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 |
|---|
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0761360 | A0A835HI01 | 76.744 | 43 | 8 | 1 | 1 | 43 | 1 | 41 | 1.64e-11 | 62.8 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0761360 | Msa0797310 | 0.800249 | 1.574908e-48 | -8.615850e-47 |
| Msa0761360 | Msa1239000 | 0.807481 | 4.949713e-50 | -8.615850e-47 |
| Msa0761360 | Msa1422150 | 0.817879 | 2.622661e-52 | -8.615850e-47 |
| Msa0761360 | Msa1452860 | 0.803172 | 3.957962e-49 | -8.615850e-47 |
| Msa0370690 | Msa0761360 | 0.810752 | 9.859242e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0761360 | MtrunA17_Chr5g0411581 | 80.000 | 45 | 8 | 1 | 1 | 45 | 1 | 44 | 6.75e-11 | 51.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 27 sgRNAs with CRISPR-Local
Find 46 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GATCATTCATTCCTGGAAAT+TGG | 0.175176 | 5_2:-18576690 | None:intergenic |
| TATTGAGGTGGTGCCATAAC+TGG | 0.282495 | 5_2:-18577153 | None:intergenic |
| GTGCTTTGAGTCCAATTTCC+AGG | 0.363251 | 5_2:+18576679 | Msa0761360:five_prime_UTR |
| ATCACATATACAATGGTATG+AGG | 0.403576 | 5_2:+18576641 | Msa0761360:five_prime_UTR |
| TACTTGGGATCATTCATTCC+TGG | 0.411170 | 5_2:-18576697 | None:intergenic |
| TCTAGAAGTACTCTGACTTC+TGG | 0.423076 | 5_2:-18577190 | None:intergenic |
| AGGGGAGGGAGAGGCATACT+TGG | 0.435256 | 5_2:-18576713 | None:intergenic |
| ATGATAAAGTTACCTTGAGC+AGG | 0.463659 | 5_2:-18576733 | None:intergenic |
| ACCTTGAGCAGGGGAGGGAG+AGG | 0.479130 | 5_2:-18576722 | None:intergenic |
| TTGTTGGCAGGATATTATCA+AGG | 0.503688 | 5_2:+18577126 | Msa0761360:intron |
| GCCTCTCCCTCCCCTGCTCA+AGG | 0.514765 | 5_2:+18576721 | Msa0761360:CDS |
| GAAGTACTCTGACTTCTGGT+TGG | 0.526817 | 5_2:-18577186 | None:intergenic |
| ATTGAGGTGGTGCCATAACT+GGG | 0.531062 | 5_2:-18577152 | None:intergenic |
| AGTACTTCTAGATTCATTGA+GGG | 0.539919 | 5_2:+18577201 | Msa0761360:CDS |
| CTTCTAGATTCATTGAGGGA+TGG | 0.553443 | 5_2:+18577205 | Msa0761360:CDS |
| AAAGTTACCTTGAGCAGGGG+AGG | 0.554873 | 5_2:-18576728 | None:intergenic |
| GTACTCTGACTTCTGGTTGG+AGG | 0.562745 | 5_2:-18577183 | None:intergenic |
| GAGTACTTCTAGATTCATTG+AGG | 0.563275 | 5_2:+18577200 | Msa0761360:CDS |
| GGGGAGGGAGAGGCATACTT+GGG | 0.566978 | 5_2:-18576712 | None:intergenic |
| GTTGGAGGAGCAGCATATTG+AGG | 0.575795 | 5_2:-18577168 | None:intergenic |
| TGATAAAGTTACCTTGAGCA+GGG | 0.594567 | 5_2:-18576732 | None:intergenic |
| TCACATATACAATGGTATGA+GGG | 0.607073 | 5_2:+18576642 | Msa0761360:five_prime_UTR |
| AAGTTACCTTGAGCAGGGGA+GGG | 0.612535 | 5_2:-18576727 | None:intergenic |
| TTGAGGTGGTGCCATAACTG+GGG | 0.655930 | 5_2:-18577151 | None:intergenic |
| GGAGGAGCAGCATATTGAGG+TGG | 0.668820 | 5_2:-18577165 | None:intergenic |
| TGAGGTGGTGCCATAACTGG+GGG | 0.678392 | 5_2:-18577150 | None:intergenic |
| GATAAAGTTACCTTGAGCAG+GGG | 0.681832 | 5_2:-18576731 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATAACAAATCAAAAAATAT+TGG | - | chr5_2:18576927-18576946 | None:intergenic | 10.0% |
| !! | AAAAAAAATTTATCCATCAA+GGG | - | chr5_2:18577011-18577030 | None:intergenic | 15.0% |
| !! | AAAAAAAAATTTATCCATCA+AGG | - | chr5_2:18577012-18577031 | None:intergenic | 15.0% |
| !!! | AAGAATATCTAAAACAAATT+AGG | - | chr5_2:18577039-18577058 | None:intergenic | 15.0% |
| !! | CATAAGATATGATTTATTGA+TGG | + | chr5_2:18576971-18576990 | Msa0761360:intron | 20.0% |
| !! | AAAAAAATTTATCCATCAAG+GGG | - | chr5_2:18577010-18577029 | None:intergenic | 20.0% |
| !!! | AATATCTAAAACAAATTAGG+AGG | - | chr5_2:18577036-18577055 | None:intergenic | 20.0% |
| !! | AGGACATGATTTAATATATA+TGG | - | chr5_2:18577088-18577107 | None:intergenic | 20.0% |
| ! | TTATTGGATGATAATCATCA+TGG | - | chr5_2:18576802-18576821 | None:intergenic | 25.0% |
| ! | AATCAAGTCTCAAACATTAT+TGG | - | chr5_2:18576818-18576837 | None:intergenic | 25.0% |
| ! | AAAAAATTTATCCATCAAGG+GGG | - | chr5_2:18577009-18577028 | None:intergenic | 25.0% |
| ! | AATAAACTTCACACAGATTA+AGG | - | chr5_2:18577108-18577127 | None:intergenic | 25.0% |
| ATCACATATACAATGGTATG+AGG | + | chr5_2:18576641-18576660 | Msa0761360:five_prime_UTR | 30.0% | |
| TCACATATACAATGGTATGA+GGG | + | chr5_2:18576642-18576661 | Msa0761360:five_prime_UTR | 30.0% | |
| GATGCAATATCTAGATCTTA+TGG | + | chr5_2:18576767-18576786 | Msa0761360:intron | 30.0% | |
| TATGTTAGAAATCAGAAAGC+TGG | - | chr5_2:18576876-18576895 | None:intergenic | 30.0% | |
| !! | TCAAAAAATATTGGCTTCAG+AGG | - | chr5_2:18576918-18576937 | None:intergenic | 30.0% |
| ATCTGTGTGAAGTTTATTGT+TGG | + | chr5_2:18577110-18577129 | Msa0761360:intron | 30.0% | |
| AGTACTTCTAGATTCATTGA+GGG | + | chr5_2:18577201-18577220 | Msa0761360:CDS | 30.0% | |
| GATCATTCATTCCTGGAAAT+TGG | - | chr5_2:18576693-18576712 | None:intergenic | 35.0% | |
| TGATAAAGTTACCTTGAGCA+GGG | - | chr5_2:18576735-18576754 | None:intergenic | 35.0% | |
| ATGATAAAGTTACCTTGAGC+AGG | - | chr5_2:18576736-18576755 | None:intergenic | 35.0% | |
| TTGTTGGCAGGATATTATCA+AGG | + | chr5_2:18577126-18577145 | Msa0761360:intron | 35.0% | |
| GAGTACTTCTAGATTCATTG+AGG | + | chr5_2:18577200-18577219 | Msa0761360:CDS | 35.0% | |
| TACTTGGGATCATTCATTCC+TGG | - | chr5_2:18576700-18576719 | None:intergenic | 40.0% | |
| GATAAAGTTACCTTGAGCAG+GGG | - | chr5_2:18576734-18576753 | None:intergenic | 40.0% | |
| GTGTGAAGTTTATTGTTGGC+AGG | + | chr5_2:18577114-18577133 | Msa0761360:intron | 40.0% | |
| !! | TCTAGAAGTACTCTGACTTC+TGG | - | chr5_2:18577193-18577212 | None:intergenic | 40.0% |
| CTTCTAGATTCATTGAGGGA+TGG | + | chr5_2:18577205-18577224 | Msa0761360:CDS | 40.0% | |
| ! | GTGCTTTGAGTCCAATTTCC+AGG | + | chr5_2:18576679-18576698 | Msa0761360:five_prime_UTR | 45.0% |
| !! | AGAGAAAAGTACCCCCTTGA+TGG | + | chr5_2:18576995-18577014 | Msa0761360:intron | 45.0% |
| TTATCAAGGTCCCCCAGTTA+TGG | + | chr5_2:18577140-18577159 | Msa0761360:CDS | 45.0% | |
| !! | ATTGAGGTGGTGCCATAACT+GGG | - | chr5_2:18577155-18577174 | None:intergenic | 45.0% |
| !! | TATTGAGGTGGTGCCATAAC+TGG | - | chr5_2:18577156-18577175 | None:intergenic | 45.0% |
| ! | GAAGTACTCTGACTTCTGGT+TGG | - | chr5_2:18577189-18577208 | None:intergenic | 45.0% |
| AAGTTACCTTGAGCAGGGGA+GGG | - | chr5_2:18576730-18576749 | None:intergenic | 50.0% | |
| AAAGTTACCTTGAGCAGGGG+AGG | - | chr5_2:18576731-18576750 | None:intergenic | 50.0% | |
| !! | TTGAGGTGGTGCCATAACTG+GGG | - | chr5_2:18577154-18577173 | None:intergenic | 50.0% |
| GTTGGAGGAGCAGCATATTG+AGG | - | chr5_2:18577171-18577190 | None:intergenic | 50.0% | |
| ! | GTACTCTGACTTCTGGTTGG+AGG | - | chr5_2:18577186-18577205 | None:intergenic | 50.0% |
| !! | TGAGGTGGTGCCATAACTGG+GGG | - | chr5_2:18577153-18577172 | None:intergenic | 55.0% |
| GGAGGAGCAGCATATTGAGG+TGG | - | chr5_2:18577168-18577187 | None:intergenic | 55.0% | |
| ! | GGGGAGGGAGAGGCATACTT+GGG | - | chr5_2:18576715-18576734 | None:intergenic | 60.0% |
| ! | AGGGGAGGGAGAGGCATACT+TGG | - | chr5_2:18576716-18576735 | None:intergenic | 60.0% |
| ACCTTGAGCAGGGGAGGGAG+AGG | - | chr5_2:18576725-18576744 | None:intergenic | 65.0% | |
| GCCTCTCCCTCCCCTGCTCA+AGG | + | chr5_2:18576721-18576740 | Msa0761360:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_2 | gene | 18576639 | 18577236 | 18576639 | ID=Msa0761360;Name=Msa0761360 |
| chr5_2 | mRNA | 18576639 | 18577236 | 18576639 | ID=Msa0761360-mRNA-1;Parent=Msa0761360;Name=Msa0761360-mRNA-1;_AED=0.42;_eAED=0.42;_QI=64|1|0.5|1|1|1|2|0|46 |
| chr5_2 | exon | 18576639 | 18576742 | 18576639 | ID=Msa0761360-mRNA-1:exon:8045;Parent=Msa0761360-mRNA-1 |
| chr5_2 | exon | 18577136 | 18577236 | 18577136 | ID=Msa0761360-mRNA-1:exon:8046;Parent=Msa0761360-mRNA-1 |
| chr5_2 | five_prime_UTR | 18576639 | 18576702 | 18576639 | ID=Msa0761360-mRNA-1:five_prime_utr;Parent=Msa0761360-mRNA-1 |
| chr5_2 | CDS | 18576703 | 18576742 | 18576703 | ID=Msa0761360-mRNA-1:cds;Parent=Msa0761360-mRNA-1 |
| chr5_2 | CDS | 18577136 | 18577236 | 18577136 | ID=Msa0761360-mRNA-1:cds;Parent=Msa0761360-mRNA-1 |
| Gene Sequence |
| Protein sequence |
