Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0011300

Physical Location & Seq

Genomic Coordinates Forward (+)

596970 .. 602848

Gene Structure 5879 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG003200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 900 bp

ATGATGCAGCTTTTGCGCGTCTTCTCCTCCTCCAGGAACCAGTTGTCAAAGAGAGCTGCTTTATCGTTGGATTCTTTTACACAAAGCACCAGCTTTTCAACTGCCAGGCAGAATTTTTCTGCTAAAGGAAGAATCGGTGATCAAGTATATGCTCCTTTTTCTATCTACAAAGGCAAAGCTGCACTCTCCTTGAGTCCTGTTCTCCCAACATTCACTAAATTGGAATCTGGAAGTGTTGTGGTTGAGCGACGTGGTTCCGTGATGTTACAGTTCATGCCTGCAATTGGTGAGCGCAAATATGACTCGGAGAAGAAACAGTTGTTTGCTTTATCGGCAACAGAGGTTGGGTCTCTAATCAGCTTGGGTCCCAAAGATTCATGTGAATTATTTCATGATCCCTCTATGCAATCAAGTAATGCTGGTCAAGTGAGGAAGAGCTTATCAATCAAGCCTCATGCAGATGGCTATTTTATTTCTTTGACTGTTGTCAACAACCTACTGAAAACCAGAGAGAGTTTCTCAGTTCCTGTCACAACAGCTGAATTTGCTGTAATGAAGACTGCTTGCAGTTTTGCACTCCCCCACATCATGGGTTGGGATCGGTTGACAAATAAGTCTCTGAATAGGGAATATGGAGAATTGGGAGATCGTGCACACCCAAAAGTTGCCAACACTCTTGTAAGGCGTCTAAACCAAATAGCACAACTGGAAAATCTAAGGCACGTGAAGCGGGTCAAGAAGAAATTTGTTGAAGGAGGAAGGACTCAGTTATCCGTGATCTTATGTTTAGCTTCTGAAATTGGTAATCCGTTGGAGAGCATACCCCACGATGTACAGGAGCTTATGAATTCCTACCAGTTGAGTCCTTTTATCACAAAAGTGGGTCTTTTTCTGTTTTAA

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

299

Amino Acids

33.18

Weight (kDa)

9.82

Isoelectric Point (pI)

42.76

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Whirly	PF08536	55 - 187	6.8e-57	Whirly transcription factor

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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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)
AasI	GACNNNNNNGTC	1 cut(s)	613
AccB7I	CCANNNNNTGG	1 cut(s)	589
AccII	CGCG	1 cut(s)	18
AciI	CCGC	1 cut(s)	730
AclWI	GGATC	2 cut(s)	389, 606
AcsI	RAATTY	4 cut(s)	112, 542, 743, 847
AcvI	CACGTG	1 cut(s)	724
AcyI	GRCGYC	1 cut(s)	685
AfaI	GTAC	1 cut(s)	834
AfiI	CCNNNNNNNGG	3 cut(s)	33, 284, 589
AgsI	TTSAA	2 cut(s)	99, 752
AjiI	CACGTC	1 cut(s)	251
AjnI	CCWGG	2 cut(s)	32, 104
AleI	CACNNNNGTG	1 cut(s)	878
AluBI	AGCT	9 cut(s)	10, 56, 93, 179, 360, 438, 539, 791, 841
AluI	AGCT	9 cut(s)	10, 56, 93, 179, 360, 438, 539, 791, 841
Alw21I	GWGCWC	1 cut(s)	655
Alw26I	GTCTC	2 cut(s)	354, 621
Alw44I	GTGCAC	1 cut(s)	651
AlwI	GGATC	2 cut(s)	389, 606
AlwNI	CAGNNNCTG	1 cut(s)	527
ApaLI	GTGCAC	1 cut(s)	651
ApeKI	GCWGC	3 cut(s)	7, 56, 179
ApoI	RAATTY	4 cut(s)	112, 542, 743, 847
Asp700I	GAANNNNTTC	1 cut(s)	387
AspLEI	GCGC	2 cut(s)	18, 294
AspS9I	GGNCC	1 cut(s)	365
AsuHPI	GGTGA	2 cut(s)	149, 299
AvaII	GGWCC	1 cut(s)	365
BaeGI	GKGCMC	1 cut(s)	655
BbrPI	CACGTG	1 cut(s)	724
BbsI	GAAGAC	2 cut(s)	13, 563
Bbv12I	GWGCWC	1 cut(s)	655
BbvI	GCAGC	3 cut(s)	19, 43, 166
BccI	CCATC	1 cut(s)	455
BciT130I	CCWGG	2 cut(s)	34, 106
BclI	TGATCA	1 cut(s)	139
BcoDI	GTCTC	2 cut(s)	354, 621
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
BsaAI	YACGTR	1 cut(s)	724
BsaHI	GRCGYC	1 cut(s)	685
BsaI	GGTCTC	1 cut(s)	354
Bsc4I	CCNNNNNNNGG	3 cut(s)	33, 284, 589
Bse1I	ACTGG	3 cut(s)	40, 711, 856
BseBI	CCWGG	2 cut(s)	34, 106
BseLI	CCNNNNNNNGG	3 cut(s)	33, 284, 589
BseMII	CTCAG	2 cut(s)	534, 779
BseNI	ACTGG	3 cut(s)	40, 711, 856
BseRI	GAGGAG	2 cut(s)	16, 19
BseSI	GKGCMC	1 cut(s)	655
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)	655
BslFI	GGGAC	1 cut(s)	351
BslI	CCNNNNNNNGG	3 cut(s)	33, 284, 589
BsmAI	GTCTC	2 cut(s)	354, 621
BsmFI	GGGAC	1 cut(s)	351
Bso31I	GGTCTC	1 cut(s)	354
Bsp1286I	GDGCHC	1 cut(s)	655
Bsp1407I	TGTACA	1 cut(s)	832
Bsp143I	GATC	5 cut(s)	139, 394, 598, 646, 777
BspACI	CCGC	1 cut(s)	730
BspCNI	CTCAG	2 cut(s)	533, 778
BspFNI	CGCG	1 cut(s)	18
BspHI	TCATGA	1 cut(s)	391
BspLI	GGNNCC	4 cut(s)	38, 256, 366, 367
BspPI	GGATC	2 cut(s)	389, 606
BspQI	GCTCTTC	1 cut(s)	428
BspTNI	GGTCTC	1 cut(s)	354
BsrGI	TGTACA	1 cut(s)	832
BsrI	ACTGG	3 cut(s)	40, 711, 856
BssMI	GATC	5 cut(s)	139, 394, 598, 646, 777
BssNI	GRCGYC	1 cut(s)	685
Bst2UI	CCWGG	2 cut(s)	34, 106
Bst4CI	ACNGT	3 cut(s)	270, 318, 484
Bst6I	CTCTTC	1 cut(s)	428
BstACI	GRCGYC	1 cut(s)	685
BstAPI	GCANNNNNTGC	1 cut(s)	13
BstAUI	TGTACA	1 cut(s)	832
BstBAI	YACGTR	1 cut(s)	724
BstC8I	GCNNGC	2 cut(s)	279, 565
BstDEI	CTNAG	3 cut(s)	520, 716, 765
BstENI	CCTNNNNNAGG	1 cut(s)	31
BstFNI	CGCG	1 cut(s)	18
BstHHI	GCGC	2 cut(s)	18, 294
BstKTI	GATC	5 cut(s)	142, 397, 601, 649, 780
BstMAI	GTCTC	2 cut(s)	354, 621
BstMBI	GATC	5 cut(s)	139, 394, 598, 646, 777
BstMWI	GCNNNNNNNGC	4 cut(s)	13, 332, 545, 727
BstNI	CCWGG	2 cut(s)	34, 106
BstPAI	GACNNNNGTC	1 cut(s)	485
BstSCI	CCNGG	2 cut(s)	32, 104
BstSLI	GKGCMC	1 cut(s)	655
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
Cac8I	GCNNGC	2 cut(s)	279, 565
CaiI	CAGNNNCTG	1 cut(s)	527
CciI	TCATGA	1 cut(s)	391
CfoI	GCGC	2 cut(s)	18, 294
Cfr13I	GGNCC	1 cut(s)	365
CseI	GACGC	2 cut(s)	7, 674
Csp6I	GTAC	1 cut(s)	833
CviAII	CATG	5 cut(s)	274, 378, 392, 455, 589
CviQI	GTAC	1 cut(s)	833
DdeI	CTNAG	3 cut(s)	520, 716, 765
DpnI	GATC	5 cut(s)	141, 396, 600, 648, 779
DpnII	GATC	5 cut(s)	139, 394, 598, 646, 777
DrdI	GACNNNNNNGTC	1 cut(s)	613
DseDI	GACNNNNNNGTC	1 cut(s)	613
Eam1104I	CTCTTC	1 cut(s)	428
EarI	CTCTTC	1 cut(s)	428
Eco31I	GGTCTC	1 cut(s)	354
Eco47I	GGWCC	1 cut(s)	365
Eco72I	CACGTG	1 cut(s)	724
EcoNI	CCTNNNNNAGG	1 cut(s)	31
EcoO109I	RGGNCCY	1 cut(s)	365
EcoRI	GAATTC	1 cut(s)	847
EcoRII	CCWGG	2 cut(s)	32, 104
FaeI	CATG	5 cut(s)	277, 381, 395, 458, 592
FalI	AAGNNNNNCTT	1 cut(s)	870
FaqI	GGGAC	1 cut(s)	351
FatI	CATG	5 cut(s)	273, 377, 391, 454, 588
FauI	CCCGC	1 cut(s)	723
FbaI	TGATCA	1 cut(s)	139
Fnu4HI	GCNGC	3 cut(s)	8, 57, 180
Fsp4HI	GCNGC	3 cut(s)	8, 57, 180
GlaI	GCGC	2 cut(s)	17, 293
GluI	GCNGC	3 cut(s)	8, 57, 180
GsuI	CTGGAG	1 cut(s)	16
HgaI	GACGC	2 cut(s)	7, 674
HhaI	GCGC	2 cut(s)	18, 294
Hin1I	GRCGYC	1 cut(s)	685
Hin1II	CATG	5 cut(s)	277, 381, 395, 458, 592
Hin6I	GCGC	2 cut(s)	16, 292
HinP1I	GCGC	2 cut(s)	16, 292
HincII	GTYRAC	2 cut(s)	490, 606
HindII	GTYRAC	2 cut(s)	490, 606
HinfI	GANTC	8 cut(s)	71, 132, 193, 224, 302, 374, 763, 862
HphI	GGTGA	2 cut(s)	149, 299
Hpy166II	GTNNAC	3 cut(s)	490, 606, 653
Hpy188I	TCNGA	3 cut(s)	307, 621, 796
Hpy188III	TCNNGA	3 cut(s)	228, 392, 736
Hpy8I	GTNNAC	3 cut(s)	490, 606, 653
Hpy99I	CGWCG	1 cut(s)	252
HpyAV	CCTTC	2 cut(s)	746, 753
HpyCH4III	ACNGT	3 cut(s)	270, 318, 484
HpyCH4IV	ACGT	2 cut(s)	250, 723
HpyCH4V	TGCA	8 cut(s)	7, 182, 281, 406, 458, 567, 575, 653
HpyF10VI	GCNNNNNNNGC	4 cut(s)	13, 332, 545, 727
HpyF3I	CTNAG	3 cut(s)	520, 716, 765
HpySE526I	ACGT	2 cut(s)	250, 723
Hsp92I	GRCGYC	1 cut(s)	685
Hsp92II	CATG	5 cut(s)	277, 381, 395, 458, 592
HspAI	GCGC	2 cut(s)	16, 292
KflI	GGGWCCC	1 cut(s)	365
Ksp22I	TGATCA	1 cut(s)	139
Kzo9I	GATC	5 cut(s)	139, 394, 598, 646, 777
LguI	GCTCTTC	1 cut(s)	428
LmnI	GCTCC	2 cut(s)	157, 838
Lsp1109I	GCAGC	3 cut(s)	19, 43, 166
MaeII	ACGT	2 cut(s)	250, 723
MaeIII	GTNAC	2 cut(s)	264, 529
MalI	GATC	5 cut(s)	141, 396, 600, 648, 779
MboI	GATC	5 cut(s)	139, 394, 598, 646, 777
MboII	GAAGA	6 cut(s)	13, 141, 322, 445, 568, 751
MfeI	CAATTG	1 cut(s)	282
MhlI	GDGCHC	1 cut(s)	655
MluCI	AATT	9 cut(s)	112, 218, 282, 383, 542, 638, 743, 798, 847
MlyI	GAGTC	4 cut(s)	202, 296, 757, 871
MmeI	TCCRAC	2 cut(s)	48, 792
MnlI	CCTC	7 cut(s)	37, 40, 334, 409, 423, 462, 749
MroXI	GAANNNNTTC	1 cut(s)	387
MseI	TTAA	1 cut(s)	898
MslI	CAYNNNNRTG	2 cut(s)	459, 878
MspA1I	CMGCKG	1 cut(s)	539
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	4 cut(s)	13, 332, 545, 727
NdeII	GATC	5 cut(s)	139, 394, 598, 646, 777
NlaIII	CATG	5 cut(s)	277, 381, 395, 458, 592
NlaIV	GGNNCC	4 cut(s)	38, 256, 366, 367
NmuCI	GTSAC	1 cut(s)	529
OliI	CACNNNNGTG	1 cut(s)	878
PagI	TCATGA	1 cut(s)	391
PciSI	GCTCTTC	1 cut(s)	428
PdmI	GAANNNNTTC	1 cut(s)	387
PfeI	GAWTC	4 cut(s)	71, 132, 224, 374
PflMI	CCANNNNNTGG	1 cut(s)	589
PfoI	TCCNGGA	1 cut(s)	32
PkrI	GCNGC	3 cut(s)	9, 58, 181
PleI	GAGTC	4 cut(s)	201, 296, 757, 870
PmaCI	CACGTG	1 cut(s)	724
PmlI	CACGTG	1 cut(s)	724
PpsI	GAGTC	4 cut(s)	201, 296, 757, 870
Ppu21I	YACGTR	1 cut(s)	724
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
PspCI	CACGTG	1 cut(s)	724
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
PvuII	CAGCTG	1 cut(s)	539
RsaI	GTAC	1 cut(s)	834
RsaNI	GTAC	1 cut(s)	833
RseI	CAYNNNNRTG	2 cut(s)	459, 878
SapI	GCTCTTC	1 cut(s)	428
SaqAI	TTAA	1 cut(s)	898
SatI	GCNGC	3 cut(s)	8, 57, 180
Sau3AI	GATC	5 cut(s)	139, 394, 598, 646, 777
Sau96I	GGNCC	1 cut(s)	365
SchI	GAGTC	4 cut(s)	202, 296, 757, 871
ScrFI	CCNGG	2 cut(s)	34, 106
SduI	GDGCHC	1 cut(s)	655
SinI	GGWCC	1 cut(s)	365
SmiMI	CAYNNNNRTG	2 cut(s)	459, 878
SmlI	CTYRAG	1 cut(s)	190
SmoI	CTYRAG	1 cut(s)	190
Sse9I	AATT	9 cut(s)	112, 218, 282, 383, 542, 638, 743, 798, 847
SsiI	CCGC	1 cut(s)	730
StyD4I	CCNGG	2 cut(s)	32, 104
TaaI	ACNGT	3 cut(s)	270, 318, 484
TaiI	ACGT	2 cut(s)	253, 726
TasI	AATT	9 cut(s)	112, 218, 282, 383, 542, 638, 743, 798, 847
TatI	WGTACW	1 cut(s)	832
TfiI	GAWTC	4 cut(s)	71, 132, 224, 374
Tru1I	TTAA	1 cut(s)	898
Tru9I	TTAA	1 cut(s)	898
TseFI	GTSAC	1 cut(s)	529
TseI	GCWGC	3 cut(s)	7, 56, 179
Tsp45I	GTSAC	1 cut(s)	529
TspDTI	ATGAA	5 cut(s)	262, 366, 380, 569, 860
TspGWI	ACGGA	3 cut(s)	247, 763, 798
Van91I	CCANNNNNTGG	1 cut(s)	589
VneI	GTGCAC	1 cut(s)	651
VpaK11BI	GGWCC	1 cut(s)	365
XagI	CCTNNNNNAGG	1 cut(s)	31
XapI	RAATTY	4 cut(s)	112, 542, 743, 847
XmnI	GAANNNNTTC	1 cut(s)	387

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