Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0002550

Physical Location & Seq

Genomic Coordinates Forward (+)

1188174 .. 1189927

Gene Structure 1754 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00278020.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 723 bp

ATGGACCCTGATGTTATAGACAAGATTAAGAGAAGGAAAATTTCTGATATTGCGGATCCTTCTCAAATGAAAGCTTTAAGATTGCCTGACTCTAAAACAGCTGGAAAGGCTAGTGCATATGTTGTTCCACAGTTGTGGCAGCCTCGGAATGGAATTCTTATGGCTAATGATGTAAATGACAATAAGACTGCTGAGGAATATATTGCATGCATTGCTGTCTATAAAAATGGTTCTTACATGATGTCTGCATCTGGCGGTCATGACAACATTTGTGTCTCCCCCTCCTCCAGTCCTGCTGCCACTTTTCTGGCATTCCATCCTCAAGATAATAGTTTAATTGCTATTGGCATGGACGACACTACCATTTTAATGTATACTGTCAGGGTTAATGAGGTCAAAACCAAACTGAAGGGTCACCAGAATCGGATAACGGGCCTTGCGTTTTCCCAAACTCTTAACATATTGGTTTCTTCAGGAGCTGATGCCCAGTTATGTGTGTGGAGCACTGATGGGTGGGAGAAAAAGAAAACAAGGTTCATACAAGCACCAACTGGTTGGCAATCCCCATTGGTTGGAGAAACAAAAGTTCAGTTTCATAACGATCACACACATCTGTTGGTTTCCCATGAAAGCCAAATTGCTGTGTATGACAGCAAGCTTGATTGCTCACACTCTCTAAGTTATCCACCCGACAGTCCTTACTATTTCATCTTGAATTGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001101 GO:0003002 GO:0003006 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006355 GO:0007154 GO:0007165 GO:0007275 GO:0007389 GO:0008150 GO:0009653 GO:0009719 GO:0009725 GO:0009733 GO:0009753 GO:0009755 GO:0009790 GO:0009791 GO:0009793 GO:0009867 GO:0009888 GO:0009889 GO:0009890 GO:0009892 GO:0009933 GO:0009987 GO:0010014 GO:0010016 GO:0010033 GO:0010051 GO:0010072 GO:0010154 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0019219 GO:0019222 GO:0022414 GO:0023052 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032501 GO:0032502 GO:0032870 GO:0042221 GO:0042802 GO:0042803 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0045892 GO:0045934 GO:0046983 GO:0048316 GO:0048367 GO:0048507 GO:0048508 GO:0048519 GO:0048523 GO:0048532 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0051716 GO:0060255 GO:0061458 GO:0065007 GO:0070887 GO:0071229 GO:0071310 GO:0071395 GO:0071495 GO:0080090 GO:0090421 GO:1901700 GO:1901701 GO:1902679 GO:1903506 GO:1903507 GO:2000112 GO:2000113 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

WD40

Protein Analysis

240

Amino Acids

26.55

Weight (kDa)

6.69

Isoelectric Point (pI)

51.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_EML_2	PF23414	74 - 179	2.4e-09	Echinoderm microtubule-associated protein second beta-propeller
WD40_Prp19	PF24814	95 - 212	2e-11	Prp19 WD40 domain
Beta-prop_IFT140_1st	PF23383	95 - 171	5.2e-08	IFT140 first beta-propeller
Beta-prop_WDR3_2nd	PF25172	95 - 177	6.3e-06	WDR3 second beta-propeller domain
Beta-prop_WDR36-Utp21_1st	PF25171	98 - 170	3.1e-06	WDR36/Utp21 first beta-propeller
Beta-prop_WDR3_1st	PF25173	99 - 170	1.9e-12	WDR3 first beta-propeller domain
Beta-prop_WDR36-Utp21_2nd	PF25168	101 - 168	4.3e-09	WDR36/Utp21 second beta-propeller domain
Beta-prop_WDR90_POC16_2nd	PF23393	101 - 175	4.2e-07	WDR90/POC16, second beta-propeller
Beta-prop_THOC3	PF25174	104 - 177	3e-07	THOC3 beta-propeller domain
WD40_WDHD1_1st	PF24817	108 - 219	8e-12	WDHD1 first WD40 domain
Beta-prop_WDR5	PF25175	108 - 224	1.1e-11	WDR5 beta-propeller domain
WD40_CDC20-Fz	PF24807	109 - 173	8.8e-10	CDC20/Fizzy WD40 domain
WD40	PF00400	133 - 168	3.2e-06	WD domain, G-beta repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0002550)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_7g33770 FvH4_7g33770 FvH4_7g33770 FvH4_7g33770 FvH4_7g33770 FvH4_7g33770 FvH4_7g33770
malus_domestica	MD01G1234100.v1.1 MD07G1306300.v1.1
prunus_persica	Prupe.2G324300_v2.0.a1
pyrus_communis	pycom01g24260 pycom07g27930
rosa_chinensis	RchiOBHm_Chr1g0382471 RchiOBHm_Chr1g0382481 RchiOBHm_Chr1g0383911
rosa_laevigata	RLG00000026087 RLG00000026174 RLG00000026177
rosa_multiflora	Rmu_sc0000110.1_g000051 Rmu_sc0003885.1_g000009 Rmu_sc0005139.1_g000028
rosa_roxburghii	Rroxscaffold_4G00277160 Rroxscaffold_4G00278020 Rroxscaffold_4G00278080
rosa_rugosa	Rorug01G0434600 Rorug01G0434900 Rorug01G0443000
rosa_samantha	Rh1AG459200 Rh1AG459300 Rh1AG459600 Rh1AG468900 Rh1BG415700 Rh1BG426600 Rh1CG429700 Rh1CG429800 Rh1CG439400 Rh1DG447800 Rh1DG447900 Rh1DG459400
rosa_wichuraiana	Rw1G040350 Rw1G041180

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	572
AccI	GTMKAC	1 cut(s)	374
AciI	CCGC	2 cut(s)	53, 255
AclWI	GGATC	2 cut(s)	50, 63
AcsI	RAATTY	2 cut(s)	39, 153
AcuI	CTGAAG	2 cut(s)	428, 456
AfiI	CCNNNNNNNGG	2 cut(s)	149, 572
AgsI	TTSAA	1 cut(s)	715
AleI	CACNNNNGTG	1 cut(s)	133
AluBI	AGCT	4 cut(s)	74, 101, 479, 658
AluI	AGCT	4 cut(s)	74, 101, 479, 658
Alw21I	GWGCWC	1 cut(s)	506
Alw26I	GTCTC	1 cut(s)	280
AlwI	GGATC	2 cut(s)	50, 63
AlwNI	CAGNNNCTG	1 cut(s)	479
AoxI	GGCC	1 cut(s)	433
ApeKI	GCWGC	2 cut(s)	139, 296
ApoI	RAATTY	2 cut(s)	39, 153
AspS9I	GGNCC	2 cut(s)	4, 433
AsuHPI	GGTGA	1 cut(s)	407
AvaII	GGWCC	1 cut(s)	4
BamHI	GGATCC	1 cut(s)	55
Bbv12I	GWGCWC	1 cut(s)	506
BbvCI	CCTCAGC	1 cut(s)	192
BbvI	GCAGC	2 cut(s)	151, 283
BccI	CCATC	2 cut(s)	324, 503
BcoDI	GTCTC	1 cut(s)	280
BfaI	CTAG	1 cut(s)	111
BisI	GCNGC	2 cut(s)	140, 297
BlsI	GCNGC	2 cut(s)	141, 298
Bme18I	GGWCC	1 cut(s)	4
BmgT120I	GGNCC	2 cut(s)	4, 433
BmiI	GGNNCC	2 cut(s)	6, 57
BmrI	ACTGGG	1 cut(s)	481
BmsI	GCATC	2 cut(s)	257, 472
BmuI	ACTGGG	1 cut(s)	481
BpmI	CTGGAG	1 cut(s)	271
Bpu10I	CCTNAGC	1 cut(s)	192
BpuEI	CTTGAG	1 cut(s)	306
BsaJI	CCNNGG	1 cut(s)	143
Bsc4I	CCNNNNNNNGG	2 cut(s)	149, 572
Bse1I	ACTGG	3 cut(s)	288, 487, 556
Bse3DI	GCAATG	1 cut(s)	210
BseDI	CCNNGG	1 cut(s)	143
BseGI	GGATG	1 cut(s)	316
BseLI	CCNNNNNNNGG	2 cut(s)	149, 572
BseMI	GCAATG	1 cut(s)	210
BseMII	CTCAG	1 cut(s)	183
BseNI	ACTGG	3 cut(s)	288, 487, 556
BseRI	GAGGAG	1 cut(s)	274
BseXI	GCAGC	2 cut(s)	151, 283
BshFI	GGCC	1 cut(s)	435
BsiHKAI	GWGCWC	1 cut(s)	506
BslI	CCNNNNNNNGG	2 cut(s)	149, 572
BsmAI	GTCTC	1 cut(s)	280
BsmI	GAATGC	1 cut(s)	311
BsnI	GGCC	1 cut(s)	435
Bsp1286I	GDGCHC	1 cut(s)	506
Bsp143I	GATC	2 cut(s)	55, 601
BspACI	CCGC	2 cut(s)	53, 255
BspANI	GGCC	1 cut(s)	435
BspCNI	CTCAG	1 cut(s)	184
BspHI	TCATGA	1 cut(s)	259
BspLI	GGNNCC	2 cut(s)	6, 57
BspPI	GGATC	2 cut(s)	50, 63
BsrDI	GCAATG	1 cut(s)	210
BsrI	ACTGG	3 cut(s)	288, 487, 556
BssECI	CCNNGG	1 cut(s)	143
BssMI	GATC	2 cut(s)	55, 601
BssNAI	GTATAC	1 cut(s)	375
Bst1107I	GTATAC	1 cut(s)	375
Bst4CI	ACNGT	3 cut(s)	132, 379, 695
BstAPI	GCANNNNNTGC	1 cut(s)	212
BstC8I	GCNNGC	2 cut(s)	208, 656
BstDEI	CTNAG	2 cut(s)	192, 677
BstEII	GGTNACC	1 cut(s)	413
BstF5I	GGATG	1 cut(s)	316
BstKTI	GATC	2 cut(s)	58, 604
BstMAI	GTCTC	1 cut(s)	280
BstMBI	GATC	2 cut(s)	55, 601
BstMWI	GCNNNNNNNGC	2 cut(s)	107, 212
BstNSI	RCATGY	1 cut(s)	210
BstPI	GGTNACC	1 cut(s)	413
BstV1I	GCAGC	2 cut(s)	151, 283
BstX2I	RGATCY	1 cut(s)	55
BstXI	CCANNNNNNTGG	3 cut(s)	135, 307, 555
BstYI	RGATCY	1 cut(s)	55
BstZ17I	GTATAC	1 cut(s)	375
BsuRI	GGCC	1 cut(s)	435
BtsCI	GGATG	1 cut(s)	316
BtsIMutI	CAGTG	1 cut(s)	504
Cac8I	GCNNGC	2 cut(s)	208, 656
CaiI	CAGNNNCTG	1 cut(s)	479
CciI	TCATGA	1 cut(s)	259
Cfr13I	GGNCC	2 cut(s)	4, 433
CviAII	CATG	5 cut(s)	207, 238, 260, 349, 626
CviJI	RGCY	9 cut(s)	74, 101, 110, 142, 164, 435, 479, 633, 658
CviKI_1	RGCY	9 cut(s)	74, 101, 110, 142, 164, 435, 479, 633, 658
DdeI	CTNAG	2 cut(s)	192, 677
DpnI	GATC	2 cut(s)	57, 603
DpnII	GATC	2 cut(s)	55, 601
Eco47I	GGWCC	1 cut(s)	4
Eco57I	CTGAAG	2 cut(s)	428, 456
Eco91I	GGTNACC	1 cut(s)	413
EcoO65I	GGTNACC	1 cut(s)	413
EcoRI	GAATTC	1 cut(s)	153
EcoT22I	ATGCAT	1 cut(s)	212
FaeI	CATG	5 cut(s)	210, 241, 263, 352, 629
FatI	CATG	5 cut(s)	206, 237, 259, 348, 625
FauNDI	CATATG	1 cut(s)	118
FblI	GTMKAC	1 cut(s)	374
Fnu4HI	GCNGC	2 cut(s)	140, 297
FokI	GGATG	1 cut(s)	303
Fsp4HI	GCNGC	2 cut(s)	140, 297
FspBI	CTAG	1 cut(s)	111
GluI	GCNGC	2 cut(s)	140, 297
GsuI	CTGGAG	1 cut(s)	271
HaeIII	GGCC	1 cut(s)	435
Hin1II	CATG	5 cut(s)	210, 241, 263, 352, 629
HindIII	AAGCTT	2 cut(s)	72, 656
HinfI	GANTC	2 cut(s)	89, 421
HphI	GGTGA	1 cut(s)	407
Hpy166II	GTNNAC	1 cut(s)	375
Hpy188I	TCNGA	3 cut(s)	46, 147, 426
Hpy188III	TCNNGA	4 cut(s)	260, 323, 474, 712
Hpy8I	GTNNAC	1 cut(s)	375
HpyAV	CCTTC	3 cut(s)	27, 69, 403
HpyCH4III	ACNGT	3 cut(s)	132, 379, 695
HpyCH4V	TGCA	4 cut(s)	116, 206, 210, 248
HpyF10VI	GCNNNNNNNGC	2 cut(s)	107, 212
HpyF3I	CTNAG	2 cut(s)	192, 677
Hsp92II	CATG	5 cut(s)	210, 241, 263, 352, 629
Kzo9I	GATC	2 cut(s)	55, 601
LmnI	GCTCC	2 cut(s)	476, 501
Lsp1109I	GCAGC	2 cut(s)	151, 283
LweI	GCATC	2 cut(s)	257, 472
MaeI	CTAG	1 cut(s)	111
MaeIII	GTNAC	1 cut(s)	413
MalI	GATC	2 cut(s)	57, 603
MboI	GATC	2 cut(s)	55, 601
MboII	GAAGA	1 cut(s)	462
MflI	RGATCY	1 cut(s)	55
MhlI	GDGCHC	1 cut(s)	506
MluCI	AATT	5 cut(s)	39, 153, 336, 636, 715
MlyI	GAGTC	1 cut(s)	83
MmeI	TCCRAC	1 cut(s)	553
MnlI	CCTC	6 cut(s)	153, 187, 292, 295, 330, 385
Mph1103I	ATGCAT	1 cut(s)	212
MseI	TTAA	6 cut(s)	27, 77, 335, 368, 387, 456
MslI	CAYNNNNRTG	2 cut(s)	133, 368
MspA1I	CMGCKG	1 cut(s)	101
Mva1269I	GAATGC	1 cut(s)	311
MwoI	GCNNNNNNNGC	2 cut(s)	107, 212
NdeI	CATATG	1 cut(s)	118
NdeII	GATC	2 cut(s)	55, 601
NlaIII	CATG	5 cut(s)	210, 241, 263, 352, 629
NlaIV	GGNNCC	2 cut(s)	6, 57
NmuCI	GTSAC	1 cut(s)	413
NsiI	ATGCAT	1 cut(s)	212
NspI	RCATGY	1 cut(s)	210
OliI	CACNNNNGTG	1 cut(s)	133
PaeI	GCATGC	1 cut(s)	210
PagI	TCATGA	1 cut(s)	259
PcsI	WCGNNNNNNNCGW	1 cut(s)	437
PctI	GAATGC	1 cut(s)	311
PfeI	GAWTC	1 cut(s)	421
PflMI	CCANNNNNTGG	1 cut(s)	572
PkrI	GCNGC	2 cut(s)	141, 298
PleI	GAGTC	1 cut(s)	83
PpsI	GAGTC	1 cut(s)	83
PspEI	GGTNACC	1 cut(s)	413
PspN4I	GGNNCC	2 cut(s)	6, 57
PspPI	GGNCC	2 cut(s)	4, 433
PstNI	CAGNNNCTG	1 cut(s)	479
PsuI	RGATCY	1 cut(s)	55
PvuII	CAGCTG	1 cut(s)	101
RseI	CAYNNNNRTG	2 cut(s)	133, 368
SaqAI	TTAA	6 cut(s)	27, 77, 335, 368, 387, 456
SatI	GCNGC	2 cut(s)	140, 297
Sau3AI	GATC	2 cut(s)	55, 601
Sau96I	GGNCC	2 cut(s)	4, 433
SchI	GAGTC	1 cut(s)	83
SduI	GDGCHC	1 cut(s)	506
SetI	ASST	6 cut(s)	76, 103, 396, 481, 536, 660
SfaNI	GCATC	2 cut(s)	257, 472
SinI	GGWCC	1 cut(s)	4
SmiMI	CAYNNNNRTG	2 cut(s)	133, 368
SmlI	CTYRAG	1 cut(s)	321
SmoI	CTYRAG	1 cut(s)	321
SphI	GCATGC	1 cut(s)	210
Sse9I	AATT	5 cut(s)	39, 153, 336, 636, 715
SsiI	CCGC	2 cut(s)	53, 255
SspMI	CTAG	1 cut(s)	111
TaaI	ACNGT	3 cut(s)	132, 379, 695
TasI	AATT	5 cut(s)	39, 153, 336, 636, 715
TfiI	GAWTC	1 cut(s)	421
Tru1I	TTAA	6 cut(s)	27, 77, 335, 368, 387, 456
Tru9I	TTAA	6 cut(s)	27, 77, 335, 368, 387, 456
TscAI	CASTG	1 cut(s)	511
TseFI	GTSAC	1 cut(s)	413
TseI	GCWGC	2 cut(s)	139, 296
Tsp45I	GTSAC	1 cut(s)	413
TspDTI	ATGAA	5 cut(s)	83, 526, 584, 642, 697
TspRI	CASTG	1 cut(s)	511
Van91I	CCANNNNNTGG	1 cut(s)	572
VpaK11BI	GGWCC	1 cut(s)	4
XapI	RAATTY	2 cut(s)	39, 153
XceI	RCATGY	1 cut(s)	210
XmiI	GTMKAC	1 cut(s)	374
XspI	CTAG	1 cut(s)	111
Zsp2I	ATGCAT	1 cut(s)	212

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.