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.gene064340.t1 | XP_013459878.1 | 98.1 | 103 | 2 | 0 | 2 | 104 | 43 | 145 | 1.40E-49 | 205.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene064340.t1 | Q6K687 | 63.1 | 103 | 37 | 1 | 2 | 103 | 47 | 149 | 8.8e-29 | 127.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene064340.t1 | A0A072UVS7 | 98.1 | 103 | 2 | 0 | 2 | 104 | 43 | 145 | 9.9e-50 | 205.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050361 | MS.gene064340 | 0.803738 | 3.02E-49 | -1.69E-46 |
| MS.gene050646 | MS.gene064340 | 0.809346 | 1.98E-50 | -1.69E-46 |
| MS.gene052242 | MS.gene064340 | -0.804131 | 2.50E-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene064340.t1 | MTR_3g053700 | 98.058 | 103 | 2 | 0 | 2 | 104 | 43 | 145 | 3.07e-69 | 214 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene064340.t1 | AT2G24830 | 59.615 | 104 | 35 | 2 | 2 | 104 | 43 | 140 | 5.21e-31 | 114 |
Find 18 sgRNAs with CRISPR-Local
Find 35 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATAATAATCTCGCACGCTTT+AGG | 0.280179 | 3.1:-40683841 | None:intergenic |
| GGAACTTGTTCAGGCAATTA+AGG | 0.282463 | 3.1:+40683796 | MS.gene064340:CDS |
| GGTTCACGAGGAACTTGTTC+AGG | 0.382347 | 3.1:+40683787 | MS.gene064340:intron |
| TGTAGATTCCGTTACAAAGA+TGG | 0.463502 | 3.1:+40683989 | MS.gene064340:CDS |
| CAATGGTCAAGTGATGCAAT+TGG | 0.476631 | 3.1:+40684021 | MS.gene064340:CDS |
| GGCTCTGGTTCAACATCTGC+AGG | 0.485074 | 3.1:-40683932 | None:intergenic |
| GCACAGCACTGTGTCTGCTT+CGG | 0.493677 | 3.1:-40683864 | None:intergenic |
| TCCTACATCTGAAAATATGC+TGG | 0.524946 | 3.1:+40684075 | MS.gene064340:CDS |
| GCAATTAAGGATGCCGAGGA+AGG | 0.547779 | 3.1:+40683809 | MS.gene064340:CDS |
| TCCGTTACAAAGATGGGCGT+TGG | 0.550166 | 3.1:+40683996 | MS.gene064340:CDS |
| GTAGATTCCGTTACAAAGAT+GGG | 0.552313 | 3.1:+40683990 | MS.gene064340:CDS |
| AAAGATGGGCGTTGGTACAA+TGG | 0.554183 | 3.1:+40684004 | MS.gene064340:CDS |
| TCAACATCTGCAGGATCAAG+TGG | 0.594691 | 3.1:-40683923 | None:intergenic |
| TAGGTGAAGAAGTCCTTCCT+CGG | 0.599243 | 3.1:-40683822 | None:intergenic |
| ACCAACGCCCATCTTTGTAA+CGG | 0.601052 | 3.1:-40683997 | None:intergenic |
| GATGCAATTGGATAATTCAG+TGG | 0.621983 | 3.1:+40684033 | MS.gene064340:CDS |
| GTCGATATCCCAGGTTCACG+AGG | 0.623116 | 3.1:+40683775 | MS.gene064340:intron |
| TCAGGCAATTAAGGATGCCG+AGG | 0.649742 | 3.1:+40683805 | MS.gene064340:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AGAATATTGTATTCTCACAT+GGG | + | chr3.1:40683622-40683641 | MS.gene064340:intron | 25.0% |
| ! | ATGTGAGAATACAATATTCT+AGG | - | chr3.1:40683622-40683641 | None:intergenic | 25.0% |
| ! | TAGAATATTGTATTCTCACA+TGG | + | chr3.1:40683621-40683640 | MS.gene064340:intron | 25.0% |
| !! | GAAGAAAAAAGCTTTTCTAT+TGG | + | chr3.1:40683959-40683978 | MS.gene064340:CDS | 25.0% |
| !!! | GATTTTAACTACCATGATTA+TGG | + | chr3.1:40683702-40683721 | MS.gene064340:intron | 25.0% |
| AAACATAGGTTCGATTGATA+TGG | + | chr3.1:40683669-40683688 | MS.gene064340:intron | 30.0% | |
| TTAAAATTTGTCGATATCCC+AGG | + | chr3.1:40683766-40683785 | MS.gene064340:intron | 30.0% | |
| TTGAATGATAGCCATAATCA+TGG | - | chr3.1:40683716-40683735 | None:intergenic | 30.0% | |
| ! | TTTTGCTGAAGAAAAGAAAG+TGG | + | chr3.1:40683898-40683917 | MS.gene064340:CDS | 30.0% |
| !!! | GAAAAGCTTTTTTCTTCTAG+CGG | - | chr3.1:40683956-40683975 | None:intergenic | 30.0% |
| ATAATAATCTCGCACGCTTT+AGG | - | chr3.1:40683844-40683863 | None:intergenic | 35.0% | |
| ATTCAGTCTAAAAACAGCCT+CGG | - | chr3.1:40683745-40683764 | None:intergenic | 35.0% | |
| CTATCATTCAAAGAATTCCG+AGG | + | chr3.1:40683725-40683744 | MS.gene064340:intron | 35.0% | |
| GATGCAATTGGATAATTCAG+TGG | + | chr3.1:40684033-40684052 | MS.gene064340:CDS | 35.0% | |
| GTAGATTCCGTTACAAAGAT+GGG | + | chr3.1:40683990-40684009 | MS.gene064340:CDS | 35.0% | |
| TAGAAACTGGTGCAAAACAT+AGG | + | chr3.1:40683655-40683674 | MS.gene064340:intron | 35.0% | |
| TGTAGATTCCGTTACAAAGA+TGG | + | chr3.1:40683989-40684008 | MS.gene064340:CDS | 35.0% | |
| CAATGGTCAAGTGATGCAAT+TGG | + | chr3.1:40684021-40684040 | MS.gene064340:CDS | 40.0% | |
| GGGATTGAGATTGTAGAAAC+TGG | + | chr3.1:40683642-40683661 | MS.gene064340:intron | 40.0% | |
| TAGGTTCGATTGATATGGCT+TGG | + | chr3.1:40683674-40683693 | MS.gene064340:intron | 40.0% | |
| ! | GGAACTTGTTCAGGCAATTA+AGG | + | chr3.1:40683796-40683815 | MS.gene064340:CDS | 40.0% |
| AACAAGTTCCTCGTGAACCT+GGG | - | chr3.1:40683786-40683805 | None:intergenic | 45.0% | |
| ACCAACGCCCATCTTTGTAA+CGG | - | chr3.1:40684000-40684019 | None:intergenic | 45.0% | |
| TAGGTGAAGAAGTCCTTCCT+CGG | - | chr3.1:40683825-40683844 | None:intergenic | 45.0% | |
| TCAACATCTGCAGGATCAAG+TGG | - | chr3.1:40683926-40683945 | None:intergenic | 45.0% | |
| !! | AAAGATGGGCGTTGGTACAA+TGG | + | chr3.1:40684004-40684023 | MS.gene064340:CDS | 45.0% |
| !!! | CTTTTTTCTTCTAGCGGCTC+TGG | - | chr3.1:40683950-40683969 | None:intergenic | 45.0% |
| GAACAAGTTCCTCGTGAACC+TGG | - | chr3.1:40683787-40683806 | None:intergenic | 50.0% | |
| GCAATTAAGGATGCCGAGGA+AGG | + | chr3.1:40683809-40683828 | MS.gene064340:CDS | 50.0% | |
| TCAGGCAATTAAGGATGCCG+AGG | + | chr3.1:40683805-40683824 | MS.gene064340:CDS | 50.0% | |
| TCCGTTACAAAGATGGGCGT+TGG | + | chr3.1:40683996-40684015 | MS.gene064340:CDS | 50.0% | |
| ! | GGTTCACGAGGAACTTGTTC+AGG | + | chr3.1:40683787-40683806 | MS.gene064340:intron | 50.0% |
| GCACAGCACTGTGTCTGCTT+CGG | - | chr3.1:40683867-40683886 | None:intergenic | 55.0% | |
| GTCGATATCCCAGGTTCACG+AGG | + | chr3.1:40683775-40683794 | MS.gene064340:intron | 55.0% | |
| ! | GGCTCTGGTTCAACATCTGC+AGG | - | chr3.1:40683935-40683954 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 40683563 | 40684096 | 40683563 | ID=MS.gene064340 |
| chr3.1 | mRNA | 40683563 | 40684096 | 40683563 | ID=MS.gene064340.t1;Parent=MS.gene064340 |
| chr3.1 | exon | 40683563 | 40683565 | 40683563 | ID=MS.gene064340.t1.exon1;Parent=MS.gene064340.t1 |
| chr3.1 | CDS | 40683563 | 40683565 | 40683563 | ID=cds.MS.gene064340.t1;Parent=MS.gene064340.t1 |
| chr3.1 | exon | 40683788 | 40684096 | 40683788 | ID=MS.gene064340.t1.exon2;Parent=MS.gene064340.t1 |
| chr3.1 | CDS | 40683788 | 40684096 | 40683788 | ID=cds.MS.gene064340.t1;Parent=MS.gene064340.t1 |
| Gene Sequence |
| Protein sequence |
