGATAAAACAGAATC+TGG | + | chr1_4:38136873-38136892 | Msa0161990:CDS | 30.0% |
| ACAGTGAGATTGAAAAAGAA+AGG | - | chr1_4:38136992-38137011 | None:intergenic | 30.0% | |
| AATCTCAATCTCCAACAAGA+TGG | + | chr1_4:38136625-38136644 | Msa0161990:exon | 35.0% | |
| TAAAACAGAATCTGGTCGTT+TGG | + | chr1_4:38136881-38136900 | Msa0161990:CDS | 35.0% | |
| GCATTACATACCAACATAGT+GGG | - | chr1_4:38136925-38136944 | None:intergenic | 35.0% | |
| AGCATTACATACCAACATAG+TGG | - | chr1_4:38136926-38136945 | None:intergenic | 35.0% | |
| AGTGCTAGAGGTAACAATCA+AGG | + | chr1_4:38136543-38136562 | Msa0161990:five_prime_UTR | 40.0% | |
| !! | CTTTGGCTCTAGTCTATTTG+TGG | + | chr1_4:38136585-38136604 | Msa0161990:five_prime_UTR | 40.0% |
| AATACCTTGCTCCATCTTGT+TGG | - | chr1_4:38136639-38136658 | None:intergenic | 40.0% | |
| GAAAAGTTCTCCCACTATGT+TGG | + | chr1_4:38136912-38136931 | Msa0161990:CDS | 40.0% | |
| CCTCTAGCACTCAAATCAAG+TGG | - | chr1_4:38136534-38136553 | None:intergenic | 45.0% | |
| ! | CCACTTGATTTGAGTGCTAG+AGG | + | chr1_4:38136531-38136550 | Msa0161990:five_prime_UTR | 45.0% |
| GTCAGCTACAGCTTCTTCTT+TGG | + | chr1_4:38136568-38136587 | Msa0161990:five_prime_UTR | 45.0% | |
| ATCTCCAACAAGATGGAGCA+AGG | + | chr1_4:38136632-38136651 | Msa0161990:exon | 45.0% | |
| TTACCGGAAGCAAGAGTCGA+CGG | + | chr1_4:38136824-38136843 | Msa0161990:CDS | 50.0% | |
| CAGAACATGTGTGAGGCGGA+CGG | - | chr1_4:38136760-38136779 | None:intergenic | 55.0% | |
| CAGCCAGAACATGTGTGAGG+CGG | - | chr1_4:38136764-38136783 | None:intergenic | 55.0% | |
| AGGCAGCCAGAACATGTGTG+AGG | - | chr1_4:38136767-38136786 | None:intergenic | 55.0% | |
| GGCAATCAAACCGGCAAAGG+AGG | - | chr1_4:38136787-38136806 | None:intergenic | 55.0% | |
| !! | CTTTGCCGGTTTGATTGCCG+CGG | + | chr1_4:38136788-38136807 | Msa0161990:CDS | 55.0% |
| CGTCCGCCTCACACATGTTC+TGG | + | chr1_4:38136758-38136777 | Msa0161990:CDS | 60.0% | |
| ! | GTTCTGGCTGCCTCCTTTGC+CGG | + | chr1_4:38136774-38136793 | Msa0161990:CDS | 60.0% |
| CGCGGCAATCAAACCGGCAA+AGG | - | chr1_4:38136790-38136809 | None:intergenic | 60.0% | |
| AGCAGCCGCGGCAATCAAAC+CGG | - | chr1_4:38136796-38136815 | None:intergenic | 60.0% | |
| CTCTTGCTTCCGGTAACGCG+AGG | - | chr1_4:38136820-38136839 | None:intergenic | 60.0% | |
| !! | CCACCGTCGACTCTTGCTTC+CGG | - | chr1_4:38136830-38136849 | None:intergenic | 60.0% |
| CCGGAAGCAAGAGTCGACGG+TGG | + | chr1_4:38136827-38136846 | Msa0161990:CDS | 65.0% | |
| GTAACGCGAGGCAGCAGCCG+CGG | - | chr1_4:38136808-38136827 | None:intergenic | 70.0% | |
| CGGCTGCTGCCTCGCGTTAC+CGG | + | chr1_4:38136808-38136827 | Msa0161990:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 38136443 | 38137073 | 38136443 | ID=Msa0161990;Name=Msa0161990 |
| chr1_4 | mRNA | 38136443 | 38137073 | 38136443 | ID=Msa0161990-mRNA-1;Parent=Msa0161990;Name=Msa0161990-mRNA-1;_AED=0.00;_eAED=0.00;_QI=201|1|1|1|1|1|2|132|69 |
| chr1_4 | exon | 38136443 | 38136653 | 38136443 | ID=Msa0161990-mRNA-1:exon:11162;Parent=Msa0161990-mRNA-1 |
| chr1_4 | exon | 38136742 | 38137073 | 38136742 | ID=Msa0161990-mRNA-1:exon:11163;Parent=Msa0161990-mRNA-1 |
| chr1_4 | five_prime_UTR | 38136443 | 38136643 | 38136443 | ID=Msa0161990-mRNA-1:five_prime_utr;Parent=Msa0161990-mRNA-1 |
| chr1_4 | CDS | 38136644 | 38136653 | 38136644 | ID=Msa0161990-mRNA-1:cds;Parent=Msa0161990-mRNA-1 |
| chr1_4 | CDS | 38136742 | 38136941 | 38136742 | ID=Msa0161990-mRNA-1:cds;Parent=Msa0161990-mRNA-1 |
| chr1_4 | three_prime_UTR | 38136942 | 38137073 | 38136942 | ID=Msa0161990-mRNA-1:three_prime_utr;Parent=Msa0161990-mRNA-1 |
| Gene Sequence |
| Protein sequence |
