Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0000356

Physical Location & Seq

Genomic Coordinates Forward (+)

32177008 .. 32179433

Gene Structure 2426 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG307500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 819 bp

ATGGCCCATCACCACCACCCCTACGCGCGCCCCTACGCCCAGACCACTGCCTGTTCTTCGACCAACAACAACCCATTTGCCGCCCAGTTTGTGCGCTCTTGTACAAATTACAGAGCCCGTGCTTCTTCGATCAATCGAGTTTTATGGACACCTTCTGGGAGGCGTCTTATTACAGGCTCTCAAAACGGGGAGTTCACTCTTTGGAATGGCCACTCATTCAACCATGAATTGAGGATTCAGGCTCATGATCACGCAATCAGGTCCATGGCGTGGAGTTTTAATGATCAAGATTGGATCTCTGGTGATGATGGAGGCACAATCAGGTATTGGAAGAGTAACATGAGTAATGTGCTAGTCAATGAATCCGCTCACCATGAATCGGTTCGGGACTTGAGCTTCTGTCGGAGTAATTTGAAGTTTTGTTCATGTTCAGATGATACCACTGTTAAAATCTGGGATTTTGAACGGTGCCAACAAGAGCAGACATTGACCGGCCATGGTTGGAATGTCAAGAGTGTTGACTGGCACCCCACAAACTCTCTGATAGCTTCGGGTGGGAAAGACAGTGTTGTCAAACTGTGGGATGCTAGGTCACGCAGAGAACTTTGTTCGTTTTATGACCACAAAAATTGGGTGCATTCTGTCAAGTGGAACCGAAATGGTATTTCATCTAGAAGGCACGGTGATTATCCAAAAGGAAGTACAGAACTCCCAAAGAAAACAACAAAAAAGATTGCTGCATTGTTAGAAAAAAAGACCCCAAGCTTGGATAGACTTCCTCTTGCTTGGGGACTTACTGACCATGCAATTCAAAAGTGA

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

272

Amino Acids

31.16

Weight (kDa)

9.45

Isoelectric Point (pI)

43.57

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WD40_Gbeta	PF25391	28 - 222	3.9e-15	G protein beta WD-40 repeat protein
WD40_CDC20-Fz	PF24807	34 - 220	5.1e-24	CDC20/Fizzy WD40 domain
Beta-prop_THOC3	PF25174	35 - 221	1.3e-27	THOC3 beta-propeller domain
Beta-prop_WDR3_1st	PF25173	38 - 155	4.1e-16	WDR3 first beta-propeller domain
Beta-prop_IFT140_1st	PF23383	39 - 129	1.3e-10	IFT140 first beta-propeller
Beta-prop_WDR5	PF25175	41 - 132	1.9e-08	WDR5 beta-propeller domain
Beta-prop_EIPR1	PF23609	43 - 194	8.3e-09	EIPR1 beta-propeller
WD40_Prp19	PF24814	44 - 221	8.1e-23	Prp19 WD40 domain
WD40_WDHD1_1st	PF24817	44 - 202	2.6e-17	WDHD1 first WD40 domain
EIF3I	PF24805	76 - 159	1.2e-08	EIF3I
Beta-prop_CAF1B_HIR1	PF24105	80 - 201	1.9e-10	CAF1B/HIR1 beta-propeller domain
WD40_MABP1-WDR62_2nd	PF24782	86 - 209	6.8e-06	MABP1/WDR62 second WD40 domain
WDR55	PF24796	115 - 219	2.8e-11	WDR55
Beta-prop_WDR36-Utp21_2nd	PF25168	119 - 220	1.6e-09	WDR36/Utp21 second beta-propeller domain
WD40	PF00400	122 - 153	8.7e-06	WD domain, G-beta repeat
Beta-prop_WDR5	PF25175	122 - 221	8e-22	WDR5 beta-propeller domain
Beta-prop_WDR3_2nd	PF25172	123 - 196	1.3e-10	WDR3 second beta-propeller domain
Beta-prop_EML_2	PF23414	136 - 221	6.1e-10	Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR90_POC16_2nd	PF23393	139 - 221	5.1e-07	WDR90/POC16, second beta-propeller
Beta-prop_WDR3_1st	PF25173	149 - 219	8.7e-13	WDR3 first beta-propeller domain
WD40	PF00400	158 - 195	3.3e-10	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: 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

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	569
AccB1I	GGYRCC	2 cut(s)	468, 525
AccB7I	CCANNNNNTGG	1 cut(s)	270
AccBSI	CCGCTC	1 cut(s)	368
AccII	CGCG	2 cut(s)	26, 28
AciI	CCGC	2 cut(s)	81, 366
AclWI	GGATC	1 cut(s)	302
AcoI	YGGCCR	2 cut(s)	208, 493
AcyI	GRCGYC	1 cut(s)	163
AfaI	GTAC	2 cut(s)	103, 703
AfiI	CCNNNNNNNGG	3 cut(s)	270, 379, 766
AgsI	TTSAA	4 cut(s)	220, 415, 464, 812
AluBI	AGCT	3 cut(s)	396, 548, 765
AluI	AGCT	3 cut(s)	396, 548, 765
AlwI	GGATC	1 cut(s)	302
AoxI	GGCC	3 cut(s)	3, 208, 493
ApeKI	GCWGC	1 cut(s)	737
Asp700I	GAANNNNTTC	1 cut(s)	381
AspLEI	GCGC	3 cut(s)	28, 30, 96
AspS9I	GGNCC	2 cut(s)	4, 261
AsuHPI	GGTGA	3 cut(s)	314, 362, 695
AvaII	GGWCC	1 cut(s)	261
BaeI	ACNNNNGTAYC	2 cut(s)	429, 462
BalI	TGGCCA	1 cut(s)	210
BanI	GGYRCC	2 cut(s)	468, 525
BanII	GRGCYC	1 cut(s)	118
BbvI	GCAGC	1 cut(s)	724
BccI	CCATC	2 cut(s)	15, 302
BclI	TGATCA	2 cut(s)	247, 283
BfaI	CTAG	3 cut(s)	353, 588, 672
BisI	GCNGC	2 cut(s)	81, 738
BlsI	GCNGC	2 cut(s)	82, 739
Bme18I	GGWCC	1 cut(s)	261
BmgT120I	GGNCC	2 cut(s)	4, 261
BmiI	GGNNCC	3 cut(s)	470, 527, 653
BmrI	ACTGGG	1 cut(s)	79
BmsI	GCATC	1 cut(s)	574
BmuI	ACTGGG	1 cut(s)	79
BpuEI	CTTGAG	1 cut(s)	412
BsaHI	GRCGYC	1 cut(s)	163
BsaJI	CCNNGG	2 cut(s)	264, 496
Bsc4I	CCNNNNNNNGG	3 cut(s)	270, 379, 766
Bse118I	RCCGGY	1 cut(s)	491
Bse1I	ACTGG	2 cut(s)	85, 527
BseDI	CCNNGG	2 cut(s)	264, 496
BseGI	GGATG	1 cut(s)	589
BseLI	CCNNNNNNNGG	3 cut(s)	270, 379, 766
BseNI	ACTGG	2 cut(s)	85, 527
BsePI	GCGCGC	1 cut(s)	26
BseXI	GCAGC	1 cut(s)	724
Bsh1236I	CGCG	2 cut(s)	26, 28
BshFI	GGCC	3 cut(s)	5, 210, 495
BshNI	GGYRCC	2 cut(s)	468, 525
BsiSI	CCGG	1 cut(s)	492
BslFI	GGGAC	2 cut(s)	401, 804
BslI	CCNNNNNNNGG	3 cut(s)	270, 379, 766
BsmFI	GGGAC	2 cut(s)	401, 804
BsmI	GAATGC	1 cut(s)	637
BsnI	GGCC	3 cut(s)	5, 210, 495
Bsp1286I	GDGCHC	1 cut(s)	118
Bsp1407I	TGTACA	1 cut(s)	101
Bsp143I	GATC	4 cut(s)	129, 247, 283, 294
Bsp19I	CCATGG	2 cut(s)	264, 496
BspACI	CCGC	2 cut(s)	81, 366
BspANI	GGCC	3 cut(s)	5, 210, 495
BspFNI	CGCG	2 cut(s)	26, 28
BspHI	TCATGA	1 cut(s)	244
BspLI	GGNNCC	3 cut(s)	470, 527, 653
BspPI	GGATC	1 cut(s)	302
BspT107I	GGYRCC	2 cut(s)	468, 525
BsrBI	CCGCTC	1 cut(s)	368
BsrFI	RCCGGY	1 cut(s)	491
BsrGI	TGTACA	1 cut(s)	101
BsrI	ACTGG	2 cut(s)	85, 527
BssAI	RCCGGY	1 cut(s)	491
BssECI	CCNNGG	2 cut(s)	264, 496
BssHII	GCGCGC	1 cut(s)	26
BssMI	GATC	4 cut(s)	129, 247, 283, 294
BssNI	GRCGYC	1 cut(s)	163
BssT1I	CCWWGG	2 cut(s)	264, 496
Bst4CI	ACNGT	5 cut(s)	445, 468, 566, 579, 683
Bst6I	CTCTTC	1 cut(s)	326
BstACI	GRCGYC	1 cut(s)	163
BstAUI	TGTACA	1 cut(s)	101
BstC8I	GCNNGC	1 cut(s)	28
BstDSI	CCRYGG	2 cut(s)	264, 496
BstF5I	GGATG	1 cut(s)	589
BstFNI	CGCG	2 cut(s)	26, 28
BstHHI	GCGC	3 cut(s)	28, 30, 96
BstKTI	GATC	4 cut(s)	132, 250, 286, 297
BstMBI	GATC	4 cut(s)	129, 247, 283, 294
BstUI	CGCG	2 cut(s)	26, 28
BstV1I	GCAGC	1 cut(s)	724
BstX2I	RGATCY	1 cut(s)	294
BstYI	RGATCY	1 cut(s)	294
BsuRI	GGCC	3 cut(s)	5, 210, 495
BtgI	CCRYGG	2 cut(s)	264, 496
BtsCI	GGATG	1 cut(s)	589
BtsI	GCAGTG	1 cut(s)	45
BtsIMutI	CAGTG	3 cut(s)	45, 441, 571
Cac8I	GCNNGC	1 cut(s)	28
CciI	TCATGA	1 cut(s)	244
CfoI	GCGC	3 cut(s)	28, 30, 96
Cfr10I	RCCGGY	1 cut(s)	491
Cfr13I	GGNCC	2 cut(s)	4, 261
CseI	GACGC	1 cut(s)	152
Csp6I	GTAC	2 cut(s)	102, 702
CspCI	CAANNNNNGTGG	2 cut(s)	611, 646
CviAII	CATG	8 cut(s)	224, 245, 265, 340, 374, 426, 497, 803
CviJI	RGCY	9 cut(s)	5, 116, 177, 210, 242, 396, 495, 548, 765
CviKI_1	RGCY	9 cut(s)	5, 116, 177, 210, 242, 396, 495, 548, 765
CviQI	GTAC	2 cut(s)	102, 702
DpnI	GATC	4 cut(s)	131, 249, 285, 296
DpnII	GATC	4 cut(s)	129, 247, 283, 294
DrdI	GACNNNNNNGTC	1 cut(s)	569
DseDI	GACNNNNNNGTC	1 cut(s)	569
EaeI	YGGCCR	2 cut(s)	208, 493
Eam1104I	CTCTTC	1 cut(s)	326
EarI	CTCTTC	1 cut(s)	326
Eco130I	CCWWGG	2 cut(s)	264, 496
Eco24I	GRGCYC	1 cut(s)	118
Eco47I	GGWCC	1 cut(s)	261
EcoT14I	CCWWGG	2 cut(s)	264, 496
EcoT38I	GRGCYC	1 cut(s)	118
ErhI	CCWWGG	2 cut(s)	264, 496
FaeI	CATG	8 cut(s)	227, 248, 268, 343, 377, 429, 500, 806
FaqI	GGGAC	2 cut(s)	401, 804
FatI	CATG	8 cut(s)	223, 244, 264, 339, 373, 425, 496, 802
FbaI	TGATCA	2 cut(s)	247, 283
Fnu4HI	GCNGC	2 cut(s)	81, 738
FokI	GGATG	1 cut(s)	596
FriOI	GRGCYC	1 cut(s)	118
Fsp4HI	GCNGC	2 cut(s)	81, 738
FspBI	CTAG	3 cut(s)	353, 588, 672
GlaI	GCGC	3 cut(s)	27, 29, 95
GluI	GCNGC	2 cut(s)	81, 738
HaeIII	GGCC	3 cut(s)	5, 210, 495
HapII	CCGG	1 cut(s)	492
HgaI	GACGC	1 cut(s)	152
HhaI	GCGC	3 cut(s)	28, 30, 96
Hin1I	GRCGYC	1 cut(s)	163
Hin1II	CATG	8 cut(s)	227, 248, 268, 343, 377, 429, 500, 806
Hin6I	GCGC	3 cut(s)	26, 28, 94
HinP1I	GCGC	3 cut(s)	26, 28, 94
HincII	GTYRAC	1 cut(s)	520
HindII	GTYRAC	1 cut(s)	520
HindIII	AAGCTT	1 cut(s)	763
HinfI	GANTC	3 cut(s)	235, 362, 377
HpaII	CCGG	1 cut(s)	492
HphI	GGTGA	3 cut(s)	314, 362, 695
Hpy166II	GTNNAC	2 cut(s)	195, 520
Hpy188I	TCNGA	3 cut(s)	405, 433, 543
Hpy188III	TCNNGA	5 cut(s)	245, 287, 386, 511, 672
Hpy8I	GTNNAC	2 cut(s)	195, 520
HpyAV	CCTTC	2 cut(s)	162, 669
HpyCH4III	ACNGT	5 cut(s)	445, 468, 566, 579, 683
HpyCH4V	TGCA	3 cut(s)	637, 740, 806
Hsp92I	GRCGYC	1 cut(s)	163
Hsp92II	CATG	8 cut(s)	227, 248, 268, 343, 377, 429, 500, 806
HspAI	GCGC	3 cut(s)	26, 28, 94
Ksp22I	TGATCA	2 cut(s)	247, 283
Kzo9I	GATC	4 cut(s)	129, 247, 283, 294
Lsp1109I	GCAGC	1 cut(s)	724
LweI	GCATC	1 cut(s)	574
MaeI	CTAG	3 cut(s)	353, 588, 672
MaeIII	GTNAC	2 cut(s)	335, 591
MalI	GATC	4 cut(s)	131, 249, 285, 296
MbiI	CCGCTC	1 cut(s)	368
MboI	GATC	4 cut(s)	129, 247, 283, 294
MboII	GAAGA	3 cut(s)	48, 117, 343
MflI	RGATCY	1 cut(s)	294
MhlI	GDGCHC	1 cut(s)	118
MlsI	TGGCCA	1 cut(s)	210
MluCI	AATT	5 cut(s)	106, 227, 409, 628, 807
MluNI	TGGCCA	1 cut(s)	210
MmeI	TCCRAC	2 cut(s)	383, 482
MnlI	CCTC	4 cut(s)	153, 225, 305, 789
Mox20I	TGGCCA	1 cut(s)	210
MroXI	GAANNNNTTC	1 cut(s)	381
MscI	TGGCCA	1 cut(s)	210
MseI	TTAA	2 cut(s)	279, 447
Msp20I	TGGCCA	1 cut(s)	210
MspI	CCGG	1 cut(s)	492
Mva1269I	GAATGC	1 cut(s)	637
MvnI	CGCG	2 cut(s)	26, 28
NcoI	CCATGG	2 cut(s)	264, 496
NdeII	GATC	4 cut(s)	129, 247, 283, 294
NlaIII	CATG	8 cut(s)	227, 248, 268, 343, 377, 429, 500, 806
NlaIV	GGNNCC	3 cut(s)	470, 527, 653
NmuCI	GTSAC	1 cut(s)	591
PagI	TCATGA	1 cut(s)	244
PauI	GCGCGC	1 cut(s)	26
PctI	GAATGC	1 cut(s)	637
PdmI	GAANNNNTTC	1 cut(s)	381
PfeI	GAWTC	3 cut(s)	235, 362, 377
PflMI	CCANNNNNTGG	1 cut(s)	270
PkrI	GCNGC	2 cut(s)	82, 739
PspN4I	GGNNCC	3 cut(s)	470, 527, 653
PspPI	GGNCC	2 cut(s)	4, 261
PsuI	RGATCY	1 cut(s)	294
PteI	GCGCGC	1 cut(s)	26
RsaI	GTAC	2 cut(s)	103, 703
RsaNI	GTAC	2 cut(s)	102, 702
SaqAI	TTAA	2 cut(s)	279, 447
SatI	GCNGC	2 cut(s)	81, 738
Sau3AI	GATC	4 cut(s)	129, 247, 283, 294
Sau96I	GGNCC	2 cut(s)	4, 261
SduI	GDGCHC	1 cut(s)	118
SetI	ASST	7 cut(s)	154, 263, 326, 398, 550, 593, 767
SfaNI	GCATC	1 cut(s)	574
SinI	GGWCC	1 cut(s)	261
SmlI	CTYRAG	1 cut(s)	391
SmoI	CTYRAG	1 cut(s)	391
Sse9I	AATT	5 cut(s)	106, 227, 409, 628, 807
SsiI	CCGC	2 cut(s)	81, 366
SspMI	CTAG	3 cut(s)	353, 588, 672
StyI	CCWWGG	2 cut(s)	264, 496
TaaI	ACNGT	5 cut(s)	445, 468, 566, 579, 683
TaqI	TCGA	3 cut(s)	59, 128, 136
TasI	AATT	5 cut(s)	106, 227, 409, 628, 807
TatI	WGTACW	2 cut(s)	101, 701
TauI	GCSGC	1 cut(s)	83
TfiI	GAWTC	3 cut(s)	235, 362, 377
Tru1I	TTAA	2 cut(s)	279, 447
Tru9I	TTAA	2 cut(s)	279, 447
TscAI	CASTG	3 cut(s)	52, 448, 571
TseFI	GTSAC	1 cut(s)	591
TseI	GCWGC	1 cut(s)	737
Tsp45I	GTSAC	1 cut(s)	591
TspDTI	ATGAA	5 cut(s)	240, 375, 390, 414, 657
TspRI	CASTG	3 cut(s)	52, 448, 571
Van91I	CCANNNNNTGG	1 cut(s)	270
VpaK11BI	GGWCC	1 cut(s)	261
XbaI	TCTAGA	1 cut(s)	671
XmnI	GAANNNNTTC	1 cut(s)	381
XspI	CTAG	3 cut(s)	353, 588, 672

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