Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0000356

Physical Location & Seq

Genomic Coordinates Forward (+)

28573221 .. 28581203

Gene Structure 7983 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG284000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 804 bp

ATGATTTTGGGGAGGGAGGCGGGTTTAGGTGGAGCAAAACGAAGAAATGAAGAAGTGACAAATGAGGCTGGGGTCGAGTTAAGTGATAGGGTATTAGGAGCCCGTGCTTCTTCGATCAATCGAGTTTTATGGACACCTTCTGGGAGGCGTCTTATCACAGGCTCTCAAAACGGGGAGTTCACTCTCTGGAATGGTGAGTCATTCAAACATGAATTGAGGATTCAGGGTCATGATCACGCAATCAGGTCCATGGCGTGGAGTTTTGATGATCAAGATTGGATCTCTGGTGATGATGGGGGCACAATCAGGTATTGGAAGAGTAACATGATTAATGTGCTAGTCAATGAATCTGCTCACCATGAATCGGTTCGGGACCTGAGCTTCTGTCGGACTAATTTGAAGTTTTGTTCATGTTCCGATGATACTACGGTTAAAATCTGGGATTTTGAACGGTGCCAACAGGAGAAGACATTGACCGGCCATGGTTGGAATGTGACGAGTGTTGACTGGCACCCCACAAACTCTCTGATAGCTTCGGGTGGGTGGGACAGTGTTGTCAAACTGTGGGATGCTAGGTCAGGGAGAGAACTCTGTTCTTTTTATGATCACAAAAGTTGGGTGCATTCTGTCAAGTGGAACCGAAATGGTATTTCATCTAGAAGGCATGGTGTTTATCCAAAAGGAAGTACAAAACTCCTAAAGAAAACAACAAAAAAGATTGCTGCGTTGTTAGAAAAAAAGACCCCAAGCTTGGATAGACTTCCTCTTGCTTGGGGACTTACTGACCACGCAATTCAAAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005847 GO:0005849 GO:0006139 GO:0006378 GO:0006379 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0031123 GO:0031124 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043631 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0090304 GO:0090305 GO:0090501 GO:1901360

KEGG Pathways

Metabolic & Signaling

ko03015 map03015

Pfam Domains

Protein Families

WD40

Protein Analysis

267

Amino Acids

30.25

Weight (kDa)

9.21

Isoelectric Point (pI)

32.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WD40_Gbeta	PF25391	30 - 217	1.1e-13	G protein beta WD-40 repeat protein
Beta-prop_WDR3_2nd	PF25172	30 - 107	3.8e-06	WDR3 second beta-propeller domain
Beta-prop_IFT140_1st	PF23383	33 - 118	8.5e-10	IFT140 first beta-propeller
Beta-prop_EML_2	PF23414	34 - 116	5.6e-06	Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR3_1st	PF25173	34 - 183	2e-22	WDR3 first beta-propeller domain
WD40_CDC20-Fz	PF24807	35 - 215	2e-22	CDC20/Fizzy WD40 domain
Beta-prop_WDR5	PF25175	36 - 127	2.2e-09	WDR5 beta-propeller domain
Beta-prop_THOC3	PF25174	37 - 107	1.5e-08	THOC3 beta-propeller domain
Beta-prop_EIPR1	PF23609	38 - 189	2.5e-07	EIPR1 beta-propeller
Beta-prop_WDR36-Utp21_2nd	PF25168	40 - 211	2.4e-10	WDR36/Utp21 second beta-propeller domain
WD40_Prp19	PF24814	40 - 216	4.4e-23	Prp19 WD40 domain
EIF3I	PF24805	71 - 157	2.8e-08	EIF3I
Beta-prop_WDR5	PF25175	100 - 216	2.2e-24	WDR5 beta-propeller domain
WDR55	PF24796	111 - 214	8.5e-10	WDR55
Beta-prop_CAF1B_HIR1	PF24105	117 - 185	2e-07	CAF1B/HIR1 beta-propeller domain
WD40	PF00400	117 - 148	9.2e-06	WD domain, G-beta repeat
Beta-prop_WDR3_2nd	PF25172	118 - 191	1.5e-09	WDR3 second beta-propeller domain
Beta-prop_THOC3	PF25174	119 - 216	7.6e-19	THOC3 beta-propeller domain
WD40_WDHD1_1st	PF24817	121 - 197	4.9e-11	WDHD1 first WD40 domain
Beta-prop_EML_2	PF23414	131 - 216	3.7e-09	Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR90_POC16_2nd	PF23393	135 - 216	1.3e-06	WDR90/POC16, second beta-propeller
Beta-prop_SCAP	PF24017	136 - 215	1.9e-06	SCAP Beta-propeller
WD40	PF00400	153 - 190	3.8e-11	WD domain, G-beta repeat
Beta-prop_WDR3_1st	PF25173	154 - 214	5.8e-09	WDR3 first beta-propeller domain
Beta-prop_CAF1B_HIR1	PF24105	156 - 215	2.6e-06	CAF1B/HIR1 beta-propeller domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000356)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G13480 AT5G13480 AT5G13480 AT5G13480
fragaria_vesca	FvH4_4g16141 FvH4_5g25490 FvH4_5g25550 FvH4_6g22190 FvH4_6g23330 FvH4_7g02880
malus_domestica	MD02G1288700.v1.1 MD07G1038200.v1.1
prunus_persica	Prupe.2G034300_v2.0.a1
pyrus_communis	pycom02g24420 pycom07g02650
rosa_chinensis	RchiOBHm_Chr1g0323831 RchiOBHm_Chr3g0482821 RchiOBHm_Chr3g0482981 RchiOBHm_Chr3g0486211 RchiOBHm_Chr4g0404661 RchiOBHm_Chr5g0010661
rosa_laevigata	RLG00000012304 RLG00000017204 RLG00000017697 RLG00000020158 RLG00000030265 RLG00000031770 RLG00000035414
rosa_multiflora	Rmu_co8066382.1_g000001 Rmu_co8299121.1_g000001 Rmu_co8338957.1_g000001 Rmu_sc0001371.1_g000014 Rmu_sc0002634.1_g000006 Rmu_sc0004124.1_g000001 Rmu_sc0004540.1_g000008 Rmu_sc0006103.1_g000005 Rmu_sc0006571.1_g000003 Rmu_sc0006601.1_g000005 Rmu_sc0006601.1_g000008 Rmu_sc0006601.1_g000010 Rmu_sc0009883.1_g000005 Rmu_sc0011602.1_g000010 Rmu_sc0011602.1_g000011 Rmu_sc0012513.1_g000008 Rmu_sc0025336.1_g000001 Rmu_sc0026709.1_g000001 Rmu_ssc0000175.1_g000002 Rmu_ssc0000175.1_g000031
rosa_roxburghii	Rroxscaffold_1G00027770 Rroxscaffold_1G00065710 Rroxscaffold_3G00243370 Rroxscaffold_3G00243410 Rroxscaffold_3G00243440 Rroxscaffold_3G00243490 Rroxscaffold_4G00326390 Rroxscaffold_6G00398770 Rroxscaffold_6G00398910 Rroxscaffold_6G00398940
rosa_rugosa	Rorug01G0039800 Rorug01G0039900 Rorug03G0198000 Rorug03G0198100 Rorug03G0199200 Rorug04G0451600
rosa_samantha	Rh1AG057200 Rh1BG048200 Rh1CG058500 Rh1DG062300 Rh1DG062400 Rh2AG304100 Rh2CG002400 Rh2CG642500 Rh2DG328100 Rh3AG250000 Rh3BG285200 Rh3BG286000 Rh3CG284000 Rh3CG285400 Rh3CG307500 Rh3DG278700 Rh3DG279600 Rh3DG281000 Rh3DG303900 Rh4AG124300 Rh4BG118400 Rh4CG132400 Rh4CG132500 Rh4DG015900 Rh5AG083200 Rh5AG417500 Rh5AG538800 Rh5BG078500 Rh5BG447700 Rh5BG541600 Rh5BG541700 Rh5CG091200 Rh5CG564200 Rh5CG564300 Rh5DG078600 Rh5DG545800
rosa_wichuraiana	Rw0G000660 Rw0G022360 Rw1G004890 Rw3G022520 Rw3G022590 Rw3G022710 Rw3G024280

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	554
AccB1I	GGYRCC	2 cut(s)	453, 510
AccB7I	CCANNNNNTGG	1 cut(s)	255
AciI	CCGC	1 cut(s)	20
AclWI	GGATC	1 cut(s)	287
AcoI	YGGCCR	1 cut(s)	478
AcyI	GRCGYC	1 cut(s)	148
AfaI	GTAC	1 cut(s)	688
AfiI	CCNNNNNNNGG	3 cut(s)	255, 364, 751
AgsI	TTSAA	4 cut(s)	205, 400, 449, 797
AluBI	AGCT	3 cut(s)	381, 533, 750
AluI	AGCT	3 cut(s)	381, 533, 750
AlwI	GGATC	1 cut(s)	287
AoxI	GGCC	1 cut(s)	478
ApeKI	GCWGC	1 cut(s)	722
AseI	ATTAAT	1 cut(s)	330
Asp700I	GAANNNNTTC	1 cut(s)	366
AspS9I	GGNCC	2 cut(s)	246, 373
AsuHPI	GGTGA	3 cut(s)	206, 299, 347
AvaII	GGWCC	2 cut(s)	246, 373
BaeGI	GKGCMC	1 cut(s)	302
BaeI	ACNNNNGTAYC	2 cut(s)	414, 447
BanI	GGYRCC	2 cut(s)	453, 510
BanII	GRGCYC	1 cut(s)	103
BbsI	GAAGAC	1 cut(s)	473
BbvI	GCAGC	1 cut(s)	709
BccI	CCATC	1 cut(s)	287
BclI	TGATCA	3 cut(s)	232, 268, 604
BfaI	CTAG	3 cut(s)	338, 573, 657
BisI	GCNGC	1 cut(s)	723
BlsI	GCNGC	1 cut(s)	724
Bme18I	GGWCC	2 cut(s)	246, 373
BmgT120I	GGNCC	2 cut(s)	246, 373
BmiI	GGNNCC	5 cut(s)	100, 374, 455, 512, 638
BmsI	GCATC	1 cut(s)	559
BpiI	GAAGAC	1 cut(s)	473
Bpu10I	CCTNAGC	1 cut(s)	377
BsaHI	GRCGYC	1 cut(s)	148
BsaJI	CCNNGG	2 cut(s)	249, 481
Bsc4I	CCNNNNNNNGG	3 cut(s)	255, 364, 751
Bse118I	RCCGGY	1 cut(s)	476
Bse1I	ACTGG	1 cut(s)	512
BseDI	CCNNGG	2 cut(s)	249, 481
BseGI	GGATG	1 cut(s)	574
BseLI	CCNNNNNNNGG	3 cut(s)	255, 364, 751
BseMII	CTCAG	1 cut(s)	368
BseNI	ACTGG	1 cut(s)	512
BseSI	GKGCMC	1 cut(s)	302
BseXI	GCAGC	1 cut(s)	709
BseYI	CCCAGC	1 cut(s)	68
BshFI	GGCC	1 cut(s)	480
BshNI	GGYRCC	2 cut(s)	453, 510
BsiSI	CCGG	1 cut(s)	477
BslFI	GGGAC	3 cut(s)	386, 560, 789
BslI	CCNNNNNNNGG	3 cut(s)	255, 364, 751
BsmFI	GGGAC	3 cut(s)	386, 560, 789
BsmI	GAATGC	1 cut(s)	622
BsnI	GGCC	1 cut(s)	480
Bsp1286I	GDGCHC	2 cut(s)	103, 302
Bsp143I	GATC	5 cut(s)	114, 232, 268, 279, 604
Bsp19I	CCATGG	2 cut(s)	249, 481
BspACI	CCGC	1 cut(s)	20
BspANI	GGCC	1 cut(s)	480
BspCNI	CTCAG	1 cut(s)	369
BspHI	TCATGA	1 cut(s)	229
BspLI	GGNNCC	5 cut(s)	100, 374, 455, 512, 638
BspPI	GGATC	1 cut(s)	287
BspT107I	GGYRCC	2 cut(s)	453, 510
BsrFI	RCCGGY	1 cut(s)	476
BsrI	ACTGG	1 cut(s)	512
BssAI	RCCGGY	1 cut(s)	476
BssECI	CCNNGG	2 cut(s)	249, 481
BssMI	GATC	5 cut(s)	114, 232, 268, 279, 604
BssNI	GRCGYC	1 cut(s)	148
BssT1I	CCWWGG	2 cut(s)	249, 481
Bst4CI	ACNGT	4 cut(s)	430, 453, 551, 564
Bst6I	CTCTTC	1 cut(s)	311
BstACI	GRCGYC	1 cut(s)	148
BstDEI	CTNAG	1 cut(s)	377
BstDSI	CCRYGG	2 cut(s)	249, 481
BstF5I	GGATG	1 cut(s)	574
BstKTI	GATC	5 cut(s)	117, 235, 271, 282, 607
BstMBI	GATC	5 cut(s)	114, 232, 268, 279, 604
BstSLI	GKGCMC	1 cut(s)	302
BstV1I	GCAGC	1 cut(s)	709
BstV2I	GAAGAC	1 cut(s)	473
BstX2I	RGATCY	1 cut(s)	279
BstYI	RGATCY	1 cut(s)	279
BsuRI	GGCC	1 cut(s)	480
BtgI	CCRYGG	2 cut(s)	249, 481
BtsCI	GGATG	1 cut(s)	574
BtsIMutI	CAGTG	1 cut(s)	556
CciI	TCATGA	1 cut(s)	229
Cfr10I	RCCGGY	1 cut(s)	476
Cfr13I	GGNCC	2 cut(s)	246, 373
CseI	GACGC	1 cut(s)	137
Csp6I	GTAC	1 cut(s)	687
CviAII	CATG	8 cut(s)	209, 230, 250, 325, 359, 411, 482, 665
CviJI	RGCY	7 cut(s)	68, 101, 162, 381, 480, 533, 750
CviKI_1	RGCY	7 cut(s)	68, 101, 162, 381, 480, 533, 750
CviQI	GTAC	1 cut(s)	687
DdeI	CTNAG	1 cut(s)	377
DpnI	GATC	5 cut(s)	116, 234, 270, 281, 606
DpnII	GATC	5 cut(s)	114, 232, 268, 279, 604
DrdI	GACNNNNNNGTC	1 cut(s)	554
DseDI	GACNNNNNNGTC	1 cut(s)	554
EaeI	YGGCCR	1 cut(s)	478
Eam1104I	CTCTTC	1 cut(s)	311
EarI	CTCTTC	1 cut(s)	311
Eco130I	CCWWGG	2 cut(s)	249, 481
Eco24I	GRGCYC	1 cut(s)	103
Eco47I	GGWCC	2 cut(s)	246, 373
EcoO109I	RGGNCCY	1 cut(s)	373
EcoT14I	CCWWGG	2 cut(s)	249, 481
EcoT38I	GRGCYC	1 cut(s)	103
ErhI	CCWWGG	2 cut(s)	249, 481
FaeI	CATG	8 cut(s)	212, 233, 253, 328, 362, 414, 485, 668
FaqI	GGGAC	3 cut(s)	386, 560, 789
FatI	CATG	8 cut(s)	208, 229, 249, 324, 358, 410, 481, 664
FauI	CCCGC	1 cut(s)	13
FbaI	TGATCA	3 cut(s)	232, 268, 604
Fnu4HI	GCNGC	1 cut(s)	723
FokI	GGATG	1 cut(s)	581
FriOI	GRGCYC	1 cut(s)	103
Fsp4HI	GCNGC	1 cut(s)	723
FspBI	CTAG	3 cut(s)	338, 573, 657
GluI	GCNGC	1 cut(s)	723
GsaI	CCCAGC	1 cut(s)	72
HaeIII	GGCC	1 cut(s)	480
HapII	CCGG	1 cut(s)	477
HgaI	GACGC	1 cut(s)	137
Hin1I	GRCGYC	1 cut(s)	148
Hin1II	CATG	8 cut(s)	212, 233, 253, 328, 362, 414, 485, 668
HincII	GTYRAC	1 cut(s)	505
HindII	GTYRAC	1 cut(s)	505
HindIII	AAGCTT	1 cut(s)	748
HinfI	GANTC	4 cut(s)	197, 220, 347, 362
HpaII	CCGG	1 cut(s)	477
HphI	GGTGA	3 cut(s)	206, 299, 347
Hpy166II	GTNNAC	2 cut(s)	180, 505
Hpy188I	TCNGA	3 cut(s)	390, 418, 528
Hpy188III	TCNNGA	5 cut(s)	187, 230, 272, 371, 657
Hpy8I	GTNNAC	2 cut(s)	180, 505
HpyAV	CCTTC	2 cut(s)	147, 654
HpyCH4III	ACNGT	4 cut(s)	430, 453, 551, 564
HpyCH4V	TGCA	1 cut(s)	622
HpyF3I	CTNAG	1 cut(s)	377
Hsp92I	GRCGYC	1 cut(s)	148
Hsp92II	CATG	8 cut(s)	212, 233, 253, 328, 362, 414, 485, 668
Ksp22I	TGATCA	3 cut(s)	232, 268, 604
Kzo9I	GATC	5 cut(s)	114, 232, 268, 279, 604
LmnI	GCTCC	2 cut(s)	32, 98
Lsp1109I	GCAGC	1 cut(s)	709
LweI	GCATC	1 cut(s)	559
MaeI	CTAG	3 cut(s)	338, 573, 657
MaeIII	GTNAC	3 cut(s)	55, 320, 493
MalI	GATC	5 cut(s)	116, 234, 270, 281, 606
MboI	GATC	5 cut(s)	114, 232, 268, 279, 604
MboII	GAAGA	5 cut(s)	54, 62, 102, 328, 478
MflI	RGATCY	1 cut(s)	279
MhlI	GDGCHC	2 cut(s)	103, 302
MluCI	AATT	3 cut(s)	212, 394, 792
MlyI	GAGTC	1 cut(s)	206
MmeI	TCCRAC	2 cut(s)	368, 467
MnlI	CCTC	6 cut(s)	6, 10, 58, 138, 210, 774
MroXI	GAANNNNTTC	1 cut(s)	366
MseI	TTAA	3 cut(s)	80, 330, 432
MspI	CCGG	1 cut(s)	477
Mva1269I	GAATGC	1 cut(s)	622
NcoI	CCATGG	2 cut(s)	249, 481
NdeII	GATC	5 cut(s)	114, 232, 268, 279, 604
NlaIII	CATG	8 cut(s)	212, 233, 253, 328, 362, 414, 485, 668
NlaIV	GGNNCC	5 cut(s)	100, 374, 455, 512, 638
NmuCI	GTSAC	2 cut(s)	55, 493
PagI	TCATGA	1 cut(s)	229
PctI	GAATGC	1 cut(s)	622
PdmI	GAANNNNTTC	1 cut(s)	366
PfeI	GAWTC	3 cut(s)	220, 347, 362
PflMI	CCANNNNNTGG	1 cut(s)	255
PkrI	GCNGC	1 cut(s)	724
PleI	GAGTC	1 cut(s)	205
PpsI	GAGTC	1 cut(s)	205
PpuMI	RGGWCCY	1 cut(s)	373
PshBI	ATTAAT	1 cut(s)	330
Psp5II	RGGWCCY	1 cut(s)	373
PspFI	CCCAGC	1 cut(s)	68
PspN4I	GGNNCC	5 cut(s)	100, 374, 455, 512, 638
PspPI	GGNCC	2 cut(s)	246, 373
PspPPI	RGGWCCY	1 cut(s)	373
PsuI	RGATCY	1 cut(s)	279
RsaI	GTAC	1 cut(s)	688
RsaNI	GTAC	1 cut(s)	687
SaqAI	TTAA	3 cut(s)	80, 330, 432
SatI	GCNGC	1 cut(s)	723
Sau3AI	GATC	5 cut(s)	114, 232, 268, 279, 604
Sau96I	GGNCC	2 cut(s)	246, 373
SchI	GAGTC	1 cut(s)	206
SduI	GDGCHC	2 cut(s)	103, 302
SetI	ASST	9 cut(s)	31, 139, 248, 311, 378, 383, 535, 578, 752
SfaNI	GCATC	1 cut(s)	559
SinI	GGWCC	2 cut(s)	246, 373
Sse9I	AATT	3 cut(s)	212, 394, 792
SsiI	CCGC	1 cut(s)	20
SspMI	CTAG	3 cut(s)	338, 573, 657
StyI	CCWWGG	2 cut(s)	249, 481
TaaI	ACNGT	4 cut(s)	430, 453, 551, 564
TaqI	TCGA	3 cut(s)	75, 113, 121
TasI	AATT	3 cut(s)	212, 394, 792
TatI	WGTACW	1 cut(s)	686
TfiI	GAWTC	3 cut(s)	220, 347, 362
Tru1I	TTAA	3 cut(s)	80, 330, 432
Tru9I	TTAA	3 cut(s)	80, 330, 432
TscAI	CASTG	1 cut(s)	556
TseFI	GTSAC	2 cut(s)	55, 493
TseI	GCWGC	1 cut(s)	722
Tsp45I	GTSAC	2 cut(s)	55, 493
TspDTI	ATGAA	6 cut(s)	63, 225, 360, 375, 399, 642
TspRI	CASTG	1 cut(s)	556
Van91I	CCANNNNNTGG	1 cut(s)	255
VpaK11BI	GGWCC	2 cut(s)	246, 373
VspI	ATTAAT	1 cut(s)	330
XbaI	TCTAGA	1 cut(s)	656
XmnI	GAANNNNTTC	1 cut(s)	366
XspI	CTAG	3 cut(s)	338, 573, 657

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