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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0618390 | AET04474.1 | 84.472 | 161 | 20 | 1 | 1 | 161 | 1 | 156 | 5.19e-87 | 261 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0618390 | G7L9K0 | 84.472 | 161 | 20 | 1 | 1 | 161 | 1 | 156 | 2.48e-87 | 261 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0618390 | 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 29 sgRNAs with CRISPR-Local
Find 124 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTATACCTTCAAATGAAAT+TGG | 0.206576 | 4_2:-69349887 | Msa0618390:CDS |
| CATAAAACTGGCTTGTCTTT+TGG | 0.254968 | 4_2:+69350899 | None:intergenic |
| CTTTGAGGTTTCCCCAGTTT+TGG | 0.256311 | 4_2:+69350855 | None:intergenic |
| TGGCGCCATGCTGGAGTTGC+TGG | 0.314815 | 4_2:+69350926 | None:intergenic |
| CTGTTAGTAACAAGTTCTTT+TGG | 0.373720 | 4_2:+69350809 | None:intergenic |
| TTTGGTCCCTGGCGCCATGC+TGG | 0.374123 | 4_2:+69350917 | None:intergenic |
| CTTCAAAGAGACGTTGTTTG+AGG | 0.386258 | 4_2:-69350036 | Msa0618390:CDS |
| GAAAACAACGTTTGAGAGAA+TGG | 0.387976 | 4_2:+69350831 | None:intergenic |
| CCTTCAAATGAAATTGGCCT+TGG | 0.396727 | 4_2:-69349881 | Msa0618390:CDS |
| GTGGACTAAGATACCAAAAC+TGG | 0.405891 | 4_2:-69350868 | Msa0618390:CDS |
| CCACATGCATTGCATAAAAC+TGG | 0.410323 | 4_2:+69350887 | None:intergenic |
| GATGTTTCTGAGTCAGATAA+TGG | 0.419661 | 4_2:-69350740 | Msa0618390:intron |
| CCAAGGCCAATTTCATTTGA+AGG | 0.421742 | 4_2:+69349881 | None:intergenic |
| AGCAACTCCAGCATGGCGCC+AGG | 0.436034 | 4_2:-69350924 | Msa0618390:CDS |
| TCCCTTCTACATAGAAGAAC+CGG | 0.461538 | 4_2:+69349838 | None:intergenic |
| GTTTGAGAGAATGGTCTTTG+AGG | 0.475222 | 4_2:+69350840 | None:intergenic |
| TCTTCTGAGGATGACTCATC+TGG | 0.485391 | 4_2:+69349938 | None:intergenic |
| GCAGTTCTTCTTAAACCAGC+CGG | 0.561335 | 4_2:-69349857 | Msa0618390:CDS |
| ATCTGACTCAGAAACATCAA+TGG | 0.565831 | 4_2:+69350745 | None:intergenic |
| GAACAATAAGGCCTCTTCTG+AGG | 0.569819 | 4_2:+69349925 | None:intergenic |
| GCAACTCCAGCATGGCGCCA+GGG | 0.585142 | 4_2:-69350923 | Msa0618390:CDS |
| AGATGAGTCATCCTCAGAAG+AGG | 0.600054 | 4_2:-69349936 | Msa0618390:CDS |
| AAAGAACTTGTTACTAACAG+TGG | 0.608058 | 4_2:-69350806 | Msa0618390:CDS |
| TTCTACATAGAAGAACCGGC+TGG | 0.612139 | 4_2:+69349842 | None:intergenic |
| CAATCAGAAGATGACACCGA+TGG | 0.614691 | 4_2:-69350008 | Msa0618390:CDS |
| TGGACTAAGATACCAAAACT+GGG | 0.618651 | 4_2:-69350867 | Msa0618390:CDS |
| GTTTAAGAAGAACTGCTCCA+AGG | 0.642127 | 4_2:+69349864 | None:intergenic |
| CATCACCAGCAACTCCAGCA+TGG | 0.651498 | 4_2:-69350931 | Msa0618390:CDS |
| GGACTAAGATACCAAAACTG+GGG | 0.731002 | 4_2:-69350866 | Msa0618390:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CAAAAATTAACTTTAAAATA+AGG | - | chr4_2:69350536-69350555 | Msa0618390:intron | 10.0% |
| !!! | TTATTAACAGTTTAAAATAA+GGG | + | chr4_2:69350670-69350689 | None:intergenic | 10.0% |
| !!! | TTTATTAACAGTTTAAAATA+AGG | + | chr4_2:69350671-69350690 | None:intergenic | 10.0% |
| !!! | CAAAAATTAACTTTAAAATA+AGG | - | chr4_2:69350536-69350555 | Msa0618390:intron | 10.0% |
| !!! | TTATTAACAGTTTAAAATAA+GGG | + | chr4_2:69350670-69350689 | None:intergenic | 10.0% |
| !!! | TTTATTAACAGTTTAAAATA+AGG | + | chr4_2:69350671-69350690 | None:intergenic | 10.0% |
| !! | TATAAATGAGTTTACTTTAA+GGG | + | chr4_2:69350284-69350303 | None:intergenic | 15.0% |
| !! | TTATAAATGAGTTTACTTTA+AGG | + | chr4_2:69350285-69350304 | None:intergenic | 15.0% |
| !!! | ATGAATTTTCATATTTTTGA+CGG | - | chr4_2:69350403-69350422 | Msa0618390:intron | 15.0% |
| !!! | TAGTGATTGAAAATTTTATA+GGG | - | chr4_2:69350567-69350586 | Msa0618390:intron | 15.0% |
| !!! | GAAAAGTTGATATATTTATA+GGG | - | chr4_2:69350627-69350646 | Msa0618390:intron | 15.0% |
| !!! | ATAAGGGTTAAATATTTTTT+TGG | + | chr4_2:69350654-69350673 | None:intergenic | 15.0% |
| !! | TATAAATGAGTTTACTTTAA+GGG | + | chr4_2:69350284-69350303 | None:intergenic | 15.0% |
| !! | TTATAAATGAGTTTACTTTA+AGG | + | chr4_2:69350285-69350304 | None:intergenic | 15.0% |
| !!! | ATGAATTTTCATATTTTTGA+CGG | - | chr4_2:69350403-69350422 | Msa0618390:intron | 15.0% |
| !!! | TAGTGATTGAAAATTTTATA+GGG | - | chr4_2:69350567-69350586 | Msa0618390:intron | 15.0% |
| !!! | GAAAAGTTGATATATTTATA+GGG | - | chr4_2:69350627-69350646 | Msa0618390:intron | 15.0% |
| !!! | ATAAGGGTTAAATATTTTTT+TGG | + | chr4_2:69350654-69350673 | None:intergenic | 15.0% |
| !!! | TATACTACTTTAATTTTGTG+AGG | - | chr4_2:69350116-69350135 | Msa0618390:intron | 20.0% |
| !!! | ATACTACTTTAATTTTGTGA+GGG | - | chr4_2:69350117-69350136 | Msa0618390:intron | 20.0% |
| !!! | TGCGTGAATATTTATTTTAA+GGG | - | chr4_2:69350146-69350165 | Msa0618390:intron | 20.0% |
| !!! | TTAAGGGTTAAATATGTTTT+TGG | - | chr4_2:69350162-69350181 | Msa0618390:intron | 20.0% |
| !!! | TGAAGATGAAAATTTTTTGA+TGG | + | chr4_2:69350249-69350268 | None:intergenic | 20.0% |
| !!! | AAAATTTTCATCTTCACTTT+TGG | - | chr4_2:69350253-69350272 | Msa0618390:intron | 20.0% |
| !!! | AAATTTTCAATCACTACTTT+TGG | + | chr4_2:69350563-69350582 | None:intergenic | 20.0% |
| !!! | GTAGTGATTGAAAATTTTAT+AGG | - | chr4_2:69350566-69350585 | Msa0618390:intron | 20.0% |
| !!! | CGAAAAGTTGATATATTTAT+AGG | - | chr4_2:69350626-69350645 | Msa0618390:intron | 20.0% |
| !! | TTTATACCTTCAAATGAAAT+TGG | - | chr4_2:69350895-69350914 | Msa0618390:CDS | 20.0% |
| !!! | TATACTACTTTAATTTTGTG+AGG | - | chr4_2:69350116-69350135 | Msa0618390:intron | 20.0% |
| !!! | ATACTACTTTAATTTTGTGA+GGG | - | chr4_2:69350117-69350136 | Msa0618390:intron | 20.0% |
| !!! | TGCGTGAATATTTATTTTAA+GGG | - | chr4_2:69350146-69350165 | Msa0618390:intron | 20.0% |
| !!! | TTAAGGGTTAAATATGTTTT+TGG | - | chr4_2:69350162-69350181 | Msa0618390:intron | 20.0% |
| !!! | TGAAGATGAAAATTTTTTGA+TGG | + | chr4_2:69350249-69350268 | None:intergenic | 20.0% |
| !!! | AAAATTTTCATCTTCACTTT+TGG | - | chr4_2:69350253-69350272 | Msa0618390:intron | 20.0% |
| !!! | AAATTTTCAATCACTACTTT+TGG | + | chr4_2:69350563-69350582 | None:intergenic | 20.0% |
| !!! | GTAGTGATTGAAAATTTTAT+AGG | - | chr4_2:69350566-69350585 | Msa0618390:intron | 20.0% |
| !!! | CGAAAAGTTGATATATTTAT+AGG | - | chr4_2:69350626-69350645 | Msa0618390:intron | 20.0% |
| !! | TTTATACCTTCAAATGAAAT+TGG | - | chr4_2:69350895-69350914 | Msa0618390:CDS | 20.0% |
| ! | TGTAAAGAAAAGAGTGAAAA+TGG | + | chr4_2:69350090-69350109 | None:intergenic | 25.0% |
| !!! | GTGCGTGAATATTTATTTTA+AGG | - | chr4_2:69350145-69350164 | Msa0618390:intron | 25.0% |
| !!! | AGTTGAAGAAATTTTTTCGA+GGG | + | chr4_2:69350220-69350239 | None:intergenic | 25.0% |
| !!! | AAGTTGAAGAAATTTTTTCG+AGG | + | chr4_2:69350221-69350240 | None:intergenic | 25.0% |
| !! | AAGTTGAAGGAAAATTTTAG+AGG | - | chr4_2:69350595-69350614 | Msa0618390:intron | 25.0% |
| !! | AGTTGAAGGAAAATTTTAGA+GGG | - | chr4_2:69350596-69350615 | Msa0618390:intron | 25.0% |
| !! | GTTCACATTTTTGAACAATA+AGG | + | chr4_2:69350872-69350891 | None:intergenic | 25.0% |
| ! | TGTAAAGAAAAGAGTGAAAA+TGG | + | chr4_2:69350090-69350109 | None:intergenic | 25.0% |
| !!! | GTGCGTGAATATTTATTTTA+AGG | - | chr4_2:69350145-69350164 | Msa0618390:intron | 25.0% |
| !!! | AGTTGAAGAAATTTTTTCGA+GGG | + | chr4_2:69350220-69350239 | None:intergenic | 25.0% |
| !!! | AAGTTGAAGAAATTTTTTCG+AGG | + | chr4_2:69350221-69350240 | None:intergenic | 25.0% |
| !! | AAGTTGAAGGAAAATTTTAG+AGG | - | chr4_2:69350595-69350614 | Msa0618390:intron | 25.0% |
| !! | AGTTGAAGGAAAATTTTAGA+GGG | - | chr4_2:69350596-69350615 | Msa0618390:intron | 25.0% |
| !! | GTTCACATTTTTGAACAATA+AGG | + | chr4_2:69350872-69350891 | None:intergenic | 25.0% |
| ! | CTGTTAGTAACAAGTTCTTT+TGG | + | chr4_2:69349976-69349995 | None:intergenic | 30.0% |
| !! | AAAGAACTTGTTACTAACAG+TGG | - | chr4_2:69349976-69349995 | Msa0618390:CDS | 30.0% |
| !! | TACTTTAATTTTGTGAGGGT+GGG | - | chr4_2:69350121-69350140 | Msa0618390:intron | 30.0% |
| ! | AATGAGTTTACTTTAAGGGA+GGG | + | chr4_2:69350280-69350299 | None:intergenic | 30.0% |
| ! | AAATGAGTTTACTTTAAGGG+AGG | + | chr4_2:69350281-69350300 | None:intergenic | 30.0% |
| TTATAGGGACTAAAAGTTGA+AGG | - | chr4_2:69350582-69350601 | Msa0618390:intron | 30.0% | |
| ! | TCTTGTTGAAACTTTTCCAT+CGG | + | chr4_2:69350793-69350812 | None:intergenic | 30.0% |
| ! | CTGTTAGTAACAAGTTCTTT+TGG | + | chr4_2:69349976-69349995 | None:intergenic | 30.0% |
| !! | AAAGAACTTGTTACTAACAG+TGG | - | chr4_2:69349976-69349995 | Msa0618390:CDS | 30.0% |
| !! | TACTTTAATTTTGTGAGGGT+GGG | - | chr4_2:69350121-69350140 | Msa0618390:intron | 30.0% |
| ! | AATGAGTTTACTTTAAGGGA+GGG | + | chr4_2:69350280-69350299 | None:intergenic | 30.0% |
| ! | AAATGAGTTTACTTTAAGGG+AGG | + | chr4_2:69350281-69350300 | None:intergenic | 30.0% |
| TTATAGGGACTAAAAGTTGA+AGG | - | chr4_2:69350582-69350601 | Msa0618390:intron | 30.0% | |
| ! | TCTTGTTGAAACTTTTCCAT+CGG | + | chr4_2:69350793-69350812 | None:intergenic | 30.0% |
| !!! | CATAAAACTGGCTTGTCTTT+TGG | + | chr4_2:69349886-69349905 | None:intergenic | 35.0% |
| TGGACTAAGATACCAAAACT+GGG | - | chr4_2:69349915-69349934 | Msa0618390:CDS | 35.0% | |
| GAAAACAACGTTTGAGAGAA+TGG | + | chr4_2:69349954-69349973 | None:intergenic | 35.0% | |
| ATCTGACTCAGAAACATCAA+TGG | + | chr4_2:69350040-69350059 | None:intergenic | 35.0% | |
| ! | GATGTTTCTGAGTCAGATAA+TGG | - | chr4_2:69350042-69350061 | Msa0618390:CDS | 35.0% |
| !! | CTACTTTAATTTTGTGAGGG+TGG | - | chr4_2:69350120-69350139 | Msa0618390:intron | 35.0% |
| !!! | CATAAAACTGGCTTGTCTTT+TGG | + | chr4_2:69349886-69349905 | None:intergenic | 35.0% |
| TGGACTAAGATACCAAAACT+GGG | - | chr4_2:69349915-69349934 | Msa0618390:CDS | 35.0% | |
| GAAAACAACGTTTGAGAGAA+TGG | + | chr4_2:69349954-69349973 | None:intergenic | 35.0% | |
| ATCTGACTCAGAAACATCAA+TGG | + | chr4_2:69350040-69350059 | None:intergenic | 35.0% | |
| ! | GATGTTTCTGAGTCAGATAA+TGG | - | chr4_2:69350042-69350061 | Msa0618390:CDS | 35.0% |
| !! | CTACTTTAATTTTGTGAGGG+TGG | - | chr4_2:69350120-69350139 | Msa0618390:intron | 35.0% |
| CCACATGCATTGCATAAAAC+TGG | + | chr4_2:69349898-69349917 | None:intergenic | 40.0% | |
| !! | CCAGTTTTATGCAATGCATG+TGG | - | chr4_2:69349895-69349914 | Msa0618390:CDS | 40.0% |
| ! | GTGGACTAAGATACCAAAAC+TGG | - | chr4_2:69349914-69349933 | Msa0618390:CDS | 40.0% |
| GGACTAAGATACCAAAACTG+GGG | - | chr4_2:69349916-69349935 | Msa0618390:CDS | 40.0% | |
| GTTTGAGAGAATGGTCTTTG+AGG | + | chr4_2:69349945-69349964 | None:intergenic | 40.0% | |
| CTTCAAAGAGACGTTGTTTG+AGG | - | chr4_2:69350746-69350765 | Msa0618390:CDS | 40.0% | |
| CCAAGGCCAATTTCATTTGA+AGG | + | chr4_2:69350904-69350923 | None:intergenic | 40.0% | |
| ! | CCTTCAAATGAAATTGGCCT+TGG | - | chr4_2:69350901-69350920 | Msa0618390:CDS | 40.0% |
| GTTTAAGAAGAACTGCTCCA+AGG | + | chr4_2:69350921-69350940 | None:intergenic | 40.0% | |
| CCACATGCATTGCATAAAAC+TGG | + | chr4_2:69349898-69349917 | None:intergenic | 40.0% | |
| !! | CCAGTTTTATGCAATGCATG+TGG | - | chr4_2:69349895-69349914 | Msa0618390:CDS | 40.0% |
| ! | GTGGACTAAGATACCAAAAC+TGG | - | chr4_2:69349914-69349933 | Msa0618390:CDS | 40.0% |
| GGACTAAGATACCAAAACTG+GGG | - | chr4_2:69349916-69349935 | Msa0618390:CDS | 40.0% | |
| GTTTGAGAGAATGGTCTTTG+AGG | + | chr4_2:69349945-69349964 | None:intergenic | 40.0% | |
| CTTCAAAGAGACGTTGTTTG+AGG | - | chr4_2:69350746-69350765 | Msa0618390:CDS | 40.0% | |
| CCAAGGCCAATTTCATTTGA+AGG | + | chr4_2:69350904-69350923 | None:intergenic | 40.0% | |
| ! | CCTTCAAATGAAATTGGCCT+TGG | - | chr4_2:69350901-69350920 | Msa0618390:CDS | 40.0% |
| GTTTAAGAAGAACTGCTCCA+AGG | + | chr4_2:69350921-69350940 | None:intergenic | 40.0% | |
| !!! | CTTTGAGGTTTCCCCAGTTT+TGG | + | chr4_2:69349930-69349949 | None:intergenic | 45.0% |
| CAATCAGAAGATGACACCGA+TGG | - | chr4_2:69350774-69350793 | Msa0618390:CDS | 45.0% | |
| ! | TCTTCTGAGGATGACTCATC+TGG | + | chr4_2:69350847-69350866 | None:intergenic | 45.0% |
| AGATGAGTCATCCTCAGAAG+AGG | - | chr4_2:69350846-69350865 | Msa0618390:CDS | 45.0% | |
| GAACAATAAGGCCTCTTCTG+AGG | + | chr4_2:69350860-69350879 | None:intergenic | 45.0% | |
| GCAGTTCTTCTTAAACCAGC+CGG | - | chr4_2:69350925-69350944 | Msa0618390:CDS | 45.0% | |
| !!! | CTTTGAGGTTTCCCCAGTTT+TGG | + | chr4_2:69349930-69349949 | None:intergenic | 45.0% |
| CAATCAGAAGATGACACCGA+TGG | - | chr4_2:69350774-69350793 | Msa0618390:CDS | 45.0% | |
| ! | TCTTCTGAGGATGACTCATC+TGG | + | chr4_2:69350847-69350866 | None:intergenic | 45.0% |
| AGATGAGTCATCCTCAGAAG+AGG | - | chr4_2:69350846-69350865 | Msa0618390:CDS | 45.0% | |
| GAACAATAAGGCCTCTTCTG+AGG | + | chr4_2:69350860-69350879 | None:intergenic | 45.0% | |
| GCAGTTCTTCTTAAACCAGC+CGG | - | chr4_2:69350925-69350944 | Msa0618390:CDS | 45.0% | |
| !!! | AAAAAAATTCTAATTTTTTT+TGG | - | chr4_2:69350457-69350476 | Msa0618390:intron | 5.0% |
| !!! | AAAAAATTCTAATTTTTTTT+GGG | - | chr4_2:69350458-69350477 | Msa0618390:intron | 5.0% |
| !!! | AAAAAAATTCTAATTTTTTT+TGG | - | chr4_2:69350457-69350476 | Msa0618390:intron | 5.0% |
| !!! | AAAAAATTCTAATTTTTTTT+GGG | - | chr4_2:69350458-69350477 | Msa0618390:intron | 5.0% |
| CATCACCAGCAACTCCAGCA+TGG | - | chr4_2:69349851-69349870 | Msa0618390:CDS | 55.0% | |
| !! | CTGGCTTGTCTTTTGGTCCC+TGG | + | chr4_2:69349879-69349898 | None:intergenic | 55.0% |
| CATCACCAGCAACTCCAGCA+TGG | - | chr4_2:69349851-69349870 | Msa0618390:CDS | 55.0% | |
| !! | CTGGCTTGTCTTTTGGTCCC+TGG | + | chr4_2:69349879-69349898 | None:intergenic | 55.0% |
| TGGCGCCATGCTGGAGTTGC+TGG | + | chr4_2:69349859-69349878 | None:intergenic | 65.0% | |
| AGCAACTCCAGCATGGCGCC+AGG | - | chr4_2:69349858-69349877 | Msa0618390:CDS | 65.0% | |
| GCAACTCCAGCATGGCGCCA+GGG | - | chr4_2:69349859-69349878 | Msa0618390:CDS | 65.0% | |
| TTTGGTCCCTGGCGCCATGC+TGG | + | chr4_2:69349868-69349887 | None:intergenic | 65.0% | |
| TGGCGCCATGCTGGAGTTGC+TGG | + | chr4_2:69349859-69349878 | None:intergenic | 65.0% | |
| AGCAACTCCAGCATGGCGCC+AGG | - | chr4_2:69349858-69349877 | Msa0618390:CDS | 65.0% | |
| GCAACTCCAGCATGGCGCCA+GGG | - | chr4_2:69349859-69349878 | Msa0618390:CDS | 65.0% | |
| TTTGGTCCCTGGCGCCATGC+TGG | + | chr4_2:69349868-69349887 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 69349844 | 69350960 | 69349844 | ID=Msa0618390;Name=Msa0618390 |
| chr4_2 | mRNA | 69349844 | 69350960 | 69349844 | ID=Msa0618390-mRNA-1;Parent=Msa0618390;Name=Msa0618390-mRNA-1;_AED=0.28;_eAED=0.27;_QI=0|0|0|1|1|1|2|0|161 |
| chr4_2 | exon | 69350741 | 69350960 | 69350741 | ID=Msa0618390-mRNA-1:exon:20052;Parent=Msa0618390-mRNA-1 |
| chr4_2 | exon | 69349844 | 69350109 | 69349844 | ID=Msa0618390-mRNA-1:exon:20051;Parent=Msa0618390-mRNA-1 |
| chr4_2 | CDS | 69350741 | 69350960 | 69350741 | ID=Msa0618390-mRNA-1:cds;Parent=Msa0618390-mRNA-1 |
| chr4_2 | CDS | 69349844 | 69350109 | 69349844 | ID=Msa0618390-mRNA-1:cds;Parent=Msa0618390-mRNA-1 |
| Gene Sequence |
| Protein sequence |
