Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0011300

Physical Location & Seq

Genomic Coordinates Forward (+)

362287 .. 366402

Gene Structure 4116 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG002200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 639 bp

ATGATGCAGCTTTTGCGCGTCTTCTCCTCCTCCAGGAACCAGTTGTCAAAGAGAGCTGCTTTATCGTTGGATTCTTTTACACAAAGCACCAGCTTTTCAACTGCCAGGCAGAATTTTTCTGCTAAAGGAAGAATCGGTGATCAAGTATATGCTCCTTTTTCTATCTACAAAGGCAAAGCTGCACTCTCCTTGAGTCCTGTTCTCCCAACATTCACGAAATTGGAATCTGGAAGTGTTGTGGTTGAGCGACGTGGTTCCGTGATGTTAAAGTTCATGCCTGCAATTGGTGAGCACAAATATGACTCGGAGAAGAAACAGTTGTTTGCTTTATCGGCAACAGAGGTTGGGTCTCTAATCAGCTTGGGTCCCAAAGATTCATGTGAATTATTTCATGATCCCTCTATGCAATCAAGTAATGCTGGTCAAGTGAGGAAGAGCTTATCAATCAAGCCTCATGCAGATGGCTATTTTATTTCTTTGACTGTTGTCAACAACCTACTGAAAACCAGAGAGAGTTTCTCAGTTCCTGTCACAACGGCTGAATTTGCTGTAATGAAGACTGCTTGCAGTGTAAGACATGACAATAAATTTAAAGTTCCTGTAAGAATCATGTTTATATCCATTTTAATGTTTACATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003723 GO:0003729 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006259 GO:0006281 GO:0006725 GO:0006807 GO:0006950 GO:0006952 GO:0006974 GO:0008150 GO:0008152 GO:0009987 GO:0033554 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044260 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0050896 GO:0051716 GO:0071704 GO:0090304 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Whirly

Protein Analysis

212

Amino Acids

23.39

Weight (kDa)

9.92

Isoelectric Point (pI)

45.24

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Whirly	PF08536	55 - 187	2e-56	Whirly transcription factor

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: OG0011300)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G71260
fragaria_vesca	FvH4_2g00250 FvH4_2g00250
malus_domestica	MD05G1005800.v1.1
prunus_persica	Prupe.8G002600_v2.0.a1 Prupe.8G002600_v2.0.a1 Prupe.8G002600_v2.0.a1 Prupe.8G002600_v2.0.a1
pyrus_communis	pycom05g00090
rosa_chinensis	RchiOBHm_Chr6g0249551
rosa_laevigata	RLG00000015563
rosa_multiflora	Rmu_sc0006936.1_g000006
rosa_roxburghii	Rroxscaffold_7G00217560
rosa_rugosa	Rorug05G0493400
rosa_samantha	Rh6AG003200 Rh6AG171000 Rh6BG006900 Rh6CG002400 Rh6DG002200
rosa_wichuraiana	Rw6G000370

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	18
AclWI	GGATC	1 cut(s)	389
AcsI	RAATTY	3 cut(s)	112, 542, 587
AfiI	CCNNNNNNNGG	2 cut(s)	33, 284
AgsI	TTSAA	1 cut(s)	99
AjiI	CACGTC	1 cut(s)	251
AjnI	CCWGG	2 cut(s)	32, 104
AluBI	AGCT	6 cut(s)	10, 56, 93, 179, 360, 438
AluI	AGCT	6 cut(s)	10, 56, 93, 179, 360, 438
Alw21I	GWGCWC	1 cut(s)	294
Alw26I	GTCTC	1 cut(s)	354
AlwI	GGATC	1 cut(s)	389
AlwNI	CAGNNNCTG	1 cut(s)	527
ApeKI	GCWGC	3 cut(s)	7, 56, 179
ApoI	RAATTY	3 cut(s)	112, 542, 587
Asp700I	GAANNNNTTC	1 cut(s)	387
AspLEI	GCGC	1 cut(s)	18
AspS9I	GGNCC	1 cut(s)	365
AsuHPI	GGTGA	2 cut(s)	149, 299
AvaII	GGWCC	1 cut(s)	365
BbsI	GAAGAC	2 cut(s)	13, 563
Bbv12I	GWGCWC	1 cut(s)	294
BbvI	GCAGC	3 cut(s)	19, 43, 166
BccI	CCATC	1 cut(s)	455
BceAI	ACGGC	1 cut(s)	552
BciT130I	CCWGG	2 cut(s)	34, 106
BclI	TGATCA	1 cut(s)	139
BcoDI	GTCTC	1 cut(s)	354
BisI	GCNGC	3 cut(s)	8, 57, 180
BlsI	GCNGC	3 cut(s)	9, 58, 181
Bme1390I	CCNGG	2 cut(s)	34, 106
Bme18I	GGWCC	1 cut(s)	365
BmgBI	CACGTC	1 cut(s)	251
BmgT120I	GGNCC	1 cut(s)	365
BmiI	GGNNCC	4 cut(s)	38, 256, 366, 367
BmrFI	CCNGG	2 cut(s)	34, 106
BoxI	GACNNNNGTC	1 cut(s)	485
BpiI	GAAGAC	2 cut(s)	13, 563
BplI	GAGNNNNNCTC	2 cut(s)	503, 535
BpmI	CTGGAG	1 cut(s)	16
BpuEI	CTTGAG	1 cut(s)	211
BsaI	GGTCTC	1 cut(s)	354
Bsc4I	CCNNNNNNNGG	2 cut(s)	33, 284
Bse1I	ACTGG	1 cut(s)	40
BseBI	CCWGG	2 cut(s)	34, 106
BseLI	CCNNNNNNNGG	2 cut(s)	33, 284
BseMII	CTCAG	1 cut(s)	534
BseNI	ACTGG	1 cut(s)	40
BseRI	GAGGAG	2 cut(s)	16, 19
BseXI	GCAGC	3 cut(s)	19, 43, 166
BsgI	GTGCAG	1 cut(s)	165
Bsh1236I	CGCG	1 cut(s)	18
BsiHKAI	GWGCWC	1 cut(s)	294
BslFI	GGGAC	1 cut(s)	351
BslI	CCNNNNNNNGG	2 cut(s)	33, 284
BsmAI	GTCTC	1 cut(s)	354
BsmFI	GGGAC	1 cut(s)	351
Bso31I	GGTCTC	1 cut(s)	354
Bsp1286I	GDGCHC	1 cut(s)	294
Bsp143I	GATC	2 cut(s)	139, 394
BspCNI	CTCAG	1 cut(s)	533
BspFNI	CGCG	1 cut(s)	18
BspHI	TCATGA	1 cut(s)	391
BspLI	GGNNCC	4 cut(s)	38, 256, 366, 367
BspPI	GGATC	1 cut(s)	389
BspQI	GCTCTTC	1 cut(s)	428
BspTNI	GGTCTC	1 cut(s)	354
BsrI	ACTGG	1 cut(s)	40
BssMI	GATC	2 cut(s)	139, 394
Bst2UI	CCWGG	2 cut(s)	34, 106
Bst4CI	ACNGT	2 cut(s)	318, 484
Bst6I	CTCTTC	1 cut(s)	428
BstAPI	GCANNNNNTGC	1 cut(s)	13
BstC8I	GCNNGC	2 cut(s)	279, 565
BstDEI	CTNAG	1 cut(s)	520
BstENI	CCTNNNNNAGG	1 cut(s)	31
BstFNI	CGCG	1 cut(s)	18
BstHHI	GCGC	1 cut(s)	18
BstKTI	GATC	2 cut(s)	142, 397
BstMAI	GTCTC	1 cut(s)	354
BstMBI	GATC	2 cut(s)	139, 394
BstMWI	GCNNNNNNNGC	3 cut(s)	13, 332, 545
BstNI	CCWGG	2 cut(s)	34, 106
BstPAI	GACNNNNGTC	1 cut(s)	485
BstSCI	CCNGG	2 cut(s)	32, 104
BstUI	CGCG	1 cut(s)	18
BstV1I	GCAGC	3 cut(s)	19, 43, 166
BstV2I	GAAGAC	2 cut(s)	13, 563
BtrI	CACGTC	1 cut(s)	251
BtsI	GCAGTG	1 cut(s)	574
BtsIMutI	CAGTG	1 cut(s)	574
Cac8I	GCNNGC	2 cut(s)	279, 565
CaiI	CAGNNNCTG	1 cut(s)	527
CciI	TCATGA	1 cut(s)	391
CfoI	GCGC	1 cut(s)	18
Cfr13I	GGNCC	1 cut(s)	365
CseI	GACGC	1 cut(s)	7
CviAII	CATG	6 cut(s)	274, 378, 392, 455, 578, 610
CviJI	RGCY	9 cut(s)	10, 56, 93, 179, 360, 438, 451, 465, 539
CviKI_1	RGCY	9 cut(s)	10, 56, 93, 179, 360, 438, 451, 465, 539
DdeI	CTNAG	1 cut(s)	520
DpnI	GATC	2 cut(s)	141, 396
DpnII	GATC	2 cut(s)	139, 394
DraI	TTTAAA	1 cut(s)	592
Eam1104I	CTCTTC	1 cut(s)	428
EarI	CTCTTC	1 cut(s)	428
Eco31I	GGTCTC	1 cut(s)	354
Eco47I	GGWCC	1 cut(s)	365
EcoNI	CCTNNNNNAGG	1 cut(s)	31
EcoO109I	RGGNCCY	1 cut(s)	365
EcoRII	CCWGG	2 cut(s)	32, 104
FaeI	CATG	6 cut(s)	277, 381, 395, 458, 581, 613
FaqI	GGGAC	1 cut(s)	351
FatI	CATG	6 cut(s)	273, 377, 391, 454, 577, 609
FbaI	TGATCA	1 cut(s)	139
Fnu4HI	GCNGC	3 cut(s)	8, 57, 180
Fsp4HI	GCNGC	3 cut(s)	8, 57, 180
GlaI	GCGC	1 cut(s)	17
GluI	GCNGC	3 cut(s)	8, 57, 180
GsuI	CTGGAG	1 cut(s)	16
HgaI	GACGC	1 cut(s)	7
HhaI	GCGC	1 cut(s)	18
Hin1II	CATG	6 cut(s)	277, 381, 395, 458, 581, 613
Hin6I	GCGC	1 cut(s)	16
HinP1I	GCGC	1 cut(s)	16
HincII	GTYRAC	1 cut(s)	490
HindII	GTYRAC	1 cut(s)	490
HinfI	GANTC	7 cut(s)	71, 132, 193, 224, 302, 374, 606
HphI	GGTGA	2 cut(s)	149, 299
Hpy166II	GTNNAC	2 cut(s)	490, 633
Hpy188I	TCNGA	1 cut(s)	307
Hpy188III	TCNNGA	3 cut(s)	214, 228, 392
Hpy8I	GTNNAC	2 cut(s)	490, 633
Hpy99I	CGWCG	1 cut(s)	252
HpyCH4III	ACNGT	2 cut(s)	318, 484
HpyCH4IV	ACGT	1 cut(s)	250
HpyCH4V	TGCA	6 cut(s)	7, 182, 281, 406, 458, 567
HpyF10VI	GCNNNNNNNGC	3 cut(s)	13, 332, 545
HpyF3I	CTNAG	1 cut(s)	520
HpySE526I	ACGT	1 cut(s)	250
Hsp92II	CATG	6 cut(s)	277, 381, 395, 458, 581, 613
HspAI	GCGC	1 cut(s)	16
KflI	GGGWCCC	1 cut(s)	365
Ksp22I	TGATCA	1 cut(s)	139
Kzo9I	GATC	2 cut(s)	139, 394
LguI	GCTCTTC	1 cut(s)	428
LmnI	GCTCC	1 cut(s)	157
Lsp1109I	GCAGC	3 cut(s)	19, 43, 166
MaeII	ACGT	1 cut(s)	250
MaeIII	GTNAC	1 cut(s)	529
MalI	GATC	2 cut(s)	141, 396
MboI	GATC	2 cut(s)	139, 394
MboII	GAAGA	5 cut(s)	13, 141, 322, 445, 568
MfeI	CAATTG	1 cut(s)	282
MhlI	GDGCHC	1 cut(s)	294
MluCI	AATT	6 cut(s)	112, 218, 282, 383, 542, 587
MlyI	GAGTC	2 cut(s)	202, 296
MmeI	TCCRAC	1 cut(s)	48
MnlI	CCTC	6 cut(s)	37, 40, 334, 409, 423, 462
MroXI	GAANNNNTTC	1 cut(s)	387
MseI	TTAA	3 cut(s)	266, 591, 626
MslI	CAYNNNNRTG	3 cut(s)	297, 459, 626
MspR9I	CCNGG	2 cut(s)	34, 106
MunI	CAATTG	1 cut(s)	282
MvaI	CCWGG	2 cut(s)	34, 106
MvnI	CGCG	1 cut(s)	18
MwoI	GCNNNNNNNGC	3 cut(s)	13, 332, 545
NdeII	GATC	2 cut(s)	139, 394
NlaIII	CATG	6 cut(s)	277, 381, 395, 458, 581, 613
NlaIV	GGNNCC	4 cut(s)	38, 256, 366, 367
NmuCI	GTSAC	1 cut(s)	529
PagI	TCATGA	1 cut(s)	391
PciSI	GCTCTTC	1 cut(s)	428
PdmI	GAANNNNTTC	1 cut(s)	387
PfeI	GAWTC	5 cut(s)	71, 132, 224, 374, 606
PfoI	TCCNGGA	1 cut(s)	32
PkrI	GCNGC	3 cut(s)	9, 58, 181
PleI	GAGTC	2 cut(s)	201, 296
PpsI	GAGTC	2 cut(s)	201, 296
PpuMI	RGGWCCY	1 cut(s)	365
PshAI	GACNNNNGTC	1 cut(s)	485
Psp5II	RGGWCCY	1 cut(s)	365
Psp6I	CCWGG	2 cut(s)	32, 104
PspGI	CCWGG	2 cut(s)	32, 104
PspN4I	GGNNCC	4 cut(s)	38, 256, 366, 367
PspPI	GGNCC	1 cut(s)	365
PspPPI	RGGWCCY	1 cut(s)	365
PstNI	CAGNNNCTG	1 cut(s)	527
RseI	CAYNNNNRTG	3 cut(s)	297, 459, 626
SapI	GCTCTTC	1 cut(s)	428
SaqAI	TTAA	3 cut(s)	266, 591, 626
SatI	GCNGC	3 cut(s)	8, 57, 180
Sau3AI	GATC	2 cut(s)	139, 394
Sau96I	GGNCC	1 cut(s)	365
SchI	GAGTC	2 cut(s)	202, 296
ScrFI	CCNGG	2 cut(s)	34, 106
SduI	GDGCHC	1 cut(s)	294
SetI	ASST	9 cut(s)	12, 58, 95, 181, 253, 345, 362, 440, 498
SinI	GGWCC	1 cut(s)	365
SmiMI	CAYNNNNRTG	3 cut(s)	297, 459, 626
SmlI	CTYRAG	1 cut(s)	190
SmoI	CTYRAG	1 cut(s)	190
Sse9I	AATT	6 cut(s)	112, 218, 282, 383, 542, 587
StyD4I	CCNGG	2 cut(s)	32, 104
TaaI	ACNGT	2 cut(s)	318, 484
TaiI	ACGT	1 cut(s)	253
TasI	AATT	6 cut(s)	112, 218, 282, 383, 542, 587
TfiI	GAWTC	5 cut(s)	71, 132, 224, 374, 606
Tru1I	TTAA	3 cut(s)	266, 591, 626
Tru9I	TTAA	3 cut(s)	266, 591, 626
TscAI	CASTG	1 cut(s)	574
TseFI	GTSAC	1 cut(s)	529
TseI	GCWGC	3 cut(s)	7, 56, 179
Tsp45I	GTSAC	1 cut(s)	529
TspDTI	ATGAA	4 cut(s)	262, 366, 380, 569
TspGWI	ACGGA	1 cut(s)	247
TspRI	CASTG	1 cut(s)	574
VpaK11BI	GGWCC	1 cut(s)	365
XagI	CCTNNNNNAGG	1 cut(s)	31
XapI	RAATTY	3 cut(s)	112, 542, 587
XmnI	GAANNNNTTC	1 cut(s)	387

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