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.gene06002.t1 | XP_013447096.1 | 94.4 | 144 | 7 | 1 | 1 | 143 | 177 | 320 | 1.60E-72 | 282 |
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.gene06002.t1 | A0A072TW59 | 94.4 | 144 | 7 | 1 | 1 | 143 | 177 | 320 | 1.1e-72 | 282.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene06002 | MS.gene55733 | 0.871504 | 6.50E-67 | -1.69E-46 |
| MS.gene06002 | MS.gene89720 | 0.912099 | 2.87E-83 | -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.gene06002.t1 | MTR_8g098860 | 94.444 | 144 | 7 | 1 | 1 | 143 | 177 | 320 | 3.39e-95 | 277 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 32 sgRNAs with CRISPR-Local
Find 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACCACCAAATTCATCAAATA+TGG | 0.189419 | 4.1:+5423966 | MS.gene06002:CDS |
| GTTCCCATATTTGATGAATT+TGG | 0.278649 | 4.1:-5423970 | None:intergenic |
| TCCCAGAAAAGAAAGTTATT+AGG | 0.327528 | 4.1:-5423901 | None:intergenic |
| GAGCCCGGTGATTCATTTCA+TGG | 0.344990 | 4.1:+5423625 | MS.gene06002:CDS |
| TTGGAGGAGGTAGTGATGAT+TGG | 0.377550 | 4.1:-5423738 | None:intergenic |
| TTCTGGGACAATATTGTTCA+AGG | 0.397659 | 4.1:+5423916 | MS.gene06002:CDS |
| TTATACCGTTTATAGAATCT+TGG | 0.426214 | 4.1:-5423693 | None:intergenic |
| TACTTCCAAGATTCTATAAA+CGG | 0.434921 | 4.1:+5423688 | MS.gene06002:CDS |
| TAGAATGCTTGCAGAGTCAA+TGG | 0.439026 | 4.1:+5423857 | MS.gene06002:CDS |
| ATTGTTCAAGGGCATGGACT+TGG | 0.450777 | 4.1:+5423928 | MS.gene06002:CDS |
| CCACCAAATTCATCAAATAT+GGG | 0.474503 | 4.1:+5423967 | MS.gene06002:CDS |
| GTTCAAGGGCATGGACTTGG+TGG | 0.480608 | 4.1:+5423931 | MS.gene06002:CDS |
| CTAAAAGAAGAAGAAGGAAA+AGG | 0.490998 | 4.1:-5424012 | None:intergenic |
| TTCAAGGGCATGGACTTGGT+GGG | 0.505959 | 4.1:+5423932 | MS.gene06002:CDS |
| GACAATATTGTTCAAGGGCA+TGG | 0.513323 | 4.1:+5423922 | MS.gene06002:CDS |
| AAAGTTGTTGATATTGGAGG+AGG | 0.535605 | 4.1:-5423751 | None:intergenic |
| TGTTCCATGAAATGAATCAC+CGG | 0.561446 | 4.1:-5423629 | None:intergenic |
| TCAAGGGCATGGACTTGGTG+GGG | 0.562532 | 4.1:+5423933 | MS.gene06002:CDS |
| CCCATATTTGATGAATTTGG+TGG | 0.563290 | 4.1:-5423967 | None:intergenic |
| AGAATCTTGGAAGTATTGAT+CGG | 0.567267 | 4.1:-5423680 | None:intergenic |
| ACGGTATAAGCTCTGAAACA+TGG | 0.571232 | 4.1:+5423707 | MS.gene06002:CDS |
| TCTGGGACAATATTGTTCAA+GGG | 0.578297 | 4.1:+5423917 | MS.gene06002:CDS |
| TTATCTCTAAAAGAAGAAGA+AGG | 0.581455 | 4.1:-5424018 | None:intergenic |
| ACCACCTTTGATAGAGAATG+TGG | 0.583136 | 4.1:+5423798 | MS.gene06002:CDS |
| CCTTTGTTTATGTTTGAGCC+CGG | 0.594664 | 4.1:+5423610 | None:intergenic |
| TCCACATTCTCTATCAAAGG+TGG | 0.596829 | 4.1:-5423799 | None:intergenic |
| AGAATGCTTGCAGAGTCAAT+GGG | 0.603509 | 4.1:+5423858 | MS.gene06002:CDS |
| GTGGAAAACATGGACGAGGA+AGG | 0.617283 | 4.1:+5423817 | MS.gene06002:CDS |
| GACGAGGAAGGAGATCATAG+AGG | 0.622748 | 4.1:+5423829 | MS.gene06002:CDS |
| GATAGAGAATGTGGAAAACA+TGG | 0.635293 | 4.1:+5423807 | MS.gene06002:CDS |
| GTTCCATGAAATGAATCACC+GGG | 0.637744 | 4.1:-5423628 | None:intergenic |
| GAATGTGGAAAACATGGACG+AGG | 0.646679 | 4.1:+5423813 | MS.gene06002:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTGAAAAAGTTGTTGATAT+TGG | - | chr4.1:5423760-5423779 | None:intergenic | 20.0% |
| !!! | AATATCAACAACTTTTTCAA+TGG | + | chr4.1:5423759-5423778 | MS.gene06002:CDS | 20.0% |
| ! | TACTTCCAAGATTCTATAAA+CGG | + | chr4.1:5423688-5423707 | MS.gene06002:CDS | 25.0% |
| ! | TTATACCGTTTATAGAATCT+TGG | - | chr4.1:5423696-5423715 | None:intergenic | 25.0% |
| !! | TCCTAATAACTTTCTTTTCT+GGG | + | chr4.1:5423900-5423919 | MS.gene06002:CDS | 25.0% |
| !! | TTATCTCTAAAAGAAGAAGA+AGG | - | chr4.1:5424021-5424040 | None:intergenic | 25.0% |
| ACCACCAAATTCATCAAATA+TGG | + | chr4.1:5423966-5423985 | MS.gene06002:CDS | 30.0% | |
| CCACCAAATTCATCAAATAT+GGG | + | chr4.1:5423967-5423986 | MS.gene06002:CDS | 30.0% | |
| CTAAAAGAAGAAGAAGGAAA+AGG | - | chr4.1:5424015-5424034 | None:intergenic | 30.0% | |
| GAAAAAGTTGTTGATATTGG+AGG | - | chr4.1:5423757-5423776 | None:intergenic | 30.0% | |
| GTTCCCATATTTGATGAATT+TGG | - | chr4.1:5423973-5423992 | None:intergenic | 30.0% | |
| TCCCAGAAAAGAAAGTTATT+AGG | - | chr4.1:5423904-5423923 | None:intergenic | 30.0% | |
| ! | GTCCTAATAACTTTCTTTTC+TGG | + | chr4.1:5423899-5423918 | MS.gene06002:CDS | 30.0% |
| ! | TTTTCCACATTCTCTATCAA+AGG | - | chr4.1:5423805-5423824 | None:intergenic | 30.0% |
| !! | AGAATCTTGGAAGTATTGAT+CGG | - | chr4.1:5423683-5423702 | None:intergenic | 30.0% |
| AAAGTTGTTGATATTGGAGG+AGG | - | chr4.1:5423754-5423773 | None:intergenic | 35.0% | |
| CCCATATTTGATGAATTTGG+TGG | - | chr4.1:5423970-5423989 | None:intergenic | 35.0% | |
| GATAGAGAATGTGGAAAACA+TGG | + | chr4.1:5423807-5423826 | MS.gene06002:CDS | 35.0% | |
| TGTTCCATGAAATGAATCAC+CGG | - | chr4.1:5423632-5423651 | None:intergenic | 35.0% | |
| ! | TCTGGGACAATATTGTTCAA+GGG | + | chr4.1:5423917-5423936 | MS.gene06002:CDS | 35.0% |
| !! | TTCTGGGACAATATTGTTCA+AGG | + | chr4.1:5423916-5423935 | MS.gene06002:CDS | 35.0% |
| ACCACCTTTGATAGAGAATG+TGG | + | chr4.1:5423798-5423817 | MS.gene06002:CDS | 40.0% | |
| AGAATGCTTGCAGAGTCAAT+GGG | + | chr4.1:5423858-5423877 | MS.gene06002:CDS | 40.0% | |
| GACAATATTGTTCAAGGGCA+TGG | + | chr4.1:5423922-5423941 | MS.gene06002:CDS | 40.0% | |
| GTTCCATGAAATGAATCACC+GGG | - | chr4.1:5423631-5423650 | None:intergenic | 40.0% | |
| TAGAATGCTTGCAGAGTCAA+TGG | + | chr4.1:5423857-5423876 | MS.gene06002:CDS | 40.0% | |
| TCCACATTCTCTATCAAAGG+TGG | - | chr4.1:5423802-5423821 | None:intergenic | 40.0% | |
| !! | ACGGTATAAGCTCTGAAACA+TGG | + | chr4.1:5423707-5423726 | MS.gene06002:CDS | 40.0% |
| GAATGTGGAAAACATGGACG+AGG | + | chr4.1:5423813-5423832 | MS.gene06002:CDS | 45.0% | |
| TTGGAGGAGGTAGTGATGAT+TGG | - | chr4.1:5423741-5423760 | None:intergenic | 45.0% | |
| ! | ATTGTTCAAGGGCATGGACT+TGG | + | chr4.1:5423928-5423947 | MS.gene06002:CDS | 45.0% |
| GACGAGGAAGGAGATCATAG+AGG | + | chr4.1:5423829-5423848 | MS.gene06002:CDS | 50.0% | |
| GAGCCCGGTGATTCATTTCA+TGG | + | chr4.1:5423625-5423644 | MS.gene06002:CDS | 50.0% | |
| GTGGAAAACATGGACGAGGA+AGG | + | chr4.1:5423817-5423836 | MS.gene06002:CDS | 50.0% | |
| ! | TTCAAGGGCATGGACTTGGT+GGG | + | chr4.1:5423932-5423951 | MS.gene06002:CDS | 50.0% |
| ! | GTTCAAGGGCATGGACTTGG+TGG | + | chr4.1:5423931-5423950 | MS.gene06002:CDS | 55.0% |
| !! | TCAAGGGCATGGACTTGGTG+GGG | + | chr4.1:5423933-5423952 | MS.gene06002:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.1 | gene | 5423619 | 5424050 | 5423619 | ID=MS.gene06002 |
| chr4.1 | mRNA | 5423619 | 5424050 | 5423619 | ID=MS.gene06002.t1;Parent=MS.gene06002 |
| chr4.1 | exon | 5423619 | 5424050 | 5423619 | ID=MS.gene06002.t1.exon1;Parent=MS.gene06002.t1 |
| chr4.1 | CDS | 5423619 | 5424050 | 5423619 | ID=cds.MS.gene06002.t1;Parent=MS.gene06002.t1 |
| Gene Sequence |
| Protein sequence |
