Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0009840

Physical Location & Seq

Genomic Coordinates Reverse (-)

61531707 .. 61536218

Gene Structure 4512 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00268450.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 936 bp

ATGATGACGAATCAAGCAGGGTCGTATTCGCAGCCGGAAGGAGGAGATGTTCTGTATCCGGAGCTATGGAAGGCCTGTGCGGGCCCACTCGTTGAAGTCCCTCGCCACAAGGAGAGAGTCTACTACTTTCCACAAGGGCACATGGAGCAATTAGAGGCATCAACAGCAACAAATCCGGAAGTGAATCAGGGGATTCCGAGGTTTAATCTTCCCTCGAAGATTCTCTGTCGCGTCATGCACGTTCAGCTACTGGCTGAACAAGAAACAGATGAGGTTTATGCGCAAATTACTTTAATTCCTGAAGCATATCAAACCACCGAACCTACTAGTCCTGATGAGTGTCCTTCTGAACCTGAAAGACCAAAGGTTTACCCATTCTGCAAGGTTCTTACTGCATCGGATACGAGTACCCATGGTGGGTTTTCTGTTCTACGCAAACACGCTACTGAATGCCTTCCTCCACTGGACAAGACTCAAGCAACCCCAACTCAGGAATTGGTTGCCAAAGATCTTCATGGTTATGAGTGGCGATTCAAGCACATTTTCAGAGGTTCACCACGGAGACACTTGCTTACAACAGGATGGAGTACTTTTGTTACTTCTAAGAGGTTAAGTGCCGGGGATTCCTTTGTATTTCTCAGAGGCGAAAACGGGGACTTACGTGTTGGAATTAGGCGTCTTGCTCGTCAACAGAGCAGCATGCCATCATCTGTGATTTCAAGTCAAAGCATGCATGTAGGGGTGCTTGCTACTGCATCACATGCTGTTGCAACCCAAACACTCTTTGTAGTGTATTATAAGCCAAGGACGAGTCAGTTCATTATTAGTTTGAATAAGTATTTGGAGGCTGTTAACAATAAGTTCTCGGTTGGAATGAGATTCAAGATGAGGTTTGAGGGGAGGACGCTCCAGAGAGAAGGTTTTCAGGCACTATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04075 map04075

Pfam Domains

Protein Families

AUX_IAA Auxin_resp B3

Protein Analysis

311

Amino Acids

35.07

Weight (kDa)

8.89

Isoelectric Point (pI)

53.32

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
B3	PF02362	126 - 226	9.5e-24	B3 DNA binding domain
ARF_AD	PF06507	273 - 307	1.4e-08	Auxin response factor ancillary domain

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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0009840)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G23980 AT4G23980
fragaria_vesca	FvH4_5g11690 FvH4_5g11690 FvH4_5g11690 FvH4_5g11690 FvH4_5g11690
malus_domestica	MD06G1111100.v1.1 MD14G1131900.v1.1
prunus_persica	Prupe.5G123400_v2.0.a1
pyrus_communis	pycom06g10410
rosa_chinensis	RchiOBHm_Chr7g0186081
rosa_laevigata	RLG00000004866
rosa_multiflora	Rmu_sc0000194.1_g000026
rosa_roxburghii	Rroxscaffold_3G00268450
rosa_rugosa	Rorug06G0472100
rosa_samantha	Rh7AG069800 Rh7BG085600 Rh7CG078500 Rh7DG078500
rosa_wichuraiana	Rw7G006530

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	798
Acc16I	TGCGCA	1 cut(s)	282
AccI	GTMKAC	1 cut(s)	120
AccII	CGCG	1 cut(s)	231
AccIII	TCCGGA	2 cut(s)	58, 175
AciI	CCGC	1 cut(s)	80
AcuI	CTGAAG	1 cut(s)	321
AcyI	GRCGYC	1 cut(s)	676
AfaI	GTAC	2 cut(s)	409, 589
AfiI	CCNNNNNNNGG	3 cut(s)	41, 417, 490
AflIII	ACRYGT	1 cut(s)	661
AgsI	TTSAA	5 cut(s)	95, 535, 720, 832, 883
AhlI	ACTAGT	1 cut(s)	326
AjuI	GAANNNNNNNTTGG	2 cut(s)	824, 856
AloI	GAACNNNNNNTCC	2 cut(s)	33, 65
AluBI	AGCT	2 cut(s)	64, 247
AluI	AGCT	2 cut(s)	64, 247
Alw26I	GTCTC	1 cut(s)	556
AlwNI	CAGNNNCTG	1 cut(s)	250
Aor13HI	TCCGGA	2 cut(s)	58, 175
AoxI	GGCC	2 cut(s)	72, 82
ApaI	GGGCCC	1 cut(s)	86
ApeKI	GCWGC	2 cut(s)	31, 696
Asp700I	GAANNNNTTC	2 cut(s)	453, 921
AspLEI	GCGC	1 cut(s)	283
AspS9I	GGNCC	2 cut(s)	82, 83
AsuC2I	CCSGG	1 cut(s)	619
AsuHPI	GGTGA	1 cut(s)	546
BaeGI	GKGCMC	2 cut(s)	86, 141
BanII	GRGCYC	1 cut(s)	86
BbvI	GCAGC	2 cut(s)	43, 708
BccI	CCATC	2 cut(s)	576, 712
BciVI	GTATCC	2 cut(s)	66, 394
BcnI	CCSGG	1 cut(s)	619
BcoDI	GTCTC	1 cut(s)	556
BcuI	ACTAGT	1 cut(s)	326
BfaI	CTAG	1 cut(s)	327
BfuI	GTATCC	2 cut(s)	66, 394
BglII	AGATCT	1 cut(s)	508
BisI	GCNGC	2 cut(s)	32, 697
BlsI	GCNGC	2 cut(s)	33, 698
BmcAI	AGTACT	1 cut(s)	589
Bme1390I	CCNGG	1 cut(s)	619
BmgT120I	GGNCC	2 cut(s)	82, 83
BmiI	GGNNCC	1 cut(s)	84
BmrFI	CCNGG	1 cut(s)	619
BmsI	GCATC	3 cut(s)	167, 404, 764
BpmI	CTGGAG	1 cut(s)	893
BpuEI	CTTGAG	1 cut(s)	459
BpuMI	CCSGG	1 cut(s)	619
BsaAI	YACGTR	1 cut(s)	662
BsaHI	GRCGYC	1 cut(s)	676
BsaJI	CCNNGG	5 cut(s)	197, 412, 557, 618, 803
BsaWI	WCCGGW	2 cut(s)	58, 175
BsaXI	ACNNNNNCTCC	2 cut(s)	33, 63
Bsc4I	CCNNNNNNNGG	3 cut(s)	41, 417, 490
Bse1I	ACTGG	2 cut(s)	255, 468
BseAI	TCCGGA	2 cut(s)	58, 175
BseDI	CCNNGG	5 cut(s)	197, 412, 557, 618, 803
BseGI	GGATG	1 cut(s)	587
BseLI	CCNNNNNNNGG	3 cut(s)	41, 417, 490
BseMII	CTCAG	2 cut(s)	503, 652
BseNI	ACTGG	2 cut(s)	255, 468
BseRI	GAGGAG	1 cut(s)	57
BseSI	GKGCMC	2 cut(s)	86, 141
BseXI	GCAGC	2 cut(s)	43, 708
Bsh1236I	CGCG	1 cut(s)	231
BshFI	GGCC	2 cut(s)	74, 84
BsiSI	CCGG	4 cut(s)	35, 59, 176, 618
BslFI	GGGAC	2 cut(s)	83, 668
BslI	CCNNNNNNNGG	3 cut(s)	41, 417, 490
BsmAI	GTCTC	1 cut(s)	556
BsmFI	GGGAC	2 cut(s)	83, 668
BsmI	GAATGC	1 cut(s)	455
BsnI	GGCC	2 cut(s)	74, 84
Bsp120I	GGGCCC	1 cut(s)	82
Bsp1286I	GDGCHC	2 cut(s)	86, 141
Bsp13I	TCCGGA	2 cut(s)	58, 175
Bsp143I	GATC	1 cut(s)	508
Bsp19I	CCATGG	1 cut(s)	412
BspACI	CCGC	1 cut(s)	80
BspANI	GGCC	2 cut(s)	74, 84
BspCNI	CTCAG	2 cut(s)	502, 651
BspEI	TCCGGA	2 cut(s)	58, 175
BspFNI	CGCG	1 cut(s)	231
BspLI	GGNNCC	1 cut(s)	84
BsrI	ACTGG	2 cut(s)	255, 468
BssECI	CCNNGG	5 cut(s)	197, 412, 557, 618, 803
BssMI	GATC	1 cut(s)	508
BssNI	GRCGYC	1 cut(s)	676
BssT1I	CCWWGG	2 cut(s)	412, 803
BstACI	GRCGYC	1 cut(s)	676
BstAPI	GCANNNNNTGC	1 cut(s)	761
BstBAI	YACGTR	1 cut(s)	662
BstC8I	GCNNGC	4 cut(s)	82, 701, 731, 747
BstDEI	CTNAG	3 cut(s)	489, 603, 638
BstDSI	CCRYGG	2 cut(s)	412, 557
BstF5I	GGATG	1 cut(s)	587
BstFNI	CGCG	1 cut(s)	231
BstHHI	GCGC	1 cut(s)	283
BstKTI	GATC	1 cut(s)	511
BstMAI	GTCTC	1 cut(s)	556
BstMBI	GATC	1 cut(s)	508
BstMWI	GCNNNNNNNGC	5 cut(s)	145, 164, 244, 535, 761
BstNSI	RCATGY	4 cut(s)	703, 733, 737, 764
BstSCI	CCNGG	1 cut(s)	617
BstSLI	GKGCMC	2 cut(s)	86, 141
BstUI	CGCG	1 cut(s)	231
BstV1I	GCAGC	2 cut(s)	43, 708
BstX2I	RGATCY	1 cut(s)	508
BstYI	RGATCY	1 cut(s)	508
BsuI	GTATCC	2 cut(s)	66, 394
BsuRI	GGCC	2 cut(s)	74, 84
BtgI	CCRYGG	2 cut(s)	412, 557
BtsCI	GGATG	1 cut(s)	587
BtsIMutI	CAGTG	1 cut(s)	461
Cac8I	GCNNGC	4 cut(s)	82, 701, 731, 747
CaiI	CAGNNNCTG	1 cut(s)	250
CfoI	GCGC	1 cut(s)	283
Cfr13I	GGNCC	2 cut(s)	82, 83
CseI	GACGC	3 cut(s)	220, 665, 913
Csp6I	GTAC	2 cut(s)	408, 588
CviAII	CATG	8 cut(s)	142, 235, 413, 515, 700, 730, 734, 761
CviJI	RGCY	8 cut(s)	34, 64, 74, 84, 247, 254, 802, 848
CviKI_1	RGCY	8 cut(s)	34, 64, 74, 84, 247, 254, 802, 848
CviQI	GTAC	2 cut(s)	408, 588
DdeI	CTNAG	3 cut(s)	489, 603, 638
DpnI	GATC	1 cut(s)	510
DpnII	GATC	1 cut(s)	508
Eco130I	CCWWGG	2 cut(s)	412, 803
Eco147I	AGGCCT	1 cut(s)	74
Eco24I	GRGCYC	1 cut(s)	86
Eco57I	CTGAAG	1 cut(s)	321
EcoT14I	CCWWGG	2 cut(s)	412, 803
EcoT22I	ATGCAT	1 cut(s)	735
EcoT38I	GRGCYC	1 cut(s)	86
ErhI	CCWWGG	2 cut(s)	412, 803
FaeI	CATG	8 cut(s)	145, 238, 416, 518, 703, 733, 737, 764
FaqI	GGGAC	2 cut(s)	83, 668
FatI	CATG	8 cut(s)	141, 234, 412, 514, 699, 729, 733, 760
FauI	CCCGC	1 cut(s)	73
FblI	GTMKAC	1 cut(s)	120
Fnu4HI	GCNGC	2 cut(s)	32, 697
FokI	GGATG	1 cut(s)	594
FriOI	GRGCYC	1 cut(s)	86
Fsp4HI	GCNGC	2 cut(s)	32, 697
FspBI	CTAG	1 cut(s)	327
FspI	TGCGCA	1 cut(s)	282
GlaI	GCGC	1 cut(s)	282
GluI	GCNGC	2 cut(s)	32, 697
GsuI	CTGGAG	1 cut(s)	893
HaeIII	GGCC	2 cut(s)	74, 84
HapII	CCGG	4 cut(s)	35, 59, 176, 618
HgaI	GACGC	3 cut(s)	220, 665, 913
HhaI	GCGC	1 cut(s)	283
Hin1I	GRCGYC	1 cut(s)	676
Hin1II	CATG	8 cut(s)	145, 238, 416, 518, 703, 733, 737, 764
Hin6I	GCGC	1 cut(s)	281
HinP1I	GCGC	1 cut(s)	281
HincII	GTYRAC	2 cut(s)	689, 853
HindII	GTYRAC	2 cut(s)	689, 853
HpaI	GTTAAC	1 cut(s)	853
HpaII	CCGG	4 cut(s)	35, 59, 176, 618
HphI	GGTGA	1 cut(s)	546
Hpy166II	GTNNAC	5 cut(s)	121, 370, 554, 689, 853
Hpy188I	TCNGA	5 cut(s)	198, 349, 400, 548, 641
Hpy188III	TCNNGA	7 cut(s)	59, 176, 299, 332, 491, 883, 910
Hpy8I	GTNNAC	5 cut(s)	121, 370, 554, 689, 853
HpyAV	CCTTC	5 cut(s)	32, 64, 354, 464, 911
HpyCH4IV	ACGT	2 cut(s)	240, 661
HpyCH4V	TGCA	6 cut(s)	238, 381, 395, 733, 755, 770
HpyF10VI	GCNNNNNNNGC	5 cut(s)	145, 164, 244, 535, 761
HpyF3I	CTNAG	3 cut(s)	489, 603, 638
HpySE526I	ACGT	2 cut(s)	240, 661
Hsp92I	GRCGYC	1 cut(s)	676
Hsp92II	CATG	8 cut(s)	145, 238, 416, 518, 703, 733, 737, 764
HspAI	GCGC	1 cut(s)	281
Kpn2I	TCCGGA	2 cut(s)	58, 175
KspAI	GTTAAC	1 cut(s)	853
Kzo9I	GATC	1 cut(s)	508
LmnI	GCTCC	3 cut(s)	61, 145, 912
Lsp1109I	GCAGC	2 cut(s)	43, 708
LweI	GCATC	3 cut(s)	167, 404, 764
MaeI	CTAG	1 cut(s)	327
MaeII	ACGT	2 cut(s)	240, 661
MaeIII	GTNAC	1 cut(s)	595
MalI	GATC	1 cut(s)	510
MboI	GATC	1 cut(s)	508
MboII	GAAGA	3 cut(s)	200, 229, 503
MflI	RGATCY	1 cut(s)	508
MhlI	GDGCHC	2 cut(s)	86, 141
MluCI	AATT	5 cut(s)	149, 285, 294, 494, 669
MlyI	GAGTC	3 cut(s)	126, 466, 820
MmeI	TCCRAC	2 cut(s)	646, 850
Mph1103I	ATGCAT	1 cut(s)	735
MroI	TCCGGA	2 cut(s)	58, 175
MroXI	GAANNNNTTC	2 cut(s)	453, 921
MseI	TTAA	4 cut(s)	204, 293, 611, 852
MslI	CAYNNNNRTG	1 cut(s)	519
MspI	CCGG	4 cut(s)	35, 59, 176, 618
MspR9I	CCNGG	1 cut(s)	619
Mva1269I	GAATGC	1 cut(s)	455
MvnI	CGCG	1 cut(s)	231
MwoI	GCNNNNNNNGC	5 cut(s)	145, 164, 244, 535, 761
NciI	CCSGG	1 cut(s)	619
NcoI	CCATGG	1 cut(s)	412
NdeII	GATC	1 cut(s)	508
NlaIII	CATG	8 cut(s)	145, 238, 416, 518, 703, 733, 737, 764
NlaIV	GGNNCC	1 cut(s)	84
NsbI	TGCGCA	1 cut(s)	282
NsiI	ATGCAT	1 cut(s)	735
NspI	RCATGY	4 cut(s)	703, 733, 737, 764
PaeI	GCATGC	2 cut(s)	703, 733
PceI	AGGCCT	1 cut(s)	74
PctI	GAATGC	1 cut(s)	455
PdmI	GAANNNNTTC	2 cut(s)	453, 921
PfeI	GAWTC	7 cut(s)	10, 184, 193, 220, 531, 623, 879
PkrI	GCNGC	2 cut(s)	33, 698
PleI	GAGTC	3 cut(s)	125, 466, 819
PpsI	GAGTC	3 cut(s)	125, 466, 819
Ppu21I	YACGTR	1 cut(s)	662
PsiI	TTATAA	1 cut(s)	798
PspN4I	GGNNCC	1 cut(s)	84
PspOMI	GGGCCC	1 cut(s)	82
PspPI	GGNCC	2 cut(s)	82, 83
PstNI	CAGNNNCTG	1 cut(s)	250
PsuI	RGATCY	1 cut(s)	508
RsaI	GTAC	2 cut(s)	409, 589
RsaNI	GTAC	2 cut(s)	408, 588
RseI	CAYNNNNRTG	1 cut(s)	519
SaqAI	TTAA	4 cut(s)	204, 293, 611, 852
SatI	GCNGC	2 cut(s)	32, 697
Sau3AI	GATC	1 cut(s)	508
Sau96I	GGNCC	2 cut(s)	82, 83
ScaI	AGTACT	1 cut(s)	589
SchI	GAGTC	3 cut(s)	126, 466, 820
ScrFI	CCNGG	1 cut(s)	619
SduI	GDGCHC	2 cut(s)	86, 141
SfaNI	GCATC	3 cut(s)	167, 404, 764
SmiMI	CAYNNNNRTG	1 cut(s)	519
SmlI	CTYRAG	1 cut(s)	474
SmoI	CTYRAG	1 cut(s)	474
SpeI	ACTAGT	1 cut(s)	326
SphI	GCATGC	2 cut(s)	703, 733
Sse9I	AATT	5 cut(s)	149, 285, 294, 494, 669
SseBI	AGGCCT	1 cut(s)	74
SsiI	CCGC	1 cut(s)	80
SspMI	CTAG	1 cut(s)	327
StuI	AGGCCT	1 cut(s)	74
StyD4I	CCNGG	1 cut(s)	617
StyI	CCWWGG	2 cut(s)	412, 803
TaiI	ACGT	2 cut(s)	243, 664
TaqI	TCGA	1 cut(s)	215
TasI	AATT	5 cut(s)	149, 285, 294, 494, 669
TatI	WGTACW	1 cut(s)	587
TfiI	GAWTC	7 cut(s)	10, 184, 193, 220, 531, 623, 879
Tru1I	TTAA	4 cut(s)	204, 293, 611, 852
Tru9I	TTAA	4 cut(s)	204, 293, 611, 852
TscAI	CASTG	1 cut(s)	468
TseI	GCWGC	2 cut(s)	31, 696
TspDTI	ATGAA	2 cut(s)	503, 808
TspGWI	ACGGA	1 cut(s)	574
TspRI	CASTG	1 cut(s)	468
XceI	RCATGY	4 cut(s)	703, 733, 737, 764
XmiI	GTMKAC	1 cut(s)	120
XmnI	GAANNNNTTC	2 cut(s)	453, 921
XspI	CTAG	1 cut(s)	327
ZrmI	AGTACT	1 cut(s)	589
Zsp2I	ATGCAT	1 cut(s)	735

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