Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000007

Orthogroup ID

OG0005653

Physical Location & Seq

Genomic Coordinates Reverse (-)

24781861 .. 24784163

Gene Structure 2303 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_7G00185390.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 345 bp

ATGCAGCTATTGCTTTCATCTTCAATGGACAAAACTATTAGATTATGGGATATGGCGACCAAGAGTTGTTTAAAAATGTTTGCCCATAATGATTATGTAACTTGCATACAGTTCAATCCTTTGGACGACAATGTTTTTCTCAGTGGCTCCCTTGATGCGAAGTTTCGATTATGGGACATACCTGATCGAAGAATGGTAGACTGGACTGATCTTCATGAAATGGTCACTGCTGCATGCTATACTTCAGAAGGCCAATTAACAGTTGACTTTGGTGGAAAAATATTAAGTGTTAGCATTGATGTTCCTGGGAAAGATATGTATCATTTTCAGCCTCGCCAGAGATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005768 GO:0005794 GO:0005802 GO:0005829 GO:0005856 GO:0005874 GO:0008150 GO:0010008 GO:0012505 GO:0015630 GO:0016020 GO:0017016 GO:0017137 GO:0019899 GO:0030334 GO:0031090 GO:0031267 GO:0031410 GO:0031982 GO:0031984 GO:0032879 GO:0040012 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044422 GO:0044424 GO:0044430 GO:0044431 GO:0044433 GO:0044440 GO:0044444 GO:0044446 GO:0044464 GO:0048471 GO:0050789 GO:0050794 GO:0051020 GO:0051270 GO:0065007 GO:0097708 GO:0098588 GO:0098791 GO:0098805 GO:0099080 GO:0099081 GO:0099512 GO:0099513 GO:2000145

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

WD40

Protein Analysis

114

Amino Acids

13.17

Weight (kDa)

5.44

Isoelectric Point (pI)

33.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_WDR5	PF25175	2 - 88	3e-17	WDR5 beta-propeller domain
Beta-prop_WDR3_2nd	PF25172	2 - 84	8.7e-08	WDR3 second beta-propeller domain
WD40_CDC20-Fz	PF24807	2 - 83	1.6e-07	CDC20/Fizzy WD40 domain
Beta-prop_THOC3	PF25174	3 - 86	5.9e-13	THOC3 beta-propeller domain
Beta-prop_WDR3_1st	PF25173	3 - 69	5.2e-11	WDR3 first beta-propeller domain
Beta-prop_Aladin	PF25460	3 - 86	5.8e-09	Aladin seven-bladed propeller
WD40_Prp19	PF24814	3 - 69	1.2e-08	Prp19 WD40 domain
Beta-prop_WDR75_1st	PF23869	3 - 85	5.4e-07	WD repeat-containing protein 75 first beta-propeller
WD40_WDHD1_1st	PF24817	3 - 77	1.6e-06	WDHD1 first WD40 domain
WDR55	PF24796	3 - 89	9.8e-07	WDR55
WD40_Gbeta	PF25391	5 - 85	2.4e-06	G protein beta WD-40 repeat protein
Beta-prop_IFT122_1st	PF23381	5 - 87	1e-05	IFT122 first beta-propeller
Beta-prop_WDR90_POC16_2nd	PF23393	6 - 86	2e-06	WDR90/POC16, second beta-propeller
WD40	PF00400	22 - 59	2.7e-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: OG0005653)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G48870 AT1G48870 AT1G48870
fragaria_vesca	FvH4_1g24010 FvH4_1g24010
malus_domestica	MD01G1011600.v1.1 MD15G1338300.v1.1 MD15G1338400.v1.1
prunus_persica	Prupe.6G159500_v2.0.a1
pyrus_communis	pycom01g04160
rosa_chinensis	RchiOBHm_Chr2g0120151
rosa_laevigata	RLG00000018526 RLG00000020843 RLG00000027801 RLG00000035164
rosa_multiflora	Rmu_co8333869.1_g000001 Rmu_co8364489.1_g000001 Rmu_sc0015469.1_g000001
rosa_roxburghii	Rroxscaffold_2G00123670 Rroxscaffold_7G00185390
rosa_rugosa	Rorug02G0227100.1 Rorug02G0227200
rosa_samantha	Rh2AG283800 Rh2BG295100 Rh2CG272500 Rh2DG308800
rosa_wichuraiana	Rw2G022730 Rw5G023580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	198
AcuI	CTGAAG	1 cut(s)	228
AgsI	TTSAA	2 cut(s)	24, 115
AjnI	CCWGG	1 cut(s)	304
AluBI	AGCT	1 cut(s)	7
AluI	AGCT	1 cut(s)	7
AoxI	GGCC	1 cut(s)	250
ApeKI	GCWGC	2 cut(s)	4, 230
BbvI	GCAGC	2 cut(s)	16, 217
BciT130I	CCWGG	1 cut(s)	306
BisI	GCNGC	2 cut(s)	5, 231
BlsI	GCNGC	2 cut(s)	6, 232
Bme1390I	CCNGG	1 cut(s)	306
BmiI	GGNNCC	1 cut(s)	148
BmrFI	CCNGG	1 cut(s)	306
BmsI	GCATC	1 cut(s)	145
BsaBI	GATNNNNATC	1 cut(s)	318
BsaJI	CCNNGG	1 cut(s)	305
Bse1I	ACTGG	1 cut(s)	206
Bse8I	GATNNNNATC	1 cut(s)	318
BseBI	CCWGG	1 cut(s)	306
BseDI	CCNNGG	1 cut(s)	305
BseJI	GATNNNNATC	1 cut(s)	318
BseMII	CTCAG	1 cut(s)	154
BseNI	ACTGG	1 cut(s)	206
BseXI	GCAGC	2 cut(s)	16, 217
BshFI	GGCC	1 cut(s)	252
BslFI	GGGAC	1 cut(s)	188
BsmFI	GGGAC	1 cut(s)	188
BsnI	GGCC	1 cut(s)	252
Bsp143I	GATC	2 cut(s)	184, 208
BspANI	GGCC	1 cut(s)	252
BspCNI	CTCAG	1 cut(s)	153
BspHI	TCATGA	1 cut(s)	214
BspLI	GGNNCC	1 cut(s)	148
BsrI	ACTGG	1 cut(s)	206
BssECI	CCNNGG	1 cut(s)	305
BssMI	GATC	2 cut(s)	184, 208
Bst2UI	CCWGG	1 cut(s)	306
Bst4CI	ACNGT	2 cut(s)	111, 262
BstAPI	GCANNNNNTGC	1 cut(s)	10
BstC8I	GCNNGC	1 cut(s)	235
BstDEI	CTNAG	1 cut(s)	140
BstKTI	GATC	2 cut(s)	187, 211
BstMBI	GATC	2 cut(s)	184, 208
BstMWI	GCNNNNNNNGC	1 cut(s)	10
BstNI	CCWGG	1 cut(s)	306
BstNSI	RCATGY	1 cut(s)	237
BstSCI	CCNGG	1 cut(s)	304
BstV1I	GCAGC	2 cut(s)	16, 217
BsuRI	GGCC	1 cut(s)	252
BtsI	GCAGTG	1 cut(s)	225
BtsIMutI	CAGTG	2 cut(s)	148, 225
Cac8I	GCNNGC	1 cut(s)	235
CciI	TCATGA	1 cut(s)	214
CviAII	CATG	2 cut(s)	215, 234
CviJI	RGCY	4 cut(s)	7, 147, 252, 331
CviKI_1	RGCY	4 cut(s)	7, 147, 252, 331
DdeI	CTNAG	1 cut(s)	140
DpnI	GATC	2 cut(s)	186, 210
DpnII	GATC	2 cut(s)	184, 208
DraI	TTTAAA	1 cut(s)	72
Eco57I	CTGAAG	1 cut(s)	228
EcoRII	CCWGG	1 cut(s)	304
FaeI	CATG	2 cut(s)	218, 237
FaqI	GGGAC	1 cut(s)	188
FatI	CATG	2 cut(s)	214, 233
FblI	GTMKAC	1 cut(s)	198
Fnu4HI	GCNGC	2 cut(s)	5, 231
Fsp4HI	GCNGC	2 cut(s)	5, 231
GluI	GCNGC	2 cut(s)	5, 231
HaeIII	GGCC	1 cut(s)	252
Hin1II	CATG	2 cut(s)	218, 237
HincII	GTYRAC	1 cut(s)	265
HindII	GTYRAC	1 cut(s)	265
Hpy166II	GTNNAC	2 cut(s)	199, 265
Hpy188I	TCNGA	1 cut(s)	247
Hpy188III	TCNNGA	1 cut(s)	215
Hpy8I	GTNNAC	2 cut(s)	199, 265
HpyAV	CCTTC	1 cut(s)	242
HpyCH4III	ACNGT	2 cut(s)	111, 262
HpyCH4V	TGCA	3 cut(s)	4, 105, 233
HpyF10VI	GCNNNNNNNGC	1 cut(s)	10
HpyF3I	CTNAG	1 cut(s)	140
Hsp92II	CATG	2 cut(s)	218, 237
Kzo9I	GATC	2 cut(s)	184, 208
LmnI	GCTCC	1 cut(s)	152
LpnPI	CCDG	4 cut(s)	187, 195, 291, 318
Lsp1109I	GCAGC	2 cut(s)	16, 217
LweI	GCATC	1 cut(s)	145
MaeIII	GTNAC	2 cut(s)	97, 223
MalI	GATC	2 cut(s)	186, 210
MboI	GATC	2 cut(s)	184, 208
MboII	GAAGA	3 cut(s)	12, 201, 203
MluCI	AATT	1 cut(s)	254
MnlI	CCTC	1 cut(s)	342
MseI	TTAA	3 cut(s)	71, 257, 284
MspR9I	CCNGG	1 cut(s)	306
MvaI	CCWGG	1 cut(s)	306
MwoI	GCNNNNNNNGC	1 cut(s)	10
NdeII	GATC	2 cut(s)	184, 208
NlaIII	CATG	2 cut(s)	218, 237
NlaIV	GGNNCC	1 cut(s)	148
NmuCI	GTSAC	1 cut(s)	223
NspI	RCATGY	1 cut(s)	237
PaeI	GCATGC	1 cut(s)	237
PagI	TCATGA	1 cut(s)	214
PkrI	GCNGC	2 cut(s)	6, 232
Psp6I	CCWGG	1 cut(s)	304
PspGI	CCWGG	1 cut(s)	304
PspN4I	GGNNCC	1 cut(s)	148
SaqAI	TTAA	3 cut(s)	71, 257, 284
SatI	GCNGC	2 cut(s)	5, 231
Sau3AI	GATC	2 cut(s)	184, 208
ScrFI	CCNGG	1 cut(s)	306
SetI	ASST	2 cut(s)	9, 184
SfaNI	GCATC	1 cut(s)	145
SgeI	CNNG	9 cut(s)	73, 114, 164, 194, 214, 227, 246, 317, 318
SphI	GCATGC	1 cut(s)	237
Sse9I	AATT	1 cut(s)	254
SspI	AATATT	1 cut(s)	282
StyD4I	CCNGG	1 cut(s)	304
TaaI	ACNGT	2 cut(s)	111, 262
TaqI	TCGA	2 cut(s)	166, 187
TasI	AATT	1 cut(s)	254
Tru1I	TTAA	3 cut(s)	71, 257, 284
Tru9I	TTAA	3 cut(s)	71, 257, 284
TscAI	CASTG	2 cut(s)	148, 232
TseFI	GTSAC	1 cut(s)	223
TseI	GCWGC	2 cut(s)	4, 230
Tsp45I	GTSAC	1 cut(s)	223
TspDTI	ATGAA	3 cut(s)	6, 203, 231
TspRI	CASTG	2 cut(s)	148, 232
XceI	RCATGY	1 cut(s)	237
XmiI	GTMKAC	1 cut(s)	198

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