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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0657990 | AET04474.1 | 85.714 | 161 | 18 | 1 | 1 | 161 | 1 | 156 | 1.12e-88 | 266 |
| 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 |
|---|---|---|
| Msa0657990 | TF | C2C2-GATA |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 30 sgRNAs with CRISPR-Local
Find 124 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTATACCTTCAAATGAAAT+TGG | 0.206576 | 4_3:-68031770 | Msa0657990:CDS |
| CATAAAACTGGCTTGTCTTT+TGG | 0.254968 | 4_3:+68032783 | None:intergenic |
| CTTTGAGGTTTCCCCAGTTT+TGG | 0.256311 | 4_3:+68032739 | None:intergenic |
| TGGCGCCATGCTGGAGTTGC+TGG | 0.314815 | 4_3:+68032810 | None:intergenic |
| ATCCTCAAACAACGTCTCTT+TGG | 0.317203 | 4_3:+68031917 | None:intergenic |
| GATGTTTCTGATTCAGATAA+TGG | 0.318368 | 4_3:-68032624 | Msa0657990:intron |
| CTGTTAGTAACAAGTTCTTT+TGG | 0.373720 | 4_3:+68032693 | None:intergenic |
| TTTGGTCCCTGGCGCCATGC+TGG | 0.374123 | 4_3:+68032801 | None:intergenic |
| CTCCAAAGAGACGTTGTTTG+AGG | 0.374170 | 4_3:-68031919 | Msa0657990:CDS |
| GAAAACAACGTTTGAGAGAA+TGG | 0.387976 | 4_3:+68032715 | None:intergenic |
| CCTTCAAATGAAATTGGCCT+TGG | 0.396727 | 4_3:-68031764 | Msa0657990:CDS |
| GTGGACTAAGATACCAAAAC+TGG | 0.405891 | 4_3:-68032752 | Msa0657990:CDS |
| CCACATGCATTGCATAAAAC+TGG | 0.410323 | 4_3:+68032771 | None:intergenic |
| CCAAGGCCAATTTCATTTGA+AGG | 0.421742 | 4_3:+68031764 | None:intergenic |
| AGCAACTCCAGCATGGCGCC+AGG | 0.436034 | 4_3:-68032808 | Msa0657990:CDS |
| TCCCTTCTACATAGAAGAAC+CGG | 0.461538 | 4_3:+68031721 | None:intergenic |
| GTTTGAGAGAATGGTCTTTG+AGG | 0.475222 | 4_3:+68032724 | None:intergenic |
| TCTTCTGAGGATGACTCATC+TGG | 0.485391 | 4_3:+68031821 | None:intergenic |
| ATCTGAATCAGAAACATCAA+TGG | 0.539843 | 4_3:+68032629 | None:intergenic |
| GCAGTTCTTCTTAAACCAGC+CGG | 0.561335 | 4_3:-68031740 | Msa0657990:CDS |
| GAACAATAAGGCCTCTTCTG+AGG | 0.569819 | 4_3:+68031808 | None:intergenic |
| GCAACTCCAGCATGGCGCCA+GGG | 0.585142 | 4_3:-68032807 | Msa0657990:CDS |
| AGATGAGTCATCCTCAGAAG+AGG | 0.600054 | 4_3:-68031819 | Msa0657990:CDS |
| AAAGAACTTGTTACTAACAG+TGG | 0.608058 | 4_3:-68032690 | Msa0657990:CDS |
| TTCTACATAGAAGAACCGGC+TGG | 0.612139 | 4_3:+68031725 | None:intergenic |
| CAATCAGAAGATGACACCGA+TGG | 0.614691 | 4_3:-68031891 | Msa0657990:CDS |
| TGGACTAAGATACCAAAACT+GGG | 0.618651 | 4_3:-68032751 | Msa0657990:CDS |
| GTTTAAGAAGAACTGCTCCA+AGG | 0.642127 | 4_3:+68031747 | None:intergenic |
| CATCACCAGCAACTCCAGCA+TGG | 0.651498 | 4_3:-68032815 | Msa0657990:CDS |
| GGACTAAGATACCAAAACTG+GGG | 0.731002 | 4_3:-68032750 | Msa0657990:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAAAAAATTCTAATTTTTCT+TGG | - | chr4_3:68032341-68032360 | Msa0657990:intron | 10.0% |
| !!! | AAAAAATTCTAATTTTTCTT+GGG | - | chr4_3:68032342-68032361 | Msa0657990:intron | 10.0% |
| !!! | CAAAAATTAACTTTAAAATA+AGG | - | chr4_3:68032420-68032439 | Msa0657990:intron | 10.0% |
| !!! | TTATTAACAGTTTAAAATAA+GGG | + | chr4_3:68032554-68032573 | None:intergenic | 10.0% |
| !!! | TTTATTAACAGTTTAAAATA+AGG | + | chr4_3:68032555-68032574 | None:intergenic | 10.0% |
| !!! | AAAAAAATTCTAATTTTTCT+TGG | - | chr4_3:68032341-68032360 | Msa0657990:intron | 10.0% |
| !!! | AAAAAATTCTAATTTTTCTT+GGG | - | chr4_3:68032342-68032361 | Msa0657990:intron | 10.0% |
| !!! | CAAAAATTAACTTTAAAATA+AGG | - | chr4_3:68032420-68032439 | Msa0657990:intron | 10.0% |
| !!! | TTATTAACAGTTTAAAATAA+GGG | + | chr4_3:68032554-68032573 | None:intergenic | 10.0% |
| !!! | TTTATTAACAGTTTAAAATA+AGG | + | chr4_3:68032555-68032574 | None:intergenic | 10.0% |
| !! | TATAAATGAGTTTACTTTAA+AGG | + | chr4_3:68032168-68032187 | None:intergenic | 15.0% |
| !!! | ATGAATTTTCATATTTTTGA+CGG | - | chr4_3:68032287-68032306 | Msa0657990:intron | 15.0% |
| !!! | TAGTGATTGAAAATTTTATA+GGG | - | chr4_3:68032451-68032470 | Msa0657990:intron | 15.0% |
| !!! | GAAAAGTTGATATATTTATA+GGG | - | chr4_3:68032511-68032530 | Msa0657990:intron | 15.0% |
| !! | TATAAATGAGTTTACTTTAA+AGG | + | chr4_3:68032168-68032187 | None:intergenic | 15.0% |
| !!! | ATGAATTTTCATATTTTTGA+CGG | - | chr4_3:68032287-68032306 | Msa0657990:intron | 15.0% |
| !!! | TAGTGATTGAAAATTTTATA+GGG | - | chr4_3:68032451-68032470 | Msa0657990:intron | 15.0% |
| !!! | GAAAAGTTGATATATTTATA+GGG | - | chr4_3:68032511-68032530 | Msa0657990:intron | 15.0% |
| !!! | TATACTACTTTAATTTTGTG+AGG | - | chr4_3:68031999-68032018 | Msa0657990:intron | 20.0% |
| !!! | ATACTACTTTAATTTTGTGA+GGG | - | chr4_3:68032000-68032019 | Msa0657990:intron | 20.0% |
| !!! | TGCGTGAATATTTATTTTAA+GGG | - | chr4_3:68032029-68032048 | Msa0657990:intron | 20.0% |
| !!! | TAAGGGTTAAAATATGTTTT+TGG | - | chr4_3:68032046-68032065 | Msa0657990:intron | 20.0% |
| !!! | TGAAGATGAAATTTTTTTGA+TGG | + | chr4_3:68032133-68032152 | None:intergenic | 20.0% |
| !!! | AAAAATTTCATCTTCACTTT+TGG | - | chr4_3:68032137-68032156 | Msa0657990:intron | 20.0% |
| !!! | AAATTTTCAATCACTACTTT+TGG | + | chr4_3:68032447-68032466 | None:intergenic | 20.0% |
| !!! | GTAGTGATTGAAAATTTTAT+AGG | - | chr4_3:68032450-68032469 | Msa0657990:intron | 20.0% |
| !!! | CGAAAAGTTGATATATTTAT+AGG | - | chr4_3:68032510-68032529 | Msa0657990:intron | 20.0% |
| !!! | ATAAGGGTTAAATATGTTTT+TGG | + | chr4_3:68032538-68032557 | None:intergenic | 20.0% |
| !! | TTTATACCTTCAAATGAAAT+TGG | - | chr4_3:68032779-68032798 | Msa0657990:CDS | 20.0% |
| !!! | TATACTACTTTAATTTTGTG+AGG | - | chr4_3:68031999-68032018 | Msa0657990:intron | 20.0% |
| !!! | ATACTACTTTAATTTTGTGA+GGG | - | chr4_3:68032000-68032019 | Msa0657990:intron | 20.0% |
| !!! | TGCGTGAATATTTATTTTAA+GGG | - | chr4_3:68032029-68032048 | Msa0657990:intron | 20.0% |
| !!! | TAAGGGTTAAAATATGTTTT+TGG | - | chr4_3:68032046-68032065 | Msa0657990:intron | 20.0% |
| !!! | TGAAGATGAAATTTTTTTGA+TGG | + | chr4_3:68032133-68032152 | None:intergenic | 20.0% |
| !!! | AAAAATTTCATCTTCACTTT+TGG | - | chr4_3:68032137-68032156 | Msa0657990:intron | 20.0% |
| !!! | AAATTTTCAATCACTACTTT+TGG | + | chr4_3:68032447-68032466 | None:intergenic | 20.0% |
| !!! | GTAGTGATTGAAAATTTTAT+AGG | - | chr4_3:68032450-68032469 | Msa0657990:intron | 20.0% |
| !!! | CGAAAAGTTGATATATTTAT+AGG | - | chr4_3:68032510-68032529 | Msa0657990:intron | 20.0% |
| !!! | ATAAGGGTTAAATATGTTTT+TGG | + | chr4_3:68032538-68032557 | None:intergenic | 20.0% |
| !! | TTTATACCTTCAAATGAAAT+TGG | - | chr4_3:68032779-68032798 | Msa0657990:CDS | 20.0% |
| ! | TGTAAAGAAAAGAGTGAAAA+TGG | + | chr4_3:68031973-68031992 | None:intergenic | 25.0% |
| !!! | GTGCGTGAATATTTATTTTA+AGG | - | chr4_3:68032028-68032047 | Msa0657990:intron | 25.0% |
| !!! | AGTTGAAGAAATTTTTTCGA+GGG | + | chr4_3:68032104-68032123 | None:intergenic | 25.0% |
| !!! | AAGTTGAAGAAATTTTTTCG+AGG | + | chr4_3:68032105-68032124 | None:intergenic | 25.0% |
| !! | AATGAGTTTACTTTAAAGGA+GGG | + | chr4_3:68032164-68032183 | None:intergenic | 25.0% |
| !! | AAATGAGTTTACTTTAAAGG+AGG | + | chr4_3:68032165-68032184 | None:intergenic | 25.0% |
| !! | AAGTTGAAGGAAAATTTTAG+AGG | - | chr4_3:68032479-68032498 | Msa0657990:intron | 25.0% |
| !! | AGTTGAAGGAAAATTTTAGA+GGG | - | chr4_3:68032480-68032499 | Msa0657990:intron | 25.0% |
| !! | GTTCACATTTTTGAACAATA+AGG | + | chr4_3:68032756-68032775 | None:intergenic | 25.0% |
| ! | TGTAAAGAAAAGAGTGAAAA+TGG | + | chr4_3:68031973-68031992 | None:intergenic | 25.0% |
| !!! | GTGCGTGAATATTTATTTTA+AGG | - | chr4_3:68032028-68032047 | Msa0657990:intron | 25.0% |
| !!! | AGTTGAAGAAATTTTTTCGA+GGG | + | chr4_3:68032104-68032123 | None:intergenic | 25.0% |
| !!! | AAGTTGAAGAAATTTTTTCG+AGG | + | chr4_3:68032105-68032124 | None:intergenic | 25.0% |
| !! | AATGAGTTTACTTTAAAGGA+GGG | + | chr4_3:68032164-68032183 | None:intergenic | 25.0% |
| !! | AAATGAGTTTACTTTAAAGG+AGG | + | chr4_3:68032165-68032184 | None:intergenic | 25.0% |
| !! | AAGTTGAAGGAAAATTTTAG+AGG | - | chr4_3:68032479-68032498 | Msa0657990:intron | 25.0% |
| !! | AGTTGAAGGAAAATTTTAGA+GGG | - | chr4_3:68032480-68032499 | Msa0657990:intron | 25.0% |
| !! | GTTCACATTTTTGAACAATA+AGG | + | chr4_3:68032756-68032775 | None:intergenic | 25.0% |
| ! | CTGTTAGTAACAAGTTCTTT+TGG | + | chr4_3:68031859-68031878 | None:intergenic | 30.0% |
| !! | AAAGAACTTGTTACTAACAG+TGG | - | chr4_3:68031859-68031878 | Msa0657990:CDS | 30.0% |
| ATCTGAATCAGAAACATCAA+TGG | + | chr4_3:68031923-68031942 | None:intergenic | 30.0% | |
| ! | GATGTTTCTGATTCAGATAA+TGG | - | chr4_3:68031925-68031944 | Msa0657990:CDS | 30.0% |
| !! | TACTTTAATTTTGTGAGGGT+GGG | - | chr4_3:68032004-68032023 | Msa0657990:intron | 30.0% |
| TTATAGGGACTAAAAGTTGA+AGG | - | chr4_3:68032466-68032485 | Msa0657990:intron | 30.0% | |
| ! | TCTTGTTGAAACTTTTCCAT+CGG | + | chr4_3:68032677-68032696 | None:intergenic | 30.0% |
| ! | CTGTTAGTAACAAGTTCTTT+TGG | + | chr4_3:68031859-68031878 | None:intergenic | 30.0% |
| !! | AAAGAACTTGTTACTAACAG+TGG | - | chr4_3:68031859-68031878 | Msa0657990:CDS | 30.0% |
| ATCTGAATCAGAAACATCAA+TGG | + | chr4_3:68031923-68031942 | None:intergenic | 30.0% | |
| ! | GATGTTTCTGATTCAGATAA+TGG | - | chr4_3:68031925-68031944 | Msa0657990:CDS | 30.0% |
| !! | TACTTTAATTTTGTGAGGGT+GGG | - | chr4_3:68032004-68032023 | Msa0657990:intron | 30.0% |
| TTATAGGGACTAAAAGTTGA+AGG | - | chr4_3:68032466-68032485 | Msa0657990:intron | 30.0% | |
| ! | TCTTGTTGAAACTTTTCCAT+CGG | + | chr4_3:68032677-68032696 | None:intergenic | 30.0% |
| !!! | CATAAAACTGGCTTGTCTTT+TGG | + | chr4_3:68031769-68031788 | None:intergenic | 35.0% |
| TGGACTAAGATACCAAAACT+GGG | - | chr4_3:68031798-68031817 | Msa0657990:CDS | 35.0% | |
| GAAAACAACGTTTGAGAGAA+TGG | + | chr4_3:68031837-68031856 | None:intergenic | 35.0% | |
| !! | CTACTTTAATTTTGTGAGGG+TGG | - | chr4_3:68032003-68032022 | Msa0657990:intron | 35.0% |
| !!! | CATAAAACTGGCTTGTCTTT+TGG | + | chr4_3:68031769-68031788 | None:intergenic | 35.0% |
| TGGACTAAGATACCAAAACT+GGG | - | chr4_3:68031798-68031817 | Msa0657990:CDS | 35.0% | |
| GAAAACAACGTTTGAGAGAA+TGG | + | chr4_3:68031837-68031856 | None:intergenic | 35.0% | |
| !! | CTACTTTAATTTTGTGAGGG+TGG | - | chr4_3:68032003-68032022 | Msa0657990:intron | 35.0% |
| CCACATGCATTGCATAAAAC+TGG | + | chr4_3:68031781-68031800 | None:intergenic | 40.0% | |
| !! | CCAGTTTTATGCAATGCATG+TGG | - | chr4_3:68031778-68031797 | Msa0657990:CDS | 40.0% |
| ! | GTGGACTAAGATACCAAAAC+TGG | - | chr4_3:68031797-68031816 | Msa0657990:CDS | 40.0% |
| GGACTAAGATACCAAAACTG+GGG | - | chr4_3:68031799-68031818 | Msa0657990:CDS | 40.0% | |
| GTTTGAGAGAATGGTCTTTG+AGG | + | chr4_3:68031828-68031847 | None:intergenic | 40.0% | |
| ATCCTCAAACAACGTCTCTT+TGG | + | chr4_3:68032635-68032654 | None:intergenic | 40.0% | |
| CCAAGGCCAATTTCATTTGA+AGG | + | chr4_3:68032788-68032807 | None:intergenic | 40.0% | |
| ! | CCTTCAAATGAAATTGGCCT+TGG | - | chr4_3:68032785-68032804 | Msa0657990:CDS | 40.0% |
| GTTTAAGAAGAACTGCTCCA+AGG | + | chr4_3:68032805-68032824 | None:intergenic | 40.0% | |
| CCACATGCATTGCATAAAAC+TGG | + | chr4_3:68031781-68031800 | None:intergenic | 40.0% | |
| !! | CCAGTTTTATGCAATGCATG+TGG | - | chr4_3:68031778-68031797 | Msa0657990:CDS | 40.0% |
| ! | GTGGACTAAGATACCAAAAC+TGG | - | chr4_3:68031797-68031816 | Msa0657990:CDS | 40.0% |
| GGACTAAGATACCAAAACTG+GGG | - | chr4_3:68031799-68031818 | Msa0657990:CDS | 40.0% | |
| GTTTGAGAGAATGGTCTTTG+AGG | + | chr4_3:68031828-68031847 | None:intergenic | 40.0% | |
| ATCCTCAAACAACGTCTCTT+TGG | + | chr4_3:68032635-68032654 | None:intergenic | 40.0% | |
| CCAAGGCCAATTTCATTTGA+AGG | + | chr4_3:68032788-68032807 | None:intergenic | 40.0% | |
| ! | CCTTCAAATGAAATTGGCCT+TGG | - | chr4_3:68032785-68032804 | Msa0657990:CDS | 40.0% |
| GTTTAAGAAGAACTGCTCCA+AGG | + | chr4_3:68032805-68032824 | None:intergenic | 40.0% | |
| !!! | CTTTGAGGTTTCCCCAGTTT+TGG | + | chr4_3:68031813-68031832 | None:intergenic | 45.0% |
| CTCCAAAGAGACGTTGTTTG+AGG | - | chr4_3:68032630-68032649 | Msa0657990:CDS | 45.0% | |
| CAATCAGAAGATGACACCGA+TGG | - | chr4_3:68032658-68032677 | Msa0657990:CDS | 45.0% | |
| ! | TCTTCTGAGGATGACTCATC+TGG | + | chr4_3:68032731-68032750 | None:intergenic | 45.0% |
| AGATGAGTCATCCTCAGAAG+AGG | - | chr4_3:68032730-68032749 | Msa0657990:CDS | 45.0% | |
| GAACAATAAGGCCTCTTCTG+AGG | + | chr4_3:68032744-68032763 | None:intergenic | 45.0% | |
| GCAGTTCTTCTTAAACCAGC+CGG | - | chr4_3:68032809-68032828 | Msa0657990:CDS | 45.0% | |
| !!! | CTTTGAGGTTTCCCCAGTTT+TGG | + | chr4_3:68031813-68031832 | None:intergenic | 45.0% |
| CTCCAAAGAGACGTTGTTTG+AGG | - | chr4_3:68032630-68032649 | Msa0657990:CDS | 45.0% | |
| CAATCAGAAGATGACACCGA+TGG | - | chr4_3:68032658-68032677 | Msa0657990:CDS | 45.0% | |
| ! | TCTTCTGAGGATGACTCATC+TGG | + | chr4_3:68032731-68032750 | None:intergenic | 45.0% |
| AGATGAGTCATCCTCAGAAG+AGG | - | chr4_3:68032730-68032749 | Msa0657990:CDS | 45.0% | |
| GAACAATAAGGCCTCTTCTG+AGG | + | chr4_3:68032744-68032763 | None:intergenic | 45.0% | |
| GCAGTTCTTCTTAAACCAGC+CGG | - | chr4_3:68032809-68032828 | Msa0657990:CDS | 45.0% | |
| CATCACCAGCAACTCCAGCA+TGG | - | chr4_3:68031734-68031753 | Msa0657990:CDS | 55.0% | |
| !! | CTGGCTTGTCTTTTGGTCCC+TGG | + | chr4_3:68031762-68031781 | None:intergenic | 55.0% |
| CATCACCAGCAACTCCAGCA+TGG | - | chr4_3:68031734-68031753 | Msa0657990:CDS | 55.0% | |
| !! | CTGGCTTGTCTTTTGGTCCC+TGG | + | chr4_3:68031762-68031781 | None:intergenic | 55.0% |
| TGGCGCCATGCTGGAGTTGC+TGG | + | chr4_3:68031742-68031761 | None:intergenic | 65.0% | |
| AGCAACTCCAGCATGGCGCC+AGG | - | chr4_3:68031741-68031760 | Msa0657990:CDS | 65.0% | |
| GCAACTCCAGCATGGCGCCA+GGG | - | chr4_3:68031742-68031761 | Msa0657990:CDS | 65.0% | |
| TTTGGTCCCTGGCGCCATGC+TGG | + | chr4_3:68031751-68031770 | None:intergenic | 65.0% | |
| TGGCGCCATGCTGGAGTTGC+TGG | + | chr4_3:68031742-68031761 | None:intergenic | 65.0% | |
| AGCAACTCCAGCATGGCGCC+AGG | - | chr4_3:68031741-68031760 | Msa0657990:CDS | 65.0% | |
| GCAACTCCAGCATGGCGCCA+GGG | - | chr4_3:68031742-68031761 | Msa0657990:CDS | 65.0% | |
| TTTGGTCCCTGGCGCCATGC+TGG | + | chr4_3:68031751-68031770 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 68031727 | 68032844 | 68031727 | ID=Msa0657990;Name=Msa0657990 |
| chr4_3 | mRNA | 68031727 | 68032844 | 68031727 | ID=Msa0657990-mRNA-1;Parent=Msa0657990;Name=Msa0657990-mRNA-1;_AED=0.03;_eAED=0.03;_QI=0|0|0|1|1|1|2|0|161 |
| chr4_3 | exon | 68032625 | 68032844 | 68032625 | ID=Msa0657990-mRNA-1:exon:19653;Parent=Msa0657990-mRNA-1 |
| chr4_3 | exon | 68031727 | 68031992 | 68031727 | ID=Msa0657990-mRNA-1:exon:19652;Parent=Msa0657990-mRNA-1 |
| chr4_3 | CDS | 68032625 | 68032844 | 68032625 | ID=Msa0657990-mRNA-1:cds;Parent=Msa0657990-mRNA-1 |
| chr4_3 | CDS | 68031727 | 68031992 | 68031727 | ID=Msa0657990-mRNA-1:cds;Parent=Msa0657990-mRNA-1 |
| Gene Sequence |
| Protein sequence |
