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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0702900 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0702900 | G7L9K0 | 85.714 | 161 | 18 | 1 | 1 | 161 | 1 | 156 | 5.34e-89 | 266 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0702900 | 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_4:+74748172 | Msa0702900:CDS |
| CATAAAACTGGCTTGTCTTT+TGG | 0.254968 | 4_4:-74747161 | None:intergenic |
| CTTTGAGGTTTCCCCAGTTT+TGG | 0.256311 | 4_4:-74747205 | None:intergenic |
| TGGCGCCATGCTGGAGTTGC+TGG | 0.314815 | 4_4:-74747134 | None:intergenic |
| ATCCTCAAACAACGTCTCTT+TGG | 0.317203 | 4_4:-74748025 | None:intergenic |
| GATGTTTCTGATTCAGATAA+TGG | 0.318368 | 4_4:+74747320 | Msa0702900:CDS |
| CTGTTAGTAACAAGTTCTTT+TGG | 0.373720 | 4_4:-74747251 | None:intergenic |
| TTTGGTCCCTGGCGCCATGC+TGG | 0.374123 | 4_4:-74747143 | None:intergenic |
| CTCCAAAGAGACGTTGTTTG+AGG | 0.374170 | 4_4:+74748023 | Msa0702900:CDS |
| GAAAACAACGTTTGAGAGAA+TGG | 0.387976 | 4_4:-74747229 | None:intergenic |
| CCTTCAAATGAAATTGGCCT+TGG | 0.396727 | 4_4:+74748178 | Msa0702900:CDS |
| GTGGACTAAGATACCAAAAC+TGG | 0.405891 | 4_4:+74747192 | Msa0702900:CDS |
| CCACATGCATTGCATAAAAC+TGG | 0.410323 | 4_4:-74747173 | None:intergenic |
| CCAAGGCCAATTTCATTTGA+AGG | 0.421742 | 4_4:-74748178 | None:intergenic |
| AGCAACTCCAGCATGGCGCC+AGG | 0.436034 | 4_4:+74747136 | Msa0702900:CDS |
| TCCCTTCTACATAGAAGAAC+CGG | 0.461538 | 4_4:-74748221 | None:intergenic |
| GTTTGAGAGAATGGTCTTTG+AGG | 0.475222 | 4_4:-74747220 | None:intergenic |
| TCTTCTGAGGATGACTCATC+TGG | 0.485391 | 4_4:-74748121 | None:intergenic |
| ATCTGAATCAGAAACATCAA+TGG | 0.539843 | 4_4:-74747315 | None:intergenic |
| GCAGTTCTTCTTAAACCAGC+CGG | 0.561335 | 4_4:+74748202 | Msa0702900:CDS |
| GAACAATAAGGCCTCTTCTG+AGG | 0.569819 | 4_4:-74748134 | None:intergenic |
| GCAACTCCAGCATGGCGCCA+GGG | 0.585142 | 4_4:+74747137 | Msa0702900:CDS |
| AGATGAGTCATCCTCAGAAG+AGG | 0.600054 | 4_4:+74748123 | Msa0702900:CDS |
| CAATCAAAAGATGACACCGA+TGG | 0.604219 | 4_4:+74748051 | Msa0702900:CDS |
| AAAGAACTTGTTACTAACAG+TGG | 0.608058 | 4_4:+74747254 | Msa0702900:CDS |
| TTCTACATAGAAGAACCGGC+TGG | 0.612139 | 4_4:-74748217 | None:intergenic |
| TGGACTAAGATACCAAAACT+GGG | 0.618651 | 4_4:+74747193 | Msa0702900:CDS |
| GTTTAAGAAGAACTGCTCCA+AGG | 0.642127 | 4_4:-74748195 | None:intergenic |
| CATCACCAGCAACTCCAGCA+TGG | 0.651498 | 4_4:+74747129 | Msa0702900:CDS |
| GGACTAAGATACCAAAACTG+GGG | 0.731002 | 4_4:+74747194 | Msa0702900:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CAAAAATTAACTTTAAAATA+AGG | + | chr4_4:74747813-74747832 | Msa0702900:intron | 10.0% |
| !!! | TTATTAACAGTTTAAAATAA+GGG | - | chr4_4:74747947-74747966 | None:intergenic | 10.0% |
| !!! | TTTATTAACAGTTTAAAATA+AGG | - | chr4_4:74747948-74747967 | None:intergenic | 10.0% |
| !!! | CAAAAATTAACTTTAAAATA+AGG | + | chr4_4:74747813-74747832 | Msa0702900:intron | 10.0% |
| !!! | TTATTAACAGTTTAAAATAA+GGG | - | chr4_4:74747947-74747966 | None:intergenic | 10.0% |
| !!! | TTTATTAACAGTTTAAAATA+AGG | - | chr4_4:74747948-74747967 | None:intergenic | 10.0% |
| !! | TATAAATGAGTTTACTTTAA+AGG | - | chr4_4:74747562-74747581 | None:intergenic | 15.0% |
| !!! | ATGAATTTTCATATTTTTGA+CGG | + | chr4_4:74747681-74747700 | Msa0702900:intron | 15.0% |
| !!! | TAGTGATTGAAAATTTTATA+GGG | + | chr4_4:74747844-74747863 | Msa0702900:intron | 15.0% |
| !!! | GAAAAGTTGATATATTTATA+GGG | + | chr4_4:74747904-74747923 | Msa0702900:intron | 15.0% |
| !! | TATAAATGAGTTTACTTTAA+AGG | - | chr4_4:74747562-74747581 | None:intergenic | 15.0% |
| !!! | ATGAATTTTCATATTTTTGA+CGG | + | chr4_4:74747681-74747700 | Msa0702900:intron | 15.0% |
| !!! | TAGTGATTGAAAATTTTATA+GGG | + | chr4_4:74747844-74747863 | Msa0702900:intron | 15.0% |
| !!! | GAAAAGTTGATATATTTATA+GGG | + | chr4_4:74747904-74747923 | Msa0702900:intron | 15.0% |
| !!! | TATACTACTTTAATTTTGTG+AGG | + | chr4_4:74747394-74747413 | Msa0702900:intron | 20.0% |
| !!! | ATACTACTTTAATTTTGTGA+GGG | + | chr4_4:74747395-74747414 | Msa0702900:intron | 20.0% |
| !!! | TGAAGATGAAAATTTTTTGA+TGG | - | chr4_4:74747527-74747546 | None:intergenic | 20.0% |
| !!! | AAAATTTTCATCTTCACTTT+TGG | + | chr4_4:74747531-74747550 | Msa0702900:intron | 20.0% |
| !!! | AAATTTTCAATCACTACTTT+TGG | - | chr4_4:74747840-74747859 | None:intergenic | 20.0% |
| !!! | GTAGTGATTGAAAATTTTAT+AGG | + | chr4_4:74747843-74747862 | Msa0702900:intron | 20.0% |
| !!! | CGAAAAGTTGATATATTTAT+AGG | + | chr4_4:74747903-74747922 | Msa0702900:intron | 20.0% |
| !!! | ATAAGGGTTAAATATGTTTT+TGG | - | chr4_4:74747931-74747950 | None:intergenic | 20.0% |
| !! | TTTATACCTTCAAATGAAAT+TGG | + | chr4_4:74748172-74748191 | Msa0702900:CDS | 20.0% |
| !!! | TATACTACTTTAATTTTGTG+AGG | + | chr4_4:74747394-74747413 | Msa0702900:intron | 20.0% |
| !!! | ATACTACTTTAATTTTGTGA+GGG | + | chr4_4:74747395-74747414 | Msa0702900:intron | 20.0% |
| !!! | TGAAGATGAAAATTTTTTGA+TGG | - | chr4_4:74747527-74747546 | None:intergenic | 20.0% |
| !!! | AAAATTTTCATCTTCACTTT+TGG | + | chr4_4:74747531-74747550 | Msa0702900:intron | 20.0% |
| !!! | AAATTTTCAATCACTACTTT+TGG | - | chr4_4:74747840-74747859 | None:intergenic | 20.0% |
| !!! | GTAGTGATTGAAAATTTTAT+AGG | + | chr4_4:74747843-74747862 | Msa0702900:intron | 20.0% |
| !!! | CGAAAAGTTGATATATTTAT+AGG | + | chr4_4:74747903-74747922 | Msa0702900:intron | 20.0% |
| !!! | ATAAGGGTTAAATATGTTTT+TGG | - | chr4_4:74747931-74747950 | None:intergenic | 20.0% |
| !! | TTTATACCTTCAAATGAAAT+TGG | + | chr4_4:74748172-74748191 | Msa0702900:CDS | 20.0% |
| ! | TGTAAAGAAAAGAGTGAAAA+TGG | - | chr4_4:74747368-74747387 | None:intergenic | 25.0% |
| !!! | TGTGCGTGAATATTTATTTT+AGG | + | chr4_4:74747422-74747441 | Msa0702900:intron | 25.0% |
| !!! | GTGCGTGAATATTTATTTTA+GGG | + | chr4_4:74747423-74747442 | Msa0702900:intron | 25.0% |
| !!! | TGCGTGAATATTTATTTTAG+GGG | + | chr4_4:74747424-74747443 | Msa0702900:intron | 25.0% |
| !! | TTAGGGGTTAAATATGTTTT+TGG | + | chr4_4:74747440-74747459 | Msa0702900:intron | 25.0% |
| !!! | AGTTGAAGAAATTTTTTCGA+GGG | - | chr4_4:74747498-74747517 | None:intergenic | 25.0% |
| !!! | AAGTTGAAGAAATTTTTTCG+AGG | - | chr4_4:74747499-74747518 | None:intergenic | 25.0% |
| !! | AATGAGTTTACTTTAAAGGA+GGG | - | chr4_4:74747558-74747577 | None:intergenic | 25.0% |
| !! | AAATGAGTTTACTTTAAAGG+AGG | - | chr4_4:74747559-74747578 | None:intergenic | 25.0% |
| !! | AAGTTGAAGGAAAATTTTAG+AGG | + | chr4_4:74747872-74747891 | Msa0702900:intron | 25.0% |
| !! | AGTTGAAGGAAAATTTTAGA+GGG | + | chr4_4:74747873-74747892 | Msa0702900:intron | 25.0% |
| !! | GTTCACATTTTTGAACAATA+AGG | - | chr4_4:74748149-74748168 | None:intergenic | 25.0% |
| ! | TGTAAAGAAAAGAGTGAAAA+TGG | - | chr4_4:74747368-74747387 | None:intergenic | 25.0% |
| !!! | TGTGCGTGAATATTTATTTT+AGG | + | chr4_4:74747422-74747441 | Msa0702900:intron | 25.0% |
| !!! | GTGCGTGAATATTTATTTTA+GGG | + | chr4_4:74747423-74747442 | Msa0702900:intron | 25.0% |
| !!! | TGCGTGAATATTTATTTTAG+GGG | + | chr4_4:74747424-74747443 | Msa0702900:intron | 25.0% |
| !! | TTAGGGGTTAAATATGTTTT+TGG | + | chr4_4:74747440-74747459 | Msa0702900:intron | 25.0% |
| !!! | AGTTGAAGAAATTTTTTCGA+GGG | - | chr4_4:74747498-74747517 | None:intergenic | 25.0% |
| !!! | AAGTTGAAGAAATTTTTTCG+AGG | - | chr4_4:74747499-74747518 | None:intergenic | 25.0% |
| !! | AATGAGTTTACTTTAAAGGA+GGG | - | chr4_4:74747558-74747577 | None:intergenic | 25.0% |
| !! | AAATGAGTTTACTTTAAAGG+AGG | - | chr4_4:74747559-74747578 | None:intergenic | 25.0% |
| !! | AAGTTGAAGGAAAATTTTAG+AGG | + | chr4_4:74747872-74747891 | Msa0702900:intron | 25.0% |
| !! | AGTTGAAGGAAAATTTTAGA+GGG | + | chr4_4:74747873-74747892 | Msa0702900:intron | 25.0% |
| !! | GTTCACATTTTTGAACAATA+AGG | - | chr4_4:74748149-74748168 | None:intergenic | 25.0% |
| ! | CTGTTAGTAACAAGTTCTTT+TGG | - | chr4_4:74747254-74747273 | None:intergenic | 30.0% |
| !! | AAAGAACTTGTTACTAACAG+TGG | + | chr4_4:74747254-74747273 | Msa0702900:CDS | 30.0% |
| ATCTGAATCAGAAACATCAA+TGG | - | chr4_4:74747318-74747337 | None:intergenic | 30.0% | |
| ! | GATGTTTCTGATTCAGATAA+TGG | + | chr4_4:74747320-74747339 | Msa0702900:CDS | 30.0% |
| !! | TACTTTAATTTTGTGAGGGT+GGG | + | chr4_4:74747399-74747418 | Msa0702900:intron | 30.0% |
| TTATAGGGACTAAAAGTTGA+AGG | + | chr4_4:74747859-74747878 | Msa0702900:intron | 30.0% | |
| ! | TCTTGTTGAAACTTTTCCAT+CGG | - | chr4_4:74748070-74748089 | None:intergenic | 30.0% |
| ! | CTGTTAGTAACAAGTTCTTT+TGG | - | chr4_4:74747254-74747273 | None:intergenic | 30.0% |
| !! | AAAGAACTTGTTACTAACAG+TGG | + | chr4_4:74747254-74747273 | Msa0702900:CDS | 30.0% |
| ATCTGAATCAGAAACATCAA+TGG | - | chr4_4:74747318-74747337 | None:intergenic | 30.0% | |
| ! | GATGTTTCTGATTCAGATAA+TGG | + | chr4_4:74747320-74747339 | Msa0702900:CDS | 30.0% |
| !! | TACTTTAATTTTGTGAGGGT+GGG | + | chr4_4:74747399-74747418 | Msa0702900:intron | 30.0% |
| TTATAGGGACTAAAAGTTGA+AGG | + | chr4_4:74747859-74747878 | Msa0702900:intron | 30.0% | |
| ! | TCTTGTTGAAACTTTTCCAT+CGG | - | chr4_4:74748070-74748089 | None:intergenic | 30.0% |
| !!! | CATAAAACTGGCTTGTCTTT+TGG | - | chr4_4:74747164-74747183 | None:intergenic | 35.0% |
| TGGACTAAGATACCAAAACT+GGG | + | chr4_4:74747193-74747212 | Msa0702900:CDS | 35.0% | |
| GAAAACAACGTTTGAGAGAA+TGG | - | chr4_4:74747232-74747251 | None:intergenic | 35.0% | |
| !! | CTACTTTAATTTTGTGAGGG+TGG | + | chr4_4:74747398-74747417 | Msa0702900:intron | 35.0% |
| !!! | CATAAAACTGGCTTGTCTTT+TGG | - | chr4_4:74747164-74747183 | None:intergenic | 35.0% |
| TGGACTAAGATACCAAAACT+GGG | + | chr4_4:74747193-74747212 | Msa0702900:CDS | 35.0% | |
| GAAAACAACGTTTGAGAGAA+TGG | - | chr4_4:74747232-74747251 | None:intergenic | 35.0% | |
| !! | CTACTTTAATTTTGTGAGGG+TGG | + | chr4_4:74747398-74747417 | Msa0702900:intron | 35.0% |
| CCACATGCATTGCATAAAAC+TGG | - | chr4_4:74747176-74747195 | None:intergenic | 40.0% | |
| !! | CCAGTTTTATGCAATGCATG+TGG | + | chr4_4:74747173-74747192 | Msa0702900:CDS | 40.0% |
| ! | GTGGACTAAGATACCAAAAC+TGG | + | chr4_4:74747192-74747211 | Msa0702900:CDS | 40.0% |
| GGACTAAGATACCAAAACTG+GGG | + | chr4_4:74747194-74747213 | Msa0702900:CDS | 40.0% | |
| GTTTGAGAGAATGGTCTTTG+AGG | - | chr4_4:74747223-74747242 | None:intergenic | 40.0% | |
| ATCCTCAAACAACGTCTCTT+TGG | - | chr4_4:74748028-74748047 | None:intergenic | 40.0% | |
| CAATCAAAAGATGACACCGA+TGG | + | chr4_4:74748051-74748070 | Msa0702900:CDS | 40.0% | |
| CCAAGGCCAATTTCATTTGA+AGG | - | chr4_4:74748181-74748200 | None:intergenic | 40.0% | |
| ! | CCTTCAAATGAAATTGGCCT+TGG | + | chr4_4:74748178-74748197 | Msa0702900:CDS | 40.0% |
| GTTTAAGAAGAACTGCTCCA+AGG | - | chr4_4:74748198-74748217 | None:intergenic | 40.0% | |
| CCACATGCATTGCATAAAAC+TGG | - | chr4_4:74747176-74747195 | None:intergenic | 40.0% | |
| !! | CCAGTTTTATGCAATGCATG+TGG | + | chr4_4:74747173-74747192 | Msa0702900:CDS | 40.0% |
| ! | GTGGACTAAGATACCAAAAC+TGG | + | chr4_4:74747192-74747211 | Msa0702900:CDS | 40.0% |
| GGACTAAGATACCAAAACTG+GGG | + | chr4_4:74747194-74747213 | Msa0702900:CDS | 40.0% | |
| GTTTGAGAGAATGGTCTTTG+AGG | - | chr4_4:74747223-74747242 | None:intergenic | 40.0% | |
| ATCCTCAAACAACGTCTCTT+TGG | - | chr4_4:74748028-74748047 | None:intergenic | 40.0% | |
| CAATCAAAAGATGACACCGA+TGG | + | chr4_4:74748051-74748070 | Msa0702900:CDS | 40.0% | |
| CCAAGGCCAATTTCATTTGA+AGG | - | chr4_4:74748181-74748200 | None:intergenic | 40.0% | |
| ! | CCTTCAAATGAAATTGGCCT+TGG | + | chr4_4:74748178-74748197 | Msa0702900:CDS | 40.0% |
| GTTTAAGAAGAACTGCTCCA+AGG | - | chr4_4:74748198-74748217 | None:intergenic | 40.0% | |
| !!! | CTTTGAGGTTTCCCCAGTTT+TGG | - | chr4_4:74747208-74747227 | None:intergenic | 45.0% |
| CTCCAAAGAGACGTTGTTTG+AGG | + | chr4_4:74748023-74748042 | Msa0702900:CDS | 45.0% | |
| ! | TCTTCTGAGGATGACTCATC+TGG | - | chr4_4:74748124-74748143 | None:intergenic | 45.0% |
| AGATGAGTCATCCTCAGAAG+AGG | + | chr4_4:74748123-74748142 | Msa0702900:CDS | 45.0% | |
| GAACAATAAGGCCTCTTCTG+AGG | - | chr4_4:74748137-74748156 | None:intergenic | 45.0% | |
| GCAGTTCTTCTTAAACCAGC+CGG | + | chr4_4:74748202-74748221 | Msa0702900:CDS | 45.0% | |
| !!! | CTTTGAGGTTTCCCCAGTTT+TGG | - | chr4_4:74747208-74747227 | None:intergenic | 45.0% |
| CTCCAAAGAGACGTTGTTTG+AGG | + | chr4_4:74748023-74748042 | Msa0702900:CDS | 45.0% | |
| ! | TCTTCTGAGGATGACTCATC+TGG | - | chr4_4:74748124-74748143 | None:intergenic | 45.0% |
| AGATGAGTCATCCTCAGAAG+AGG | + | chr4_4:74748123-74748142 | Msa0702900:CDS | 45.0% | |
| GAACAATAAGGCCTCTTCTG+AGG | - | chr4_4:74748137-74748156 | None:intergenic | 45.0% | |
| GCAGTTCTTCTTAAACCAGC+CGG | + | chr4_4:74748202-74748221 | Msa0702900:CDS | 45.0% | |
| !!! | AAAAAAATTCTAATTTTTTT+TGG | + | chr4_4:74747735-74747754 | Msa0702900:intron | 5.0% |
| !!! | AAAAAAATTCTAATTTTTTT+TGG | + | chr4_4:74747735-74747754 | Msa0702900:intron | 5.0% |
| CATCACCAGCAACTCCAGCA+TGG | + | chr4_4:74747129-74747148 | Msa0702900:CDS | 55.0% | |
| !! | CTGGCTTGTCTTTTGGTCCC+TGG | - | chr4_4:74747157-74747176 | None:intergenic | 55.0% |
| CATCACCAGCAACTCCAGCA+TGG | + | chr4_4:74747129-74747148 | Msa0702900:CDS | 55.0% | |
| !! | CTGGCTTGTCTTTTGGTCCC+TGG | - | chr4_4:74747157-74747176 | None:intergenic | 55.0% |
| TGGCGCCATGCTGGAGTTGC+TGG | - | chr4_4:74747137-74747156 | None:intergenic | 65.0% | |
| AGCAACTCCAGCATGGCGCC+AGG | + | chr4_4:74747136-74747155 | Msa0702900:CDS | 65.0% | |
| GCAACTCCAGCATGGCGCCA+GGG | + | chr4_4:74747137-74747156 | Msa0702900:CDS | 65.0% | |
| TTTGGTCCCTGGCGCCATGC+TGG | - | chr4_4:74747146-74747165 | None:intergenic | 65.0% | |
| TGGCGCCATGCTGGAGTTGC+TGG | - | chr4_4:74747137-74747156 | None:intergenic | 65.0% | |
| AGCAACTCCAGCATGGCGCC+AGG | + | chr4_4:74747136-74747155 | Msa0702900:CDS | 65.0% | |
| GCAACTCCAGCATGGCGCCA+GGG | + | chr4_4:74747137-74747156 | Msa0702900:CDS | 65.0% | |
| TTTGGTCCCTGGCGCCATGC+TGG | - | chr4_4:74747146-74747165 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 74747122 | 74748237 | 74747122 | ID=Msa0702900;Name=Msa0702900 |
| chr4_4 | mRNA | 74747122 | 74748237 | 74747122 | ID=Msa0702900-mRNA-1;Parent=Msa0702900;Name=Msa0702900-mRNA-1;_AED=0.28;_eAED=0.27;_QI=0|0|0|1|1|1|2|0|161 |
| chr4_4 | exon | 74747122 | 74747341 | 74747122 | ID=Msa0702900-mRNA-1:exon:23320;Parent=Msa0702900-mRNA-1 |
| chr4_4 | exon | 74747972 | 74748237 | 74747972 | ID=Msa0702900-mRNA-1:exon:23321;Parent=Msa0702900-mRNA-1 |
| chr4_4 | CDS | 74747122 | 74747341 | 74747122 | ID=Msa0702900-mRNA-1:cds;Parent=Msa0702900-mRNA-1 |
| chr4_4 | CDS | 74747972 | 74748237 | 74747972 | ID=Msa0702900-mRNA-1:cds;Parent=Msa0702900-mRNA-1 |
| Gene Sequence |
| Protein sequence |
