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.gene84574.t1 | XP_013449050.2 | 92.7 | 179 | 13 | 0 | 1 | 179 | 1 | 179 | 8.10E-90 | 339.7 |
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.gene84574.t1 | A0A396H0Q3 | 92.7 | 179 | 13 | 0 | 1 | 179 | 1 | 179 | 5.8e-90 | 339.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051367 | MS.gene84574 | 0.801426 | 9.05E-49 | -1.69E-46 |
| MS.gene056856 | MS.gene84574 | 0.802688 | 4.98E-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.gene84574.t1 | MTR_7g066110 | 92.899 | 169 | 12 | 0 | 11 | 179 | 1 | 169 | 9.15e-117 | 328 |
| MS.gene84574.t1 | MTR_4g018860 | 73.373 | 169 | 45 | 0 | 1 | 169 | 1 | 169 | 6.00e-90 | 262 |
| MS.gene84574.t1 | MTR_4g018880 | 70.225 | 178 | 53 | 0 | 1 | 178 | 1 | 178 | 1.96e-86 | 252 |
| MS.gene84574.t1 | MTR_4g018850 | 70.166 | 181 | 52 | 1 | 1 | 179 | 1 | 181 | 7.31e-82 | 241 |
| MS.gene84574.t1 | MTR_4g018880 | 71.970 | 132 | 37 | 0 | 1 | 132 | 1 | 132 | 3.15e-64 | 194 |
| MS.gene84574.t1 | MTR_1g101120 | 53.205 | 156 | 72 | 1 | 12 | 166 | 15 | 170 | 1.42e-56 | 177 |
| MS.gene84574.t1 | MTR_6g452730 | 49.123 | 171 | 83 | 2 | 7 | 176 | 4 | 171 | 1.63e-56 | 176 |
| MS.gene84574.t1 | MTR_7g066090 | 81.579 | 76 | 14 | 0 | 1 | 76 | 1 | 76 | 8.03e-39 | 127 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene84574.t1 | AT3G54040 | 57.778 | 180 | 70 | 4 | 1 | 178 | 1 | 176 | 5.43e-68 | 205 |
| MS.gene84574.t1 | AT3G54040 | 60.355 | 169 | 61 | 4 | 1 | 167 | 57 | 221 | 2.87e-67 | 205 |
| MS.gene84574.t1 | AT5G52390 | 45.251 | 179 | 97 | 1 | 1 | 178 | 1 | 179 | 9.35e-53 | 167 |
Find 49 sgRNAs with CRISPR-Local
Find 75 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAACAATATTGGGGCAATTT+TGG | 0.141377 | 7.3:-39904271 | None:intergenic |
| TGTTGACCTTTACTTCAATT+TGG | 0.213939 | 7.3:+39904289 | MS.gene84574:CDS |
| GAGCATAATCAAAGGTAATT+TGG | 0.227054 | 7.3:-39903833 | None:intergenic |
| CGAAGGATGCATGGATAAAA+AGG | 0.255435 | 7.3:-39903864 | None:intergenic |
| GAAGTAAAGGTCAACAATAT+TGG | 0.286026 | 7.3:-39904282 | None:intergenic |
| TTCTTTCTCAATAGCTTCTT+CGG | 0.293052 | 7.3:+39904034 | MS.gene84574:CDS |
| AAGTAAAGGTCAACAATATT+GGG | 0.297379 | 7.3:-39904281 | None:intergenic |
| CTTTACTTCAATTTGGCTGC+TGG | 0.332953 | 7.3:+39904296 | MS.gene84574:CDS |
| GTGAGCTCTGGAGCTGCACC+TGG | 0.378232 | 7.3:+39904908 | MS.gene84574:CDS |
| TCTTTCTCAATAGCTTCTTC+GGG | 0.391677 | 7.3:+39904035 | MS.gene84574:CDS |
| TCTTGTGACAGAGCAGAAAC+AGG | 0.399775 | 7.3:-39904932 | None:intergenic |
| ACAAGATGGTGAACAAAGTT+TGG | 0.401861 | 7.3:-39904246 | None:intergenic |
| TTCGGGAAAACGGTGTTTGT+TGG | 0.412274 | 7.3:+39904052 | MS.gene84574:CDS |
| ATGATCGAGCTTGTGAGCTC+TGG | 0.439225 | 7.3:+39904896 | MS.gene84574:CDS |
| TTCAATTTGGCTGCTGGGGA+AGG | 0.450339 | 7.3:+39904302 | MS.gene84574:CDS |
| CAATAGCTTCTTCGGGAAAA+CGG | 0.456077 | 7.3:+39904042 | MS.gene84574:CDS |
| TACTTTGTTTACAGGGGAGA+AGG | 0.465010 | 7.3:-39904974 | None:intergenic |
| CTTAGGATACTTTGTTTACA+GGG | 0.470384 | 7.3:-39904981 | None:intergenic |
| TTTACTTCAATTTGGCTGCT+GGG | 0.473999 | 7.3:+39904297 | MS.gene84574:CDS |
| AGAAGTGGTGGTGGAGAGAA+TGG | 0.485213 | 7.3:+39904124 | MS.gene84574:CDS |
| CAGCAGCCAAATTGAAGTAA+AGG | 0.504408 | 7.3:-39904295 | None:intergenic |
| ACTTTGTTTACAGGGGAGAA+GGG | 0.526118 | 7.3:-39904973 | None:intergenic |
| GCTCGATCATAGCGCGATGA+GGG | 0.529694 | 7.3:-39904883 | None:intergenic |
| GACAGAGCAGAAACAGGGCC+AGG | 0.529854 | 7.3:-39904926 | None:intergenic |
| GTGGTGGTGGAGAGAATGGC+GGG | 0.551209 | 7.3:+39904128 | MS.gene84574:CDS |
| GAGACAGAGAAGGCCGCGGA+TGG | 0.557056 | 7.3:+39904074 | MS.gene84574:CDS |
| TAGGACATCAGAAGTGGTGG+TGG | 0.562298 | 7.3:+39904115 | MS.gene84574:CDS |
| ACAGAGAAGGCCGCGGATGG+TGG | 0.564139 | 7.3:+39904077 | MS.gene84574:CDS |
| GATCATAGCGCGATGAGGGT+TGG | 0.568904 | 7.3:-39904879 | None:intergenic |
| AGCTCGATCATAGCGCGATG+AGG | 0.572301 | 7.3:-39904884 | None:intergenic |
| CTTTGTTTACAGGGGAGAAG+GGG | 0.574312 | 7.3:-39904972 | None:intergenic |
| CAAAGTTTGGCTGTGAATTG+TGG | 0.578087 | 7.3:-39904233 | None:intergenic |
| GTGTTTGTTGGAGACAGAGA+AGG | 0.584309 | 7.3:+39904064 | MS.gene84574:CDS |
| GTGGTGTCGAATACCAATGT+AGG | 0.586974 | 7.3:+39904096 | MS.gene84574:CDS |
| TGTGTGTGAACAGTTGCAAA+AGG | 0.592902 | 7.3:+39904004 | MS.gene84574:CDS |
| GATCAATGTGTGAATGCTTG+TGG | 0.593710 | 7.3:+39904164 | MS.gene84574:CDS |
| TTACTTCAATTTGGCTGCTG+GGG | 0.597417 | 7.3:+39904298 | MS.gene84574:CDS |
| TGTGTGTACCGAAGGATGCA+TGG | 0.608900 | 7.3:-39903873 | None:intergenic |
| GTTGGAGACAGAGAAGGCCG+CGG | 0.616058 | 7.3:+39904070 | MS.gene84574:CDS |
| CCACTTCTGATGTCCTACAT+TGG | 0.621979 | 7.3:-39904109 | None:intergenic |
| GAACACAAGAGCATAATCAA+AGG | 0.628881 | 7.3:-39903841 | None:intergenic |
| CTTGTGACAGAGCAGAAACA+GGG | 0.634654 | 7.3:-39904931 | None:intergenic |
| TTAGGATACTTTGTTTACAG+GGG | 0.636481 | 7.3:-39904980 | None:intergenic |
| AGTAAAGGTCAACAATATTG+GGG | 0.636729 | 7.3:-39904280 | None:intergenic |
| ATGTAGGACATCAGAAGTGG+TGG | 0.644390 | 7.3:+39904112 | MS.gene84574:CDS |
| CCAATGTAGGACATCAGAAG+TGG | 0.647553 | 7.3:+39904109 | MS.gene84574:CDS |
| AGTGGTGGTGGAGAGAATGG+CGG | 0.676590 | 7.3:+39904127 | MS.gene84574:CDS |
| TGAATGCTTGTGGAGTTGAA+AGG | 0.680150 | 7.3:+39904174 | MS.gene84574:CDS |
| GTATTCGACACCACCATCCG+CGG | 0.718893 | 7.3:-39904087 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTAAAATAAATAAATTGCAT+AGG | - | chr7.3:39903944-39903963 | None:intergenic | 10.0% |
| !! | AACAAAAAATAAAACAAAGA+AGG | + | chr7.3:39904720-39904739 | MS.gene84574:intron | 15.0% |
| !! | TAACTTCAAATTTAATCAAA+GGG | + | chr7.3:39904675-39904694 | MS.gene84574:intron | 15.0% |
| !! | TTAACTTCAAATTTAATCAA+AGG | + | chr7.3:39904674-39904693 | MS.gene84574:intron | 15.0% |
| !! | TTTGAACAATTCAAATAATT+GGG | + | chr7.3:39904419-39904438 | MS.gene84574:intron | 15.0% |
| !!! | CTCTTTTGATATTATAATAA+AGG | + | chr7.3:39904795-39904814 | MS.gene84574:intron | 15.0% |
| !!! | TTTTCTAGAAAAAAAACATA+AGG | + | chr7.3:39904544-39904563 | MS.gene84574:intron | 15.0% |
| !!! | TTTTGAACAATTCAAATAAT+TGG | + | chr7.3:39904418-39904437 | MS.gene84574:intron | 15.0% |
| !! | AAGAAATTAAGACAAAAAGA+AGG | - | chr7.3:39904517-39904536 | None:intergenic | 20.0% |
| !! | TAATTGGAAAATATATAGCA+GGG | - | chr7.3:39903910-39903929 | None:intergenic | 20.0% |
| !! | TTGTTCAAAATATGATGAAA+AGG | - | chr7.3:39904408-39904427 | None:intergenic | 20.0% |
| !!! | TTCTTTTTGTCTTAATTTCT+TGG | + | chr7.3:39904516-39904535 | MS.gene84574:intron | 20.0% |
| ! | AAGTAAAGGTCAACAATATT+GGG | - | chr7.3:39904284-39904303 | None:intergenic | 25.0% |
| ! | ATAGGTAACTAGATAGTAAT+TGG | - | chr7.3:39903926-39903945 | None:intergenic | 25.0% |
| ! | ATCTTCATGCATAAAAGTTA+TGG | - | chr7.3:39904349-39904368 | None:intergenic | 25.0% |
| ! | CTGTTCAAAATAAGATGAAA+AGG | - | chr7.3:39904484-39904503 | None:intergenic | 25.0% |
| ! | GTAATTGGAAAATATATAGC+AGG | - | chr7.3:39903911-39903930 | None:intergenic | 25.0% |
| ! | GTTAAAATGTTAGATCATGA+CGG | - | chr7.3:39904659-39904678 | None:intergenic | 25.0% |
| ! | TTTGCTTAATTACAAAGCAA+TGG | + | chr7.3:39904589-39904608 | MS.gene84574:intron | 25.0% |
| !! | TTTTTGTCTTAATTTCTTGG+TGG | + | chr7.3:39904519-39904538 | MS.gene84574:intron | 25.0% |
| AGTAAAGGTCAACAATATTG+GGG | - | chr7.3:39904283-39904302 | None:intergenic | 30.0% | |
| GAAGTAAAGGTCAACAATAT+TGG | - | chr7.3:39904285-39904304 | None:intergenic | 30.0% | |
| GAGCATAATCAAAGGTAATT+TGG | - | chr7.3:39903836-39903855 | None:intergenic | 30.0% | |
| TGTTGACCTTTACTTCAATT+TGG | + | chr7.3:39904289-39904308 | MS.gene84574:CDS | 30.0% | |
| TTCTTTCTCAATAGCTTCTT+CGG | + | chr7.3:39904034-39904053 | MS.gene84574:CDS | 30.0% | |
| ! | ACTTTTATGCATGAAGATCA+TGG | + | chr7.3:39904351-39904370 | MS.gene84574:intron | 30.0% |
| ! | GAAGGTTCTTTTCTTGTAAA+AGG | + | chr7.3:39904738-39904757 | MS.gene84574:intron | 30.0% |
| ACAAGATGGTGAACAAAGTT+TGG | - | chr7.3:39904249-39904268 | None:intergenic | 35.0% | |
| CTTTGATACTATGCAAATGC+AGG | + | chr7.3:39904821-39904840 | MS.gene84574:intron | 35.0% | |
| GAAGGATGCATGGATAAAAA+GGG | - | chr7.3:39903866-39903885 | None:intergenic | 35.0% | |
| TCTTTCTCAATAGCTTCTTC+GGG | + | chr7.3:39904035-39904054 | MS.gene84574:CDS | 35.0% | |
| TTTACTTCAATTTGGCTGCT+GGG | + | chr7.3:39904297-39904316 | MS.gene84574:CDS | 35.0% | |
| ! | CAACAATATTGGGGCAATTT+TGG | - | chr7.3:39904274-39904293 | None:intergenic | 35.0% |
| ! | CTTTTTATCCATGCATCCTT+CGG | + | chr7.3:39903865-39903884 | MS.gene84574:CDS | 35.0% |
| ! | GAACACAAGAGCATAATCAA+AGG | - | chr7.3:39903844-39903863 | None:intergenic | 35.0% |
| ! | GGAGTTGAAAGGAATTTTGT+CGG | + | chr7.3:39904185-39904204 | MS.gene84574:CDS | 35.0% |
| ! | GTTTTCACCACAAATCACTA+TGG | - | chr7.3:39904445-39904464 | None:intergenic | 35.0% |
| AATTGGGCCATAGTGATTTG+TGG | + | chr7.3:39904435-39904454 | MS.gene84574:intron | 40.0% | |
| CAAAGTTTGGCTGTGAATTG+TGG | - | chr7.3:39904236-39904255 | None:intergenic | 40.0% | |
| CAATAGCTTCTTCGGGAAAA+CGG | + | chr7.3:39904042-39904061 | MS.gene84574:CDS | 40.0% | |
| CAGCAGCCAAATTGAAGTAA+AGG | - | chr7.3:39904298-39904317 | None:intergenic | 40.0% | |
| CGAAGGATGCATGGATAAAA+AGG | - | chr7.3:39903867-39903886 | None:intergenic | 40.0% | |
| CTTTACTTCAATTTGGCTGC+TGG | + | chr7.3:39904296-39904315 | MS.gene84574:CDS | 40.0% | |
| GATCAATGTGTGAATGCTTG+TGG | + | chr7.3:39904164-39904183 | MS.gene84574:CDS | 40.0% | |
| GTATATAGTGTGTGTACCGA+AGG | - | chr7.3:39903884-39903903 | None:intergenic | 40.0% | |
| TGAATGCTTGTGGAGTTGAA+AGG | + | chr7.3:39904174-39904193 | MS.gene84574:CDS | 40.0% | |
| TGTGTGTGAACAGTTGCAAA+AGG | + | chr7.3:39904004-39904023 | MS.gene84574:CDS | 40.0% | |
| TTACTTCAATTTGGCTGCTG+GGG | + | chr7.3:39904298-39904317 | MS.gene84574:CDS | 40.0% | |
| !! | GGGCAATTTTGGTAACAAGA+TGG | - | chr7.3:39904263-39904282 | None:intergenic | 40.0% |
| ATGTAGGACATCAGAAGTGG+TGG | + | chr7.3:39904112-39904131 | MS.gene84574:CDS | 45.0% | |
| CCAATGTAGGACATCAGAAG+TGG | + | chr7.3:39904109-39904128 | MS.gene84574:CDS | 45.0% | |
| CCACTTCTGATGTCCTACAT+TGG | - | chr7.3:39904112-39904131 | None:intergenic | 45.0% | |
| CTTGTGACAGAGCAGAAACA+GGG | - | chr7.3:39904934-39904953 | None:intergenic | 45.0% | |
| TCTTGTGACAGAGCAGAAAC+AGG | - | chr7.3:39904935-39904954 | None:intergenic | 45.0% | |
| TTCGGGAAAACGGTGTTTGT+TGG | + | chr7.3:39904052-39904071 | MS.gene84574:CDS | 45.0% | |
| ! | GTGGTGTCGAATACCAATGT+AGG | + | chr7.3:39904096-39904115 | MS.gene84574:CDS | 45.0% |
| ! | GTGTTTGTTGGAGACAGAGA+AGG | + | chr7.3:39904064-39904083 | MS.gene84574:CDS | 45.0% |
| ! | TGGTCTTTTGCATCTCACAG+AGG | - | chr7.3:39904862-39904881 | None:intergenic | 45.0% |
| ! | TTTTGCATCTCACAGAGGTC+AGG | - | chr7.3:39904857-39904876 | None:intergenic | 45.0% |
| ATGATCGAGCTTGTGAGCTC+TGG | + | chr7.3:39904896-39904915 | MS.gene84574:CDS | 50.0% | |
| TAGGACATCAGAAGTGGTGG+TGG | + | chr7.3:39904115-39904134 | MS.gene84574:CDS | 50.0% | |
| TGTGTGTACCGAAGGATGCA+TGG | - | chr7.3:39903876-39903895 | None:intergenic | 50.0% | |
| TTCAATTTGGCTGCTGGGGA+AGG | + | chr7.3:39904302-39904321 | MS.gene84574:CDS | 50.0% | |
| !! | AGAAGTGGTGGTGGAGAGAA+TGG | + | chr7.3:39904124-39904143 | MS.gene84574:CDS | 50.0% |
| AGCTCGATCATAGCGCGATG+AGG | - | chr7.3:39904887-39904906 | None:intergenic | 55.0% | |
| GATCATAGCGCGATGAGGGT+TGG | - | chr7.3:39904882-39904901 | None:intergenic | 55.0% | |
| GCTCGATCATAGCGCGATGA+GGG | - | chr7.3:39904886-39904905 | None:intergenic | 55.0% | |
| GTATTCGACACCACCATCCG+CGG | - | chr7.3:39904090-39904109 | None:intergenic | 55.0% | |
| !! | AGTGGTGGTGGAGAGAATGG+CGG | + | chr7.3:39904127-39904146 | MS.gene84574:CDS | 55.0% |
| GACAGAGCAGAAACAGGGCC+AGG | - | chr7.3:39904929-39904948 | None:intergenic | 60.0% | |
| GTTGGAGACAGAGAAGGCCG+CGG | + | chr7.3:39904070-39904089 | MS.gene84574:CDS | 60.0% | |
| !! | GTGGTGGTGGAGAGAATGGC+GGG | + | chr7.3:39904128-39904147 | MS.gene84574:CDS | 60.0% |
| ACAGAGAAGGCCGCGGATGG+TGG | + | chr7.3:39904077-39904096 | MS.gene84574:CDS | 65.0% | |
| GAGACAGAGAAGGCCGCGGA+TGG | + | chr7.3:39904074-39904093 | MS.gene84574:CDS | 65.0% | |
| !! | GTGAGCTCTGGAGCTGCACC+TGG | + | chr7.3:39904908-39904927 | MS.gene84574:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.3 | gene | 39903820 | 39904988 | 39903820 | ID=MS.gene84574 |
| chr7.3 | mRNA | 39903820 | 39904988 | 39903820 | ID=MS.gene84574.t1;Parent=MS.gene84574 |
| chr7.3 | exon | 39903820 | 39903886 | 39903820 | ID=MS.gene84574.t1.exon1;Parent=MS.gene84574.t1 |
| chr7.3 | CDS | 39903820 | 39903886 | 39903820 | ID=cds.MS.gene84574.t1;Parent=MS.gene84574.t1 |
| chr7.3 | exon | 39903997 | 39904323 | 39903997 | ID=MS.gene84574.t1.exon2;Parent=MS.gene84574.t1 |
| chr7.3 | CDS | 39903997 | 39904323 | 39903997 | ID=cds.MS.gene84574.t1;Parent=MS.gene84574.t1 |
| chr7.3 | exon | 39904843 | 39904988 | 39904843 | ID=MS.gene84574.t1.exon3;Parent=MS.gene84574.t1 |
| chr7.3 | CDS | 39904843 | 39904988 | 39904843 | ID=cds.MS.gene84574.t1;Parent=MS.gene84574.t1 |
| Gene Sequence |
| Protein sequence |
