Rroxscaffold_3G00243760

TLR4 regulator and MIR-interacting MSAP

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0011086
Physical Location & Seq
Reverse (-)
36203173 .. 36205692
2520 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00243760.1

Sequence Viewer

Length: 606 bp
ATGGATATGGGCCGGGTAGTCCAGACCCGGCGGTCCACCCAGGATGGAGAAGAAGAAGAAGATGGAAGGGTCAATGCTGGCGACCGTGATTCTGATATTCACCATCTTCACCGTCGCTTCTTCCATCGACGACAAATGCGCCGCCTGCAATGCCGTCGCGGAGGAGCTAGAGTGGGGACTTTCCAAAGAAAAGCCCAGAAACCACTTGGATATGAGACACCGGTTGGGACTCCCAAGGTCAACGGAGAGGAAAGAGTCAGTGAGCTCAGAGTTGTTGAACTCCTCGATGGACTTTGTGATAAGATGCAGGATTACACTCTTCGCAAGATAGATTCAAACAGACAAGAGTGGATCAAAGTGGATAATTGGGATAACCTCACAACAGATAAACAAGAAGCTAGAGCATATTCAAAGGATATATCAACTTATTGTGGAAGGTTACTTGAGGAAACAGAAGATGAGATTGCAGAATTGATAAAGAAAGGATCTCTTGGAGTAGGAGATGTAAGCAAGGTTCTATGTCAAGATTTGAGCAAACACTGCAGCAAAACAAGTGCTTCACATGAGGAAAATGGTTCTAATGGTGGATCAGATGGAGAACTCTGA
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
DUF3456

Protein Analysis

201

Amino Acids

22.88

Weight (kDa)

6.11

Isoelectric Point (pI)

44.26

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF3456 PF11938 84 - 181 6.3e-20 TLR4 regulator and MIR-interacting MSAP
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: OG0011086)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G42480 AT1G42480 AT1G42480
fragaria_vesca FvH4_5g25650 FvH4_5g25650
malus_domestica MD06G1006600.v1.1
prunus_persica Prupe.5G008600_v2.0.a1 Prupe.5G008700_v2.0.a1
pyrus_communis pycom06g00580
rosa_chinensis RchiOBHm_Chr7g0215941
rosa_laevigata RLG00000002605
rosa_multiflora Rmu_co8213036.1_g000001 Rmu_sc0030911.1_g000001
rosa_roxburghii Rroxscaffold_3G00243760
rosa_rugosa Rorug07G0157200
rosa_samantha Rh7AG295200 Rh7BG287200 Rh7CG315300 Rh7DG297900
rosa_wichuraiana Rw7G025070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 31
AccII CGCG 1 cut(s) 159
AciI CCGC 3 cut(s) 31, 142, 159
AclWI GGATC 3 cut(s) 359, 493, 595
AgeI ACCGGT 1 cut(s) 220
AgsI TTSAA 3 cut(s) 278, 336, 411
AjnI CCWGG 1 cut(s) 39
AluBI AGCT 3 cut(s) 167, 265, 398
AluI AGCT 3 cut(s) 167, 265, 398
Alw21I GWGCWC 1 cut(s) 267
Alw26I GTCTC 1 cut(s) 209
AlwI GGATC 3 cut(s) 359, 493, 595
AoxI GGCC 1 cut(s) 10
ApeKI GCWGC 1 cut(s) 543
AsiGI ACCGGT 1 cut(s) 220
AspLEI GCGC 1 cut(s) 141
AspS9I GGNCC 2 cut(s) 10, 33
AsuC2I CCSGG 2 cut(s) 14, 28
AsuHPI GGTGA 2 cut(s) 92, 101
AvaII GGWCC 1 cut(s) 33
BanII GRGCYC 1 cut(s) 267
Bbv12I GWGCWC 1 cut(s) 267
BbvI GCAGC 1 cut(s) 555
BccI CCATC 6 cut(s) 38, 56, 111, 132, 281, 587
BceAI ACGGC 1 cut(s) 138
BcgI CGANNNNNNTGC 2 cut(s) 137, 171
BciT130I CCWGG 1 cut(s) 41
BcnI CCSGG 2 cut(s) 14, 28
BcoDI GTCTC 1 cut(s) 209
BfaI CTAG 2 cut(s) 168, 399
BfmI CTRYAG 1 cut(s) 541
BisI GCNGC 2 cut(s) 142, 544
BlsI GCNGC 2 cut(s) 143, 545
Bme1390I CCNGG 3 cut(s) 14, 28, 41
Bme18I GGWCC 1 cut(s) 33
BmgT120I GGNCC 2 cut(s) 10, 33
BmrFI CCNGG 3 cut(s) 14, 28, 41
BmsI GCATC 1 cut(s) 294
BpuEI CTTGAG 1 cut(s) 464
BpuMI CCSGG 2 cut(s) 14, 28
BsaJI CCNNGG 2 cut(s) 39, 234
BsaWI WCCGGW 1 cut(s) 220
BsaXI ACNNNNNCTCC 2 cut(s) 156, 186
Bse118I RCCGGY 1 cut(s) 220
Bse3DI GCAATG 1 cut(s) 155
BseBI CCWGG 1 cut(s) 41
BseDI CCNNGG 2 cut(s) 39, 234
BseGI GGATG 1 cut(s) 49
BseMI GCAATG 1 cut(s) 155
BseMII CTCAG 1 cut(s) 280
BseRI GAGGAG 2 cut(s) 177, 272
BseXI GCAGC 1 cut(s) 555
Bsh1236I CGCG 1 cut(s) 159
Bsh1285I CGRYCG 1 cut(s) 85
BshFI GGCC 1 cut(s) 12
BshTI ACCGGT 1 cut(s) 220
BsiEI CGRYCG 1 cut(s) 85
BsiHKAI GWGCWC 1 cut(s) 267
BsiSI CCGG 3 cut(s) 13, 28, 221
BslFI GGGAC 2 cut(s) 190, 241
BsmAI GTCTC 1 cut(s) 209
BsmFI GGGAC 2 cut(s) 190, 241
BsnI GGCC 1 cut(s) 12
Bsp1286I GDGCHC 1 cut(s) 267
Bsp143I GATC 3 cut(s) 351, 485, 587
BspACI CCGC 3 cut(s) 31, 142, 159
BspANI GGCC 1 cut(s) 12
BspCNI CTCAG 1 cut(s) 279
BspFNI CGCG 1 cut(s) 159
BspMAI CTGCAG 1 cut(s) 545
BspPI GGATC 3 cut(s) 359, 493, 595
BsrDI GCAATG 1 cut(s) 155
BsrFI RCCGGY 1 cut(s) 220
BssAI RCCGGY 1 cut(s) 220
BssECI CCNNGG 2 cut(s) 39, 234
BssMI GATC 3 cut(s) 351, 485, 587
BssT1I CCWWGG 1 cut(s) 234
Bst2UI CCWGG 1 cut(s) 41
Bst4CI ACNGT 2 cut(s) 86, 113
Bst6I CTCTTC 1 cut(s) 324
BstAPI GCANNNNNTGC 1 cut(s) 540
BstC8I GCNNGC 2 cut(s) 79, 146
BstDEI CTNAG 1 cut(s) 266
BstF5I GGATG 1 cut(s) 49
BstFNI CGCG 1 cut(s) 159
BstHHI GCGC 1 cut(s) 141
BstKTI GATC 3 cut(s) 354, 488, 590
BstMAI GTCTC 1 cut(s) 209
BstMBI GATC 3 cut(s) 351, 485, 587
BstMCI CGRYCG 1 cut(s) 85
BstMWI GCNNNNNNNGC 3 cut(s) 145, 150, 540
BstNI CCWGG 1 cut(s) 41
BstSCI CCNGG 3 cut(s) 12, 26, 39
BstSFI CTRYAG 1 cut(s) 541
BstUI CGCG 1 cut(s) 159
BstV1I GCAGC 1 cut(s) 555
BstX2I RGATCY 1 cut(s) 485
BstYI RGATCY 1 cut(s) 485
BsuRI GGCC 1 cut(s) 12
BtsCI GGATG 1 cut(s) 49
BtsI GCAGTG 1 cut(s) 538
BtsIMutI CAGTG 2 cut(s) 265, 538
Cac8I GCNNGC 2 cut(s) 79, 146
CfoI GCGC 1 cut(s) 141
Cfr10I RCCGGY 1 cut(s) 220
Cfr13I GGNCC 2 cut(s) 10, 33
CspAI ACCGGT 1 cut(s) 220
CviAII CATG 1 cut(s) 563
CviJI RGCY 5 cut(s) 12, 167, 194, 265, 398
CviKI_1 RGCY 5 cut(s) 12, 167, 194, 265, 398
DdeI CTNAG 1 cut(s) 266
DpnI GATC 3 cut(s) 353, 487, 589
DpnII GATC 3 cut(s) 351, 485, 587
DrdI GACNNNNNNGTC 1 cut(s) 31
DseDI GACNNNNNNGTC 1 cut(s) 31
Eam1104I CTCTTC 1 cut(s) 324
EarI CTCTTC 1 cut(s) 324
Ecl136II GAGCTC 1 cut(s) 265
Eco130I CCWWGG 1 cut(s) 234
Eco24I GRGCYC 1 cut(s) 267
Eco47I GGWCC 1 cut(s) 33
Eco53kI GAGCTC 1 cut(s) 265
EcoICRI GAGCTC 1 cut(s) 265
EcoRII CCWGG 1 cut(s) 39
EcoT14I CCWWGG 1 cut(s) 234
EcoT38I GRGCYC 1 cut(s) 267
ErhI CCWWGG 1 cut(s) 234
FaeI CATG 1 cut(s) 566
FaiI YATR 6 cut(s) 8, 213, 406, 419, 520, 564
FalI AAGNNNNNCTT 2 cut(s) 474, 506
FaqI GGGAC 2 cut(s) 190, 241
FatI CATG 1 cut(s) 562
Fnu4HI GCNGC 2 cut(s) 142, 544
FokI GGATG 1 cut(s) 56
FriOI GRGCYC 1 cut(s) 267
Fsp4HI GCNGC 2 cut(s) 142, 544
FspBI CTAG 2 cut(s) 168, 399
GlaI GCGC 1 cut(s) 140
GluI GCNGC 2 cut(s) 142, 544
HaeIII GGCC 1 cut(s) 12
HapII CCGG 3 cut(s) 13, 28, 221
HhaI GCGC 1 cut(s) 141
Hin1II CATG 1 cut(s) 566
Hin6I GCGC 1 cut(s) 139
HinP1I GCGC 1 cut(s) 139
HincII GTYRAC 1 cut(s) 241
HindII GTYRAC 1 cut(s) 241
HinfI GANTC 4 cut(s) 89, 229, 255, 332
HpaII CCGG 3 cut(s) 13, 28, 221
HphI GGTGA 2 cut(s) 92, 101
Hpy166II GTNNAC 2 cut(s) 36, 241
Hpy188I TCNGA 4 cut(s) 94, 269, 592, 605
Hpy188III TCNNGA 2 cut(s) 22, 524
Hpy8I GTNNAC 2 cut(s) 36, 241
Hpy99I CGWCG 3 cut(s) 117, 132, 159
HpyAV CCTTC 2 cut(s) 60, 429
HpyCH4III ACNGT 2 cut(s) 86, 113
HpyCH4V TGCA 4 cut(s) 148, 307, 467, 543
HpyF10VI GCNNNNNNNGC 3 cut(s) 145, 150, 540
HpyF3I CTNAG 1 cut(s) 266
Hsp92II CATG 1 cut(s) 566
HspAI GCGC 1 cut(s) 139
Kzo9I GATC 3 cut(s) 351, 485, 587
LmnI GCTCC 1 cut(s) 164
Lsp1109I GCAGC 1 cut(s) 555
LweI GCATC 1 cut(s) 294
MaeI CTAG 2 cut(s) 168, 399
MaeIII GTNAC 1 cut(s) 438
MalI GATC 3 cut(s) 353, 487, 589
MboI GATC 3 cut(s) 351, 485, 587
MboII GAAGA 8 cut(s) 62, 65, 68, 71, 98, 112, 311, 467
MflI RGATCY 1 cut(s) 485
MhlI GDGCHC 1 cut(s) 267
MluCI AATT 2 cut(s) 364, 470
MlyI GAGTC 2 cut(s) 223, 264
MnlI CCTC 6 cut(s) 155, 241, 293, 386, 439, 559
MspI CCGG 3 cut(s) 13, 28, 221
MspR9I CCNGG 3 cut(s) 14, 28, 41
MvaI CCWGG 1 cut(s) 41
MvnI CGCG 1 cut(s) 159
MwoI GCNNNNNNNGC 3 cut(s) 145, 150, 540
NciI CCSGG 2 cut(s) 14, 28
NdeII GATC 3 cut(s) 351, 485, 587
NlaIII CATG 1 cut(s) 566
PfeI GAWTC 2 cut(s) 89, 332
PinAI ACCGGT 1 cut(s) 220
PkrI GCNGC 2 cut(s) 143, 545
PleI GAGTC 2 cut(s) 223, 263
PpsI GAGTC 2 cut(s) 223, 263
Psp124BI GAGCTC 1 cut(s) 267
Psp6I CCWGG 1 cut(s) 39
PspGI CCWGG 1 cut(s) 39
PspPI GGNCC 2 cut(s) 10, 33
PsrI GAACNNNNNNTAC 2 cut(s) 498, 530
PstI CTGCAG 1 cut(s) 545
PsuI RGATCY 1 cut(s) 485
SacI GAGCTC 1 cut(s) 267
SatI GCNGC 2 cut(s) 142, 544
Sau3AI GATC 3 cut(s) 351, 485, 587
Sau96I GGNCC 2 cut(s) 10, 33
SchI GAGTC 2 cut(s) 223, 264
ScrFI CCNGG 3 cut(s) 14, 28, 41
SduI GDGCHC 1 cut(s) 267
SetI ASST 7 cut(s) 169, 240, 267, 378, 400, 440, 516
SfaNI GCATC 1 cut(s) 294
SfcI CTRYAG 1 cut(s) 541
SinI GGWCC 1 cut(s) 33
SmlI CTYRAG 1 cut(s) 443
SmoI CTYRAG 1 cut(s) 443
Sse9I AATT 2 cut(s) 364, 470
SsiI CCGC 3 cut(s) 31, 142, 159
SspMI CTAG 2 cut(s) 168, 399
SstI GAGCTC 1 cut(s) 267
StyD4I CCNGG 3 cut(s) 12, 26, 39
StyI CCWWGG 1 cut(s) 234
TaaI ACNGT 2 cut(s) 86, 113
TaqI TCGA 2 cut(s) 127, 285
TasI AATT 2 cut(s) 364, 470
TauI GCSGC 1 cut(s) 144
TfiI GAWTC 2 cut(s) 89, 332
TscAI CASTG 2 cut(s) 265, 545
TseI GCWGC 1 cut(s) 543
TspGWI ACGGA 1 cut(s) 258
TspRI CASTG 2 cut(s) 265, 545
VpaK11BI GGWCC 1 cut(s) 33
XcmI CCANNNNNNNNNTGG 1 cut(s) 203
XspI CTAG 2 cut(s) 168, 399
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.