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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0878100 | XP_024641530.1 | 88.660 | 97 | 9 | 2 | 1 | 96 | 4 | 99 | 4.85e-52 | 168 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0878100 | A0A396HDL4 | 88.660 | 97 | 9 | 2 | 1 | 96 | 4 | 99 | 2.32e-52 | 168 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0090390 | Msa0878100 | 0.815750 | 7.879637e-52 | -8.615850e-47 |
| Msa0137870 | Msa0878100 | 0.810864 | 9.322198e-51 | -8.615850e-47 |
| Msa0878100 | Msa0945120 | 0.817263 | 3.610380e-52 | -8.615850e-47 |
| Msa0878100 | Msa1443610 | 0.818973 | 1.481643e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0878100 | MtrunA17_Chr6g0460651 | 88.660 | 97 | 9 | 2 | 1 | 96 | 4 | 99 | 4.46e-56 | 168 |
| Msa0878100 | MtrunA17_Chr6g0460641 | 74.747 | 99 | 21 | 4 | 1 | 96 | 1 | 98 | 1.98e-41 | 131 |
| Msa0878100 | MtrunA17_Chr6g0460741 | 33.696 | 92 | 56 | 3 | 4 | 95 | 2 | 88 | 6.22e-13 | 58.9 |
| Msa0878100 | MtrunA17_Chr7g0254151 | 46.250 | 80 | 36 | 4 | 19 | 96 | 21 | 95 | 2.20e-11 | 55.1 |
| 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 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAATAATAGGAGAGTGTTAT+TGG | 0.218309 | 6_1:+18506936 | Msa0878100:intron |
| AAAGGAAACAAGAATGAATT+TGG | 0.262043 | 6_1:+18507007 | Msa0878100:CDS |
| GTGTTATTGGATTAAGTAAT+GGG | 0.327113 | 6_1:+18506949 | Msa0878100:CDS |
| TGCATCACTCAAACTCTTCC+TGG | 0.355190 | 6_1:-18507083 | None:intergenic |
| GGATAAAAGAGAAGAGTTCT+TGG | 0.397855 | 6_1:+18506983 | Msa0878100:CDS |
| CAAACTCTTCCTGGTGCCTT+AGG | 0.399334 | 6_1:-18507074 | None:intergenic |
| TGGTTGTTTGCTCCTGTCCC+TGG | 0.404658 | 6_1:-18507044 | None:intergenic |
| TTCCTGGTGCCTTAGGATCA+TGG | 0.430874 | 6_1:-18507067 | None:intergenic |
| AAGTAATGGGGAAGATTTGT+TGG | 0.438066 | 6_1:+18506962 | Msa0878100:CDS |
| TTGGAAATAGAAGACTATCC+AGG | 0.442550 | 6_1:+18507026 | Msa0878100:CDS |
| AGTTCAAACTACACTAGTTA+AGG | 0.442722 | 6_1:+18506783 | Msa0878100:CDS |
| AGTGTTATTGGATTAAGTAA+TGG | 0.464209 | 6_1:+18506948 | Msa0878100:CDS |
| CATGTTGAATAAACTAGAAA+AGG | 0.465009 | 6_1:-18506522 | None:intergenic |
| AAGAGAAGAGTTCTTGGTAA+AGG | 0.486551 | 6_1:+18506989 | Msa0878100:CDS |
| CACCATGATCCTAAGGCACC+AGG | 0.552196 | 6_1:+18507065 | Msa0878100:CDS |
| ATAGAAGACTATCCAGGGAC+AGG | 0.554386 | 6_1:+18507032 | Msa0878100:CDS |
| TGGAAATAGAAGACTATCCA+GGG | 0.571908 | 6_1:+18507027 | Msa0878100:CDS |
| AAACAACCACCATGATCCTA+AGG | 0.578374 | 6_1:+18507058 | Msa0878100:CDS |
| TGTTATTGGATTAAGTAATG+GGG | 0.639005 | 6_1:+18506950 | Msa0878100:CDS |
| CTGGTGCCTTAGGATCATGG+TGG | 0.713151 | 6_1:-18507064 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATAATAATAATAAGGATAT+GGG | - | chr6_1:18506676-18506695 | None:intergenic | 10.0% |
| !! | AAATAATAATAATAAGGATA+TGG | - | chr6_1:18506677-18506696 | None:intergenic | 10.0% |
| !! | ATTATCTTAAATATTCATAT+TGG | - | chr6_1:18506819-18506838 | None:intergenic | 10.0% |
| !! | TTTAAATTATTAACCGTAAA+TGG | + | chr6_1:18506644-18506663 | Msa0878100:intron | 15.0% |
| !! | ATAATAATAATAAGGATATG+GGG | - | chr6_1:18506675-18506694 | None:intergenic | 15.0% |
| !!! | TTTTTTTACTAATTTTTTGC+AGG | + | chr6_1:18506730-18506749 | Msa0878100:intron | 15.0% |
| !! | ATTAGAATTTACTTATATAG+AGG | - | chr6_1:18506874-18506893 | None:intergenic | 15.0% |
| !!! | ATATAGCTTTTGTCAATAAT+AGG | + | chr6_1:18506923-18506942 | Msa0878100:intron | 20.0% |
| ! | CATGTTGAATAAACTAGAAA+AGG | - | chr6_1:18506525-18506544 | None:intergenic | 25.0% |
| ! | AGAAAACCATAAAGAAAAAG+AGG | - | chr6_1:18506571-18506590 | None:intergenic | 25.0% |
| !! | TTTTTCTATGCATACTTGTT+TGG | - | chr6_1:18506622-18506641 | None:intergenic | 25.0% |
| !! | AGTGTTATTGGATTAAGTAA+TGG | + | chr6_1:18506948-18506967 | Msa0878100:CDS | 25.0% |
| !! | GTGTTATTGGATTAAGTAAT+GGG | + | chr6_1:18506949-18506968 | Msa0878100:CDS | 25.0% |
| ! | TGTTATTGGATTAAGTAATG+GGG | + | chr6_1:18506950-18506969 | Msa0878100:CDS | 25.0% |
| ! | AAAGGAAACAAGAATGAATT+TGG | + | chr6_1:18507007-18507026 | Msa0878100:CDS | 25.0% |
| ATATGGGGTTATTCCATTTA+CGG | - | chr6_1:18506660-18506679 | None:intergenic | 30.0% | |
| !!! | TGCAGGAAATTTTTTCTCAA+AGG | + | chr6_1:18506747-18506766 | Msa0878100:intron | 30.0% |
| AGTTCAAACTACACTAGTTA+AGG | + | chr6_1:18506783-18506802 | Msa0878100:CDS | 30.0% | |
| !! | CAATAATAGGAGAGTGTTAT+TGG | + | chr6_1:18506936-18506955 | Msa0878100:intron | 30.0% |
| ! | AAGTAATGGGGAAGATTTGT+TGG | + | chr6_1:18506962-18506981 | Msa0878100:CDS | 35.0% |
| GGATAAAAGAGAAGAGTTCT+TGG | + | chr6_1:18506983-18507002 | Msa0878100:CDS | 35.0% | |
| AAGAGAAGAGTTCTTGGTAA+AGG | + | chr6_1:18506989-18507008 | Msa0878100:CDS | 35.0% | |
| TTGGAAATAGAAGACTATCC+AGG | + | chr6_1:18507026-18507045 | Msa0878100:CDS | 35.0% | |
| TGGAAATAGAAGACTATCCA+GGG | + | chr6_1:18507027-18507046 | Msa0878100:CDS | 35.0% | |
| ! | TAAAGAAAAAGAGGAAGCGC+AGG | - | chr6_1:18506562-18506581 | None:intergenic | 40.0% |
| ! | GCGCTTCCTCTTTTTCTTTA+TGG | + | chr6_1:18506562-18506581 | Msa0878100:CDS | 40.0% |
| AAACAACCACCATGATCCTA+AGG | + | chr6_1:18507058-18507077 | Msa0878100:CDS | 40.0% | |
| ATAGAAGACTATCCAGGGAC+AGG | + | chr6_1:18507032-18507051 | Msa0878100:CDS | 45.0% | |
| TGCATCACTCAAACTCTTCC+TGG | - | chr6_1:18507086-18507105 | None:intergenic | 45.0% | |
| !! | ACTAAAAAATAATAATAATA+AGG | - | chr6_1:18506683-18506702 | None:intergenic | 5.0% |
| !! | TAATTACTTAAATTAAATTA+AGG | + | chr6_1:18506890-18506909 | Msa0878100:intron | 5.0% |
| !! | AATTACTTAAATTAAATTAA+GGG | + | chr6_1:18506891-18506910 | Msa0878100:intron | 5.0% |
| TTCCTGGTGCCTTAGGATCA+TGG | - | chr6_1:18507070-18507089 | None:intergenic | 50.0% | |
| CAAACTCTTCCTGGTGCCTT+AGG | - | chr6_1:18507077-18507096 | None:intergenic | 50.0% | |
| TGGTTGTTTGCTCCTGTCCC+TGG | - | chr6_1:18507047-18507066 | None:intergenic | 55.0% | |
| CTGGTGCCTTAGGATCATGG+TGG | - | chr6_1:18507067-18507086 | None:intergenic | 55.0% | |
| ! | CACCATGATCCTAAGGCACC+AGG | + | chr6_1:18507065-18507084 | Msa0878100:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_1 | gene | 18506512 | 18507151 | 18506512 | ID=Msa0878100;Name=Msa0878100 |
| chr6_1 | mRNA | 18506512 | 18507151 | 18506512 | ID=Msa0878100-mRNA-1;Parent=Msa0878100;Name=Msa0878100-mRNA-1;_AED=0.36;_eAED=0.36;_QI=30|1|1|1|1|1|3|54|96 |
| chr6_1 | exon | 18506512 | 18506626 | 18506512 | ID=Msa0878100-mRNA-1:exon:5049;Parent=Msa0878100-mRNA-1 |
| chr6_1 | exon | 18506752 | 18506804 | 18506752 | ID=Msa0878100-mRNA-1:exon:5050;Parent=Msa0878100-mRNA-1 |
| chr6_1 | exon | 18506945 | 18507151 | 18506945 | ID=Msa0878100-mRNA-1:exon:5051;Parent=Msa0878100-mRNA-1 |
| chr6_1 | five_prime_UTR | 18506512 | 18506541 | 18506512 | ID=Msa0878100-mRNA-1:five_prime_utr;Parent=Msa0878100-mRNA-1 |
| chr6_1 | CDS | 18506542 | 18506626 | 18506542 | ID=Msa0878100-mRNA-1:cds;Parent=Msa0878100-mRNA-1 |
| chr6_1 | CDS | 18506752 | 18506804 | 18506752 | ID=Msa0878100-mRNA-1:cds;Parent=Msa0878100-mRNA-1 |
| chr6_1 | CDS | 18506945 | 18507097 | 18506945 | ID=Msa0878100-mRNA-1:cds;Parent=Msa0878100-mRNA-1 |
| chr6_1 | three_prime_UTR | 18507098 | 18507151 | 18507098 | ID=Msa0878100-mRNA-1:three_prime_utr;Parent=Msa0878100-mRNA-1 |
| Gene Sequence |
| Protein sequence |
