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.gene70949.t1 | KEH19492.1 | 90.6 | 159 | 7 | 2 | 78 | 228 | 42 | 200 | 6.50E-76 | 293.9 |
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.gene70949.t1 | A0A072TQ21 | 90.6 | 159 | 7 | 2 | 78 | 228 | 42 | 200 | 4.7e-76 | 293.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene70949 | MS.gene25704 | PPI |
| MS.gene70949 | MS.gene77468 | PPI |
| MS.gene70949 | MS.gene044323 | PPI |
| MS.gene044363 | MS.gene70949 | PPI |
| MS.gene70949 | MS.gene71284 | PPI |
| MS.gene70949 | MS.gene044376 | PPI |
| MS.gene70949 | MS.gene70430 | PPI |
| MS.gene70949 | MS.gene77466 | PPI |
| MS.gene70949 | MS.gene044361 | PPI |
| MS.gene70949 | MS.gene71531 | PPI |
| MS.gene70949 | MS.gene71282 | PPI |
| MS.gene70443 | MS.gene70949 | PPI |
| MS.gene70949 | MS.gene71524 | PPI |
| MS.gene70949 | MS.gene71528 | PPI |
| MS.gene77472 | MS.gene70949 | PPI |
| MS.gene70949 | MS.gene045214 | PPI |
| MS.gene70949 | MS.gene77464 | PPI |
| MS.gene70418 | MS.gene70949 | PPI |
| MS.gene70949 | MS.gene044326 | PPI |
| MS.gene70949 | MS.gene70424 | PPI |
| MS.gene70949 | MS.gene049263 | PPI |
| MS.gene70949 | MS.gene044370 | PPI |
| MS.gene70949 | MS.gene79115 | PPI |
| MS.gene70949 | MS.gene70427 | PPI |
| MS.gene70949 | MS.gene70476 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene70949.t1 | MTR_8g461300 | 88.060 | 201 | 15 | 3 | 36 | 228 | 1 | 200 | 7.59e-127 | 357 |
| MS.gene70949.t1 | MTR_4g055800 | 54.598 | 174 | 62 | 6 | 59 | 226 | 130 | 292 | 1.02e-48 | 161 |
| MS.gene70949.t1 | MTR_3g080680 | 40.476 | 210 | 97 | 11 | 32 | 226 | 2 | 198 | 2.52e-29 | 108 |
| MS.gene70949.t1 | MTR_3g082420 | 36.530 | 219 | 116 | 7 | 28 | 226 | 6 | 221 | 2.26e-22 | 91.3 |
| MS.gene70949.t1 | MTR_3g083030 | 36.842 | 190 | 94 | 10 | 50 | 226 | 53 | 229 | 1.47e-18 | 81.6 |
| MS.gene70949.t1 | MTR_3g083050 | 37.278 | 169 | 84 | 9 | 67 | 226 | 51 | 206 | 5.71e-18 | 79.3 |
| MS.gene70949.t1 | MTR_3g082340 | 36.025 | 161 | 95 | 4 | 71 | 226 | 65 | 222 | 3.28e-17 | 77.8 |
| MS.gene70949.t1 | MTR_3g083080 | 37.853 | 177 | 84 | 11 | 59 | 226 | 46 | 205 | 1.05e-15 | 73.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 54 sgRNAs with CRISPR-Local
Find 57 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCTTTAAAAGTAATGTAATA+TGG | 0.262097 | 3.3:+44646518 | None:intergenic |
| GATTTCAGCCGTTTCGATTT+CGG | 0.264712 | 3.3:+44647139 | None:intergenic |
| TGGTTCTTTGTATACGAATA+AGG | 0.284069 | 3.3:-44646900 | MS.gene70949:CDS |
| GAATCTTCTGGATCCGGTTT+CGG | 0.312704 | 3.3:+44647001 | None:intergenic |
| TCACGACGCTTATACCAAAA+TGG | 0.333746 | 3.3:+44646923 | None:intergenic |
| TCACTATACTCAGAATCTTC+TGG | 0.339930 | 3.3:+44646989 | None:intergenic |
| AAATCGAAACGGCTGAAATC+AGG | 0.356942 | 3.3:-44647136 | MS.gene70949:CDS |
| ACTTTATCAAACACAAAAGT+TGG | 0.407632 | 3.3:+44646587 | None:intergenic |
| ATGAAACACTCTTTGACAAC+AGG | 0.409120 | 3.3:+44646419 | None:intergenic |
| GTGTTTCAAAATGTCGAAAT+CGG | 0.413339 | 3.3:-44647170 | None:intergenic |
| GCTGAAATCGGAACCGAAAC+CGG | 0.414648 | 3.3:-44647014 | MS.gene70949:CDS |
| CTACTTCTTTATATGCTCCT+AGG | 0.435411 | 3.3:-44646541 | MS.gene70949:CDS |
| TACTCAGAATCTTCTGGATC+CGG | 0.439841 | 3.3:+44646995 | None:intergenic |
| TGCAGAGGGGTTTGAGAGTA+CGG | 0.440533 | 3.3:+44646744 | None:intergenic |
| GGAGGAGAAACGGCTGAAAT+CGG | 0.450703 | 3.3:-44647026 | MS.gene70949:CDS |
| CAAAATGTCGAAATCGGAAC+AGG | 0.457893 | 3.3:-44647164 | None:intergenic |
| CACTGTCCACCACGTTGTGC+TGG | 0.467693 | 3.3:-44646803 | MS.gene70949:CDS |
| TACGCTGCAATACATGAGTC+TGG | 0.467899 | 3.3:+44646453 | None:intergenic |
| AAAGTAATGTAATATGGCCT+AGG | 0.487724 | 3.3:+44646524 | None:intergenic |
| CAATCAAACAAATATTAAGC+AGG | 0.490074 | 3.3:-44646702 | MS.gene70949:intron |
| TAAAGCAAAAGCAGAAGCAA+AGG | 0.500294 | 3.3:-44646501 | MS.gene70949:CDS |
| TGAGGATGAGGAGGATAAGC+AGG | 0.508361 | 3.3:-44647083 | MS.gene70949:CDS |
| GTCTGGAAAGTTGTTAGAGC+AGG | 0.523457 | 3.3:+44646470 | None:intergenic |
| AGATTCATCTGTGGAGGAGA+AGG | 0.525065 | 3.3:-44647047 | MS.gene70949:CDS |
| TGGAGGAGAAGGAGGAGAAA+CGG | 0.528793 | 3.3:-44647036 | MS.gene70949:CDS |
| GTTGTCAAGTGTACCCATCC+TGG | 0.532074 | 3.3:-44646566 | MS.gene70949:CDS |
| ACACGATGAAGATTCATATG+AGG | 0.533014 | 3.3:-44647101 | MS.gene70949:CDS |
| AAAGCAAAAGCAGAAGCAAA+GGG | 0.538089 | 3.3:-44646500 | MS.gene70949:CDS |
| CTTTGTATACGAATAAGGCT+TGG | 0.542721 | 3.3:-44646895 | MS.gene70949:CDS |
| TGAAGATTCATATGAGGATG+AGG | 0.548643 | 3.3:-44647095 | MS.gene70949:CDS |
| CACATCATCGCTTAAGTCGA+GGG | 0.551344 | 3.3:+44646769 | None:intergenic |
| TTCATCTGTGGAGGAGAAGG+AGG | 0.554819 | 3.3:-44647044 | MS.gene70949:CDS |
| AACAGGAACCGAAATCGAAA+CGG | 0.558710 | 3.3:-44647147 | MS.gene70949:CDS |
| CTTCAAAGCAGCATTGCAGA+GGG | 0.559702 | 3.3:+44646730 | None:intergenic |
| GTATACGAATAAGGCTTGGA+AGG | 0.564676 | 3.3:-44646891 | MS.gene70949:CDS |
| GCATATAAAGAAGTAGCACC+AGG | 0.567371 | 3.3:+44646548 | None:intergenic |
| TGTCCACCACGTTGTGCTGG+CGG | 0.572730 | 3.3:-44646800 | MS.gene70949:CDS |
| TAAGGCTTGGAAGGATCGTA+AGG | 0.585446 | 3.3:-44646882 | MS.gene70949:CDS |
| TAAAGAAGTAGCACCAGGAT+GGG | 0.590468 | 3.3:+44646553 | None:intergenic |
| GCACATCATCGCTTAAGTCG+AGG | 0.599300 | 3.3:+44646768 | None:intergenic |
| ATAAAGAAGTAGCACCAGGA+TGG | 0.610411 | 3.3:+44646552 | None:intergenic |
| CAGCACAACGTGGTGGACAG+TGG | 0.610706 | 3.3:+44646804 | None:intergenic |
| GAAACAAGATTCATCTGTGG+AGG | 0.613961 | 3.3:-44647053 | MS.gene70949:CDS |
| TCTTCAAAGCAGCATTGCAG+AGG | 0.630589 | 3.3:+44646729 | None:intergenic |
| AGATTCATATGAGGATGAGG+AGG | 0.633765 | 3.3:-44647092 | MS.gene70949:CDS |
| AGAAGATTCTGAGTATAGTG+AGG | 0.652619 | 3.3:-44646987 | MS.gene70949:CDS |
| GCAAAAGCAGAAGCAAAGGG+AGG | 0.667232 | 3.3:-44646497 | MS.gene70949:CDS |
| GAAACGGCTGAAATCAGGAT+CGG | 0.671485 | 3.3:-44647131 | MS.gene70949:CDS |
| TGAGTATAGTGAGGAAGACG+AGG | 0.671624 | 3.3:-44646978 | MS.gene70949:CDS |
| CATGAAACAAGATTCATCTG+TGG | 0.677002 | 3.3:-44647056 | MS.gene70949:CDS |
| ATACCGCCAGCACAACGTGG+TGG | 0.689012 | 3.3:+44646797 | None:intergenic |
| ACATCATCGCTTAAGTCGAG+GGG | 0.690101 | 3.3:+44646770 | None:intergenic |
| TTCAAAGCAGCATTGCAGAG+GGG | 0.703047 | 3.3:+44646731 | None:intergenic |
| ACAATACCGCCAGCACAACG+TGG | 0.758364 | 3.3:+44646794 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CTTGTTTATTATTATTAATT+AGG | - | chr3.3:44646954-44646973 | MS.gene70949:CDS | 10.0% |
| !!! | GCTTTAAAAGTAATGTAATA+TGG | + | chr3.3:44647051-44647070 | None:intergenic | 20.0% |
| ! | ACTTTATCAAACACAAAAGT+TGG | + | chr3.3:44646982-44647001 | None:intergenic | 25.0% |
| ! | CAATCAAACAAATATTAAGC+AGG | - | chr3.3:44646864-44646883 | MS.gene70949:CDS | 25.0% |
| AAAGTAATGTAATATGGCCT+AGG | + | chr3.3:44647045-44647064 | None:intergenic | 30.0% | |
| CAAACAAATATTAAGCAGGT+TGG | - | chr3.3:44646868-44646887 | MS.gene70949:CDS | 30.0% | |
| TGGTTCTTTGTATACGAATA+AGG | - | chr3.3:44646666-44646685 | MS.gene70949:intron | 30.0% | |
| ! | ACAATGACAGTTTTCCATTT+TGG | - | chr3.3:44646629-44646648 | MS.gene70949:intron | 30.0% |
| AAAGCAAAAGCAGAAGCAAA+GGG | - | chr3.3:44647066-44647085 | MS.gene70949:CDS | 35.0% | |
| ACACGATGAAGATTCATATG+AGG | - | chr3.3:44646465-44646484 | MS.gene70949:CDS | 35.0% | |
| AGAAGATTCTGAGTATAGTG+AGG | - | chr3.3:44646579-44646598 | MS.gene70949:CDS | 35.0% | |
| ATGAAACACTCTTTGACAAC+AGG | + | chr3.3:44647150-44647169 | None:intergenic | 35.0% | |
| CATGAAACAAGATTCATCTG+TGG | - | chr3.3:44646510-44646529 | MS.gene70949:CDS | 35.0% | |
| CTACTTCTTTATATGCTCCT+AGG | - | chr3.3:44647025-44647044 | MS.gene70949:CDS | 35.0% | |
| CTTTGTATACGAATAAGGCT+TGG | - | chr3.3:44646671-44646690 | MS.gene70949:intron | 35.0% | |
| TAAAGCAAAAGCAGAAGCAA+AGG | - | chr3.3:44647065-44647084 | MS.gene70949:CDS | 35.0% | |
| TCACTATACTCAGAATCTTC+TGG | + | chr3.3:44646580-44646599 | None:intergenic | 35.0% | |
| TGAAGATTCATATGAGGATG+AGG | - | chr3.3:44646471-44646490 | MS.gene70949:CDS | 35.0% | |
| AAATCGAAACGGCTGAAATC+AGG | - | chr3.3:44646430-44646449 | MS.gene70949:CDS | 40.0% | |
| AACAGGAACCGAAATCGAAA+CGG | - | chr3.3:44646419-44646438 | MS.gene70949:CDS | 40.0% | |
| AGATTCATATGAGGATGAGG+AGG | - | chr3.3:44646474-44646493 | MS.gene70949:CDS | 40.0% | |
| ATAAAGAAGTAGCACCAGGA+TGG | + | chr3.3:44647017-44647036 | None:intergenic | 40.0% | |
| GAAACAAGATTCATCTGTGG+AGG | - | chr3.3:44646513-44646532 | MS.gene70949:CDS | 40.0% | |
| GATTTCAGCCGTTTCGATTT+CGG | + | chr3.3:44646430-44646449 | None:intergenic | 40.0% | |
| GCATATAAAGAAGTAGCACC+AGG | + | chr3.3:44647021-44647040 | None:intergenic | 40.0% | |
| GTATACGAATAAGGCTTGGA+AGG | - | chr3.3:44646675-44646694 | MS.gene70949:intron | 40.0% | |
| TAAAGAAGTAGCACCAGGAT+GGG | + | chr3.3:44647016-44647035 | None:intergenic | 40.0% | |
| TACTCAGAATCTTCTGGATC+CGG | + | chr3.3:44646574-44646593 | None:intergenic | 40.0% | |
| TCACGACGCTTATACCAAAA+TGG | + | chr3.3:44646646-44646665 | None:intergenic | 40.0% | |
| !! | TTTTGGTATAAGCGTCGTGA+TGG | - | chr3.3:44646646-44646665 | MS.gene70949:intron | 40.0% |
| ACATCATCGCTTAAGTCGAG+GGG | + | chr3.3:44646799-44646818 | None:intergenic | 45.0% | |
| AGATTCATCTGTGGAGGAGA+AGG | - | chr3.3:44646519-44646538 | MS.gene70949:CDS | 45.0% | |
| CACATCATCGCTTAAGTCGA+GGG | + | chr3.3:44646800-44646819 | None:intergenic | 45.0% | |
| CTTCAAAGCAGCATTGCAGA+GGG | + | chr3.3:44646839-44646858 | None:intergenic | 45.0% | |
| GAAACGGCTGAAATCAGGAT+CGG | - | chr3.3:44646435-44646454 | MS.gene70949:CDS | 45.0% | |
| GAATCTTCTGGATCCGGTTT+CGG | + | chr3.3:44646568-44646587 | None:intergenic | 45.0% | |
| GTCTGGAAAGTTGTTAGAGC+AGG | + | chr3.3:44647099-44647118 | None:intergenic | 45.0% | |
| TAAGGCTTGGAAGGATCGTA+AGG | - | chr3.3:44646684-44646703 | MS.gene70949:intron | 45.0% | |
| TACGCTGCAATACATGAGTC+TGG | + | chr3.3:44647116-44647135 | None:intergenic | 45.0% | |
| TCTTCAAAGCAGCATTGCAG+AGG | + | chr3.3:44646840-44646859 | None:intergenic | 45.0% | |
| TGAGTATAGTGAGGAAGACG+AGG | - | chr3.3:44646588-44646607 | MS.gene70949:CDS | 45.0% | |
| TTCAAAGCAGCATTGCAGAG+GGG | + | chr3.3:44646838-44646857 | None:intergenic | 45.0% | |
| !! | TTGTTTATTATTATTAATTA+GGG | - | chr3.3:44646955-44646974 | MS.gene70949:CDS | 5.0% |
| GCAAAAGCAGAAGCAAAGGG+AGG | - | chr3.3:44647069-44647088 | MS.gene70949:CDS | 50.0% | |
| GCACATCATCGCTTAAGTCG+AGG | + | chr3.3:44646801-44646820 | None:intergenic | 50.0% | |
| GCTGAAATCGGAACCGAAAC+CGG | - | chr3.3:44646552-44646571 | MS.gene70949:CDS | 50.0% | |
| GGAGGAGAAACGGCTGAAAT+CGG | - | chr3.3:44646540-44646559 | MS.gene70949:CDS | 50.0% | |
| GTTGTCAAGTGTACCCATCC+TGG | - | chr3.3:44647000-44647019 | MS.gene70949:CDS | 50.0% | |
| TGAGGATGAGGAGGATAAGC+AGG | - | chr3.3:44646483-44646502 | MS.gene70949:CDS | 50.0% | |
| TGCAGAGGGGTTTGAGAGTA+CGG | + | chr3.3:44646825-44646844 | None:intergenic | 50.0% | |
| TGGAGGAGAAGGAGGAGAAA+CGG | - | chr3.3:44646530-44646549 | MS.gene70949:CDS | 50.0% | |
| TTCATCTGTGGAGGAGAAGG+AGG | - | chr3.3:44646522-44646541 | MS.gene70949:CDS | 50.0% | |
| ACAATACCGCCAGCACAACG+TGG | + | chr3.3:44646775-44646794 | None:intergenic | 55.0% | |
| ATACCGCCAGCACAACGTGG+TGG | + | chr3.3:44646772-44646791 | None:intergenic | 60.0% | |
| CACTGTCCACCACGTTGTGC+TGG | - | chr3.3:44646763-44646782 | MS.gene70949:CDS | 60.0% | |
| TGTCCACCACGTTGTGCTGG+CGG | - | chr3.3:44646766-44646785 | MS.gene70949:CDS | 60.0% | |
| !! | CAGCACAACGTGGTGGACAG+TGG | + | chr3.3:44646765-44646784 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 44646406 | 44647182 | 44646406 | ID=MS.gene70949 |
| chr3.3 | mRNA | 44646406 | 44647182 | 44646406 | ID=MS.gene70949.t1;Parent=MS.gene70949 |
| chr3.3 | exon | 44646703 | 44647182 | 44646703 | ID=MS.gene70949.t1.exon1;Parent=MS.gene70949.t1 |
| chr3.3 | CDS | 44646703 | 44647182 | 44646703 | ID=cds.MS.gene70949.t1;Parent=MS.gene70949.t1 |
| chr3.3 | exon | 44646406 | 44646612 | 44646406 | ID=MS.gene70949.t1.exon2;Parent=MS.gene70949.t1 |
| chr3.3 | CDS | 44646406 | 44646612 | 44646406 | ID=cds.MS.gene70949.t1;Parent=MS.gene70949.t1 |
| Gene Sequence |
| Protein sequence |
