Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0005006

Physical Location & Seq

Genomic Coordinates Forward (+)

1558867 .. 1560811

Gene Structure 1945 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG014900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 543 bp

ATGCATGTTTTTGAGCGTCATGAAAGTGTGGTTAATGATGTGTCGTGGCATTTGAAGAACGAGAATCTGTTTGGGTCTTTTGGGGACGATTGTCCATTGATGATATGGGACTTGAGAACAAATCAAGCCCAAGACTCTGTCAAAGTTCATGAGAAAGAGAAGGATCTTGTTACTGACCATGCTTTCTCTCTCTTGTTTGTTTGCTGGTCTCTGGTAAACTATCTGGCTACAGCATCTTCAGACACTACTGTGGGTCTGTTTGATATGCGGAAGCTGACGGTATGCTCTCAGTGGCCACACGAGGTATTCCAGGTTGAATGGGACCCTAATCATGATACTGTACTGGCATCTTACGCCGGAGGAAGATGGCTGGAGGGAGATGGGGATGAGCAGTTGGAGGGTGATGGGGATGATGGGCCACCAGAACTGTTTTCACATGGCGGTCATAGAGCAAAGATATCAGATTTCTCATGGAACAAAGAAGTTCCATGGCTCATTTCAAGTGTAGCCGAAGACAACACTCCAGGTCTGGCAAATGGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000151 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0031461 GO:0032991 GO:0044424 GO:0044444 GO:0044464 GO:0080008 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko04218 map04218

Pfam Domains

Protein Families

CAF1C_H4-bd WD40

Protein Analysis

180

Amino Acids

20.27

Weight (kDa)

4.54

Isoelectric Point (pI)

30.51

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_WDR3_1st	PF25173	3 - 114	6e-06	WDR3 first beta-propeller domain
Beta-prop_THOC3	PF25174	4 - 117	7.8e-11	THOC3 beta-propeller domain
Beta-prop_CAF1B_HIR1	PF24105	4 - 115	7.1e-06	CAF1B/HIR1 beta-propeller domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0005006)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G16780 AT4G35050
fragaria_vesca	FvH4_2g01180
malus_domestica	MD05G1121700.v1.1 MD10G1124300.v1.1
prunus_persica	Prupe.8G165500_v2.0.a1
pyrus_communis	pycom05g11570
rosa_chinensis	RchiOBHm_Chr6g0251791 RchiOBHm_Chr6g0251811
rosa_laevigata	RLG00000015428 RLG00000015429
rosa_multiflora	Rmu_co8247185.1_g000001 Rmu_co8464529.1_g000001 Rmu_sc0003965.1_g000001 Rmu_sc0019305.1_g000001 Rmu_sc0025272.1_g000001 Rmu_ssc0000213.1_g000115 Rmu_ssc0000213.1_g000116
rosa_roxburghii	Rroxscaffold_7G00216370 Rroxscaffold_7G00216380
rosa_rugosa	Rorug05G0504000
rosa_samantha	Rh6AG014800 Rh6AG014900 Rh6BG013200 Rh6BG013300 Rh6CG010200 Rh6CG010300 Rh6DG011400 Rh6DG011500
rosa_wichuraiana	Rw6G001470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	268, 441
AclWI	GGATC	1 cut(s)	171
AcoI	YGGCCR	1 cut(s)	293
AcuI	CTGAAG	1 cut(s)	222
AfaI	GTAC	1 cut(s)	342
AgsI	TTSAA	3 cut(s)	55, 317, 501
AjnI	CCWGG	2 cut(s)	309, 523
AleI	CACNNNNGTG	1 cut(s)	248
AluBI	AGCT	1 cut(s)	274
AluI	AGCT	1 cut(s)	274
Alw26I	GTCTC	1 cut(s)	213
AlwI	GGATC	1 cut(s)	171
AoxI	GGCC	2 cut(s)	293, 416
AspS9I	GGNCC	2 cut(s)	322, 416
AsuHPI	GGTGA	1 cut(s)	413
AvaII	GGWCC	1 cut(s)	322
BalI	TGGCCA	1 cut(s)	295
BauI	CACGAG	1 cut(s)	299
BbsI	GAAGAC	1 cut(s)	519
BccI	CCATC	4 cut(s)	360, 374, 398, 407
BciT130I	CCWGG	2 cut(s)	311, 525
BcoDI	GTCTC	1 cut(s)	213
BfmI	CTRYAG	1 cut(s)	228
Bme1390I	CCNGG	2 cut(s)	311, 525
Bme18I	GGWCC	1 cut(s)	322
BmgT120I	GGNCC	2 cut(s)	322, 416
BmiI	GGNNCC	2 cut(s)	323, 324
BmrFI	CCNGG	2 cut(s)	311, 525
BmsI	GCATC	2 cut(s)	242, 356
BoxI	GACNNNNGTC	1 cut(s)	90
BpiI	GAAGAC	1 cut(s)	519
BpmI	CTGGAG	2 cut(s)	392, 507
BpuEI	CTTGAG	1 cut(s)	133
BsaI	GGTCTC	1 cut(s)	213
BsaJI	CCNNGG	1 cut(s)	488
Bse1I	ACTGG	1 cut(s)	348
BseBI	CCWGG	2 cut(s)	311, 525
BseDI	CCNNGG	1 cut(s)	488
BseGI	GGATG	2 cut(s)	391, 415
BseMII	CTCAG	1 cut(s)	302
BseNI	ACTGG	1 cut(s)	348
BshFI	GGCC	2 cut(s)	295, 418
BsiSI	CCGG	1 cut(s)	357
BslFI	GGGAC	3 cut(s)	98, 122, 335
BsmAI	GTCTC	1 cut(s)	213
BsmFI	GGGAC	3 cut(s)	98, 122, 335
BsnI	GGCC	2 cut(s)	295, 418
Bso31I	GGTCTC	1 cut(s)	213
Bsp143I	GATC	1 cut(s)	163
Bsp19I	CCATGG	1 cut(s)	488
BspACI	CCGC	2 cut(s)	268, 441
BspANI	GGCC	2 cut(s)	295, 418
BspCNI	CTCAG	1 cut(s)	301
BspHI	TCATGA	3 cut(s)	19, 148, 331
BspLI	GGNNCC	2 cut(s)	323, 324
BspPI	GGATC	1 cut(s)	171
BspTNI	GGTCTC	1 cut(s)	213
BsrI	ACTGG	1 cut(s)	348
BssECI	CCNNGG	1 cut(s)	488
BssMI	GATC	1 cut(s)	163
BssSI	CACGAG	1 cut(s)	299
BssT1I	CCWWGG	1 cut(s)	488
Bst2BI	CACGAG	1 cut(s)	299
Bst2UI	CCWGG	2 cut(s)	311, 525
Bst4CI	ACNGT	4 cut(s)	250, 280, 340, 429
BstDEI	CTNAG	1 cut(s)	288
BstDSI	CCRYGG	1 cut(s)	488
BstF5I	GGATG	2 cut(s)	391, 415
BstKTI	GATC	1 cut(s)	166
BstMAI	GTCTC	1 cut(s)	213
BstMBI	GATC	1 cut(s)	163
BstMWI	GCNNNNNNNGC	1 cut(s)	353
BstNI	CCWGG	2 cut(s)	311, 525
BstNSI	RCATGY	1 cut(s)	8
BstPAI	GACNNNNGTC	1 cut(s)	90
BstSCI	CCNGG	2 cut(s)	309, 523
BstSFI	CTRYAG	1 cut(s)	228
BstV2I	GAAGAC	1 cut(s)	519
BstX2I	RGATCY	1 cut(s)	163
BstYI	RGATCY	1 cut(s)	163
BsuRI	GGCC	2 cut(s)	295, 418
BtgI	CCRYGG	1 cut(s)	488
BtsCI	GGATG	2 cut(s)	391, 415
BtsIMutI	CAGTG	1 cut(s)	296
CciI	TCATGA	3 cut(s)	19, 148, 331
Cfr13I	GGNCC	2 cut(s)	322, 416
CseI	GACGC	1 cut(s)	5
Csp6I	GTAC	1 cut(s)	341
CviAII	CATG	8 cut(s)	5, 20, 149, 179, 332, 437, 471, 489
CviJI	RGCY	9 cut(s)	128, 227, 274, 295, 370, 418, 493, 509, 540
CviKI_1	RGCY	9 cut(s)	128, 227, 274, 295, 370, 418, 493, 509, 540
CviQI	GTAC	1 cut(s)	341
DdeI	CTNAG	1 cut(s)	288
DpnI	GATC	1 cut(s)	165
DpnII	GATC	1 cut(s)	163
EaeI	YGGCCR	1 cut(s)	293
Eco130I	CCWWGG	1 cut(s)	488
Eco31I	GGTCTC	1 cut(s)	213
Eco32I	GATATC	1 cut(s)	459
Eco47I	GGWCC	1 cut(s)	322
Eco57I	CTGAAG	1 cut(s)	222
EcoO109I	RGGNCCY	1 cut(s)	322
EcoRII	CCWGG	2 cut(s)	309, 523
EcoRV	GATATC	1 cut(s)	459
EcoT14I	CCWWGG	1 cut(s)	488
EcoT22I	ATGCAT	1 cut(s)	6
ErhI	CCWWGG	1 cut(s)	488
FaeI	CATG	8 cut(s)	8, 23, 152, 182, 335, 440, 474, 492
FaqI	GGGAC	3 cut(s)	98, 122, 335
FatI	CATG	8 cut(s)	4, 19, 148, 178, 331, 436, 470, 488
FokI	GGATG	2 cut(s)	398, 422
GsuI	CTGGAG	2 cut(s)	392, 507
HaeIII	GGCC	2 cut(s)	295, 418
HapII	CCGG	1 cut(s)	357
HgaI	GACGC	1 cut(s)	5
Hin1II	CATG	8 cut(s)	8, 23, 152, 182, 335, 440, 474, 492
HinfI	GANTC	2 cut(s)	64, 134
HpaII	CCGG	1 cut(s)	357
HphI	GGTGA	1 cut(s)	413
Hpy166II	GTNNAC	1 cut(s)	217
Hpy188I	TCNGA	2 cut(s)	241, 463
Hpy188III	TCNNGA	3 cut(s)	20, 149, 332
Hpy8I	GTNNAC	1 cut(s)	217
HpyAV	CCTTC	1 cut(s)	154
HpyCH4III	ACNGT	4 cut(s)	250, 280, 340, 429
HpyCH4V	TGCA	1 cut(s)	4
HpyF10VI	GCNNNNNNNGC	1 cut(s)	353
HpyF3I	CTNAG	1 cut(s)	288
Hsp92II	CATG	8 cut(s)	8, 23, 152, 182, 335, 440, 474, 492
KflI	GGGWCCC	1 cut(s)	322
Kzo9I	GATC	1 cut(s)	163
LweI	GCATC	2 cut(s)	242, 356
MaeIII	GTNAC	1 cut(s)	169
MalI	GATC	1 cut(s)	165
MboI	GATC	1 cut(s)	163
MboII	GAAGA	4 cut(s)	67, 228, 375, 524
MflI	RGATCY	1 cut(s)	163
MlsI	TGGCCA	1 cut(s)	295
MluNI	TGGCCA	1 cut(s)	295
MlyI	GAGTC	1 cut(s)	128
MmeI	TCCRAC	1 cut(s)	375
MnlI	CCTC	4 cut(s)	295, 353, 367, 391
Mox20I	TGGCCA	1 cut(s)	295
Mph1103I	ATGCAT	1 cut(s)	6
MscI	TGGCCA	1 cut(s)	295
MseI	TTAA	1 cut(s)	33
MslI	CAYNNNNRTG	2 cut(s)	24, 248
Msp20I	TGGCCA	1 cut(s)	295
MspI	CCGG	1 cut(s)	357
MspR9I	CCNGG	2 cut(s)	311, 525
MvaI	CCWGG	2 cut(s)	311, 525
MwoI	GCNNNNNNNGC	1 cut(s)	353
NcoI	CCATGG	1 cut(s)	488
NdeII	GATC	1 cut(s)	163
NlaIII	CATG	8 cut(s)	8, 23, 152, 182, 335, 440, 474, 492
NlaIV	GGNNCC	2 cut(s)	323, 324
NsiI	ATGCAT	1 cut(s)	6
NspI	RCATGY	1 cut(s)	8
OliI	CACNNNNGTG	1 cut(s)	248
PagI	TCATGA	3 cut(s)	19, 148, 331
PfeI	GAWTC	1 cut(s)	64
PflFI	GACNNNGTC	1 cut(s)	137
PleI	GAGTC	1 cut(s)	128
PpsI	GAGTC	1 cut(s)	128
PpuMI	RGGWCCY	1 cut(s)	322
PshAI	GACNNNNGTC	1 cut(s)	90
Psp5II	RGGWCCY	1 cut(s)	322
Psp6I	CCWGG	2 cut(s)	309, 523
PspGI	CCWGG	2 cut(s)	309, 523
PspN4I	GGNNCC	2 cut(s)	323, 324
PspPI	GGNCC	2 cut(s)	322, 416
PspPPI	RGGWCCY	1 cut(s)	322
PsuI	RGATCY	1 cut(s)	163
PsyI	GACNNNGTC	1 cut(s)	137
RsaI	GTAC	1 cut(s)	342
RsaNI	GTAC	1 cut(s)	341
RseI	CAYNNNNRTG	2 cut(s)	24, 248
SaqAI	TTAA	1 cut(s)	33
Sau3AI	GATC	1 cut(s)	163
Sau96I	GGNCC	2 cut(s)	322, 416
SchI	GAGTC	1 cut(s)	128
ScrFI	CCNGG	2 cut(s)	311, 525
SetI	ASST	4 cut(s)	276, 306, 315, 529
SfaNI	GCATC	2 cut(s)	242, 356
SfcI	CTRYAG	1 cut(s)	228
SinI	GGWCC	1 cut(s)	322
SmiMI	CAYNNNNRTG	2 cut(s)	24, 248
SmlI	CTYRAG	1 cut(s)	112
SmoI	CTYRAG	1 cut(s)	112
SsiI	CCGC	2 cut(s)	268, 441
StyD4I	CCNGG	2 cut(s)	309, 523
StyI	CCWWGG	1 cut(s)	488
TaaI	ACNGT	4 cut(s)	250, 280, 340, 429
TatI	WGTACW	1 cut(s)	340
TfiI	GAWTC	1 cut(s)	64
Tru1I	TTAA	1 cut(s)	33
Tru9I	TTAA	1 cut(s)	33
TscAI	CASTG	1 cut(s)	296
TspDTI	ATGAA	2 cut(s)	36, 137
TspRI	CASTG	1 cut(s)	296
Tth111I	GACNNNGTC	1 cut(s)	137
VpaK11BI	GGWCC	1 cut(s)	322
XceI	RCATGY	1 cut(s)	8
XcmI	CCANNNNNNNNNTGG	1 cut(s)	102
Zsp2I	ATGCAT	1 cut(s)	6

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