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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0032430 | Msa1167030 | 0.810847 | 9.401227e-51 | -8.615850e-47 |
| Msa0172070 | Msa1167030 | 0.809922 | 1.489070e-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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 38 sgRNAs with CRISPR-Local
Find 53 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTGTCGATGGTTGGAGACTA+TGG | 0.340880 | 7_4:+59189747 | None:intergenic |
| ACGATCCTTCGCCAAGGACT+TGG | 0.345231 | 7_4:-59190189 | None:intergenic |
| TCTGATTCAATTAAGATTGC+CGG | 0.396241 | 7_4:-59190164 | None:intergenic |
| AGTCAAGGGGAAGCCGTCAC+AGG | 0.427476 | 7_4:+59189856 | Msa1167030:CDS |
| AACCATACAACCTCCGTGTT+GGG | 0.430539 | 7_4:-59190103 | None:intergenic |
| TTTGACCACAAACTCCCTTC+CGG | 0.440542 | 7_4:+59190145 | Msa1167030:CDS |
| GGCCCAACACGGAGGTTGTA+TGG | 0.458701 | 7_4:+59190101 | Msa1167030:CDS |
| GATTGCCGGAAGGGAGTTTG+TGG | 0.478525 | 7_4:-59190150 | None:intergenic |
| CGATCCTTCGCCAAGGACTT+GGG | 0.483787 | 7_4:-59190188 | None:intergenic |
| TTCAATTAAGATTGCCGGAA+GGG | 0.491931 | 7_4:-59190159 | None:intergenic |
| TCGCAAGGAAGAGGAGTCAA+GGG | 0.507290 | 7_4:+59189842 | Msa1167030:CDS |
| GAAACAGAGTCGCAAGGAAG+AGG | 0.507373 | 7_4:+59189833 | Msa1167030:CDS |
| TGAATCAGAGCCCAAGTCCT+TGG | 0.509144 | 7_4:+59190178 | Msa1167030:CDS |
| ACCCTCTCCCTGTCGATGGT+TGG | 0.509952 | 7_4:+59189738 | None:intergenic |
| GCATAATCTCCTCCCTGTGA+CGG | 0.514038 | 7_4:-59189869 | None:intergenic |
| GTCAAGGGGAAGCCGTCACA+GGG | 0.514264 | 7_4:+59189857 | Msa1167030:CDS |
| TAGGAGAGTTCAGCAATCAA+AGG | 0.528676 | 7_4:+59189937 | Msa1167030:CDS |
| GTCGCAAGGAAGAGGAGTCA+AGG | 0.535488 | 7_4:+59189841 | Msa1167030:CDS |
| TGTAATCAGGATCAAGTGTT+GGG | 0.541181 | 7_4:-59190224 | None:intergenic |
| AGGATCAAGTGTTGGGTCGT+AGG | 0.553329 | 7_4:-59190217 | None:intergenic |
| AGGAGAGTTCAGCAATCAAA+GGG | 0.562230 | 7_4:+59189938 | Msa1167030:CDS |
| AAAGAAGAAACAGAGTCGCA+AGG | 0.562953 | 7_4:+59189827 | Msa1167030:CDS |
| ATGTAATCAGGATCAAGTGT+TGG | 0.563282 | 7_4:-59190225 | None:intergenic |
| GAACCATACAACCTCCGTGT+TGG | 0.573700 | 7_4:-59190104 | None:intergenic |
| TGTGGTGTAATGTCTTCAAG+TGG | 0.576081 | 7_4:-59189773 | None:intergenic |
| CTTTGACAAGCTTAACTGTG+TGG | 0.580005 | 7_4:-59189800 | None:intergenic |
| GAGTTCAGCAATCAAAGGGA+GGG | 0.606287 | 7_4:+59189942 | Msa1167030:CDS |
| AGAGCCCAAGTCCTTGGCGA+AGG | 0.613619 | 7_4:+59190184 | Msa1167030:CDS |
| GTGGTGTAATGTCTTCAAGT+GGG | 0.620068 | 7_4:-59189772 | None:intergenic |
| GCTTAACTGTGTGGTCTCTG+TGG | 0.620297 | 7_4:-59189791 | None:intergenic |
| AGAGTTCAGCAATCAAAGGG+AGG | 0.635178 | 7_4:+59189941 | Msa1167030:CDS |
| TTCAATACAGTGGCCCAACA+CGG | 0.641331 | 7_4:+59190090 | Msa1167030:intron |
| GGAGGAGATTATGCAAACGA+AGG | 0.645921 | 7_4:+59189878 | Msa1167030:CDS |
| CGCAAGGAAGAGGAGTCAAG+GGG | 0.648815 | 7_4:+59189843 | Msa1167030:CDS |
| ATTCAATTAAGATTGCCGGA+AGG | 0.654485 | 7_4:-59190160 | None:intergenic |
| GATCTTACGATCCTTCGCCA+AGG | 0.681792 | 7_4:-59190195 | None:intergenic |
| AAGGGGAAGCCGTCACAGGG+AGG | 0.706018 | 7_4:+59189860 | Msa1167030:CDS |
| AATACAGTGGCCCAACACGG+AGG | 0.767440 | 7_4:+59190093 | Msa1167030:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TATGCAAACGAAGGAAAAAT+CGG | + | chr7_4:59189887-59189906 | Msa1167030:CDS | 30.0% | |
| TCTGATTCAATTAAGATTGC+CGG | - | chr7_4:59190167-59190186 | None:intergenic | 30.0% | |
| GCGTTGTATCACACAAAAAT+CGG | + | chr7_4:59189909-59189928 | Msa1167030:CDS | 35.0% | |
| AGGGAGATAAAAAGATGCAA+GGG | + | chr7_4:59189961-59189980 | Msa1167030:CDS | 35.0% | |
| !! | CAAGGGTTTCTTTTGTTTGT+GGG | + | chr7_4:59189978-59189997 | Msa1167030:CDS | 35.0% |
| TTCAATTAAGATTGCCGGAA+GGG | - | chr7_4:59190162-59190181 | None:intergenic | 35.0% | |
| ATTCAATTAAGATTGCCGGA+AGG | - | chr7_4:59190163-59190182 | None:intergenic | 35.0% | |
| GTGGTGTAATGTCTTCAAGT+GGG | - | chr7_4:59189775-59189794 | None:intergenic | 40.0% | |
| TGTGGTGTAATGTCTTCAAG+TGG | - | chr7_4:59189776-59189795 | None:intergenic | 40.0% | |
| CTTTGACAAGCTTAACTGTG+TGG | - | chr7_4:59189803-59189822 | None:intergenic | 40.0% | |
| AAAGAAGAAACAGAGTCGCA+AGG | + | chr7_4:59189827-59189846 | Msa1167030:CDS | 40.0% | |
| !! | CACACAAAAATCGGTGTTGT+AGG | + | chr7_4:59189918-59189937 | Msa1167030:CDS | 40.0% |
| TAGGAGAGTTCAGCAATCAA+AGG | + | chr7_4:59189937-59189956 | Msa1167030:CDS | 40.0% | |
| AGGAGAGTTCAGCAATCAAA+GGG | + | chr7_4:59189938-59189957 | Msa1167030:CDS | 40.0% | |
| GAGGGAGATAAAAAGATGCA+AGG | + | chr7_4:59189960-59189979 | Msa1167030:CDS | 40.0% | |
| !! | GCAAGGGTTTCTTTTGTTTG+TGG | + | chr7_4:59189977-59189996 | Msa1167030:CDS | 40.0% |
| !!! | CCTTGGGTTGGATTTCTTTT+GGG | - | chr7_4:59190058-59190077 | None:intergenic | 40.0% |
| !!! | TCCTTGGGTTGGATTTCTTT+TGG | - | chr7_4:59190059-59190078 | None:intergenic | 40.0% |
| GGAGGAGATTATGCAAACGA+AGG | + | chr7_4:59189878-59189897 | Msa1167030:CDS | 45.0% | |
| AGAGTTCAGCAATCAAAGGG+AGG | + | chr7_4:59189941-59189960 | Msa1167030:CDS | 45.0% | |
| GAGTTCAGCAATCAAAGGGA+GGG | + | chr7_4:59189942-59189961 | Msa1167030:CDS | 45.0% | |
| !! | TTGTTTGTGGGTACTGAGTG+AGG | + | chr7_4:59189990-59190009 | Msa1167030:intron | 45.0% |
| CCCAAAAGAAATCCAACCCA+AGG | + | chr7_4:59190055-59190074 | Msa1167030:intron | 45.0% | |
| AAATCCAACCCAAGGATGAG+AGG | + | chr7_4:59190063-59190082 | Msa1167030:intron | 45.0% | |
| TGAATGAGCCTCTCATCCTT+GGG | - | chr7_4:59190074-59190093 | None:intergenic | 45.0% | |
| TTGAATGAGCCTCTCATCCT+TGG | - | chr7_4:59190075-59190094 | None:intergenic | 45.0% | |
| GAGAGGCTCATTCAATACAG+TGG | + | chr7_4:59190080-59190099 | Msa1167030:intron | 45.0% | |
| TTCAATACAGTGGCCCAACA+CGG | + | chr7_4:59190090-59190109 | Msa1167030:intron | 45.0% | |
| AACCATACAACCTCCGTGTT+GGG | - | chr7_4:59190106-59190125 | None:intergenic | 45.0% | |
| TTTGACCACAAACTCCCTTC+CGG | + | chr7_4:59190145-59190164 | Msa1167030:CDS | 45.0% | |
| GCTTAACTGTGTGGTCTCTG+TGG | - | chr7_4:59189794-59189813 | None:intergenic | 50.0% | |
| GAAACAGAGTCGCAAGGAAG+AGG | + | chr7_4:59189833-59189852 | Msa1167030:CDS | 50.0% | |
| TCGCAAGGAAGAGGAGTCAA+GGG | + | chr7_4:59189842-59189861 | Msa1167030:CDS | 50.0% | |
| GCATAATCTCCTCCCTGTGA+CGG | - | chr7_4:59189872-59189891 | None:intergenic | 50.0% | |
| !! | TTTGTGGGTACTGAGTGAGG+AGG | + | chr7_4:59189993-59190012 | Msa1167030:intron | 50.0% |
| !! | TTGTGGGTACTGAGTGAGGA+GGG | + | chr7_4:59189994-59190013 | Msa1167030:intron | 50.0% |
| GAACCATACAACCTCCGTGT+TGG | - | chr7_4:59190107-59190126 | None:intergenic | 50.0% | |
| TGAATCAGAGCCCAAGTCCT+TGG | + | chr7_4:59190178-59190197 | Msa1167030:CDS | 50.0% | |
| GATCTTACGATCCTTCGCCA+AGG | - | chr7_4:59190198-59190217 | None:intergenic | 50.0% | |
| GTCGCAAGGAAGAGGAGTCA+AGG | + | chr7_4:59189841-59189860 | Msa1167030:CDS | 55.0% | |
| CGCAAGGAAGAGGAGTCAAG+GGG | + | chr7_4:59189843-59189862 | Msa1167030:CDS | 55.0% | |
| GAGTGAGGAGGGAGGTCAAA+TGG | + | chr7_4:59190005-59190024 | Msa1167030:intron | 55.0% | |
| TGAGCCTCTCATCCTTGGGT+TGG | - | chr7_4:59190070-59190089 | None:intergenic | 55.0% | |
| AATACAGTGGCCCAACACGG+AGG | + | chr7_4:59190093-59190112 | Msa1167030:intron | 55.0% | |
| GATTGCCGGAAGGGAGTTTG+TGG | - | chr7_4:59190153-59190172 | None:intergenic | 55.0% | |
| CGATCCTTCGCCAAGGACTT+GGG | - | chr7_4:59190191-59190210 | None:intergenic | 55.0% | |
| ACGATCCTTCGCCAAGGACT+TGG | - | chr7_4:59190192-59190211 | None:intergenic | 55.0% | |
| AGTCAAGGGGAAGCCGTCAC+AGG | + | chr7_4:59189856-59189875 | Msa1167030:CDS | 60.0% | |
| GTCAAGGGGAAGCCGTCACA+GGG | + | chr7_4:59189857-59189876 | Msa1167030:CDS | 60.0% | |
| !! | TGGGTACTGAGTGAGGAGGG+AGG | + | chr7_4:59189997-59190016 | Msa1167030:intron | 60.0% |
| GGCCCAACACGGAGGTTGTA+TGG | + | chr7_4:59190101-59190120 | Msa1167030:CDS | 60.0% | |
| AGAGCCCAAGTCCTTGGCGA+AGG | + | chr7_4:59190184-59190203 | Msa1167030:CDS | 60.0% | |
| AAGGGGAAGCCGTCACAGGG+AGG | + | chr7_4:59189860-59189879 | Msa1167030:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 59189753 | 59190235 | 59189753 | ID=Msa1167030;Name=Msa1167030 |
| chr7_4 | mRNA | 59189753 | 59190235 | 59189753 | ID=Msa1167030-mRNA-1;Parent=Msa1167030;Name=Msa1167030-mRNA-1;_AED=0.56;_eAED=1.00;_QI=0|0|0|1|1|1|2|0|129 |
| chr7_4 | exon | 59189753 | 59190006 | 59189753 | ID=Msa1167030-mRNA-1:exon:18415;Parent=Msa1167030-mRNA-1 |
| chr7_4 | exon | 59190100 | 59190235 | 59190100 | ID=Msa1167030-mRNA-1:exon:18416;Parent=Msa1167030-mRNA-1 |
| chr7_4 | CDS | 59189753 | 59190006 | 59189753 | ID=Msa1167030-mRNA-1:cds;Parent=Msa1167030-mRNA-1 |
| chr7_4 | CDS | 59190100 | 59190235 | 59190100 | ID=Msa1167030-mRNA-1:cds;Parent=Msa1167030-mRNA-1 |
| Gene Sequence |
| Protein sequence |
