Rorug06G0090000

Rapid ALkalinization Factor (RALF)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0000322
Physical Location & Seq
Reverse (-)
11966759 .. 11970171
3413 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0090000.1

Sequence Viewer

Length: 1215 bp
ATGAAGTCTGACAGCCATAAACCAAAGACATGTAAGAAGGCCAAAGTCAAAAGCTTATATGATACATCCAAAGCTCAGTGTTCTGTTCTTGAAAGAGCAAATGAGCTTGCAGCAAACCTAGCACCAGAGTTTCCTAGCCTCGTCAAAGTTATGATGCCGTCACATGTTACTCGAGTCTTCTGGCTTGGTATTCCTAGGTCGTTCTGCCGTGAGCATATGCCAAAGGATGACACAATGATTGTCTTGGAAGATGAAAATGGGGAAGAATACCAAACGAAATATCTTGTGGCGAAGGAAGGATTGAGCGGTGGATGGAGAGCATTCTCAGTTGCTCACAAGTTACTGGAGGGAGATGTTCTAGTTTTCCACAAAGTCATGCCATCAAAATTGAAGGTGTATATTGTTAGATCAACTGGTTCAGATGAAGTGGATTGCTCTCTTGGTCTTATCAAATTTGATCATGGCATTAGACGAATCAAAACTACAGAAGTTACTGCATGTGAAAGCTCAAAAAATGGGAAACTGGAACCTATTTCAGTGGAAACTCTGCATGAAAATGTTCAGAAGGAGAACACCACAGCCTGTAATACATTGTCTGGTCCAATGTCAAACCAGTATCAAATAGATAGTGAAGTTCTTTATTCTGAAGTTCTGGATGGAATAAGGGTTTCAGAGTCTGTTATCCCTTTCAAAGAAGTGAGCTGCATTGAGAACTTTAAGGTCACAGTCAGTGGTTCAATCATAAATGCTGAGATCTCCGAACACCATCTGATCAAGTACTATGAGCTCTGCCGCAGTCAAAACTCATTTCTTCATGAGCATATTCTTGAGCGTCTTAACTCCAGTCTGGTTGCTGGAATAATTTCTGAGACAGTAAATCTTTCGGATGCCATTAGAGCCTGCAAGATTTCTACTTCAGAGTGTGATTTTTGGACTTGGGATAGGACTCTGCAAGCTTCTGAGATGTTAGGCATGAATGTTGGGTTCTTGCGTGCCCGGCTGGACCAGCTTGCAAGCCTTGCTTCAAAATCAAATCTGTGTAAAGAGGCTAGACTTGCAAGAGACCAAGCAGTAAAGGATATGATAACCTTGGAAGCAAAGCTTGTAAGAGCCAGAGAGGTCATAAATAGGCTCAACTTTGAGATTGAGAGTCTAAATGCAAGTTTAAAGAAGCTTGAGGCTATGTTCAAAGAAGTGGCTAAGGCCCCTTGGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RALF

Protein Analysis

404

Amino Acids

45.42

Weight (kDa)

6.84

Isoelectric Point (pI)

33.3

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 48 - 137 2e-17 B3 DNA binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000322)

Species Orthologous Gene IDs
rosa_rugosa Rorug01G0045800 Rorug01G0060200 Rorug01G0078200 Rorug01G0080300 Rorug01G0080500 Rorug01G0093600 Rorug01G0096100 Rorug01G0138500.1 Rorug01G0147900.1 Rorug01G0156300.1 Rorug01G0181600 Rorug01G0183600 Rorug01G0183600 Rorug01G0196000 Rorug01G0206200 Rorug01G0206200 Rorug01G0206300 Rorug01G0206400 Rorug01G0245700 Rorug01G0267300 Rorug01G0268000 Rorug01G0324700 Rorug01G0324800 Rorug02G0034400 Rorug02G0034500 Rorug02G0104900 Rorug02G0224800 Rorug02G0224900 Rorug02G0247400 Rorug02G0261500 Rorug02G0288300 Rorug02G0297300 Rorug02G0297400 Rorug02G0314900 Rorug02G0362700 Rorug02G0438500 Rorug02G0438600 Rorug02G0438700 Rorug02G0438800 Rorug02G0525300 Rorug02G0540100 Rorug03G0147100 Rorug03G0150900 Rorug03G0171600 Rorug03G0182000 Rorug03G0200200 Rorug03G0201100 Rorug03G0218400 Rorug03G0218700 Rorug03G0268200 Rorug03G0285500 Rorug03G0296600 Rorug03G0296700 Rorug03G0296800 Rorug03G0341800 Rorug03G0347200 Rorug03G0356300 Rorug04G0029100 Rorug04G0036300 Rorug04G0046500 Rorug04G0070100 Rorug04G0098900 Rorug04G0104400 Rorug04G0167800 Rorug04G0209300 Rorug04G0210700 Rorug04G0210800 Rorug04G0212500 Rorug05G0109400 Rorug05G0148500 Rorug05G0148800 Rorug05G0160200 Rorug05G0184600 Rorug05G0206100 Rorug05G0208500 Rorug05G0208500 Rorug05G0209500 Rorug05G0235800 Rorug05G0239200 Rorug05G0301100 Rorug05G0427000 Rorug05G0451700 Rorug05G0462300 Rorug05G0467300 Rorug05G0524100 Rorug05G0527400 Rorug05G0527500 Rorug05G0561800 Rorug05G0567700 Rorug05G0574200 Rorug06G0000900 Rorug06G0018700.1 Rorug06G0025100 Rorug06G0025200 Rorug06G0025500 Rorug06G0041300 Rorug06G0048100 Rorug06G0050800 Rorug06G0053900 Rorug06G0075200 Rorug06G0080600 Rorug06G0087500.1 Rorug06G0090000 Rorug06G0141200 Rorug06G0218300 Rorug07G0106700 Rorug07G0125500 Rorug07G0185500 Rorug07G0194000 Rorug07G0196600 Rorug07G0200600 Rorug07G0217300 Rorug07G0250300 Rorug07G0301900 Rorug07G0309100.1

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 306
AciI CCGC 2 cut(s) 306, 793
AcsI RAATTY 1 cut(s) 452
AcuI CTGAAG 2 cut(s) 666, 900
AfaI GTAC 1 cut(s) 779
AflIII ACRYGT 2 cut(s) 29, 163
AgsI TTSAA 6 cut(s) 92, 391, 691, 738, 1026, 1189
Alw21I GWGCWC 1 cut(s) 789
Alw26I GTCTC 2 cut(s) 863, 1056
AlwNI CAGNNNCTG 1 cut(s) 677
Ama87I CYCGRG 1 cut(s) 171
AoxI GGCC 2 cut(s) 39, 1203
ApeKI GCWGC 2 cut(s) 110, 702
ApoI RAATTY 1 cut(s) 452
Asp700I GAANNNNTTC 2 cut(s) 558, 862
AspA2I CCTAGG 1 cut(s) 194
AspS9I GGNCC 3 cut(s) 599, 1003, 1204
AsuC2I CCSGG 1 cut(s) 997
AvaI CYCGRG 1 cut(s) 171
AvaII GGWCC 2 cut(s) 599, 1003
AvrII CCTAGG 1 cut(s) 194
BaeGI GKGCMC 1 cut(s) 997
BanII GRGCYC 1 cut(s) 789
BbsI GAAGAC 1 cut(s) 169
Bbv12I GWGCWC 1 cut(s) 789
BbvI GCAGC 2 cut(s) 122, 689
BccI CCATC 4 cut(s) 306, 388, 650, 774
BceAI ACGGC 2 cut(s) 142, 192
BclI TGATCA 2 cut(s) 457, 771
BcnI CCSGG 1 cut(s) 997
BcoDI GTCTC 2 cut(s) 863, 1056
BfaI CTAG 5 cut(s) 119, 135, 195, 359, 1050
BfmI CTRYAG 1 cut(s) 483
BglII AGATCT 1 cut(s) 753
BisI GCNGC 3 cut(s) 111, 703, 793
BlnI CCTAGG 1 cut(s) 194
BlsI GCNGC 3 cut(s) 112, 704, 794
BmcAI AGTACT 1 cut(s) 779
Bme1390I CCNGG 1 cut(s) 997
Bme18I GGWCC 2 cut(s) 599, 1003
BmeT110I CYCGRG 1 cut(s) 171
BmgT120I GGNCC 3 cut(s) 599, 1003, 1204
BmiI GGNNCC 2 cut(s) 528, 1206
BmrFI CCNGG 1 cut(s) 997
BmsI GCATC 2 cut(s) 144, 877
BpiI GAAGAC 1 cut(s) 169
BpmI CTGGAG 2 cut(s) 365, 826
Bpu10I CCTNAGC 1 cut(s) 1200
BpuEI CTTGAG 2 cut(s) 848, 1196
BpuMI CCSGG 1 cut(s) 997
BsaI GGTCTC 1 cut(s) 1056
BsaJI CCNNGG 3 cut(s) 194, 1089, 1208
Bse1I ACTGG 5 cut(s) 348, 418, 528, 613, 843
BseDI CCNNGG 3 cut(s) 194, 1089, 1208
BseGI GGATG 5 cut(s) 65, 232, 317, 661, 892
BseMII CTCAG 5 cut(s) 89, 339, 741, 858, 951
BseNI ACTGG 5 cut(s) 348, 418, 528, 613, 843
BseSI GKGCMC 1 cut(s) 997
BseXI GCAGC 2 cut(s) 122, 689
BshFI GGCC 2 cut(s) 41, 1205
BsiHKAI GWGCWC 1 cut(s) 789
BsiHKCI CYCGRG 1 cut(s) 171
BsiSI CCGG 1 cut(s) 997
BsmAI GTCTC 2 cut(s) 863, 1056
BsmI GAATGC 1 cut(s) 320
BsnI GGCC 2 cut(s) 41, 1205
Bso31I GGTCTC 1 cut(s) 1056
BsoBI CYCGRG 1 cut(s) 171
Bsp1286I GDGCHC 2 cut(s) 789, 997
Bsp143I GATC 4 cut(s) 407, 457, 753, 771
BspACI CCGC 2 cut(s) 306, 793
BspANI GGCC 2 cut(s) 41, 1205
BspCNI CTCAG 5 cut(s) 88, 338, 742, 859, 952
BspHI TCATGA 1 cut(s) 814
BspLI GGNNCC 2 cut(s) 528, 1206
BspTNI GGTCTC 1 cut(s) 1056
BsrBI CCGCTC 1 cut(s) 306
BsrI ACTGG 5 cut(s) 348, 418, 528, 613, 843
BssECI CCNNGG 3 cut(s) 194, 1089, 1208
BssMI GATC 4 cut(s) 407, 457, 753, 771
BssT1I CCWWGG 3 cut(s) 194, 1089, 1208
Bst4CI ACNGT 2 cut(s) 727, 874
BstAPI GCANNNNNTGC 1 cut(s) 1019
BstC8I GCNNGC 6 cut(s) 108, 901, 954, 993, 1011, 1015
BstDEI CTNAG 6 cut(s) 75, 325, 750, 867, 960, 1200
BstF5I GGATG 5 cut(s) 65, 232, 317, 661, 892
BstKTI GATC 4 cut(s) 410, 460, 756, 774
BstMAI GTCTC 2 cut(s) 863, 1056
BstMBI GATC 4 cut(s) 407, 457, 753, 771
BstMWI GCNNNNNNNGC 6 cut(s) 119, 896, 997, 1006, 1019, 1055
BstNSI RCATGY 3 cut(s) 33, 167, 501
BstSCI CCNGG 1 cut(s) 995
BstSFI CTRYAG 1 cut(s) 483
BstSLI GKGCMC 1 cut(s) 997
BstV1I GCAGC 2 cut(s) 122, 689
BstV2I GAAGAC 1 cut(s) 169
BstX2I RGATCY 1 cut(s) 753
BstYI RGATCY 1 cut(s) 753
BsuRI GGCC 2 cut(s) 41, 1205
BtsCI GGATG 5 cut(s) 65, 232, 317, 661, 892
BtsIMutI CAGTG 3 cut(s) 83, 543, 736
Cac8I GCNNGC 6 cut(s) 108, 901, 954, 993, 1011, 1015
CaiI CAGNNNCTG 1 cut(s) 677
CciI TCATGA 1 cut(s) 814
Cfr13I GGNCC 3 cut(s) 599, 1003, 1204
CseI GACGC 1 cut(s) 821
Csp6I GTAC 1 cut(s) 778
CviAII CATG 8 cut(s) 30, 164, 376, 461, 498, 551, 815, 973
CviQI GTAC 1 cut(s) 778
DdeI CTNAG 6 cut(s) 75, 325, 750, 867, 960, 1200
DpnI GATC 4 cut(s) 409, 459, 755, 773
DpnII GATC 4 cut(s) 407, 457, 753, 771
DraI TTTAAA 1 cut(s) 1167
Ecl136II GAGCTC 1 cut(s) 787
Eco130I CCWWGG 3 cut(s) 194, 1089, 1208
Eco24I GRGCYC 1 cut(s) 789
Eco31I GGTCTC 1 cut(s) 1056
Eco47I GGWCC 2 cut(s) 599, 1003
Eco53kI GAGCTC 1 cut(s) 787
Eco57I CTGAAG 2 cut(s) 666, 900
Eco88I CYCGRG 1 cut(s) 171
EcoICRI GAGCTC 1 cut(s) 787
EcoO109I RGGNCCY 1 cut(s) 1204
EcoT14I CCWWGG 3 cut(s) 194, 1089, 1208
EcoT38I GRGCYC 1 cut(s) 789
ErhI CCWWGG 3 cut(s) 194, 1089, 1208
FaeI CATG 8 cut(s) 33, 167, 379, 464, 501, 554, 818, 976
FalI AAGNNNNNCTT 4 cut(s) 1006, 1038, 1086, 1118
FatI CATG 8 cut(s) 29, 163, 375, 460, 497, 550, 814, 972
FauNDI CATATG 1 cut(s) 216
FbaI TGATCA 2 cut(s) 457, 771
Fnu4HI GCNGC 3 cut(s) 111, 703, 793
FokI GGATG 5 cut(s) 52, 239, 324, 668, 899
FriOI GRGCYC 1 cut(s) 789
Fsp4HI GCNGC 3 cut(s) 111, 703, 793
FspBI CTAG 5 cut(s) 119, 135, 195, 359, 1050
GluI GCNGC 3 cut(s) 111, 703, 793
GsuI CTGGAG 2 cut(s) 365, 826
HaeIII GGCC 2 cut(s) 41, 1205
HapII CCGG 1 cut(s) 997
HgaI GACGC 1 cut(s) 821
Hin1II CATG 8 cut(s) 33, 167, 379, 464, 501, 554, 818, 976
HindIII AAGCTT 4 cut(s) 52, 954, 1100, 1172
HinfI GANTC 5 cut(s) 174, 474, 674, 946, 1150
HpaII CCGG 1 cut(s) 997
Hpy188III TCNNGA 4 cut(s) 89, 653, 815, 827
HpyAV CCTTC 5 cut(s) 31, 286, 290, 385, 559
HpyCH4III ACNGT 2 cut(s) 727, 874
HpyCH4V TGCA 9 cut(s) 110, 497, 550, 705, 903, 952, 1013, 1058, 1160
HpyF10VI GCNNNNNNNGC 6 cut(s) 119, 896, 997, 1006, 1019, 1055
HpyF3I CTNAG 6 cut(s) 75, 325, 750, 867, 960, 1200
Hsp92II CATG 8 cut(s) 33, 167, 379, 464, 501, 554, 818, 976
Ksp22I TGATCA 2 cut(s) 457, 771
Kzo9I GATC 4 cut(s) 407, 457, 753, 771
Lsp1109I GCAGC 2 cut(s) 122, 689
LweI GCATC 2 cut(s) 144, 877
MaeI CTAG 5 cut(s) 119, 135, 195, 359, 1050
MaeIII GTNAC 5 cut(s) 159, 166, 339, 490, 721
MalI GATC 4 cut(s) 409, 459, 755, 773
MbiI CCGCTC 1 cut(s) 306
MboI GATC 4 cut(s) 407, 457, 753, 771
MboII GAAGA 4 cut(s) 169, 260, 275, 803
MflI RGATCY 1 cut(s) 753
MhlI GDGCHC 2 cut(s) 789, 997
MluCI AATT 3 cut(s) 386, 452, 861
MlyI GAGTC 4 cut(s) 183, 683, 940, 1159
MnlI CCTC 5 cut(s) 149, 340, 1039, 1111, 1171
MroXI GAANNNNTTC 2 cut(s) 558, 862
MseI TTAA 3 cut(s) 717, 837, 1166
MslI CAYNNNNRTG 1 cut(s) 555
MspI CCGG 1 cut(s) 997
MspR9I CCNGG 1 cut(s) 997
Mva1269I GAATGC 1 cut(s) 320
MwoI GCNNNNNNNGC 6 cut(s) 119, 896, 997, 1006, 1019, 1055
NciI CCSGG 1 cut(s) 997
NdeI CATATG 1 cut(s) 216
NdeII GATC 4 cut(s) 407, 457, 753, 771
NlaIII CATG 8 cut(s) 33, 167, 379, 464, 501, 554, 818, 976
NlaIV GGNNCC 2 cut(s) 528, 1206
NmuCI GTSAC 2 cut(s) 159, 721
NspI RCATGY 3 cut(s) 33, 167, 501
PaeR7I CTCGAG 1 cut(s) 171
PagI TCATGA 1 cut(s) 814
PciI ACATGT 2 cut(s) 29, 163
PctI GAATGC 1 cut(s) 320
PdmI GAANNNNTTC 2 cut(s) 558, 862
PfeI GAWTC 1 cut(s) 474
PkrI GCNGC 3 cut(s) 112, 704, 794
PleI GAGTC 4 cut(s) 182, 682, 940, 1158
PpsI GAGTC 4 cut(s) 182, 682, 940, 1158
PscI ACATGT 2 cut(s) 29, 163
Psp124BI GAGCTC 1 cut(s) 789
PspN4I GGNNCC 2 cut(s) 528, 1206
PspPI GGNCC 3 cut(s) 599, 1003, 1204
PspXI VCTCGAGB 1 cut(s) 171
PstNI CAGNNNCTG 1 cut(s) 677
PsuI RGATCY 1 cut(s) 753
RsaI GTAC 1 cut(s) 779
RsaNI GTAC 1 cut(s) 778
RseI CAYNNNNRTG 1 cut(s) 555
SacI GAGCTC 1 cut(s) 789
SaqAI TTAA 3 cut(s) 717, 837, 1166
SatI GCNGC 3 cut(s) 111, 703, 793
Sau3AI GATC 4 cut(s) 407, 457, 753, 771
Sau96I GGNCC 3 cut(s) 599, 1003, 1204
ScaI AGTACT 1 cut(s) 779
SchI GAGTC 4 cut(s) 183, 683, 940, 1159
ScrFI CCNGG 1 cut(s) 997
SduI GDGCHC 2 cut(s) 789, 997
SfaNI GCATC 2 cut(s) 144, 877
SfcI CTRYAG 1 cut(s) 483
Sfr274I CTCGAG 1 cut(s) 171
SinI GGWCC 2 cut(s) 599, 1003
SlaI CTCGAG 1 cut(s) 171
SmiMI CAYNNNNRTG 1 cut(s) 555
SmlI CTYRAG 3 cut(s) 171, 827, 1175
SmoI CTYRAG 3 cut(s) 171, 827, 1175
Sse9I AATT 3 cut(s) 386, 452, 861
SsiI CCGC 2 cut(s) 306, 793
SspMI CTAG 5 cut(s) 119, 135, 195, 359, 1050
SstI GAGCTC 1 cut(s) 789
StyD4I CCNGG 1 cut(s) 995
StyI CCWWGG 3 cut(s) 194, 1089, 1208
TaaI ACNGT 2 cut(s) 727, 874
TaqI TCGA 1 cut(s) 172
TasI AATT 3 cut(s) 386, 452, 861
TatI WGTACW 1 cut(s) 777
TauI GCSGC 1 cut(s) 795
TfiI GAWTC 1 cut(s) 474
Tru1I TTAA 3 cut(s) 717, 837, 1166
Tru9I TTAA 3 cut(s) 717, 837, 1166
TscAI CASTG 3 cut(s) 83, 543, 736
TseFI GTSAC 2 cut(s) 159, 721
TseI GCWGC 2 cut(s) 110, 702
Tsp45I GTSAC 2 cut(s) 159, 721
TspDTI ATGAA 6 cut(s) 17, 267, 438, 567, 803, 989
TspRI CASTG 3 cut(s) 83, 543, 736
VpaK11BI GGWCC 2 cut(s) 599, 1003
XapI RAATTY 1 cut(s) 452
XceI RCATGY 3 cut(s) 33, 167, 501
XhoI CTCGAG 1 cut(s) 171
XmaJI CCTAGG 1 cut(s) 194
XmnI GAANNNNTTC 2 cut(s) 558, 862
XspI CTAG 5 cut(s) 119, 135, 195, 359, 1050
ZrmI AGTACT 1 cut(s) 779
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.