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.gene07948.t1 | XP_013451912.1 | 57.6 | 118 | 17 | 4 | 1 | 100 | 11 | 113 | 1.60E-21 | 112.5 |
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.gene07948.t1 | A0A072UJE8 | 57.6 | 118 | 17 | 4 | 1 | 100 | 11 | 113 | 1.2e-21 | 112.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050020 | MS.gene07948 | 0.813931 | 1.99E-51 | -1.69E-46 |
| MS.gene050563 | MS.gene07948 | 0.813965 | 1.96E-51 | -1.69E-46 |
| MS.gene051626 | MS.gene07948 | 0.833203 | 6.10E-56 | -1.69E-46 |
| MS.gene051789 | MS.gene07948 | 0.840521 | 8.27E-58 | -1.69E-46 |
| MS.gene052967 | MS.gene07948 | 0.817831 | 2.69E-52 | -1.69E-46 |
| MS.gene053074 | MS.gene07948 | 0.880646 | 4.62E-70 | -1.69E-46 |
| MS.gene054184 | MS.gene07948 | 0.834683 | 2.60E-56 | -1.69E-46 |
| MS.gene054185 | MS.gene07948 | 0.836353 | 9.83E-57 | -1.69E-46 |
| MS.gene05456 | MS.gene07948 | 0.832642 | 8.41E-56 | -1.69E-46 |
| MS.gene054596 | MS.gene07948 | 0.81274 | 3.64E-51 | -1.69E-46 |
| MS.gene055359 | MS.gene07948 | 0.827433 | 1.57E-54 | -1.69E-46 |
| MS.gene058168 | MS.gene07948 | 0.859808 | 3.20E-63 | -1.69E-46 |
| MS.gene059006 | MS.gene07948 | 0.854192 | 1.45E-61 | -1.69E-46 |
| MS.gene059124 | MS.gene07948 | 0.825714 | 4.03E-54 | -1.69E-46 |
| MS.gene059421 | MS.gene07948 | 0.824966 | 6.06E-54 | -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.gene07948.t1 | MTR_6g038170 | 55.975 | 159 | 25 | 4 | 1 | 141 | 11 | 142 | 1.39e-48 | 153 |
| MS.gene07948.t1 | MTR_6g038180 | 87.179 | 39 | 5 | 0 | 1 | 39 | 1 | 39 | 5.74e-20 | 78.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 27 sgRNAs with CRISPR-Local
Find 55 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTAACTTCTGCTTCTTCATT+TGG | 0.240334 | 6.4:+12461709 | None:intergenic |
| TTATCAGCACTTTGATAGTT+AGG | 0.296935 | 6.4:-12460915 | MS.gene07948:CDS |
| GCATTAAGATCTGATCTTCT+TGG | 0.302245 | 6.4:+12460883 | None:intergenic |
| CTCATTAACAACTGTCCCTT+CGG | 0.315969 | 6.4:+12461056 | None:intergenic |
| TCGGGGACATCCGATAAAAT+TGG | 0.318216 | 6.4:+12461075 | None:intergenic |
| GACATTTGAAGAAAGTTTCA+AGG | 0.386041 | 6.4:+12461629 | None:intergenic |
| TCATTAACAACTGTCCCTTC+GGG | 0.408136 | 6.4:+12461057 | None:intergenic |
| GAAACTTTCTTCAAATGTCT+AGG | 0.440784 | 6.4:-12461625 | MS.gene07948:CDS |
| CTTAGTATTGGAAGAGGTCC+AGG | 0.443199 | 6.4:-12460796 | MS.gene07948:CDS |
| AAAAGTGGCACTCCTCTCAT+TGG | 0.452964 | 6.4:+12461687 | None:intergenic |
| AAACTTTCTTCAAATGTCTA+GGG | 0.469767 | 6.4:-12461624 | MS.gene07948:CDS |
| GATGCAGAAGAGAATCTTGA+TGG | 0.479422 | 6.4:-12461592 | MS.gene07948:CDS |
| ATATACATTGAATTAATCCC+TGG | 0.485119 | 6.4:+12460778 | None:intergenic |
| AGAAGATCAGATCTTAGTAT+TGG | 0.495981 | 6.4:-12460808 | MS.gene07948:CDS |
| AGAAGATCAGATCTTAATGC+TGG | 0.504664 | 6.4:-12460880 | MS.gene07948:CDS |
| CGAAGGGACAGTTGTTAATG+AGG | 0.516548 | 6.4:-12461055 | MS.gene07948:intron |
| AGAAGATCAGATCTTAGTGC+TGG | 0.527275 | 6.4:-12460844 | MS.gene07948:CDS |
| TTTGGAGTAAAGAACATGGA+TGG | 0.540921 | 6.4:+12461656 | None:intergenic |
| TCAGATCTTAATGCTGGAAG+AGG | 0.553513 | 6.4:-12460874 | MS.gene07948:CDS |
| ACTTTGATAGTTAGGAGAGA+TGG | 0.558375 | 6.4:-12460907 | MS.gene07948:CDS |
| GATCTTAATGCTGGAAGAGG+TGG | 0.565861 | 6.4:-12460871 | MS.gene07948:CDS |
| TCAGATCTTAGTGCTGGAAG+AGG | 0.574316 | 6.4:-12460838 | MS.gene07948:CDS |
| GATCTTAGTGCTGGAAGAGG+TGG | 0.577086 | 6.4:-12460835 | MS.gene07948:CDS |
| TCAGATCTTAGTATTGGAAG+AGG | 0.585484 | 6.4:-12460802 | MS.gene07948:CDS |
| AAGCAGAAGTTACCAATGAG+AGG | 0.587951 | 6.4:-12461699 | MS.gene07948:CDS |
| TTAGTATTGGAAGAGGTCCA+GGG | 0.652914 | 6.4:-12460795 | MS.gene07948:CDS |
| CATTAACAACTGTCCCTTCG+GGG | 0.676266 | 6.4:+12461058 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AGTAAAAAAAATGATTAATT+TGG | - | chr6.4:12461114-12461133 | MS.gene07948:intron | 10.0% |
| !!! | AAACTATTTTTTTTTTTTGA+GGG | + | chr6.4:12461212-12461231 | None:intergenic | 10.0% |
| !!! | TAAACTATTTTTTTTTTTTG+AGG | + | chr6.4:12461213-12461232 | None:intergenic | 10.0% |
| !! | AATACTAAATGTTAGTATGT+TGG | - | chr6.4:12461268-12461287 | MS.gene07948:intron | 20.0% |
| ! | AAACTTTCTTCAAATGTCTA+GGG | - | chr6.4:12460874-12460893 | MS.gene07948:CDS | 25.0% |
| ! | AGGTTAAACACAAATCATTT+AGG | - | chr6.4:12461463-12461482 | MS.gene07948:intron | 25.0% |
| ! | ATATACATTGAATTAATCCC+TGG | + | chr6.4:12461723-12461742 | None:intergenic | 25.0% |
| !! | AGAAAGTTTCAAGGAATTTT+TGG | + | chr6.4:12460863-12460882 | None:intergenic | 25.0% |
| !! | ATATTCTAGAGAAAGATTGT+TGG | + | chr6.4:12461513-12461532 | None:intergenic | 25.0% |
| !! | TTCAGATTAAGTTGTTAATG+AGG | - | chr6.4:12461326-12461345 | MS.gene07948:intron | 25.0% |
| !!! | AATTTTTGGAGTAAAGAACA+TGG | + | chr6.4:12460849-12460868 | None:intergenic | 25.0% |
| !!! | GTTGTTAATGAGGTTTTTTT+TGG | - | chr6.4:12461336-12461355 | MS.gene07948:intron | 25.0% |
| ACAACTTAATCTGAATGACT+TGG | + | chr6.4:12461321-12461340 | None:intergenic | 30.0% | |
| AGAAGATCAGATCTTAGTAT+TGG | - | chr6.4:12461690-12461709 | MS.gene07948:CDS | 30.0% | |
| GAAACTTTCTTCAAATGTCT+AGG | - | chr6.4:12460873-12460892 | MS.gene07948:CDS | 30.0% | |
| GACATTTGAAGAAAGTTTCA+AGG | + | chr6.4:12460872-12460891 | None:intergenic | 30.0% | |
| TGGATGGTAAAGATAAAAAG+TGG | + | chr6.4:12460829-12460848 | None:intergenic | 30.0% | |
| ! | ATGTTAGTATGTTGGTGAAT+AGG | - | chr6.4:12461276-12461295 | MS.gene07948:intron | 30.0% |
| ! | CTGTATCGTTCCAATTTTAT+CGG | - | chr6.4:12461413-12461432 | MS.gene07948:intron | 30.0% |
| ! | GAAAGTCCAAAATCGAATTT+TGG | - | chr6.4:12461485-12461504 | MS.gene07948:intron | 30.0% |
| ! | TTATCAGCACTTTGATAGTT+AGG | - | chr6.4:12461583-12461602 | MS.gene07948:CDS | 30.0% |
| ! | TTGGAACCAAAATTCGATTT+TGG | + | chr6.4:12461494-12461513 | None:intergenic | 30.0% |
| AAAGAATGGTCAACGAGTAA+TGG | - | chr6.4:12460954-12460973 | MS.gene07948:intron | 35.0% | |
| AGAAGATCAGATCTTAATGC+TGG | - | chr6.4:12461618-12461637 | MS.gene07948:CDS | 35.0% | |
| CATGTGCAGAACAAAAAGAA+TGG | - | chr6.4:12460940-12460959 | MS.gene07948:intron | 35.0% | |
| GCATTAAGATCTGATCTTCT+TGG | + | chr6.4:12461618-12461637 | None:intergenic | 35.0% | |
| GTAACTTCTGCTTCTTCATT+TGG | + | chr6.4:12460792-12460811 | None:intergenic | 35.0% | |
| ! | ACTTTGATAGTTAGGAGAGA+TGG | - | chr6.4:12461591-12461610 | MS.gene07948:CDS | 35.0% |
| ! | TCAGATCTTAGTATTGGAAG+AGG | - | chr6.4:12461696-12461715 | MS.gene07948:CDS | 35.0% |
| ! | TTAGTATGTTGGTGAATAGG+TGG | - | chr6.4:12461279-12461298 | MS.gene07948:intron | 35.0% |
| ! | TTTGGAGTAAAGAACATGGA+TGG | + | chr6.4:12460845-12460864 | None:intergenic | 35.0% |
| !! | CTGAATGACTTGGTTCTATA+AGG | + | chr6.4:12461311-12461330 | None:intergenic | 35.0% |
| AAGCAGAAGTTACCAATGAG+AGG | - | chr6.4:12460799-12460818 | MS.gene07948:CDS | 40.0% | |
| AGAAGATCAGATCTTAGTGC+TGG | - | chr6.4:12461654-12461673 | MS.gene07948:CDS | 40.0% | |
| CTCATTAACAACTGTCCCTT+CGG | + | chr6.4:12461445-12461464 | None:intergenic | 40.0% | |
| GATGCAGAAGAGAATCTTGA+TGG | - | chr6.4:12460906-12460925 | MS.gene07948:CDS | 40.0% | |
| TCAGATCTTAATGCTGGAAG+AGG | - | chr6.4:12461624-12461643 | MS.gene07948:CDS | 40.0% | |
| TCATTAACAACTGTCCCTTC+GGG | + | chr6.4:12461444-12461463 | None:intergenic | 40.0% | |
| ! | TTAGTATTGGAAGAGGTCCA+GGG | - | chr6.4:12461703-12461722 | MS.gene07948:CDS | 40.0% |
| AAAAGTGGCACTCCTCTCAT+TGG | + | chr6.4:12460814-12460833 | None:intergenic | 45.0% | |
| ATTAGCATGACCCCTACACA+AGG | + | chr6.4:12461388-12461407 | None:intergenic | 45.0% | |
| CATTAACAACTGTCCCTTCG+GGG | + | chr6.4:12461443-12461462 | None:intergenic | 45.0% | |
| CGAAGGGACAGTTGTTAATG+AGG | - | chr6.4:12461443-12461462 | MS.gene07948:intron | 45.0% | |
| GATCTTAATGCTGGAAGAGG+TGG | - | chr6.4:12461627-12461646 | MS.gene07948:CDS | 45.0% | |
| TCGGGGACATCCGATAAAAT+TGG | + | chr6.4:12461426-12461445 | None:intergenic | 45.0% | |
| ! | ATTTTATCGGATGTCCCCGA+AGG | - | chr6.4:12461426-12461445 | MS.gene07948:intron | 45.0% |
| ! | CTTAGTATTGGAAGAGGTCC+AGG | - | chr6.4:12461702-12461721 | MS.gene07948:CDS | 45.0% |
| ! | TCAGATCTTAGTGCTGGAAG+AGG | - | chr6.4:12461660-12461679 | MS.gene07948:CDS | 45.0% |
| ! | TTTTATCGGATGTCCCCGAA+GGG | - | chr6.4:12461427-12461446 | MS.gene07948:intron | 45.0% |
| !!! | AAAGTTTTTTTTTTTTTTTT+GGG | - | chr6.4:12461049-12461068 | MS.gene07948:intron | 5.0% |
| !!! | TAAAGTTTTTTTTTTTTTTT+TGG | - | chr6.4:12461048-12461067 | MS.gene07948:intron | 5.0% |
| GTGCGTGTCATCCTTGTGTA+GGG | - | chr6.4:12461374-12461393 | MS.gene07948:intron | 50.0% | |
| TGCGTGTCATCCTTGTGTAG+GGG | - | chr6.4:12461375-12461394 | MS.gene07948:intron | 50.0% | |
| TGTGCGTGTCATCCTTGTGT+AGG | - | chr6.4:12461373-12461392 | MS.gene07948:intron | 50.0% | |
| ! | GATCTTAGTGCTGGAAGAGG+TGG | - | chr6.4:12461663-12461682 | MS.gene07948:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.4 | gene | 12460774 | 12461746 | 12460774 | ID=MS.gene07948 |
| chr6.4 | mRNA | 12460774 | 12461746 | 12460774 | ID=MS.gene07948.t1;Parent=MS.gene07948 |
| chr6.4 | exon | 12461559 | 12461746 | 12461559 | ID=MS.gene07948.t1.exon1;Parent=MS.gene07948.t1 |
| chr6.4 | CDS | 12461559 | 12461746 | 12461559 | ID=cds.MS.gene07948.t1;Parent=MS.gene07948.t1 |
| chr6.4 | exon | 12461056 | 12461125 | 12461056 | ID=MS.gene07948.t1.exon2;Parent=MS.gene07948.t1 |
| chr6.4 | CDS | 12461056 | 12461125 | 12461056 | ID=cds.MS.gene07948.t1;Parent=MS.gene07948.t1 |
| chr6.4 | exon | 12460774 | 12460941 | 12460774 | ID=MS.gene07948.t1.exon3;Parent=MS.gene07948.t1 |
| chr6.4 | CDS | 12460774 | 12460941 | 12460774 | ID=cds.MS.gene07948.t1;Parent=MS.gene07948.t1 |
| Gene Sequence |
| Protein sequence |
