Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene40877.t1 | XP_013467798.1 | 86.1 | 216 | 7 | 1 | 1 | 216 | 39 | 231 | 9.50E-94 | 353.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene40877.t1 | I3SHR4 | 86.1 | 216 | 7 | 1 | 1 | 216 | 39 | 231 | 6.9e-94 | 353.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene052609 | MS.gene40877 | 0.806347 | 8.60E-50 | -1.69E-46 |
| MS.gene052932 | MS.gene40877 | 0.810169 | 1.32E-50 | -1.69E-46 |
| MS.gene058638 | MS.gene40877 | 0.816796 | 4.60E-52 | -1.69E-46 |
| MS.gene058639 | MS.gene40877 | 0.814798 | 1.28E-51 | -1.69E-46 |
| MS.gene059171 | MS.gene40877 | 0.800617 | 1.32E-48 | -1.69E-46 |
| MS.gene060400 | MS.gene40877 | 0.820138 | 8.03E-53 | -1.69E-46 |
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 52 sgRNAs with CRISPR-Local
Find 91 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGGAAGACTCATTGGTTTC+AGG | 0.174899 | 1.4:+46547829 | MS.gene40877:CDS |
| ACAGACTTTGCTAGGTCTTT+TGG | 0.228477 | 1.4:-46547117 | None:intergenic |
| CAATCCAGTATCCTTCTTAT+AGG | 0.262025 | 1.4:+46548336 | MS.gene40877:CDS |
| GTTCCTTGGATCTTGCTCTA+TGG | 0.268346 | 1.4:+46547897 | MS.gene40877:CDS |
| TTCCTTCCTCTTGGTCAAAT+AGG | 0.304215 | 1.4:-46548064 | None:intergenic |
| GTGCAAAGGGAAGAAATTTC+AGG | 0.328710 | 1.4:+46547374 | MS.gene40877:intron |
| GAAGGACTCCGTTAATTATC+AGG | 0.337638 | 1.4:+46547086 | MS.gene40877:CDS |
| ATCAGCACTGTAGAGGAATC+TGG | 0.337798 | 1.4:+46548273 | MS.gene40877:CDS |
| TGTGGAGATGATTTAGGAAT+TGG | 0.359594 | 1.4:+46547865 | MS.gene40877:CDS |
| GTGGCTCTCTTCCTTCCTCT+TGG | 0.374455 | 1.4:-46548073 | None:intergenic |
| CCACAAAGGGAAAACAGATT+TGG | 0.378624 | 1.4:+46548092 | MS.gene40877:CDS |
| GATCTGGCACTTCTATTTGT+TGG | 0.383798 | 1.4:+46547405 | MS.gene40877:CDS |
| AATCCAGTATCCTTCTTATA+GGG | 0.385077 | 1.4:+46548337 | MS.gene40877:CDS |
| GAAGCCTGTGGAGATGATTT+AGG | 0.390687 | 1.4:+46547859 | MS.gene40877:CDS |
| GATCCCTATAAGAAGGATAC+TGG | 0.395705 | 1.4:-46548340 | None:intergenic |
| TGTGAACTTGGAAGACTCAT+TGG | 0.398899 | 1.4:+46547822 | MS.gene40877:CDS |
| ATTGGCAACGTTGCGTTCCT+TGG | 0.402438 | 1.4:+46547883 | MS.gene40877:CDS |
| TCCTCTGATGCTGAAACATA+TGG | 0.415932 | 1.4:-46547799 | None:intergenic |
| TTCCTTGGATCTTGCTCTAT+GGG | 0.431411 | 1.4:+46547898 | MS.gene40877:CDS |
| AGCATCAGAGGATGTGAACT+TGG | 0.456717 | 1.4:+46547810 | MS.gene40877:CDS |
| CAGATAAAACAGACTTTGCT+AGG | 0.471417 | 1.4:-46547125 | None:intergenic |
| AGAAATGACCTGATAATTAA+CGG | 0.478036 | 1.4:-46547094 | None:intergenic |
| CTGGCACTTCTATTTGTTGG+TGG | 0.482408 | 1.4:+46547408 | MS.gene40877:CDS |
| GATCTCAGACAATGGATTGA+AGG | 0.492742 | 1.4:+46547068 | MS.gene40877:CDS |
| TCAGCACTGTAGAGGAATCT+GGG | 0.496576 | 1.4:+46548274 | MS.gene40877:CDS |
| ATTTCAGGATCCTCTCGATC+TGG | 0.506004 | 1.4:+46547389 | MS.gene40877:CDS |
| ATGCCGCTGCACTCATTGAC+AGG | 0.508323 | 1.4:-46547516 | None:intergenic |
| GGAAGGAAGAGAGCCACAAA+GGG | 0.523325 | 1.4:+46548079 | MS.gene40877:CDS |
| GGATCTTGCTCTATGGGCAC+TGG | 0.526165 | 1.4:+46547904 | MS.gene40877:CDS |
| TCCATATGTTTCAGCATCAG+AGG | 0.529796 | 1.4:+46547798 | MS.gene40877:CDS |
| CTTTGCAGATCCCTATAAGA+AGG | 0.530818 | 1.4:-46548347 | None:intergenic |
| TGTCAGATCCAACACTTCCA+TGG | 0.535398 | 1.4:+46547771 | MS.gene40877:CDS |
| ACTTCTATTTGTTGGTGGAG+AGG | 0.537885 | 1.4:+46547413 | MS.gene40877:CDS |
| CTTTGCAGGATCTCAGACAA+TGG | 0.545420 | 1.4:+46547060 | None:intergenic |
| AGGAAGGAAGAGAGCCACAA+AGG | 0.547575 | 1.4:+46548078 | MS.gene40877:CDS |
| TGGAAATGCCATGGAAGTGT+TGG | 0.562231 | 1.4:-46547779 | None:intergenic |
| AATTCCTAAATCATCTCCAC+AGG | 0.570593 | 1.4:-46547863 | None:intergenic |
| TCAGGATTTGCTGAAGCCTG+TGG | 0.581197 | 1.4:+46547847 | MS.gene40877:CDS |
| GATTTGGTTGTGTTCTGCAA+TGG | 0.583901 | 1.4:+46548108 | MS.gene40877:CDS |
| CTTCTTATAGGGATCTGCAA+AGG | 0.590622 | 1.4:+46548348 | MS.gene40877:CDS |
| TCTGAAGACTGTAACTGCAA+AGG | 0.600305 | 1.4:-46547573 | None:intergenic |
| GGCCTATTTGACCAAGAGGA+AGG | 0.601192 | 1.4:+46548062 | MS.gene40877:intron |
| AGCTCTTTCAGACTTGCTCA+AGG | 0.607208 | 1.4:+46547623 | MS.gene40877:CDS |
| TACAGGCCTATTTGACCAAG+AGG | 0.610661 | 1.4:+46548058 | MS.gene40877:intron |
| TGAGCTTATCAGCACTGTAG+AGG | 0.612011 | 1.4:+46548266 | MS.gene40877:CDS |
| AATAGAAGTGCCAGATCGAG+AGG | 0.625453 | 1.4:-46547399 | None:intergenic |
| GTTGACAGAACACAATCTGA+AGG | 0.628507 | 1.4:+46548150 | MS.gene40877:CDS |
| TGCCCATAGAGCAAGATCCA+AGG | 0.630609 | 1.4:-46547900 | None:intergenic |
| TTTATGTATCAGATATCTCG+AGG | 0.646281 | 1.4:+46548312 | MS.gene40877:CDS |
| CAGCACTGTAGAGGAATCTG+GGG | 0.657625 | 1.4:+46548275 | MS.gene40877:CDS |
| ATTCCTGTCAATGAGTGCAG+CGG | 0.674664 | 1.4:+46547513 | MS.gene40877:CDS |
| TGAAACATATGGAAATGCCA+TGG | 0.679330 | 1.4:-46547788 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TCCAAATAAAAAATTGAAAA+AGG | - | chr1.4:46547352-46547371 | None:intergenic | 15.0% |
| !!! | TCCTTTTTCAATTTTTTATT+TGG | + | chr1.4:46547348-46547367 | MS.gene40877:intron | 15.0% |
| !! | ATTATCTATTGTAACTTTAC+AGG | + | chr1.4:46548041-46548060 | MS.gene40877:intron | 20.0% |
| ! | AGAAATGACCTGATAATTAA+CGG | - | chr1.4:46547097-46547116 | None:intergenic | 25.0% |
| ! | AGTTTCCTATTATATATGCT+GGG | + | chr1.4:46547194-46547213 | MS.gene40877:intron | 25.0% |
| ! | ATCTCTCTCTTAAAACTTTA+CGG | + | chr1.4:46547232-46547251 | MS.gene40877:intron | 25.0% |
| ! | CAAGACAAGAAATGTAAAAT+AGG | - | chr1.4:46547484-46547503 | None:intergenic | 25.0% |
| ! | TAGTTTCCTATTATATATGC+TGG | + | chr1.4:46547193-46547212 | MS.gene40877:intron | 25.0% |
| !! | CATGCATGTTGTATATTTTT+AGG | + | chr1.4:46548231-46548250 | MS.gene40877:intron | 25.0% |
| !! | TTTTAGATCCTTCTTTGTAA+TGG | + | chr1.4:46548002-46548021 | MS.gene40877:intron | 25.0% |
| !!! | AAAGTTTTAAGAGAGAGATA+GGG | - | chr1.4:46547231-46547250 | None:intergenic | 25.0% |
| !!! | ATGAAGTTTTTTGTGTAAAC+CGG | + | chr1.4:46547675-46547694 | MS.gene40877:intron | 25.0% |
| !!! | TAAAGTTTTAAGAGAGAGAT+AGG | - | chr1.4:46547232-46547251 | None:intergenic | 25.0% |
| AATCCAGTATCCTTCTTATA+GGG | + | chr1.4:46548337-46548356 | MS.gene40877:CDS | 30.0% | |
| CACAAAAAACTTCATAGACT+AGG | - | chr1.4:46547670-46547689 | None:intergenic | 30.0% | |
| GTTTCCTATTATATATGCTG+GGG | + | chr1.4:46547195-46547214 | MS.gene40877:intron | 30.0% | |
| TACATCTACTTCAGAGTTAT+GGG | + | chr1.4:46548173-46548192 | MS.gene40877:intron | 30.0% | |
| TCTTAAAACTTTACGGAGAT+GGG | + | chr1.4:46547239-46547258 | MS.gene40877:intron | 30.0% | |
| TTTATGTATCAGATATCTCG+AGG | + | chr1.4:46548312-46548331 | MS.gene40877:CDS | 30.0% | |
| ! | TGATAGCATTTGTTCAGTTT+TGG | + | chr1.4:46547287-46547306 | MS.gene40877:intron | 30.0% |
| !! | TTTTATTTGGACAGTGCAAA+GGG | + | chr1.4:46547361-46547380 | MS.gene40877:intron | 30.0% |
| !! | TTTTTATTTGGACAGTGCAA+AGG | + | chr1.4:46547360-46547379 | MS.gene40877:intron | 30.0% |
| AATTCCTAAATCATCTCCAC+AGG | - | chr1.4:46547866-46547885 | None:intergenic | 35.0% | |
| AGAACCCCAGCATATATAAT+AGG | - | chr1.4:46547202-46547221 | None:intergenic | 35.0% | |
| ATACAACATGCATGAGAACT+CGG | - | chr1.4:46548225-46548244 | None:intergenic | 35.0% | |
| CAATCCAGTATCCTTCTTAT+AGG | + | chr1.4:46548336-46548355 | MS.gene40877:CDS | 35.0% | |
| CAGATAAAACAGACTTTGCT+AGG | - | chr1.4:46547128-46547147 | None:intergenic | 35.0% | |
| CTCTTAAAACTTTACGGAGA+TGG | + | chr1.4:46547238-46547257 | MS.gene40877:intron | 35.0% | |
| GTACATCTACTTCAGAGTTA+TGG | + | chr1.4:46548172-46548191 | MS.gene40877:intron | 35.0% | |
| TCATGCAACCATTACAAAGA+AGG | - | chr1.4:46548013-46548032 | None:intergenic | 35.0% | |
| TCATGTGACATGACTGATTA+TGG | + | chr1.4:46547977-46547996 | MS.gene40877:intron | 35.0% | |
| TGAAACATATGGAAATGCCA+TGG | - | chr1.4:46547791-46547810 | None:intergenic | 35.0% | |
| TGTGGAGATGATTTAGGAAT+TGG | + | chr1.4:46547865-46547884 | MS.gene40877:CDS | 35.0% | |
| ! | TCAACATTTTGTGAAGCTTG+AGG | - | chr1.4:46548135-46548154 | None:intergenic | 35.0% |
| ! | TTTTTGTGTAAACCGGATTC+AGG | + | chr1.4:46547682-46547701 | MS.gene40877:intron | 35.0% |
| !! | AAGTCTGTTTTATCTGAAGC+AGG | + | chr1.4:46547132-46547151 | MS.gene40877:CDS | 35.0% |
| !! | TTTTAAGAGAGAGATAGGGA+GGG | - | chr1.4:46547227-46547246 | None:intergenic | 35.0% |
| AAGAATCCTGCTCATGACAA+TGG | - | chr1.4:46547750-46547769 | None:intergenic | 40.0% | |
| CCACAAAGGGAAAACAGATT+TGG | + | chr1.4:46548092-46548111 | MS.gene40877:CDS | 40.0% | |
| CTTCTTATAGGGATCTGCAA+AGG | + | chr1.4:46548348-46548367 | MS.gene40877:CDS | 40.0% | |
| CTTTGCAGATCCCTATAAGA+AGG | - | chr1.4:46548350-46548369 | None:intergenic | 40.0% | |
| GAAGGACTCCGTTAATTATC+AGG | + | chr1.4:46547086-46547105 | MS.gene40877:CDS | 40.0% | |
| GATCCCTATAAGAAGGATAC+TGG | - | chr1.4:46548343-46548362 | None:intergenic | 40.0% | |
| GATCTGGCACTTCTATTTGT+TGG | + | chr1.4:46547405-46547424 | MS.gene40877:CDS | 40.0% | |
| GTGCAAAGGGAAGAAATTTC+AGG | + | chr1.4:46547374-46547393 | MS.gene40877:intron | 40.0% | |
| GTTGACAGAACACAATCTGA+AGG | + | chr1.4:46548150-46548169 | MS.gene40877:CDS | 40.0% | |
| TCCATATGTTTCAGCATCAG+AGG | + | chr1.4:46547798-46547817 | MS.gene40877:CDS | 40.0% | |
| TCCTCTGATGCTGAAACATA+TGG | - | chr1.4:46547802-46547821 | None:intergenic | 40.0% | |
| TCTGAAGACTGTAACTGCAA+AGG | - | chr1.4:46547576-46547595 | None:intergenic | 40.0% | |
| TGTGAACTTGGAAGACTCAT+TGG | + | chr1.4:46547822-46547841 | MS.gene40877:CDS | 40.0% | |
| TTCCTTCCTCTTGGTCAAAT+AGG | - | chr1.4:46548067-46548086 | None:intergenic | 40.0% | |
| TTCCTTGGATCTTGCTCTAT+GGG | + | chr1.4:46547898-46547917 | MS.gene40877:CDS | 40.0% | |
| ! | ACAGACTTTGCTAGGTCTTT+TGG | - | chr1.4:46547120-46547139 | None:intergenic | 40.0% |
| ! | ACTTCTATTTGTTGGTGGAG+AGG | + | chr1.4:46547413-46547432 | MS.gene40877:CDS | 40.0% |
| ! | AGCAGGATGGTCAAATTTTC+TGG | + | chr1.4:46547149-46547168 | MS.gene40877:CDS | 40.0% |
| ! | CCAAATCTGTTTTCCCTTTG+TGG | - | chr1.4:46548095-46548114 | None:intergenic | 40.0% |
| ! | GATTTGGTTGTGTTCTGCAA+TGG | + | chr1.4:46548108-46548127 | MS.gene40877:CDS | 40.0% |
| ! | TTCTATCATTGCTGTTGCTG+CGG | + | chr1.4:46547314-46547333 | MS.gene40877:intron | 40.0% |
| !! | CTGTTTTATCTGAAGCAGGA+TGG | + | chr1.4:46547136-46547155 | MS.gene40877:CDS | 40.0% |
| !! | GATCTCAGACAATGGATTGA+AGG | + | chr1.4:46547068-46547087 | MS.gene40877:CDS | 40.0% |
| !! | TCCATTAGCTTTCCTGAATC+CGG | - | chr1.4:46547697-46547716 | None:intergenic | 40.0% |
| !! | TTGGAAGACTCATTGGTTTC+AGG | + | chr1.4:46547829-46547848 | MS.gene40877:CDS | 40.0% |
| !!! | GTTTTAAGAGAGAGATAGGG+AGG | - | chr1.4:46547228-46547247 | None:intergenic | 40.0% |
| ACCGGATTCAGGAAAGCTAA+TGG | + | chr1.4:46547693-46547712 | MS.gene40877:intron | 45.0% | |
| AGCATCAGAGGATGTGAACT+TGG | + | chr1.4:46547810-46547829 | MS.gene40877:CDS | 45.0% | |
| AGGGATCTGCAAAGGTTTCT+AGG | + | chr1.4:46548356-46548375 | MS.gene40877:CDS | 45.0% | |
| ATCAGCACTGTAGAGGAATC+TGG | + | chr1.4:46548273-46548292 | MS.gene40877:CDS | 45.0% | |
| ATTCCTGTCAATGAGTGCAG+CGG | + | chr1.4:46547513-46547532 | MS.gene40877:CDS | 45.0% | |
| ATTTCAGGATCCTCTCGATC+TGG | + | chr1.4:46547389-46547408 | MS.gene40877:CDS | 45.0% | |
| GAAGCCTGTGGAGATGATTT+AGG | + | chr1.4:46547859-46547878 | MS.gene40877:CDS | 45.0% | |
| GTTCCTTGGATCTTGCTCTA+TGG | + | chr1.4:46547897-46547916 | MS.gene40877:CDS | 45.0% | |
| TACAGGCCTATTTGACCAAG+AGG | + | chr1.4:46548058-46548077 | MS.gene40877:intron | 45.0% | |
| TCAGCACTGTAGAGGAATCT+GGG | + | chr1.4:46548274-46548293 | MS.gene40877:CDS | 45.0% | |
| TGAGCTTATCAGCACTGTAG+AGG | + | chr1.4:46548266-46548285 | MS.gene40877:CDS | 45.0% | |
| TGTCAGATCCAACACTTCCA+TGG | + | chr1.4:46547771-46547790 | MS.gene40877:CDS | 45.0% | |
| ! | AGCTCTTTCAGACTTGCTCA+AGG | + | chr1.4:46547623-46547642 | MS.gene40877:CDS | 45.0% |
| ! | CTGGCACTTCTATTTGTTGG+TGG | + | chr1.4:46547408-46547427 | MS.gene40877:CDS | 45.0% |
| ! | TGGAAATGCCATGGAAGTGT+TGG | - | chr1.4:46547782-46547801 | None:intergenic | 45.0% |
| !! | AATAGAAGTGCCAGATCGAG+AGG | - | chr1.4:46547402-46547421 | None:intergenic | 45.0% |
| AGGAAGGAAGAGAGCCACAA+AGG | + | chr1.4:46548078-46548097 | MS.gene40877:CDS | 50.0% | |
| ATTGGCAACGTTGCGTTCCT+TGG | + | chr1.4:46547883-46547902 | MS.gene40877:CDS | 50.0% | |
| CACTCTCCATTGTCATGAGC+AGG | + | chr1.4:46547741-46547760 | MS.gene40877:intron | 50.0% | |
| CAGCACTGTAGAGGAATCTG+GGG | + | chr1.4:46548275-46548294 | MS.gene40877:CDS | 50.0% | |
| CATGCATGAGAACTCGGCAA+TGG | - | chr1.4:46548219-46548238 | None:intergenic | 50.0% | |
| GGAAGGAAGAGAGCCACAAA+GGG | + | chr1.4:46548079-46548098 | MS.gene40877:CDS | 50.0% | |
| GGCCTATTTGACCAAGAGGA+AGG | + | chr1.4:46548062-46548081 | MS.gene40877:intron | 50.0% | |
| TGCCCATAGAGCAAGATCCA+AGG | - | chr1.4:46547903-46547922 | None:intergenic | 50.0% | |
| !! | TCAGGATTTGCTGAAGCCTG+TGG | + | chr1.4:46547847-46547866 | MS.gene40877:CDS | 50.0% |
| ATGCCGCTGCACTCATTGAC+AGG | - | chr1.4:46547519-46547538 | None:intergenic | 55.0% | |
| GGATCTTGCTCTATGGGCAC+TGG | + | chr1.4:46547904-46547923 | MS.gene40877:CDS | 55.0% | |
| GTGGCTCTCTTCCTTCCTCT+TGG | - | chr1.4:46548076-46548095 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 46547068 | 46548377 | 46547068 | ID=MS.gene40877 |
| chr1.4 | mRNA | 46547068 | 46548377 | 46547068 | ID=MS.gene40877.t1;Parent=MS.gene40877 |
| chr1.4 | exon | 46547068 | 46547170 | 46547068 | ID=MS.gene40877.t1.exon1;Parent=MS.gene40877.t1 |
| chr1.4 | CDS | 46547068 | 46547170 | 46547068 | ID=cds.MS.gene40877.t1;Parent=MS.gene40877.t1 |
| chr1.4 | exon | 46547375 | 46547434 | 46547375 | ID=MS.gene40877.t1.exon2;Parent=MS.gene40877.t1 |
| chr1.4 | CDS | 46547375 | 46547434 | 46547375 | ID=cds.MS.gene40877.t1;Parent=MS.gene40877.t1 |
| chr1.4 | exon | 46547513 | 46547644 | 46547513 | ID=MS.gene40877.t1.exon3;Parent=MS.gene40877.t1 |
| chr1.4 | CDS | 46547513 | 46547644 | 46547513 | ID=cds.MS.gene40877.t1;Parent=MS.gene40877.t1 |
| chr1.4 | exon | 46547763 | 46547963 | 46547763 | ID=MS.gene40877.t1.exon4;Parent=MS.gene40877.t1 |
| chr1.4 | CDS | 46547763 | 46547963 | 46547763 | ID=cds.MS.gene40877.t1;Parent=MS.gene40877.t1 |
| chr1.4 | exon | 46548063 | 46548171 | 46548063 | ID=MS.gene40877.t1.exon5;Parent=MS.gene40877.t1 |
| chr1.4 | CDS | 46548063 | 46548171 | 46548063 | ID=cds.MS.gene40877.t1;Parent=MS.gene40877.t1 |
| chr1.4 | exon | 46548253 | 46548377 | 46548253 | ID=MS.gene40877.t1.exon6;Parent=MS.gene40877.t1 |
| chr1.4 | CDS | 46548253 | 46548377 | 46548253 | ID=cds.MS.gene40877.t1;Parent=MS.gene40877.t1 |
| Gene Sequence |
| Protein sequence |
