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.gene90246.t1 | XP_003608370.3 | 94.2 | 243 | 7 | 1 | 1 | 236 | 32 | 274 | 5.60E-115 | 423.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene90246.t1 | Q9LM24 | 53.7 | 82 | 38 | 0 | 95 | 176 | 189 | 270 | 5.6e-15 | 82.8 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene90246.t1 | B0F6T0 | 94.2 | 242 | 7 | 1 | 1 | 235 | 197 | 438 | 1.5e-114 | 421.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene053599 | MS.gene90246 | 0.82843 | 9.03E-55 | -1.69E-46 |
| MS.gene059015 | MS.gene90246 | 0.806095 | 9.72E-50 | -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.gene90246.t1 | MTR_4g093150 | 93.427 | 213 | 7 | 1 | 31 | 236 | 1 | 213 | 9.79e-141 | 393 |
| MS.gene90246.t1 | MTR_2g009770 | 52.903 | 155 | 72 | 1 | 61 | 214 | 98 | 252 | 6.00e-36 | 128 |
| MS.gene90246.t1 | MTR_1g054835 | 36.585 | 123 | 76 | 1 | 78 | 198 | 42 | 164 | 3.45e-13 | 68.6 |
| MS.gene90246.t1 | MTR_1g070350 | 34.167 | 120 | 77 | 1 | 73 | 192 | 509 | 626 | 2.50e-12 | 66.2 |
| MS.gene90246.t1 | MTR_5g078300 | 38.750 | 80 | 49 | 0 | 91 | 170 | 612 | 691 | 1.23e-11 | 64.3 |
| MS.gene90246.t1 | MTR_4g107310 | 31.250 | 208 | 122 | 7 | 43 | 234 | 262 | 464 | 6.76e-11 | 62.0 |
| MS.gene90246.t1 | MTR_0168s0060 | 33.333 | 132 | 85 | 1 | 75 | 203 | 307 | 438 | 7.16e-11 | 62.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene90246.t1 | AT5G16720 | 37.000 | 100 | 63 | 0 | 99 | 198 | 360 | 459 | 3.62e-15 | 74.7 |
| MS.gene90246.t1 | AT1G70750 | 34.783 | 115 | 72 | 1 | 96 | 207 | 410 | 524 | 2.62e-14 | 72.0 |
| MS.gene90246.t1 | AT1G74830 | 37.500 | 96 | 60 | 0 | 99 | 194 | 305 | 400 | 3.54e-14 | 71.6 |
| MS.gene90246.t1 | AT1G18265 | 52.273 | 88 | 42 | 0 | 89 | 176 | 183 | 270 | 4.92e-14 | 70.1 |
| MS.gene90246.t1 | AT5G06560 | 35.000 | 100 | 65 | 0 | 99 | 198 | 74 | 173 | 2.60e-12 | 66.2 |
Find 53 sgRNAs with CRISPR-Local
Find 57 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATCCCATCATTGGAAAA+TGG | 0.195569 | 4.2:-20131077 | MS.gene90246:CDS |
| TGAGTCGAAGAATTGGTATT+AGG | 0.242769 | 4.2:+20131047 | None:intergenic |
| TCCCACAATTCGTTTATGTT+TGG | 0.317458 | 4.2:-20131129 | MS.gene90246:CDS |
| GAAGAACTCAAGCAATATCT+TGG | 0.374861 | 4.2:-20130645 | MS.gene90246:CDS |
| GAGTCGAAGAATTGGTATTA+GGG | 0.388847 | 4.2:+20131048 | None:intergenic |
| TGATGAAGTGATCGAGTCTT+TGG | 0.389665 | 4.2:-20130733 | MS.gene90246:CDS |
| GAAAGCTAATGCGGCGTTTG+CGG | 0.398717 | 4.2:-20130898 | MS.gene90246:CDS |
| AAATCCCATCATTGGAAAAT+GGG | 0.404381 | 4.2:-20131076 | MS.gene90246:CDS |
| AAGAACTCAAGCAATATCTT+GGG | 0.416257 | 4.2:-20130644 | MS.gene90246:CDS |
| TCTCTTCTGAGTCGAAGAAT+TGG | 0.418771 | 4.2:+20131040 | None:intergenic |
| GAAGAGATTGAATGGTCGTT+TGG | 0.421960 | 4.2:-20131024 | MS.gene90246:CDS |
| ATGTTTGGAAAACTTTGTTT+TGG | 0.423857 | 4.2:-20131114 | MS.gene90246:CDS |
| GTGTGTTGGAAGAGCAGTTG+AGG | 0.428235 | 4.2:-20130677 | MS.gene90246:CDS |
| TTCCAAACATAAACGAATTG+TGG | 0.432068 | 4.2:+20131127 | None:intergenic |
| TCCAAACATAAACGAATTGT+GGG | 0.444313 | 4.2:+20131128 | None:intergenic |
| AAGCAATATCTTGGGGAGGA+TGG | 0.455312 | 4.2:-20130636 | MS.gene90246:CDS |
| AGGCAATGGCGATGATTCTC+AGG | 0.455510 | 4.2:-20130833 | MS.gene90246:CDS |
| TGAATGGTCGTTTGGAAGAT+CGG | 0.461435 | 4.2:-20131016 | MS.gene90246:CDS |
| GGCTTCTTCATCTGCGGAAG+AGG | 0.462933 | 4.2:-20130853 | MS.gene90246:CDS |
| GTAGTTAGCTCTTCTGAAAA+CGG | 0.463530 | 4.2:-20130549 | MS.gene90246:CDS |
| GGCGTTTGCGGAGCTTGATA+AGG | 0.464641 | 4.2:-20130886 | MS.gene90246:CDS |
| TCAAGATTCTTCACTTCGGT+TGG | 0.466081 | 4.2:-20131196 | MS.gene90246:CDS |
| TCTCGAGGCATGAATCTCAT+AGG | 0.486643 | 4.2:-20130701 | MS.gene90246:CDS |
| TGTGTTGGAAGAGCAGTTGA+GGG | 0.487289 | 4.2:-20130676 | MS.gene90246:CDS |
| AGCAATATCTTGGGGAGGAT+GGG | 0.488013 | 4.2:-20130635 | MS.gene90246:CDS |
| AAGCTGATGTTAGTAGAGAT+AGG | 0.499821 | 4.2:-20130599 | MS.gene90246:CDS |
| GAAAGATGATAGTGAAATGC+AGG | 0.502055 | 4.2:-20130985 | MS.gene90246:CDS |
| TCGACTCAGAAGAGATTGAA+TGG | 0.516087 | 4.2:-20131032 | MS.gene90246:CDS |
| TTCATCTGCGGAAGAGGCAA+TGG | 0.519311 | 4.2:-20130847 | MS.gene90246:CDS |
| TACTAACATCAGCTTCAAGT+TGG | 0.521972 | 4.2:+20130607 | None:intergenic |
| CACAACCTTGGAAACTTACA+AGG | 0.522214 | 4.2:+20130518 | None:intergenic |
| AGCGAATCAATTCCGCAGAA+TGG | 0.525489 | 4.2:-20130778 | MS.gene90246:CDS |
| TGGTCGTTTGGAAGATCGGT+TGG | 0.527702 | 4.2:-20131012 | MS.gene90246:CDS |
| TCAAACACCTCATCCACATC+AGG | 0.540118 | 4.2:+20130960 | None:intergenic |
| TGTTTCAAGATTCTTCACTT+CGG | 0.555363 | 4.2:-20131200 | MS.gene90246:CDS |
| AAGTGATCGAGTCTTTGGAA+TGG | 0.572333 | 4.2:-20130728 | MS.gene90246:CDS |
| TGAATCTCATAGGAGTGTGT+TGG | 0.573968 | 4.2:-20130691 | MS.gene90246:CDS |
| GTTTGGAAGATCGGTTGGAA+AGG | 0.591359 | 4.2:-20131007 | MS.gene90246:CDS |
| TTGCGGAGCTTGATAAGGAA+CGG | 0.610513 | 4.2:-20130881 | MS.gene90246:CDS |
| GCAGGTTCCTGATGTGGATG+AGG | 0.610761 | 4.2:-20130967 | MS.gene90246:CDS |
| CTTTGGAATGGACGATCTCG+AGG | 0.612708 | 4.2:-20130716 | MS.gene90246:CDS |
| AGTTGATAAAGATTGAGCGC+AGG | 0.614343 | 4.2:-20130920 | MS.gene90246:CDS |
| ACCTTGGAAACTTACAAGGT+CGG | 0.615530 | 4.2:+20130522 | None:intergenic |
| ACTTCTGTTCAGCCATTCTG+CGG | 0.620830 | 4.2:+20130766 | None:intergenic |
| TGAAATGCAGGTTCCTGATG+TGG | 0.621860 | 4.2:-20130973 | MS.gene90246:CDS |
| AAAATCACAGAGAAAACGTA+GGG | 0.635297 | 4.2:+20131160 | None:intergenic |
| GCTTCAGAGTGAGAAGAGCT+CGG | 0.636966 | 4.2:-20130811 | MS.gene90246:CDS |
| GCTTGATAAGGAACGGACAG+CGG | 0.649607 | 4.2:-20130874 | MS.gene90246:CDS |
| TGAGCGCAGGAAAGCTAATG+CGG | 0.653423 | 4.2:-20130907 | MS.gene90246:CDS |
| AGAACTCAAGCAATATCTTG+GGG | 0.655002 | 4.2:-20130643 | MS.gene90246:CDS |
| ACTCAAGCAATATCTTGGGG+AGG | 0.657753 | 4.2:-20130640 | MS.gene90246:CDS |
| GACAGCGGCTTCTTCATCTG+CGG | 0.673445 | 4.2:-20130859 | MS.gene90246:CDS |
| CAAAATCACAGAGAAAACGT+AGG | 0.688372 | 4.2:+20131159 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TAAGAAAAAAATCCCATCAT+TGG | - | chr4.2:20130670-20130689 | MS.gene90246:CDS | 25.0% |
| !!! | ATGTTTGGAAAACTTTGTTT+TGG | - | chr4.2:20130640-20130659 | MS.gene90246:CDS | 25.0% |
| AAAATCACAGAGAAAACGTA+GGG | + | chr4.2:20130597-20130616 | None:intergenic | 30.0% | |
| AAAATCCCATCATTGGAAAA+TGG | - | chr4.2:20130677-20130696 | MS.gene90246:CDS | 30.0% | |
| AAATCCCATCATTGGAAAAT+GGG | - | chr4.2:20130678-20130697 | MS.gene90246:CDS | 30.0% | |
| AAGAACTCAAGCAATATCTT+GGG | - | chr4.2:20131110-20131129 | MS.gene90246:CDS | 30.0% | |
| TCCAAACATAAACGAATTGT+GGG | + | chr4.2:20130629-20130648 | None:intergenic | 30.0% | |
| TGTTTCAAGATTCTTCACTT+CGG | - | chr4.2:20130554-20130573 | MS.gene90246:CDS | 30.0% | |
| TTCCAAACATAAACGAATTG+TGG | + | chr4.2:20130630-20130649 | None:intergenic | 30.0% | |
| AAGCTGATGTTAGTAGAGAT+AGG | - | chr4.2:20131155-20131174 | MS.gene90246:CDS | 35.0% | |
| AGAACTCAAGCAATATCTTG+GGG | - | chr4.2:20131111-20131130 | MS.gene90246:CDS | 35.0% | |
| CAAAATCACAGAGAAAACGT+AGG | + | chr4.2:20130598-20130617 | None:intergenic | 35.0% | |
| GAAGAACTCAAGCAATATCT+TGG | - | chr4.2:20131109-20131128 | MS.gene90246:CDS | 35.0% | |
| GAGTCGAAGAATTGGTATTA+GGG | + | chr4.2:20130709-20130728 | None:intergenic | 35.0% | |
| TACTAACATCAGCTTCAAGT+TGG | + | chr4.2:20131150-20131169 | None:intergenic | 35.0% | |
| TCCCACAATTCGTTTATGTT+TGG | - | chr4.2:20130625-20130644 | MS.gene90246:CDS | 35.0% | |
| TGAGTCGAAGAATTGGTATT+AGG | + | chr4.2:20130710-20130729 | None:intergenic | 35.0% | |
| ! | CTACGTTTTCTCTGTGATTT+TGG | - | chr4.2:20130596-20130615 | MS.gene90246:CDS | 35.0% |
| ! | GAAAGATGATAGTGAAATGC+AGG | - | chr4.2:20130769-20130788 | MS.gene90246:CDS | 35.0% |
| ! | GTAGTTAGCTCTTCTGAAAA+CGG | - | chr4.2:20131205-20131224 | MS.gene90246:CDS | 35.0% |
| GAAGAGATTGAATGGTCGTT+TGG | - | chr4.2:20130730-20130749 | MS.gene90246:CDS | 40.0% | |
| TCAAGATTCTTCACTTCGGT+TGG | - | chr4.2:20130558-20130577 | MS.gene90246:CDS | 40.0% | |
| TCGACTCAGAAGAGATTGAA+TGG | - | chr4.2:20130722-20130741 | MS.gene90246:CDS | 40.0% | |
| TCTCTTCTGAGTCGAAGAAT+TGG | + | chr4.2:20130717-20130736 | None:intergenic | 40.0% | |
| TGAATGGTCGTTTGGAAGAT+CGG | - | chr4.2:20130738-20130757 | MS.gene90246:CDS | 40.0% | |
| TGATGAAGTGATCGAGTCTT+TGG | - | chr4.2:20131021-20131040 | MS.gene90246:CDS | 40.0% | |
| ! | AAGTGATCGAGTCTTTGGAA+TGG | - | chr4.2:20131026-20131045 | MS.gene90246:CDS | 40.0% |
| ! | CACTTCGGTTGGCATTTTAA+GGG | - | chr4.2:20130569-20130588 | MS.gene90246:CDS | 40.0% |
| ! | CAGACCCATTTTCCAATGAT+GGG | + | chr4.2:20130685-20130704 | None:intergenic | 40.0% |
| ! | TCACTTCGGTTGGCATTTTA+AGG | - | chr4.2:20130568-20130587 | MS.gene90246:CDS | 40.0% |
| ! | TCAGACCCATTTTCCAATGA+TGG | + | chr4.2:20130686-20130705 | None:intergenic | 40.0% |
| ! | TGAATCTCATAGGAGTGTGT+TGG | - | chr4.2:20131063-20131082 | MS.gene90246:CDS | 40.0% |
| !! | AGTTGATAAAGATTGAGCGC+AGG | - | chr4.2:20130834-20130853 | MS.gene90246:CDS | 40.0% |
| AAGCAATATCTTGGGGAGGA+TGG | - | chr4.2:20131118-20131137 | MS.gene90246:CDS | 45.0% | |
| ACTCAAGCAATATCTTGGGG+AGG | - | chr4.2:20131114-20131133 | MS.gene90246:CDS | 45.0% | |
| ACTTCTGTTCAGCCATTCTG+CGG | + | chr4.2:20130991-20131010 | None:intergenic | 45.0% | |
| AGCAATATCTTGGGGAGGAT+GGG | - | chr4.2:20131119-20131138 | MS.gene90246:CDS | 45.0% | |
| AGCGAATCAATTCCGCAGAA+TGG | - | chr4.2:20130976-20130995 | MS.gene90246:CDS | 45.0% | |
| GTTTGGAAGATCGGTTGGAA+AGG | - | chr4.2:20130747-20130766 | MS.gene90246:CDS | 45.0% | |
| TCAAACACCTCATCCACATC+AGG | + | chr4.2:20130797-20130816 | None:intergenic | 45.0% | |
| TCTCGAGGCATGAATCTCAT+AGG | - | chr4.2:20131053-20131072 | MS.gene90246:CDS | 45.0% | |
| TGAAATGCAGGTTCCTGATG+TGG | - | chr4.2:20130781-20130800 | MS.gene90246:CDS | 45.0% | |
| TGTGTTGGAAGAGCAGTTGA+GGG | - | chr4.2:20131078-20131097 | MS.gene90246:CDS | 45.0% | |
| TTGCGGAGCTTGATAAGGAA+CGG | - | chr4.2:20130873-20130892 | MS.gene90246:CDS | 45.0% | |
| AGGCAATGGCGATGATTCTC+AGG | - | chr4.2:20130921-20130940 | MS.gene90246:CDS | 50.0% | |
| GAAAGCTAATGCGGCGTTTG+CGG | - | chr4.2:20130856-20130875 | MS.gene90246:CDS | 50.0% | |
| GCTTCAGAGTGAGAAGAGCT+CGG | - | chr4.2:20130943-20130962 | MS.gene90246:CDS | 50.0% | |
| GCTTGATAAGGAACGGACAG+CGG | - | chr4.2:20130880-20130899 | MS.gene90246:CDS | 50.0% | |
| GTGTGTTGGAAGAGCAGTTG+AGG | - | chr4.2:20131077-20131096 | MS.gene90246:CDS | 50.0% | |
| TGAGCGCAGGAAAGCTAATG+CGG | - | chr4.2:20130847-20130866 | MS.gene90246:CDS | 50.0% | |
| TGGTCGTTTGGAAGATCGGT+TGG | - | chr4.2:20130742-20130761 | MS.gene90246:CDS | 50.0% | |
| TTCATCTGCGGAAGAGGCAA+TGG | - | chr4.2:20130907-20130926 | MS.gene90246:CDS | 50.0% | |
| !! | CTTTGGAATGGACGATCTCG+AGG | - | chr4.2:20131038-20131057 | MS.gene90246:CDS | 50.0% |
| GACAGCGGCTTCTTCATCTG+CGG | - | chr4.2:20130895-20130914 | MS.gene90246:CDS | 55.0% | |
| GCAGGTTCCTGATGTGGATG+AGG | - | chr4.2:20130787-20130806 | MS.gene90246:CDS | 55.0% | |
| GGCGTTTGCGGAGCTTGATA+AGG | - | chr4.2:20130868-20130887 | MS.gene90246:CDS | 55.0% | |
| GGCTTCTTCATCTGCGGAAG+AGG | - | chr4.2:20130901-20130920 | MS.gene90246:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.2 | gene | 20130533 | 20131243 | 20130533 | ID=MS.gene90246 |
| chr4.2 | mRNA | 20130533 | 20131243 | 20130533 | ID=MS.gene90246.t1;Parent=MS.gene90246 |
| chr4.2 | exon | 20130533 | 20131243 | 20130533 | ID=MS.gene90246.t1.exon1;Parent=MS.gene90246.t1 |
| chr4.2 | CDS | 20130533 | 20131243 | 20130533 | ID=cds.MS.gene90246.t1;Parent=MS.gene90246.t1 |
| Gene Sequence |
| Protein sequence |
