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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0332690 | XP_003596348.1 | 92.537 | 134 | 10 | 0 | 1 | 134 | 1 | 134 | 7.13e-84 | 251 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0332690 | sp|P09444|LEA34_GOSHI | 52.066 | 121 | 50 | 1 | 1 | 113 | 1 | 121 | 2.49e-37 | 130 |
| 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 |
|---|---|---|---|---|
| Msa0332680 | Msa0332690 | 0.854582 | 1.118497e-61 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0332690 | MtrunA17_Chr2g0315661 | 92.537 | 134 | 10 | 0 | 1 | 134 | 1 | 134 | 6.56e-88 | 251 |
| Msa0332690 | MtrunA17_Chr2g0315671 | 92.500 | 120 | 9 | 0 | 1 | 120 | 71 | 190 | 1.90e-75 | 225 |
| Msa0332690 | MtrunA17_Chr1g0185421 | 57.983 | 119 | 44 | 1 | 1 | 113 | 1 | 119 | 2.58e-42 | 140 |
| Msa0332690 | MtrunA17_Chr1g0205331 | 58.261 | 115 | 46 | 1 | 1 | 113 | 32 | 146 | 5.25e-40 | 135 |
| Msa0332690 | MtrunA17_Chr1g0191151 | 54.651 | 86 | 38 | 1 | 1 | 86 | 1 | 85 | 3.22e-17 | 74.7 |
| Msa0332690 | MtrunA17_Chr3g0090511 | 40.833 | 120 | 64 | 2 | 1 | 113 | 68 | 187 | 1.34e-16 | 74.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0332690 | AT3G22490.1 | 52.632 | 114 | 52 | 2 | 1 | 113 | 1 | 113 | 2.25e-32 | 115 |
| Msa0332690 | AT3G22500.1 | 51.327 | 113 | 53 | 2 | 1 | 113 | 1 | 111 | 6.98e-31 | 111 |
Find 38 sgRNAs with CRISPR-Local
Find 102 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGCCCTTAGTCCTGCATGCT+TGG | 0.437117 | 2_4:+49834132 | None:intergenic |
| GAAGATGCAGATGGGGCAAA+AGG | 0.439447 | 2_4:-49834172 | Msa0332690:CDS |
| AGCAGCATCTCTTGGTGCAA+TGG | 0.441783 | 2_4:+49834792 | None:intergenic |
| ACTTTACTGGAACAGGTCCT+AGG | 0.444251 | 2_4:-49834205 | Msa0332690:intron |
| ATTCCAAGCATGCAGGACTA+AGG | 0.447708 | 2_4:-49834135 | Msa0332690:CDS |
| CACAGAGACCCTTGGTGGAC+AGG | 0.448992 | 2_4:-49834584 | Msa0332690:intron |
| GCAGCATCTCTTGGTGCAAT+GGG | 0.454564 | 2_4:+49834793 | None:intergenic |
| TTGGGCAAGACTCGAAAAGA+TGG | 0.469197 | 2_4:-49834742 | Msa0332690:CDS |
| GGTTCTTGTTCAGGTCTTCG+TGG | 0.489769 | 2_4:+49834865 | None:intergenic |
| GGTGATGTGTTCAACGTGTC+TGG | 0.490822 | 2_4:-49834832 | Msa0332690:CDS |
| TCAGCAGAAGATAGAACATT+GGG | 0.491735 | 2_4:-49834760 | Msa0332690:CDS |
| GCAGAAGTCATGAGAGAAGC+AGG | 0.498952 | 2_4:+49834718 | None:intergenic |
| GAACAAGAACCAATAAAATA+CGG | 0.518081 | 2_4:-49834853 | Msa0332690:CDS |
| ACAAACATAGCAAGAAATGA+AGG | 0.527677 | 2_4:-49834649 | Msa0332690:CDS |
| GCTGTTTCAGAAACTTATGA+TGG | 0.529568 | 2_4:-49834622 | Msa0332690:CDS |
| AGATGGGGCAAAAGGGACTA+AGG | 0.533106 | 2_4:-49834164 | Msa0332690:CDS |
| CTTTACTGGAACAGGTCCTA+GGG | 0.535331 | 2_4:-49834204 | Msa0332690:intron |
| TGCATGGTAGCAGCATCTCT+TGG | 0.537234 | 2_4:+49834784 | None:intergenic |
| TCTATCTTCTGCTGATTGCA+TGG | 0.538770 | 2_4:+49834768 | None:intergenic |
| CATCTTCCACAAACTTCCCT+AGG | 0.539115 | 2_4:+49834188 | None:intergenic |
| TTCCAAGCATGCAGGACTAA+GGG | 0.548118 | 2_4:-49834134 | Msa0332690:CDS |
| AAGTTTGTGGAAGATGCAGA+TGG | 0.549192 | 2_4:-49834181 | Msa0332690:CDS |
| ACAGGTCCTAGGGAAGTTTG+TGG | 0.552402 | 2_4:-49834194 | Msa0332690:intron |
| GATGCAAATTCCAAGCATGC+AGG | 0.566171 | 2_4:-49834142 | Msa0332690:CDS |
| AGTTTGTGGAAGATGCAGAT+GGG | 0.577238 | 2_4:-49834180 | Msa0332690:CDS |
| ATCAGCAGAAGATAGAACAT+TGG | 0.579754 | 2_4:-49834761 | Msa0332690:CDS |
| GCTCAAAAGAATGAGGATGC+TGG | 0.580799 | 2_4:-49834694 | Msa0332690:CDS |
| AAGATGCAGATGGGGCAAAA+GGG | 0.582367 | 2_4:-49834171 | Msa0332690:CDS |
| CGTGTTATCACAGAGACCCT+TGG | 0.591922 | 2_4:-49834592 | Msa0332690:CDS |
| GATGTGTTCAACGTGTCTGG+TGG | 0.593181 | 2_4:-49834829 | Msa0332690:CDS |
| GTTATCACAGAGACCCTTGG+TGG | 0.601482 | 2_4:-49834589 | Msa0332690:CDS |
| TTCTGCGGCTCAAAAGAATG+AGG | 0.605224 | 2_4:-49834701 | Msa0332690:CDS |
| TGGGCAAGACTCGAAAAGAT+GGG | 0.614301 | 2_4:-49834741 | Msa0332690:CDS |
| ATGTGTTCAACGTGTCTGGT+GGG | 0.622631 | 2_4:-49834828 | Msa0332690:CDS |
| GTTTCAGAAACTTATGATGG+AGG | 0.624840 | 2_4:-49834619 | Msa0332690:CDS |
| AAAATTTGCCTGTCCACCAA+GGG | 0.625323 | 2_4:+49834576 | None:intergenic |
| TGCTTCTCTCATGACTTCTG+CGG | 0.637151 | 2_4:-49834716 | Msa0332690:CDS |
| GTTTGTGGAAGATGCAGATG+GGG | 0.639719 | 2_4:-49834179 | Msa0332690:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTGAAATAACAAATTAAT+TGG | + | chr2_4:49834729-49834748 | None:intergenic | 10.0% |
| !!! | ATTTGAAATAACAAATTAAT+TGG | + | chr2_4:49834729-49834748 | None:intergenic | 10.0% |
| !! | TATATATATTCAATCAATCA+AGG | + | chr2_4:49834679-49834698 | None:intergenic | 15.0% |
| !! | TATATATATTCAATCAATCA+AGG | + | chr2_4:49834679-49834698 | None:intergenic | 15.0% |
| !!! | TATTTTATTGGTTCTTGTTC+AGG | + | chr2_4:49834153-49834172 | None:intergenic | 25.0% |
| ! | GAACAAGAACCAATAAAATA+CGG | - | chr2_4:49834153-49834172 | Msa0332690:CDS | 25.0% |
| !!! | TAATTTTGGTCACATTAATC+TGG | - | chr2_4:49834527-49834546 | Msa0332690:intron | 25.0% |
| ! | AATGCTTGTGTATAAGTATT+AGG | + | chr2_4:49834588-49834607 | None:intergenic | 25.0% |
| ! | TTGCATGTATTATACTTTAC+TGG | - | chr2_4:49834788-49834807 | Msa0332690:CDS | 25.0% |
| !!! | TATTTTATTGGTTCTTGTTC+AGG | + | chr2_4:49834153-49834172 | None:intergenic | 25.0% |
| ! | GAACAAGAACCAATAAAATA+CGG | - | chr2_4:49834153-49834172 | Msa0332690:CDS | 25.0% |
| !!! | TAATTTTGGTCACATTAATC+TGG | - | chr2_4:49834527-49834546 | Msa0332690:intron | 25.0% |
| ! | AATGCTTGTGTATAAGTATT+AGG | + | chr2_4:49834588-49834607 | None:intergenic | 25.0% |
| ! | TTGCATGTATTATACTTTAC+TGG | - | chr2_4:49834788-49834807 | Msa0332690:CDS | 25.0% |
| ! | AACACATCACCGTATTTTAT+TGG | + | chr2_4:49834165-49834184 | None:intergenic | 30.0% |
| ACAAACATAGCAAGAAATGA+AGG | - | chr2_4:49834357-49834376 | Msa0332690:intron | 30.0% | |
| GTATAAGTATTAGGTGAAAC+TGG | + | chr2_4:49834579-49834598 | None:intergenic | 30.0% | |
| GTATTATACTTTACTGGAAC+AGG | - | chr2_4:49834794-49834813 | Msa0332690:CDS | 30.0% | |
| ! | AACACATCACCGTATTTTAT+TGG | + | chr2_4:49834165-49834184 | None:intergenic | 30.0% |
| ACAAACATAGCAAGAAATGA+AGG | - | chr2_4:49834357-49834376 | Msa0332690:intron | 30.0% | |
| GTATAAGTATTAGGTGAAAC+TGG | + | chr2_4:49834579-49834598 | None:intergenic | 30.0% | |
| GTATTATACTTTACTGGAAC+AGG | - | chr2_4:49834794-49834813 | Msa0332690:CDS | 30.0% | |
| ATCAGCAGAAGATAGAACAT+TGG | - | chr2_4:49834245-49834264 | Msa0332690:intron | 35.0% | |
| TCAGCAGAAGATAGAACATT+GGG | - | chr2_4:49834246-49834265 | Msa0332690:intron | 35.0% | |
| ! | GCTGTTTCAGAAACTTATGA+TGG | - | chr2_4:49834384-49834403 | Msa0332690:intron | 35.0% |
| GTTTCAGAAACTTATGATGG+AGG | - | chr2_4:49834387-49834406 | Msa0332690:intron | 35.0% | |
| ! | GAAGCTGAGATTCGTAATTT+TGG | - | chr2_4:49834513-49834532 | Msa0332690:intron | 35.0% |
| ATCAGCAGAAGATAGAACAT+TGG | - | chr2_4:49834245-49834264 | Msa0332690:intron | 35.0% | |
| TCAGCAGAAGATAGAACATT+GGG | - | chr2_4:49834246-49834265 | Msa0332690:intron | 35.0% | |
| ! | GCTGTTTCAGAAACTTATGA+TGG | - | chr2_4:49834384-49834403 | Msa0332690:intron | 35.0% |
| GTTTCAGAAACTTATGATGG+AGG | - | chr2_4:49834387-49834406 | Msa0332690:intron | 35.0% | |
| ! | GAAGCTGAGATTCGTAATTT+TGG | - | chr2_4:49834513-49834532 | Msa0332690:intron | 35.0% |
| ! | TCTATCTTCTGCTGATTGCA+TGG | + | chr2_4:49834241-49834260 | None:intergenic | 40.0% |
| AAAATTTGCCTGTCCACCAA+GGG | + | chr2_4:49834433-49834452 | None:intergenic | 40.0% | |
| AAAAATTTGCCTGTCCACCA+AGG | + | chr2_4:49834434-49834453 | None:intergenic | 40.0% | |
| CTAGCTATTCTTGCATGTCT+AGG | + | chr2_4:49834705-49834724 | None:intergenic | 40.0% | |
| CTAGACATGCAAGAATAGCT+AGG | - | chr2_4:49834703-49834722 | Msa0332690:CDS | 40.0% | |
| AAGTTTGTGGAAGATGCAGA+TGG | - | chr2_4:49834825-49834844 | Msa0332690:CDS | 40.0% | |
| AGTTTGTGGAAGATGCAGAT+GGG | - | chr2_4:49834826-49834845 | Msa0332690:CDS | 40.0% | |
| ! | TCTATCTTCTGCTGATTGCA+TGG | + | chr2_4:49834241-49834260 | None:intergenic | 40.0% |
| AAAATTTGCCTGTCCACCAA+GGG | + | chr2_4:49834433-49834452 | None:intergenic | 40.0% | |
| AAAAATTTGCCTGTCCACCA+AGG | + | chr2_4:49834434-49834453 | None:intergenic | 40.0% | |
| CTAGCTATTCTTGCATGTCT+AGG | + | chr2_4:49834705-49834724 | None:intergenic | 40.0% | |
| CTAGACATGCAAGAATAGCT+AGG | - | chr2_4:49834703-49834722 | Msa0332690:CDS | 40.0% | |
| AAGTTTGTGGAAGATGCAGA+TGG | - | chr2_4:49834825-49834844 | Msa0332690:CDS | 40.0% | |
| AGTTTGTGGAAGATGCAGAT+GGG | - | chr2_4:49834826-49834845 | Msa0332690:CDS | 40.0% | |
| ATGTGTTCAACGTGTCTGGT+GGG | - | chr2_4:49834178-49834197 | Msa0332690:CDS | 45.0% | |
| TTGGGCAAGACTCGAAAAGA+TGG | - | chr2_4:49834264-49834283 | Msa0332690:intron | 45.0% | |
| TGGGCAAGACTCGAAAAGAT+GGG | - | chr2_4:49834265-49834284 | Msa0332690:intron | 45.0% | |
| TGCTTCTCTCATGACTTCTG+CGG | - | chr2_4:49834290-49834309 | Msa0332690:intron | 45.0% | |
| TTCTGCGGCTCAAAAGAATG+AGG | - | chr2_4:49834305-49834324 | Msa0332690:intron | 45.0% | |
| GCTCAAAAGAATGAGGATGC+TGG | - | chr2_4:49834312-49834331 | Msa0332690:intron | 45.0% | |
| ACTTTACTGGAACAGGTCCT+AGG | - | chr2_4:49834801-49834820 | Msa0332690:CDS | 45.0% | |
| CTTTACTGGAACAGGTCCTA+GGG | - | chr2_4:49834802-49834821 | Msa0332690:CDS | 45.0% | |
| CATCTTCCACAAACTTCCCT+AGG | + | chr2_4:49834821-49834840 | None:intergenic | 45.0% | |
| GTTTGTGGAAGATGCAGATG+GGG | - | chr2_4:49834827-49834846 | Msa0332690:CDS | 45.0% | |
| AAGATGCAGATGGGGCAAAA+GGG | - | chr2_4:49834835-49834854 | Msa0332690:CDS | 45.0% | |
| GATGCAAATTCCAAGCATGC+AGG | - | chr2_4:49834864-49834883 | Msa0332690:CDS | 45.0% | |
| ATTCCAAGCATGCAGGACTA+AGG | - | chr2_4:49834871-49834890 | Msa0332690:CDS | 45.0% | |
| TTCCAAGCATGCAGGACTAA+GGG | - | chr2_4:49834872-49834891 | Msa0332690:CDS | 45.0% | |
| ATGTGTTCAACGTGTCTGGT+GGG | - | chr2_4:49834178-49834197 | Msa0332690:CDS | 45.0% | |
| TTGGGCAAGACTCGAAAAGA+TGG | - | chr2_4:49834264-49834283 | Msa0332690:intron | 45.0% | |
| TGGGCAAGACTCGAAAAGAT+GGG | - | chr2_4:49834265-49834284 | Msa0332690:intron | 45.0% | |
| TGCTTCTCTCATGACTTCTG+CGG | - | chr2_4:49834290-49834309 | Msa0332690:intron | 45.0% | |
| TTCTGCGGCTCAAAAGAATG+AGG | - | chr2_4:49834305-49834324 | Msa0332690:intron | 45.0% | |
| GCTCAAAAGAATGAGGATGC+TGG | - | chr2_4:49834312-49834331 | Msa0332690:intron | 45.0% | |
| ACTTTACTGGAACAGGTCCT+AGG | - | chr2_4:49834801-49834820 | Msa0332690:CDS | 45.0% | |
| CTTTACTGGAACAGGTCCTA+GGG | - | chr2_4:49834802-49834821 | Msa0332690:CDS | 45.0% | |
| CATCTTCCACAAACTTCCCT+AGG | + | chr2_4:49834821-49834840 | None:intergenic | 45.0% | |
| GTTTGTGGAAGATGCAGATG+GGG | - | chr2_4:49834827-49834846 | Msa0332690:CDS | 45.0% | |
| AAGATGCAGATGGGGCAAAA+GGG | - | chr2_4:49834835-49834854 | Msa0332690:CDS | 45.0% | |
| GATGCAAATTCCAAGCATGC+AGG | - | chr2_4:49834864-49834883 | Msa0332690:CDS | 45.0% | |
| ATTCCAAGCATGCAGGACTA+AGG | - | chr2_4:49834871-49834890 | Msa0332690:CDS | 45.0% | |
| TTCCAAGCATGCAGGACTAA+GGG | - | chr2_4:49834872-49834891 | Msa0332690:CDS | 45.0% | |
| GGTTCTTGTTCAGGTCTTCG+TGG | + | chr2_4:49834144-49834163 | None:intergenic | 50.0% | |
| GGTGATGTGTTCAACGTGTC+TGG | - | chr2_4:49834174-49834193 | Msa0332690:CDS | 50.0% | |
| GATGTGTTCAACGTGTCTGG+TGG | - | chr2_4:49834177-49834196 | Msa0332690:CDS | 50.0% | |
| ! | GCAGCATCTCTTGGTGCAAT+GGG | + | chr2_4:49834216-49834235 | None:intergenic | 50.0% |
| ! | AGCAGCATCTCTTGGTGCAA+TGG | + | chr2_4:49834217-49834236 | None:intergenic | 50.0% |
| TGCATGGTAGCAGCATCTCT+TGG | + | chr2_4:49834225-49834244 | None:intergenic | 50.0% | |
| GCAGAAGTCATGAGAGAAGC+AGG | + | chr2_4:49834291-49834310 | None:intergenic | 50.0% | |
| CGTGTTATCACAGAGACCCT+TGG | - | chr2_4:49834414-49834433 | Msa0332690:intron | 50.0% | |
| GTTATCACAGAGACCCTTGG+TGG | - | chr2_4:49834417-49834436 | Msa0332690:intron | 50.0% | |
| ACAGGTCCTAGGGAAGTTTG+TGG | - | chr2_4:49834812-49834831 | Msa0332690:CDS | 50.0% | |
| GAAGATGCAGATGGGGCAAA+AGG | - | chr2_4:49834834-49834853 | Msa0332690:CDS | 50.0% | |
| AGATGGGGCAAAAGGGACTA+AGG | - | chr2_4:49834842-49834861 | Msa0332690:CDS | 50.0% | |
| GGTTCTTGTTCAGGTCTTCG+TGG | + | chr2_4:49834144-49834163 | None:intergenic | 50.0% | |
| GGTGATGTGTTCAACGTGTC+TGG | - | chr2_4:49834174-49834193 | Msa0332690:CDS | 50.0% | |
| GATGTGTTCAACGTGTCTGG+TGG | - | chr2_4:49834177-49834196 | Msa0332690:CDS | 50.0% | |
| ! | GCAGCATCTCTTGGTGCAAT+GGG | + | chr2_4:49834216-49834235 | None:intergenic | 50.0% |
| ! | AGCAGCATCTCTTGGTGCAA+TGG | + | chr2_4:49834217-49834236 | None:intergenic | 50.0% |
| TGCATGGTAGCAGCATCTCT+TGG | + | chr2_4:49834225-49834244 | None:intergenic | 50.0% | |
| GCAGAAGTCATGAGAGAAGC+AGG | + | chr2_4:49834291-49834310 | None:intergenic | 50.0% | |
| CGTGTTATCACAGAGACCCT+TGG | - | chr2_4:49834414-49834433 | Msa0332690:intron | 50.0% | |
| GTTATCACAGAGACCCTTGG+TGG | - | chr2_4:49834417-49834436 | Msa0332690:intron | 50.0% | |
| ACAGGTCCTAGGGAAGTTTG+TGG | - | chr2_4:49834812-49834831 | Msa0332690:CDS | 50.0% | |
| GAAGATGCAGATGGGGCAAA+AGG | - | chr2_4:49834834-49834853 | Msa0332690:CDS | 50.0% | |
| AGATGGGGCAAAAGGGACTA+AGG | - | chr2_4:49834842-49834861 | Msa0332690:CDS | 50.0% | |
| AGCCCTTAGTCCTGCATGCT+TGG | + | chr2_4:49834877-49834896 | None:intergenic | 55.0% | |
| AGCCCTTAGTCCTGCATGCT+TGG | + | chr2_4:49834877-49834896 | None:intergenic | 55.0% | |
| ! | CACAGAGACCCTTGGTGGAC+AGG | - | chr2_4:49834422-49834441 | Msa0332690:intron | 60.0% |
| ! | CACAGAGACCCTTGGTGGAC+AGG | - | chr2_4:49834422-49834441 | Msa0332690:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 49834126 | 49834902 | 49834126 | ID=Msa0332690;Name=Msa0332690 |
| chr2_4 | mRNA | 49834126 | 49834902 | 49834126 | ID=Msa0332690-mRNA-1;Parent=Msa0332690;Name=Msa0332690-mRNA-1;_AED=0.15;_eAED=0.15;_QI=0|0|0|1|1|1|2|0|134 |
| chr2_4 | exon | 49834585 | 49834902 | 49834585 | ID=Msa0332690-mRNA-1:exon:14934;Parent=Msa0332690-mRNA-1 |
| chr2_4 | exon | 49834126 | 49834212 | 49834126 | ID=Msa0332690-mRNA-1:exon:14933;Parent=Msa0332690-mRNA-1 |
| chr2_4 | CDS | 49834585 | 49834902 | 49834585 | ID=Msa0332690-mRNA-1:cds;Parent=Msa0332690-mRNA-1 |
| chr2_4 | CDS | 49834126 | 49834212 | 49834126 | ID=Msa0332690-mRNA-1:cds;Parent=Msa0332690-mRNA-1 |
| Gene Sequence |
| Protein sequence |
