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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0710840 | AES95290.1 | 73.460 | 211 | 26 | 3 | 1 | 201 | 1 | 191 | 1.75e-98 | 293 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0710840 | G7K023 | 73.460 | 211 | 26 | 3 | 1 | 201 | 1 | 191 | 8.36e-99 | 293 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0710840 | TF | C2H2 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0710840 | MtrunA17_Chr5g0406781 | 55.975 | 159 | 30 | 4 | 1 | 159 | 1 | 119 | 4.33e-50 | 158 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 68 sgRNAs with CRISPR-Local
Find 89 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGTAGTTGGGTTGGTTTCTT+TGG | 0.162115 | 5_1:+2653807 | None:intergenic |
| TTCTCGGAAGGGTTAGGTTT+AGG | 0.237072 | 5_1:+2653886 | None:intergenic |
| AACCGCTCTCGAAGTCTTAA+TGG | 0.238654 | 5_1:-2653743 | Msa0710840:CDS |
| CCTTGAAAGTTCTTTAAGTA+TGG | 0.240152 | 5_1:-2653785 | Msa0710840:CDS |
| TGTTTGCATCTATAACAATT+TGG | 0.250606 | 5_1:+2653601 | None:intergenic |
| GTAGTTGGGTTGGTTTCTTT+GGG | 0.266039 | 5_1:+2653808 | None:intergenic |
| TCTCGGAAGGGTTAGGTTTA+GGG | 0.267292 | 5_1:+2653887 | None:intergenic |
| AATGGTTTGTCAGCAGCTTC+TGG | 0.287143 | 5_1:-2653514 | Msa0710840:CDS |
| TTGAGGGGACTTGTTGTTGG+TGG | 0.289994 | 5_1:+2653855 | None:intergenic |
| CCTGATGAAGGCGAAGGTTT+AGG | 0.308909 | 5_1:-2652932 | Msa0710840:CDS |
| ATACATCACTCTTCTTCATT+AGG | 0.332064 | 5_1:+2652887 | None:intergenic |
| GTCTTGAGGGGACTTGTTGT+TGG | 0.343036 | 5_1:+2653852 | None:intergenic |
| TAGTTGGGTTGGTTTCTTTG+GGG | 0.344689 | 5_1:+2653809 | None:intergenic |
| GTTGAATTCTCGGAAGGGTT+AGG | 0.378551 | 5_1:+2653880 | None:intergenic |
| AAAGAACTTTCAAGGGTAGT+TGG | 0.386873 | 5_1:+2653793 | None:intergenic |
| CTCTTCCTCCTCTTCATAGC+TGG | 0.393408 | 5_1:+2653661 | None:intergenic |
| TGAGGGGACTTGTTGTTGGT+GGG | 0.402381 | 5_1:+2653856 | None:intergenic |
| AGGGGACTTGTTGTTGGTGG+GGG | 0.408399 | 5_1:+2653858 | None:intergenic |
| AGGTGGGGTGGTTGTTGATG+TGG | 0.426505 | 5_1:+2653474 | None:intergenic |
| AAGAACTTTCAAGGGTAGTT+GGG | 0.430510 | 5_1:+2653794 | None:intergenic |
| CCATACTTAAAGAACTTTCA+AGG | 0.430715 | 5_1:+2653785 | None:intergenic |
| GAGTTCAGAGCTCGTGAGAA+TGG | 0.435144 | 5_1:-2653721 | Msa0710840:CDS |
| GACTGCTTTGATGAACCATA+TGG | 0.435911 | 5_1:-2653563 | Msa0710840:CDS |
| ACCTCAACCTGATCAATATG+AGG | 0.437745 | 5_1:-2653455 | Msa0710840:CDS |
| TAACAATTTGGATATATAGA+AGG | 0.438362 | 5_1:+2653613 | None:intergenic |
| CATCAGAGGGAGGGTCTTGA+GGG | 0.445658 | 5_1:+2653839 | None:intergenic |
| CCTAAACCTTCGCCTTCATC+AGG | 0.453595 | 5_1:+2652932 | None:intergenic |
| CCCTCATATTGATCAGGTTG+AGG | 0.453934 | 5_1:+2653454 | None:intergenic |
| GAAGCTGCTGACAAACCATT+AGG | 0.476282 | 5_1:+2653517 | None:intergenic |
| GCAAACATGTGTTTCCCACT+TGG | 0.483219 | 5_1:-2653585 | Msa0710840:CDS |
| GGTCCTCTATCTCCATTGGC+TGG | 0.500299 | 5_1:+2652999 | None:intergenic |
| CATATTGATCAGGTTGAGGT+GGG | 0.500892 | 5_1:+2653458 | None:intergenic |
| TCATCAGAGGGAGGGTCTTG+AGG | 0.508193 | 5_1:+2653838 | None:intergenic |
| ACTTTCAAGGGTAGTTGGGT+TGG | 0.512734 | 5_1:+2653798 | None:intergenic |
| AGTTCAGAGCTCGTGAGAAT+GGG | 0.512950 | 5_1:-2653720 | Msa0710840:CDS |
| AGCTCGTGAGAATGGGAAGC+TGG | 0.512973 | 5_1:-2653713 | Msa0710840:CDS |
| AGTTGGGTTGGTTTCTTTGG+GGG | 0.515909 | 5_1:+2653810 | None:intergenic |
| CATCACTCTTCTTCATTAGG+AGG | 0.517441 | 5_1:+2652890 | None:intergenic |
| GAGGGGTCCTCTATCTCCAT+TGG | 0.519182 | 5_1:+2652995 | None:intergenic |
| AAGCCAGCCAATGGAGATAG+AGG | 0.520626 | 5_1:-2653002 | Msa0710840:CDS |
| TTGATCAGGTTGAGGTGGGG+TGG | 0.536734 | 5_1:+2653462 | None:intergenic |
| GAGGGGACTTGTTGTTGGTG+GGG | 0.544991 | 5_1:+2653857 | None:intergenic |
| AATGGGAAGCTGGCAGCTGA+TGG | 0.545369 | 5_1:-2653703 | Msa0710840:CDS |
| CATACTTAAAGAACTTTCAA+GGG | 0.549185 | 5_1:+2653786 | None:intergenic |
| TGAAAGTTCTTTAAGTATGG+AGG | 0.556383 | 5_1:-2653782 | Msa0710840:CDS |
| TCATATTGATCAGGTTGAGG+TGG | 0.558741 | 5_1:+2653457 | None:intergenic |
| TGATGATGAAAGCCAGCCAA+TGG | 0.578386 | 5_1:-2653011 | Msa0710840:CDS |
| GAGTAATATTCGTGAAGTGA+AGG | 0.580783 | 5_1:-2653641 | Msa0710840:CDS |
| CTGGCAGCTGATGGAGAAGG+TGG | 0.580844 | 5_1:-2653694 | Msa0710840:CDS |
| GGGGTGGTTGTTGATGTGGA+AGG | 0.586960 | 5_1:+2653478 | None:intergenic |
| ATATTGATCAGGTTGAGGTG+GGG | 0.595131 | 5_1:+2653459 | None:intergenic |
| ACTGCATCTGAGCCTGATGA+AGG | 0.598031 | 5_1:-2652944 | Msa0710840:CDS |
| CTCCATTAAGACTTCGAGAG+CGG | 0.599694 | 5_1:+2653741 | None:intergenic |
| ATGGTCCAGCTATGAAGAGG+AGG | 0.603822 | 5_1:-2653666 | Msa0710840:CDS |
| CTCGGATGCAACATCATCAG+AGG | 0.604023 | 5_1:+2652976 | None:intergenic |
| GGGGATTCATCATCAGAGGG+AGG | 0.610326 | 5_1:+2653829 | None:intergenic |
| TCGGATGCAACATCATCAGA+GGG | 0.613962 | 5_1:+2652977 | None:intergenic |
| GATGGAGAAGGTGGAAGTGA+TGG | 0.614959 | 5_1:-2653685 | Msa0710840:CDS |
| AGATGCAGTATCATCAGACT+CGG | 0.629894 | 5_1:+2652958 | None:intergenic |
| TCTGAGCCTGATGAAGGCGA+AGG | 0.633192 | 5_1:-2652938 | Msa0710840:CDS |
| GTGATGGTCCAGCTATGAAG+AGG | 0.637063 | 5_1:-2653669 | Msa0710840:CDS |
| AAGCTGGCAGCTGATGGAGA+AGG | 0.643145 | 5_1:-2653697 | Msa0710840:CDS |
| CCTCAACCTGATCAATATGA+GGG | 0.650750 | 5_1:-2653454 | Msa0710840:intron |
| ATCAGAGGGAGGGTCTTGAG+GGG | 0.650850 | 5_1:+2653840 | None:intergenic |
| TTCATCAAAGCAGTCCAAGT+GGG | 0.656120 | 5_1:+2653571 | None:intergenic |
| GGGATTCATCATCAGAGGGA+GGG | 0.659890 | 5_1:+2653830 | None:intergenic |
| GTTCATCAAAGCAGTCCAAG+TGG | 0.685541 | 5_1:+2653570 | None:intergenic |
| CGGATGCAACATCATCAGAG+GGG | 0.768604 | 5_1:+2652978 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATAGTTTGAATTAGAAAATT+AGG | + | chr5_1:2653370-2653389 | None:intergenic | 15.0% |
| !! | TTAAAATTATAATTGCTTCA+TGG | + | chr5_1:2653728-2653747 | None:intergenic | 15.0% |
| !! | TAACAATTTGGATATATAGA+AGG | + | chr5_1:2653177-2653196 | None:intergenic | 20.0% |
| !!! | TTTTTCGCACTATAATTTTT+TGG | - | chr5_1:2653408-2653427 | Msa0710840:intron | 20.0% |
| !! | AACATTACATAATTGAATCT+TGG | + | chr5_1:2653478-2653497 | None:intergenic | 20.0% |
| !!! | AATGTTTTTCTTTTGTTACT+AGG | - | chr5_1:2653753-2653772 | Msa0710840:CDS | 20.0% |
| ! | CATACTTAAAGAACTTTCAA+GGG | + | chr5_1:2653004-2653023 | None:intergenic | 25.0% |
| ! | TGTTTGCATCTATAACAATT+TGG | + | chr5_1:2653189-2653208 | None:intergenic | 25.0% |
| ! | CATATATATGTTTGTGTGTA+TGG | + | chr5_1:2653575-2653594 | None:intergenic | 25.0% |
| ! | TTATGAGATCAAATTCATGT+AGG | - | chr5_1:2653618-2653637 | Msa0710840:CDS | 25.0% |
| CCATACTTAAAGAACTTTCA+AGG | + | chr5_1:2653005-2653024 | None:intergenic | 30.0% | |
| CCTTGAAAGTTCTTTAAGTA+TGG | - | chr5_1:2653002-2653021 | Msa0710840:CDS | 30.0% | |
| TGAAAGTTCTTTAAGTATGG+AGG | - | chr5_1:2653005-2653024 | Msa0710840:CDS | 30.0% | |
| AAAAATGGTGTTCTTCCATA+TGG | + | chr5_1:2653242-2653261 | None:intergenic | 30.0% | |
| CATTAGGATCACAACAAAAA+TGG | + | chr5_1:2653257-2653276 | None:intergenic | 30.0% | |
| !! | CATTTTTGTTGTGATCCTAA+TGG | - | chr5_1:2653255-2653274 | Msa0710840:intron | 30.0% |
| TATATAGCCAATAAAACCCT+AGG | + | chr5_1:2653449-2653468 | None:intergenic | 30.0% | |
| AAGAACTTTCAAGGGTAGTT+GGG | + | chr5_1:2652996-2653015 | None:intergenic | 35.0% | |
| AAAGAACTTTCAAGGGTAGT+TGG | + | chr5_1:2652997-2653016 | None:intergenic | 35.0% | |
| GAGTAATATTCGTGAAGTGA+AGG | - | chr5_1:2653146-2653165 | Msa0710840:intron | 35.0% | |
| ! | GTTTTACCCTCATATTGATC+AGG | + | chr5_1:2653342-2653361 | None:intergenic | 35.0% |
| !! | TAGTTGGGTTGGTTTCTTTG+GGG | + | chr5_1:2652981-2653000 | None:intergenic | 40.0% |
| !! | GTAGTTGGGTTGGTTTCTTT+GGG | + | chr5_1:2652982-2653001 | None:intergenic | 40.0% |
| TTCATCAAAGCAGTCCAAGT+GGG | + | chr5_1:2653219-2653238 | None:intergenic | 40.0% | |
| GACTGCTTTGATGAACCATA+TGG | - | chr5_1:2653224-2653243 | Msa0710840:intron | 40.0% | |
| !! | ATATTGATCAGGTTGAGGTG+GGG | + | chr5_1:2653331-2653350 | None:intergenic | 40.0% |
| !! | CATATTGATCAGGTTGAGGT+GGG | + | chr5_1:2653332-2653351 | None:intergenic | 40.0% |
| !! | TCATATTGATCAGGTTGAGG+TGG | + | chr5_1:2653333-2653352 | None:intergenic | 40.0% |
| ACCTCAACCTGATCAATATG+AGG | - | chr5_1:2653332-2653351 | Msa0710840:intron | 40.0% | |
| CCTCAACCTGATCAATATGA+GGG | - | chr5_1:2653333-2653352 | Msa0710840:intron | 40.0% | |
| CCAATAAAACCCTAGGTCAT+TGG | + | chr5_1:2653442-2653461 | None:intergenic | 40.0% | |
| !! | CCAATGACCTAGGGTTTTAT+TGG | - | chr5_1:2653439-2653458 | Msa0710840:intron | 40.0% |
| AGATGCAGTATCATCAGACT+CGG | + | chr5_1:2653832-2653851 | None:intergenic | 40.0% | |
| TCTCGGAAGGGTTAGGTTTA+GGG | + | chr5_1:2652903-2652922 | None:intergenic | 45.0% | |
| TTCTCGGAAGGGTTAGGTTT+AGG | + | chr5_1:2652904-2652923 | None:intergenic | 45.0% | |
| GTTGAATTCTCGGAAGGGTT+AGG | + | chr5_1:2652910-2652929 | None:intergenic | 45.0% | |
| TTGGGGGATTCATCATCAGA+GGG | + | chr5_1:2652964-2652983 | None:intergenic | 45.0% | |
| TTTGGGGGATTCATCATCAG+AGG | + | chr5_1:2652965-2652984 | None:intergenic | 45.0% | |
| !! | AGTTGGGTTGGTTTCTTTGG+GGG | + | chr5_1:2652980-2652999 | None:intergenic | 45.0% |
| !! | GGTAGTTGGGTTGGTTTCTT+TGG | + | chr5_1:2652983-2653002 | None:intergenic | 45.0% |
| ACTTTCAAGGGTAGTTGGGT+TGG | + | chr5_1:2652992-2653011 | None:intergenic | 45.0% | |
| AACCGCTCTCGAAGTCTTAA+TGG | - | chr5_1:2653044-2653063 | Msa0710840:intron | 45.0% | |
| CTCCATTAAGACTTCGAGAG+CGG | + | chr5_1:2653049-2653068 | None:intergenic | 45.0% | |
| AGTTCAGAGCTCGTGAGAAT+GGG | - | chr5_1:2653067-2653086 | Msa0710840:intron | 45.0% | |
| GCAAACATGTGTTTCCCACT+TGG | - | chr5_1:2653202-2653221 | Msa0710840:intron | 45.0% | |
| GTTCATCAAAGCAGTCCAAG+TGG | + | chr5_1:2653220-2653239 | None:intergenic | 45.0% | |
| GAAGCTGCTGACAAACCATT+AGG | + | chr5_1:2653273-2653292 | None:intergenic | 45.0% | |
| ! | AATGGTTTGTCAGCAGCTTC+TGG | - | chr5_1:2653273-2653292 | Msa0710840:intron | 45.0% |
| ! | CCCTCATATTGATCAGGTTG+AGG | + | chr5_1:2653336-2653355 | None:intergenic | 45.0% |
| GTCAACACTCCAATGACCTA+GGG | - | chr5_1:2653430-2653449 | Msa0710840:intron | 45.0% | |
| ! | TGATGATGAAAGCCAGCCAA+TGG | - | chr5_1:2653776-2653795 | Msa0710840:CDS | 45.0% |
| TCGGATGCAACATCATCAGA+GGG | + | chr5_1:2653813-2653832 | None:intergenic | 45.0% | |
| !!! | ATTTTTTTTTTTTAACTAAT+CGG | - | chr5_1:2653658-2653677 | Msa0710840:CDS | 5.0% |
| TGGGGGTTGAATTCTCGGAA+GGG | + | chr5_1:2652915-2652934 | None:intergenic | 50.0% | |
| ! | GTTGGTGGGGGTTGAATTCT+CGG | + | chr5_1:2652920-2652939 | None:intergenic | 50.0% |
| !! | TGAGGGGACTTGTTGTTGGT+GGG | + | chr5_1:2652934-2652953 | None:intergenic | 50.0% |
| !! | TTGAGGGGACTTGTTGTTGG+TGG | + | chr5_1:2652935-2652954 | None:intergenic | 50.0% |
| !! | GTCTTGAGGGGACTTGTTGT+TGG | + | chr5_1:2652938-2652957 | None:intergenic | 50.0% |
| GGGATTCATCATCAGAGGGA+GGG | + | chr5_1:2652960-2652979 | None:intergenic | 50.0% | |
| ! | AGACTTCGAGAGCGGTTTTC+AGG | + | chr5_1:2653041-2653060 | None:intergenic | 50.0% |
| GAGTTCAGAGCTCGTGAGAA+TGG | - | chr5_1:2653066-2653085 | Msa0710840:intron | 50.0% | |
| GATGGAGAAGGTGGAAGTGA+TGG | - | chr5_1:2653102-2653121 | Msa0710840:intron | 50.0% | |
| GTGATGGTCCAGCTATGAAG+AGG | - | chr5_1:2653118-2653137 | Msa0710840:intron | 50.0% | |
| ATGGTCCAGCTATGAAGAGG+AGG | - | chr5_1:2653121-2653140 | Msa0710840:intron | 50.0% | |
| CTCTTCCTCCTCTTCATAGC+TGG | + | chr5_1:2653129-2653148 | None:intergenic | 50.0% | |
| GGTCAACACTCCAATGACCT+AGG | - | chr5_1:2653429-2653448 | Msa0710840:intron | 50.0% | |
| AAGCCAGCCAATGGAGATAG+AGG | - | chr5_1:2653785-2653804 | Msa0710840:CDS | 50.0% | |
| CGGATGCAACATCATCAGAG+GGG | + | chr5_1:2653812-2653831 | None:intergenic | 50.0% | |
| CTCGGATGCAACATCATCAG+AGG | + | chr5_1:2653814-2653833 | None:intergenic | 50.0% | |
| ACTGCATCTGAGCCTGATGA+AGG | - | chr5_1:2653843-2653862 | Msa0710840:CDS | 50.0% | |
| CCTAAACCTTCGCCTTCATC+AGG | + | chr5_1:2653858-2653877 | None:intergenic | 50.0% | |
| CCTGATGAAGGCGAAGGTTT+AGG | - | chr5_1:2653855-2653874 | Msa0710840:CDS | 50.0% | |
| GTGGGGGTTGAATTCTCGGA+AGG | + | chr5_1:2652916-2652935 | None:intergenic | 55.0% | |
| !! | AGGGGACTTGTTGTTGGTGG+GGG | + | chr5_1:2652932-2652951 | None:intergenic | 55.0% |
| !! | GAGGGGACTTGTTGTTGGTG+GGG | + | chr5_1:2652933-2652952 | None:intergenic | 55.0% |
| ATCAGAGGGAGGGTCTTGAG+GGG | + | chr5_1:2652950-2652969 | None:intergenic | 55.0% | |
| CATCAGAGGGAGGGTCTTGA+GGG | + | chr5_1:2652951-2652970 | None:intergenic | 55.0% | |
| TCATCAGAGGGAGGGTCTTG+AGG | + | chr5_1:2652952-2652971 | None:intergenic | 55.0% | |
| GGGGATTCATCATCAGAGGG+AGG | + | chr5_1:2652961-2652980 | None:intergenic | 55.0% | |
| AGCTCGTGAGAATGGGAAGC+TGG | - | chr5_1:2653074-2653093 | Msa0710840:intron | 55.0% | |
| AATGGGAAGCTGGCAGCTGA+TGG | - | chr5_1:2653084-2653103 | Msa0710840:intron | 55.0% | |
| AAGCTGGCAGCTGATGGAGA+AGG | - | chr5_1:2653090-2653109 | Msa0710840:intron | 55.0% | |
| GGGGTGGTTGTTGATGTGGA+AGG | + | chr5_1:2653312-2653331 | None:intergenic | 55.0% | |
| AGGTGGGGTGGTTGTTGATG+TGG | + | chr5_1:2653316-2653335 | None:intergenic | 55.0% | |
| !! | TTGATCAGGTTGAGGTGGGG+TGG | + | chr5_1:2653328-2653347 | None:intergenic | 55.0% |
| GGTCCTCTATCTCCATTGGC+TGG | + | chr5_1:2653791-2653810 | None:intergenic | 55.0% | |
| GAGGGGTCCTCTATCTCCAT+TGG | + | chr5_1:2653795-2653814 | None:intergenic | 55.0% | |
| TCTGAGCCTGATGAAGGCGA+AGG | - | chr5_1:2653849-2653868 | Msa0710840:CDS | 55.0% | |
| CTGGCAGCTGATGGAGAAGG+TGG | - | chr5_1:2653093-2653112 | Msa0710840:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_1 | gene | 2652892 | 2653917 | 2652892 | ID=Msa0710840;Name=Msa0710840 |
| chr5_1 | mRNA | 2652892 | 2653917 | 2652892 | ID=Msa0710840-mRNA-1;Parent=Msa0710840;Name=Msa0710840-mRNA-1;_AED=0.35;_eAED=0.35;_QI=0|0|0|1|1|1|2|0|201 |
| chr5_1 | exon | 2653455 | 2653917 | 2653455 | ID=Msa0710840-mRNA-1:exon:902;Parent=Msa0710840-mRNA-1 |
| chr5_1 | exon | 2652892 | 2653034 | 2652892 | ID=Msa0710840-mRNA-1:exon:901;Parent=Msa0710840-mRNA-1 |
| chr5_1 | CDS | 2653455 | 2653917 | 2653455 | ID=Msa0710840-mRNA-1:cds;Parent=Msa0710840-mRNA-1 |
| chr5_1 | CDS | 2652892 | 2653034 | 2652892 | ID=Msa0710840-mRNA-1:cds;Parent=Msa0710840-mRNA-1 |
| Gene Sequence |
| Protein sequence |
