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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0976910 | RHN40820.1 | 45.378 | 119 | 63 | 1 | 43 | 159 | 38 | 156 | 9.32e-30 | 117 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0976910 | A0A396GIK5 | 45.378 | 119 | 63 | 1 | 43 | 159 | 38 | 156 | 4.45e-30 | 117 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0976910 | TF | B3 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0976910 | MtrunA17_Chr8g0359031 | 45.378 | 119 | 63 | 1 | 43 | 159 | 38 | 156 | 8.57e-34 | 117 |
| Msa0976910 | MtrunA17_Chr5g0393511 | 44.167 | 120 | 66 | 1 | 43 | 162 | 38 | 156 | 1.20e-29 | 106 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 37 sgRNAs with CRISPR-Local
Find 94 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCATATTGCATGTCAAATTT+TGG | 0.111779 | 6_4:+11116057 | None:intergenic |
| CAATTGCTATGTGACATTTC+TGG | 0.190006 | 6_4:-11115618 | Msa0976910:CDS |
| CTATTCATCACATAACAAAT+TGG | 0.294663 | 6_4:-11116314 | Msa0976910:five_prime_UTR |
| TAAGAGTTGCAAACAATTCA+TGG | 0.379943 | 6_4:-11115999 | Msa0976910:CDS |
| AGCATTCTTCTTCTGAATCA+TGG | 0.388381 | 6_4:+11116130 | None:intergenic |
| AAGGAAGGTTACTATGTTCC+CGG | 0.392694 | 6_4:-11116093 | Msa0976910:CDS |
| CATGCAATATGATGACTATA+AGG | 0.392912 | 6_4:-11116046 | Msa0976910:CDS |
| ATTTCGACTCCTATGTGTAT+AGG | 0.431470 | 6_4:+11115845 | None:intergenic |
| AGACATGGAGGTACCGGCTC+TGG | 0.478033 | 6_4:+11116021 | None:intergenic |
| ACACTTACAACAGCATAAGT+TGG | 0.503451 | 6_4:+11115946 | None:intergenic |
| TACCAGTCATTTACCAAGGA+AGG | 0.524931 | 6_4:-11116108 | Msa0976910:CDS |
| CATAAGATGAAGATGTACAT+AGG | 0.525061 | 6_4:-11115725 | Msa0976910:CDS |
| ATTATATATAAATTTGCAGT+AGG | 0.534848 | 6_4:-11116360 | Msa0976910:five_prime_UTR |
| AATGTCACATAGCAATTGAA+AGG | 0.536677 | 6_4:+11115623 | None:intergenic |
| TTGGTTGATTCAGATGAAGA+TGG | 0.537698 | 6_4:-11115788 | Msa0976910:CDS |
| GGGAACATAGTAACCTTCCT+TGG | 0.543034 | 6_4:+11116095 | None:intergenic |
| AACCTTCCTTGGTAAATGAC+TGG | 0.545045 | 6_4:+11116106 | None:intergenic |
| ATGAAGATGTACATAGGGCA+AGG | 0.553041 | 6_4:-11115719 | Msa0976910:CDS |
| ACTCTTAGACATGGAGGTAC+CGG | 0.555530 | 6_4:+11116015 | None:intergenic |
| CATAGGAGTCGAAATTCTAA+AGG | 0.559600 | 6_4:-11115837 | Msa0976910:CDS |
| ATAAGATGAAGATGTACATA+GGG | 0.562203 | 6_4:-11115724 | Msa0976910:CDS |
| GAAGCAAATCACACTGACCT+TGG | 0.564869 | 6_4:-11115807 | Msa0976910:CDS |
| TGACTATAAGGAACCAGAGC+CGG | 0.567138 | 6_4:-11116034 | Msa0976910:CDS |
| TTGTTTGCAACTCTTAGACA+TGG | 0.570930 | 6_4:+11116006 | None:intergenic |
| CAGCGTATTCCTATACACAT+AGG | 0.575668 | 6_4:-11115854 | Msa0976910:CDS |
| AAGAGTTGCAAACAATTCAT+GGG | 0.581198 | 6_4:-11115998 | Msa0976910:CDS |
| CTATGTGACATTTCTGGAGA+GGG | 0.581455 | 6_4:-11115612 | Msa0976910:CDS |
| TTTGAACAAGACATGATGAC+AGG | 0.594917 | 6_4:+11116275 | None:intergenic |
| TTTGGAACTGGATCAGAACC+GGG | 0.603268 | 6_4:+11116075 | None:intergenic |
| AGATGTACATAGGGCAAGGG+TGG | 0.609118 | 6_4:-11115715 | Msa0976910:CDS |
| TCATCATGTCTTGTTCAAAG+AGG | 0.610027 | 6_4:-11116271 | Msa0976910:intron |
| GCTATGTGACATTTCTGGAG+AGG | 0.612333 | 6_4:-11115613 | Msa0976910:CDS |
| TGAAGATGTACATAGGGCAA+GGG | 0.630089 | 6_4:-11115718 | Msa0976910:CDS |
| TTTGCAACTCTTAGACATGG+AGG | 0.667332 | 6_4:+11116009 | None:intergenic |
| ATCTTCATCTGAATCAACCA+AGG | 0.672333 | 6_4:+11115790 | None:intergenic |
| ATGCTACCAGTCATTTACCA+AGG | 0.679424 | 6_4:-11116112 | Msa0976910:CDS |
| TATTGAAGATATCAACTGTG+AGG | 0.713067 | 6_4:-11115765 | Msa0976910:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTAAGTATTATATTACAAA+TGG | - | chr6_4:11115778-11115797 | Msa0976910:CDS | 10.0% |
| !! | TTTAAGTATTATATTACAAA+TGG | - | chr6_4:11115778-11115797 | Msa0976910:CDS | 10.0% |
| !! | GTATTATATTACAAATGGAA+TGG | - | chr6_4:11115783-11115802 | Msa0976910:CDS | 20.0% |
| !! | GTTATTTATAAACACTTGAT+TGG | - | chr6_4:11116076-11116095 | Msa0976910:CDS | 20.0% |
| !!! | TTTTGTTAAGAAATGTAATG+TGG | - | chr6_4:11116277-11116296 | Msa0976910:exon | 20.0% |
| !! | GTATTATATTACAAATGGAA+TGG | - | chr6_4:11115783-11115802 | Msa0976910:CDS | 20.0% |
| !! | GTTATTTATAAACACTTGAT+TGG | - | chr6_4:11116076-11116095 | Msa0976910:CDS | 20.0% |
| !!! | TTTTGTTAAGAAATGTAATG+TGG | - | chr6_4:11116277-11116296 | Msa0976910:exon | 20.0% |
| ! | CTATTCATCACATAACAAAT+TGG | - | chr6_4:11115650-11115669 | Msa0976910:CDS | 25.0% |
| ! | ATAATACAGAACTAAAGACA+TGG | + | chr6_4:11115748-11115767 | None:intergenic | 25.0% |
| !! | TCATATTGCATGTCAAATTT+TGG | + | chr6_4:11115910-11115929 | None:intergenic | 25.0% |
| ! | ATAAGATGAAGATGTACATA+GGG | - | chr6_4:11116240-11116259 | Msa0976910:intron | 25.0% |
| ! | CTATTCATCACATAACAAAT+TGG | - | chr6_4:11115650-11115669 | Msa0976910:CDS | 25.0% |
| ! | ATAATACAGAACTAAAGACA+TGG | + | chr6_4:11115748-11115767 | None:intergenic | 25.0% |
| !! | TCATATTGCATGTCAAATTT+TGG | + | chr6_4:11115910-11115929 | None:intergenic | 25.0% |
| ! | ATAAGATGAAGATGTACATA+GGG | - | chr6_4:11116240-11116259 | Msa0976910:intron | 25.0% |
| ! | TTCTTCTGAATCATGGTTTT+TGG | + | chr6_4:11115830-11115849 | None:intergenic | 30.0% |
| CATGCAATATGATGACTATA+AGG | - | chr6_4:11115918-11115937 | Msa0976910:intron | 30.0% | |
| TAAGAGTTGCAAACAATTCA+TGG | - | chr6_4:11115965-11115984 | Msa0976910:CDS | 30.0% | |
| AAGAGTTGCAAACAATTCAT+GGG | - | chr6_4:11115966-11115985 | Msa0976910:CDS | 30.0% | |
| TATTGAAGATATCAACTGTG+AGG | - | chr6_4:11116199-11116218 | Msa0976910:intron | 30.0% | |
| !!! | TGTGAGGTTTTTTTTGAAGA+TGG | - | chr6_4:11116215-11116234 | Msa0976910:intron | 30.0% |
| CATAAGATGAAGATGTACAT+AGG | - | chr6_4:11116239-11116258 | Msa0976910:intron | 30.0% | |
| AATGTCACATAGCAATTGAA+AGG | + | chr6_4:11116344-11116363 | None:intergenic | 30.0% | |
| ! | TTCTTCTGAATCATGGTTTT+TGG | + | chr6_4:11115830-11115849 | None:intergenic | 30.0% |
| CATGCAATATGATGACTATA+AGG | - | chr6_4:11115918-11115937 | Msa0976910:intron | 30.0% | |
| TAAGAGTTGCAAACAATTCA+TGG | - | chr6_4:11115965-11115984 | Msa0976910:CDS | 30.0% | |
| AAGAGTTGCAAACAATTCAT+GGG | - | chr6_4:11115966-11115985 | Msa0976910:CDS | 30.0% | |
| TATTGAAGATATCAACTGTG+AGG | - | chr6_4:11116199-11116218 | Msa0976910:intron | 30.0% | |
| !!! | TGTGAGGTTTTTTTTGAAGA+TGG | - | chr6_4:11116215-11116234 | Msa0976910:intron | 30.0% |
| CATAAGATGAAGATGTACAT+AGG | - | chr6_4:11116239-11116258 | Msa0976910:intron | 30.0% | |
| AATGTCACATAGCAATTGAA+AGG | + | chr6_4:11116344-11116363 | None:intergenic | 30.0% | |
| TTTGAACAAGACATGATGAC+AGG | + | chr6_4:11115692-11115711 | None:intergenic | 35.0% | |
| ! | TCATCATGTCTTGTTCAAAG+AGG | - | chr6_4:11115693-11115712 | Msa0976910:CDS | 35.0% |
| AGCATTCTTCTTCTGAATCA+TGG | + | chr6_4:11115837-11115856 | None:intergenic | 35.0% | |
| !!! | TGCATGTCAAATTTTGGAAC+TGG | + | chr6_4:11115904-11115923 | None:intergenic | 35.0% |
| TTGTTTGCAACTCTTAGACA+TGG | + | chr6_4:11115961-11115980 | None:intergenic | 35.0% | |
| ACACTTACAACAGCATAAGT+TGG | + | chr6_4:11116021-11116040 | None:intergenic | 35.0% | |
| ATTTCGACTCCTATGTGTAT+AGG | + | chr6_4:11116122-11116141 | None:intergenic | 35.0% | |
| CATAGGAGTCGAAATTCTAA+AGG | - | chr6_4:11116127-11116146 | Msa0976910:CDS | 35.0% | |
| ATCTTCATCTGAATCAACCA+AGG | + | chr6_4:11116177-11116196 | None:intergenic | 35.0% | |
| ! | TTGGTTGATTCAGATGAAGA+TGG | - | chr6_4:11116176-11116195 | Msa0976910:intron | 35.0% |
| CAATTGCTATGTGACATTTC+TGG | - | chr6_4:11116346-11116365 | Msa0976910:five_prime_UTR | 35.0% | |
| TTTGAACAAGACATGATGAC+AGG | + | chr6_4:11115692-11115711 | None:intergenic | 35.0% | |
| ! | TCATCATGTCTTGTTCAAAG+AGG | - | chr6_4:11115693-11115712 | Msa0976910:CDS | 35.0% |
| AGCATTCTTCTTCTGAATCA+TGG | + | chr6_4:11115837-11115856 | None:intergenic | 35.0% | |
| !!! | TGCATGTCAAATTTTGGAAC+TGG | + | chr6_4:11115904-11115923 | None:intergenic | 35.0% |
| TTGTTTGCAACTCTTAGACA+TGG | + | chr6_4:11115961-11115980 | None:intergenic | 35.0% | |
| ACACTTACAACAGCATAAGT+TGG | + | chr6_4:11116021-11116040 | None:intergenic | 35.0% | |
| ATTTCGACTCCTATGTGTAT+AGG | + | chr6_4:11116122-11116141 | None:intergenic | 35.0% | |
| CATAGGAGTCGAAATTCTAA+AGG | - | chr6_4:11116127-11116146 | Msa0976910:CDS | 35.0% | |
| ATCTTCATCTGAATCAACCA+AGG | + | chr6_4:11116177-11116196 | None:intergenic | 35.0% | |
| ! | TTGGTTGATTCAGATGAAGA+TGG | - | chr6_4:11116176-11116195 | Msa0976910:intron | 35.0% |
| CAATTGCTATGTGACATTTC+TGG | - | chr6_4:11116346-11116365 | Msa0976910:five_prime_UTR | 35.0% | |
| GGAATGGTTGTTCTTAACAG+CGG | - | chr6_4:11115799-11115818 | Msa0976910:CDS | 40.0% | |
| ATGCTACCAGTCATTTACCA+AGG | - | chr6_4:11115852-11115871 | Msa0976910:CDS | 40.0% | |
| TACCAGTCATTTACCAAGGA+AGG | - | chr6_4:11115856-11115875 | Msa0976910:intron | 40.0% | |
| AACCTTCCTTGGTAAATGAC+TGG | + | chr6_4:11115861-11115880 | None:intergenic | 40.0% | |
| AAGGAAGGTTACTATGTTCC+CGG | - | chr6_4:11115871-11115890 | Msa0976910:intron | 40.0% | |
| !!! | TTTTGGAACTGGATCAGAAC+CGG | + | chr6_4:11115893-11115912 | None:intergenic | 40.0% |
| TTTGCAACTCTTAGACATGG+AGG | + | chr6_4:11115958-11115977 | None:intergenic | 40.0% | |
| CAGCGTATTCCTATACACAT+AGG | - | chr6_4:11116110-11116129 | Msa0976910:CDS | 40.0% | |
| ATGAAGATGTACATAGGGCA+AGG | - | chr6_4:11116245-11116264 | Msa0976910:intron | 40.0% | |
| TGAAGATGTACATAGGGCAA+GGG | - | chr6_4:11116246-11116265 | Msa0976910:intron | 40.0% | |
| ! | CTATGTGACATTTCTGGAGA+GGG | - | chr6_4:11116352-11116371 | Msa0976910:five_prime_UTR | 40.0% |
| GGAATGGTTGTTCTTAACAG+CGG | - | chr6_4:11115799-11115818 | Msa0976910:CDS | 40.0% | |
| ATGCTACCAGTCATTTACCA+AGG | - | chr6_4:11115852-11115871 | Msa0976910:CDS | 40.0% | |
| TACCAGTCATTTACCAAGGA+AGG | - | chr6_4:11115856-11115875 | Msa0976910:intron | 40.0% | |
| AACCTTCCTTGGTAAATGAC+TGG | + | chr6_4:11115861-11115880 | None:intergenic | 40.0% | |
| AAGGAAGGTTACTATGTTCC+CGG | - | chr6_4:11115871-11115890 | Msa0976910:intron | 40.0% | |
| !!! | TTTTGGAACTGGATCAGAAC+CGG | + | chr6_4:11115893-11115912 | None:intergenic | 40.0% |
| TTTGCAACTCTTAGACATGG+AGG | + | chr6_4:11115958-11115977 | None:intergenic | 40.0% | |
| CAGCGTATTCCTATACACAT+AGG | - | chr6_4:11116110-11116129 | Msa0976910:CDS | 40.0% | |
| ATGAAGATGTACATAGGGCA+AGG | - | chr6_4:11116245-11116264 | Msa0976910:intron | 40.0% | |
| TGAAGATGTACATAGGGCAA+GGG | - | chr6_4:11116246-11116265 | Msa0976910:intron | 40.0% | |
| ! | CTATGTGACATTTCTGGAGA+GGG | - | chr6_4:11116352-11116371 | Msa0976910:five_prime_UTR | 40.0% |
| ATGGTTGTTCTTAACAGCGG+CGG | - | chr6_4:11115802-11115821 | Msa0976910:CDS | 45.0% | |
| GGGAACATAGTAACCTTCCT+TGG | + | chr6_4:11115872-11115891 | None:intergenic | 45.0% | |
| ! | TTTGGAACTGGATCAGAACC+GGG | + | chr6_4:11115892-11115911 | None:intergenic | 45.0% |
| TGACTATAAGGAACCAGAGC+CGG | - | chr6_4:11115930-11115949 | Msa0976910:intron | 45.0% | |
| ! | ACTCTTAGACATGGAGGTAC+CGG | + | chr6_4:11115952-11115971 | None:intergenic | 45.0% |
| GAAGCAAATCACACTGACCT+TGG | - | chr6_4:11116157-11116176 | Msa0976910:intron | 45.0% | |
| ! | GCTATGTGACATTTCTGGAG+AGG | - | chr6_4:11116351-11116370 | Msa0976910:five_prime_UTR | 45.0% |
| ATGGTTGTTCTTAACAGCGG+CGG | - | chr6_4:11115802-11115821 | Msa0976910:CDS | 45.0% | |
| GGGAACATAGTAACCTTCCT+TGG | + | chr6_4:11115872-11115891 | None:intergenic | 45.0% | |
| ! | TTTGGAACTGGATCAGAACC+GGG | + | chr6_4:11115892-11115911 | None:intergenic | 45.0% |
| TGACTATAAGGAACCAGAGC+CGG | - | chr6_4:11115930-11115949 | Msa0976910:intron | 45.0% | |
| ! | ACTCTTAGACATGGAGGTAC+CGG | + | chr6_4:11115952-11115971 | None:intergenic | 45.0% |
| GAAGCAAATCACACTGACCT+TGG | - | chr6_4:11116157-11116176 | Msa0976910:intron | 45.0% | |
| ! | GCTATGTGACATTTCTGGAG+AGG | - | chr6_4:11116351-11116370 | Msa0976910:five_prime_UTR | 45.0% |
| AGATGTACATAGGGCAAGGG+TGG | - | chr6_4:11116249-11116268 | Msa0976910:intron | 50.0% | |
| AGATGTACATAGGGCAAGGG+TGG | - | chr6_4:11116249-11116268 | Msa0976910:intron | 50.0% | |
| !! | AGACATGGAGGTACCGGCTC+TGG | + | chr6_4:11115946-11115965 | None:intergenic | 60.0% |
| !! | AGACATGGAGGTACCGGCTC+TGG | + | chr6_4:11115946-11115965 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_4 | gene | 11115607 | 11116379 | 11115607 | ID=Msa0976910;Name=Msa0976910 |
| chr6_4 | mRNA | 11115607 | 11116379 | 11115607 | ID=Msa0976910-mRNA-1;Parent=Msa0976910;Name=Msa0976910-mRNA-1;_AED=0.05;_eAED=0.05;_QI=91|1|0.66|1|0.5|0|3|0|166 |
| chr6_4 | exon | 11115607 | 11115873 | 11115607 | ID=Msa0976910-mRNA-1:exon:4026;Parent=Msa0976910-mRNA-1 |
| chr6_4 | exon | 11115954 | 11116167 | 11115954 | ID=Msa0976910-mRNA-1:exon:4025;Parent=Msa0976910-mRNA-1 |
| chr6_4 | exon | 11116272 | 11116379 | 11116272 | ID=Msa0976910-mRNA-1:exon:4024;Parent=Msa0976910-mRNA-1 |
| chr6_4 | five_prime_UTR | 11116289 | 11116379 | 11116289 | ID=Msa0976910-mRNA-1:five_prime_utr;Parent=Msa0976910-mRNA-1 |
| chr6_4 | CDS | 11116272 | 11116288 | 11116272 | ID=Msa0976910-mRNA-1:cds;Parent=Msa0976910-mRNA-1 |
| chr6_4 | CDS | 11115954 | 11116167 | 11115954 | ID=Msa0976910-mRNA-1:cds;Parent=Msa0976910-mRNA-1 |
| chr6_4 | CDS | 11115607 | 11115873 | 11115607 | ID=Msa0976910-mRNA-1:cds;Parent=Msa0976910-mRNA-1 |
| Gene Sequence |
| Protein sequence |
