Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0002681

Physical Location & Seq

Genomic Coordinates Reverse (-)

12627344 .. 12631463

Gene Structure 4120 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG130500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 477 bp

ATGCTGATGATGTTTGATAATTGGGAATGGGTTGTCCAGATTTGTGATAAAAGCAATTGTGATAAATTGTGCCTCTGGGACGTGGAAACCGGCGACCTCATCAAAACCCTCCGCGGGCACACCAACTACGTCTTCTGCACCAACTTCAATCCCCAGTCCAACATGATCGTCTCCGGCTCGTTCGACGAAACGGTGCGTATTTGGGATGTCAAGACGGGAAAGTGCCTCAAGGTGTTGCCGGCTCACTCCGATCCCGTCACGGCCGTTGATTTCAATCGGGACGGCTCGATTATCGTTTCGAGTAGCTACGATGGGCTGTGTAGGACCTGGGATGCTTCCACCGGGCATTGCACCAAGACTTTGATTGACGATGAGAATCCTCCGGTTTCGTTTGTCAAGTTCTCCCCTAATGGCAAGTTCATTCTTGTTGGCACTTTGGATAATACTCTGGGGTTAAATCTCCAATTGCCATACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000123 GO:0000151 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005815 GO:0005856 GO:0005929 GO:0006325 GO:0006464 GO:0006473 GO:0006475 GO:0006479 GO:0006807 GO:0006996 GO:0007275 GO:0007399 GO:0008150 GO:0008152 GO:0008213 GO:0009987 GO:0015630 GO:0016043 GO:0016569 GO:0016570 GO:0016571 GO:0016573 GO:0018022 GO:0018193 GO:0018205 GO:0018393 GO:0018394 GO:0019538 GO:0022008 GO:0022607 GO:0030030 GO:0030031 GO:0030154 GO:0030182 GO:0031175 GO:0031248 GO:0031461 GO:0031974 GO:0031981 GO:0032259 GO:0032501 GO:0032502 GO:0032991 GO:0034708 GO:0034968 GO:0035097 GO:0036064 GO:0036211 GO:0042995 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043412 GO:0043414 GO:0043543 GO:0043967 GO:0043981 GO:0043982 GO:0043984 GO:0044085 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044430 GO:0044441 GO:0044446 GO:0044451 GO:0044463 GO:0044464 GO:0044665 GO:0044782 GO:0048188 GO:0048468 GO:0048666 GO:0048699 GO:0048731 GO:0048856 GO:0048869 GO:0051276 GO:0051568 GO:0060271 GO:0070013 GO:0070925 GO:0071339 GO:0071704 GO:0071840 GO:0080008 GO:0120025 GO:0120031 GO:0120036 GO:0120038 GO:1901564 GO:1902493 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko04934 map04934

Pfam Domains

Protein Families

WD40

Protein Analysis

158

Amino Acids

17.75

Weight (kDa)

4.85

Isoelectric Point (pI)

24.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_WDR5	PF25175	15 - 152	1.6e-67	WDR5 beta-propeller domain
WD40_Gbeta	PF25391	17 - 146	7.2e-17	G protein beta WD-40 repeat protein
Beta-prop_WDR90_POC16_2nd	PF23393	18 - 117	4.9e-08	WDR90/POC16, second beta-propeller
WD40_CDC20-Fz	PF24807	20 - 114	2.9e-14	CDC20/Fizzy WD40 domain
Beta-prop_IFT122_1st	PF23381	21 - 102	9.5e-08	IFT122 first beta-propeller
Beta-prop_EML_2	PF23414	21 - 117	8.7e-12	Echinoderm microtubule-associated protein second beta-propeller
WD40_MABP1-WDR62_1st	PF24780	21 - 100	6.3e-07	MABP1/WDR62 first WD40 domain
EIF3I	PF24805	21 - 94	1.9e-12	EIF3I
Beta-prop_WDR41	PF25178	22 - 79	3.1e-06	WDR41
Beta-prop_THOC3	PF25174	22 - 104	1.3e-20	THOC3 beta-propeller domain
WD40_Prp19	PF24814	22 - 150	2.4e-24	Prp19 WD40 domain
Beta-prop_WDR36-Utp21_1st	PF25171	22 - 150	4.6e-12	WDR36/Utp21 first beta-propeller
Beta-prop_WDR36-Utp21_2nd	PF25168	23 - 76	3.8e-08	WDR36/Utp21 second beta-propeller domain
WDR55	PF24796	23 - 145	1e-09	WDR55
Beta-prop_WDR3_1st	PF25173	23 - 150	4.7e-32	WDR3 first beta-propeller domain
WD40_WDHD1_1st	PF24817	26 - 79	1.1e-09	WDHD1 first WD40 domain
WDR90_beta-prop_4th	PF23342	26 - 133	1.9e-07	WDR90, 4th beta-propeller
Beta-prop_CAF1B_HIR1	PF24105	29 - 120	3.3e-15	CAF1B/HIR1 beta-propeller domain
WD40	PF00400	32 - 69	1.1e-10	WD domain, G-beta repeat
Beta-prop_WDR3_2nd	PF25172	33 - 150	2.1e-17	WDR3 second beta-propeller domain
Beta-prop_TEP1_2nd	PF25047	35 - 117	3e-11	TEP-1 second beta-propeller
Beta-prop_EML	PF23409	43 - 149	2.6e-10	Echinoderm microtubule-associated protein first beta-propeller
Beta-prop_EML_2	PF23414	49 - 150	4.7e-15	Echinoderm microtubule-associated protein second beta-propeller
WD40_MABP1-WDR62_2nd	PF24782	51 - 110	2.6e-06	MABP1/WDR62 second WD40 domain
Beta-prop_SCAP	PF24017	55 - 116	9.2e-06	SCAP Beta-propeller
Beta-prop_WDR36-Utp21_2nd	PF25168	69 - 148	2e-08	WDR36/Utp21 second beta-propeller domain
WD40	PF00400	73 - 111	7.1e-11	WD domain, G-beta repeat
WD40_WDHD1_1st	PF24817	78 - 121	1.6e-06	WDHD1 first WD40 domain
EIF3I	PF24805	81 - 145	9.5e-06	EIF3I
Beta-prop_THOC3	PF25174	97 - 150	6.8e-07	THOC3 beta-propeller domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0002681)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G49660
fragaria_vesca	FvH4_1g18760
malus_domestica	MD01G1047000.v1.1 MD11G1213300.v1.1 MD15G1305300.v1.1 MD16G1282400.v1.1
prunus_persica	Prupe.6G211800_v2.0.a1
pyrus_communis	pycom01g07290 pycom15g26850 pycom16g25220
rosa_chinensis	RchiOBHm_Chr1g0324081 RchiOBHm_Chr2g0109631 RchiOBHm_Chr4g0412241 RchiOBHm_Chr7g0189251
rosa_laevigata	RLG00000017751 RLG00000018963 RLG00000020091 RLG00000024634 RLG00000029197 RLG00000032867 RLG00000034693 RLG00000035499
rosa_multiflora	Rmu_sc0000595.1_g000009 Rmu_sc0004483.1_g000044 Rmu_sc0010548.1_g000002
rosa_roxburghii	Rroxscaffold_2G00113400 Rroxscaffold_2G00134080
rosa_rugosa	Rorug02G0161400
rosa_samantha	Rh1AG321900 Rh2AG213600 Rh2BG224000 Rh2CG215800 Rh2CG303700 Rh2DG219100 Rh5DG065100 Rh5DG130500 Rh7DG103300
rosa_wichuraiana	Rw1G015840 Rw2G032920 Rw2G033190

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	114
AciI	CCGC	2 cut(s)	112, 114
AclWI	GGATC	1 cut(s)	245
AcoI	YGGCCR	1 cut(s)	261
AfiI	CCNNNNNNNGG	1 cut(s)	114
AgsI	TTSAA	2 cut(s)	148, 274
AjiI	CACGTC	1 cut(s)	82
AjnI	CCWGG	1 cut(s)	326
AjuI	GAANNNNNNNTTGG	2 cut(s)	116, 148
AluBI	AGCT	1 cut(s)	306
AluI	AGCT	1 cut(s)	306
Alw26I	GTCTC	1 cut(s)	175
AlwI	GGATC	1 cut(s)	245
AoxI	GGCC	1 cut(s)	261
AspS9I	GGNCC	1 cut(s)	324
AsuC2I	CCSGG	1 cut(s)	343
AvaII	GGWCC	1 cut(s)	324
BaeGI	GKGCMC	1 cut(s)	120
BbsI	GAAGAC	1 cut(s)	124
BccI	CCATC	1 cut(s)	305
BceAI	ACGGC	3 cut(s)	248, 276, 298
BciT130I	CCWGG	1 cut(s)	328
BcnI	CCSGG	1 cut(s)	343
BcoDI	GTCTC	1 cut(s)	175
BfaI	CTAG	1 cut(s)	475
Bme1390I	CCNGG	2 cut(s)	328, 343
Bme18I	GGWCC	1 cut(s)	324
BmgBI	CACGTC	1 cut(s)	82
BmgT120I	GGNCC	1 cut(s)	324
BmrFI	CCNGG	2 cut(s)	328, 343
BmrI	ACTGGG	1 cut(s)	148
BmsI	GCATC	1 cut(s)	322
BmuI	ACTGGG	1 cut(s)	148
BpiI	GAAGAC	1 cut(s)	124
BpuEI	CTTGAG	1 cut(s)	212
BpuMI	CCSGG	1 cut(s)	343
BsaBI	GATNNNNATC	2 cut(s)	273, 375
BsaJI	CCNNGG	2 cut(s)	112, 327
BsaWI	WCCGGW	1 cut(s)	382
Bsc4I	CCNNNNNNNGG	1 cut(s)	114
Bse118I	RCCGGY	2 cut(s)	89, 238
Bse1I	ACTGG	1 cut(s)	154
Bse3DI	GCAATG	1 cut(s)	346
Bse8I	GATNNNNATC	2 cut(s)	273, 375
BseBI	CCWGG	1 cut(s)	328
BseDI	CCNNGG	2 cut(s)	112, 327
BseGI	GGATG	2 cut(s)	211, 337
BseJI	GATNNNNATC	2 cut(s)	273, 375
BseLI	CCNNNNNNNGG	1 cut(s)	114
BseMI	GCAATG	1 cut(s)	346
BseNI	ACTGG	1 cut(s)	154
BseSI	GKGCMC	1 cut(s)	120
BseX3I	CGGCCG	1 cut(s)	261
BsgI	GTGCAG	1 cut(s)	121
Bsh1236I	CGCG	1 cut(s)	114
Bsh1285I	CGRYCG	1 cut(s)	264
BshFI	GGCC	1 cut(s)	263
BsiEI	CGRYCG	1 cut(s)	264
BsiSI	CCGG	5 cut(s)	90, 174, 239, 342, 383
BslFI	GGGAC	2 cut(s)	92, 293
BslI	CCNNNNNNNGG	1 cut(s)	114
BsmAI	GTCTC	1 cut(s)	175
BsmBI	CGTCTC	1 cut(s)	175
BsmFI	GGGAC	2 cut(s)	92, 293
BsnI	GGCC	1 cut(s)	263
Bsp1286I	GDGCHC	1 cut(s)	120
Bsp143I	GATC	2 cut(s)	165, 250
BspACI	CCGC	2 cut(s)	112, 114
BspANI	GGCC	1 cut(s)	263
BspFNI	CGCG	1 cut(s)	114
BspPI	GGATC	1 cut(s)	245
BsrDI	GCAATG	1 cut(s)	346
BsrFI	RCCGGY	2 cut(s)	89, 238
BsrI	ACTGG	1 cut(s)	154
BssAI	RCCGGY	2 cut(s)	89, 238
BssECI	CCNNGG	2 cut(s)	112, 327
BssMI	GATC	2 cut(s)	165, 250
Bst2UI	CCWGG	1 cut(s)	328
Bst4CI	ACNGT	1 cut(s)	193
BstC8I	GCNNGC	2 cut(s)	116, 240
BstDSI	CCRYGG	1 cut(s)	112
BstF5I	GGATG	2 cut(s)	211, 337
BstFNI	CGCG	1 cut(s)	114
BstKTI	GATC	2 cut(s)	168, 253
BstMAI	GTCTC	1 cut(s)	175
BstMBI	GATC	2 cut(s)	165, 250
BstMCI	CGRYCG	1 cut(s)	264
BstNI	CCWGG	1 cut(s)	328
BstSCI	CCNGG	2 cut(s)	326, 341
BstSLI	GKGCMC	1 cut(s)	120
BstUI	CGCG	1 cut(s)	114
BstV2I	GAAGAC	1 cut(s)	124
BstZI	CGGCCG	1 cut(s)	261
BsuRI	GGCC	1 cut(s)	263
BtgI	CCRYGG	1 cut(s)	112
BtrI	CACGTC	1 cut(s)	82
BtsCI	GGATG	2 cut(s)	211, 337
Cac8I	GCNNGC	2 cut(s)	116, 240
Cfr10I	RCCGGY	2 cut(s)	89, 238
Cfr13I	GGNCC	1 cut(s)	324
Cfr42I	CCGCGG	1 cut(s)	115
CviAII	CATG	1 cut(s)	163
CviJI	RGCY	6 cut(s)	177, 242, 263, 285, 306, 316
CviKI_1	RGCY	6 cut(s)	177, 242, 263, 285, 306, 316
DpnI	GATC	2 cut(s)	167, 252
DpnII	GATC	2 cut(s)	165, 250
EaeI	YGGCCR	1 cut(s)	261
EagI	CGGCCG	1 cut(s)	261
EclXI	CGGCCG	1 cut(s)	261
Eco47I	GGWCC	1 cut(s)	324
Eco52I	CGGCCG	1 cut(s)	261
EcoO109I	RGGNCCY	1 cut(s)	324
EcoRII	CCWGG	1 cut(s)	326
Esp3I	CGTCTC	1 cut(s)	175
FaeI	CATG	1 cut(s)	166
FaiI	YATR	2 cut(s)	164, 472
FaqI	GGGAC	2 cut(s)	92, 293
FatI	CATG	1 cut(s)	162
FauI	CCCGC	1 cut(s)	107
FokI	GGATG	2 cut(s)	218, 344
FspBI	CTAG	1 cut(s)	475
HaeIII	GGCC	1 cut(s)	263
HapII	CCGG	5 cut(s)	90, 174, 239, 342, 383
Hin1II	CATG	1 cut(s)	166
HinfI	GANTC	1 cut(s)	376
HpaII	CCGG	5 cut(s)	90, 174, 239, 342, 383
Hpy188I	TCNGA	1 cut(s)	250
Hpy188III	TCNNGA	3 cut(s)	37, 211, 278
Hpy99I	CGWCG	1 cut(s)	188
HpyCH4III	ACNGT	1 cut(s)	193
HpyCH4IV	ACGT	2 cut(s)	81, 129
HpyCH4V	TGCA	2 cut(s)	138, 351
HpySE526I	ACGT	2 cut(s)	81, 129
Hsp92II	CATG	1 cut(s)	166
KroI	GCCGGC	1 cut(s)	238
KroNI	GCCGGC	1 cut(s)	240
KspI	CCGCGG	1 cut(s)	115
Kzo9I	GATC	2 cut(s)	165, 250
LweI	GCATC	1 cut(s)	322
MaeI	CTAG	1 cut(s)	475
MaeII	ACGT	2 cut(s)	81, 129
MaeIII	GTNAC	1 cut(s)	256
MalI	GATC	2 cut(s)	167, 252
MboI	GATC	2 cut(s)	165, 250
MboII	GAAGA	1 cut(s)	124
MfeI	CAATTG	2 cut(s)	55, 464
MhlI	GDGCHC	1 cut(s)	120
MluCI	AATT	4 cut(s)	19, 55, 65, 464
MmeI	TCCRAC	1 cut(s)	183
MnlI	CCTC	5 cut(s)	83, 107, 119, 236, 390
MroNI	GCCGGC	1 cut(s)	238
MseI	TTAA	1 cut(s)	455
MspA1I	CMGCKG	1 cut(s)	114
MspI	CCGG	5 cut(s)	90, 174, 239, 342, 383
MspR9I	CCNGG	2 cut(s)	328, 343
MunI	CAATTG	2 cut(s)	55, 464
MvaI	CCWGG	1 cut(s)	328
MvnI	CGCG	1 cut(s)	114
NaeI	GCCGGC	1 cut(s)	240
NciI	CCSGG	1 cut(s)	343
NdeII	GATC	2 cut(s)	165, 250
NgoMIV	GCCGGC	1 cut(s)	238
NlaIII	CATG	1 cut(s)	166
NmuCI	GTSAC	1 cut(s)	256
PdiI	GCCGGC	1 cut(s)	240
PfeI	GAWTC	1 cut(s)	376
PpuMI	RGGWCCY	1 cut(s)	324
Psp5II	RGGWCCY	1 cut(s)	324
Psp6I	CCWGG	1 cut(s)	326
PspGI	CCWGG	1 cut(s)	326
PspPI	GGNCC	1 cut(s)	324
PspPPI	RGGWCCY	1 cut(s)	324
SacII	CCGCGG	1 cut(s)	115
SaqAI	TTAA	1 cut(s)	455
Sau3AI	GATC	2 cut(s)	165, 250
Sau96I	GGNCC	1 cut(s)	324
ScrFI	CCNGG	2 cut(s)	328, 343
SduI	GDGCHC	1 cut(s)	120
SetI	ASST	6 cut(s)	84, 99, 132, 234, 308, 329
SfaNI	GCATC	1 cut(s)	322
Sfr303I	CCGCGG	1 cut(s)	115
SgrBI	CCGCGG	1 cut(s)	115
SinI	GGWCC	1 cut(s)	324
SmlI	CTYRAG	1 cut(s)	227
SmoI	CTYRAG	1 cut(s)	227
Sse9I	AATT	4 cut(s)	19, 55, 65, 464
SsiI	CCGC	2 cut(s)	112, 114
SspMI	CTAG	1 cut(s)	475
StyD4I	CCNGG	2 cut(s)	326, 341
TaaI	ACNGT	1 cut(s)	193
TaiI	ACGT	2 cut(s)	84, 132
TaqI	TCGA	3 cut(s)	183, 287, 299
TasI	AATT	4 cut(s)	19, 55, 65, 464
TfiI	GAWTC	1 cut(s)	376
Tru1I	TTAA	1 cut(s)	455
Tru9I	TTAA	1 cut(s)	455
TseFI	GTSAC	1 cut(s)	256
Tsp45I	GTSAC	1 cut(s)	256
TspDTI	ATGAA	1 cut(s)	409
VpaK11BI	GGWCC	1 cut(s)	324
XspI	CTAG	1 cut(s)	475

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