Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0013963

Physical Location & Seq

Genomic Coordinates Reverse (-)

29505165 .. 29506916

Gene Structure 1752 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00308000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 945 bp

ATGGGTGACAAAAATGATGAGTTGGGGTTGAGTTTAGGTCTGGGGTTGGGTTATGGAGCCAAACCGTCTTCTTCTTCTTCTTCCTCATTTCACTTGAACCTCATGCAGACTCCAGAAACTAATCATCAACGAGTTTTTGGGATTTTTGGATTCACTGATCGAAATGCGACGTCGTTTCGGCGAGGAATCGACGTGAACCAGGCGGCGGTGGGGGATTTCGAGGACGAAAACGGGGTGTCTTCTCCGAACAGCACGGTGTCGAGCCTGAGCGGGAAGCGCAGCGAGAGAGGAGACGAGAACGAGGCGGAGAGGACTTCGTGCTCGCTCGGCGGAAGCGACGACGAGGACGGCAATGGCGGCGGCGACATGTCGAAGAAGAAGCTCCGGCTCACCAAGGAGCAGTCTCTGCTGCTCGAGGACATGTTCAAGGAGCACCACACTCTCAACACGGTTAGTGTCAATTCGGCAAAAGCAGGAATTGGCACAGAAGTTGAACCTGAGCGCAAGACAAGTGGAGGTGTGGTTTCAGAACAGGAGGGCAAGGGCATTGAAATTAATTTTGAATGCAGGACTAAGTTGAAGCAAACAGAGGTGGATTGTGATCAACTAAGGAAGTGCTGTGAGAATCTTACAGAAGAGAACAGGAGGTTGCAGAAAGAAGTGCAAGAGCTGAGGGCACTCAAGCTTTCGCCACAGTTCTACATGCAAATGAACCCCCCCACAACTCTCACCATGTGCCCTTCATGCCAGTGTGTGGGTGTCTCATCCTCATCCTCATCTTCTGCTAGTGCTACTACTGCTTCCTCTACAGTTCCGGCAACCAGCCCAACTGGCCACCCAGGGAAGCCTACTATCCATCGGCCTGTTCCAATCAGCCCGTGGGCCACATTGCCGATCCCGCAGCATCGACCAGTTGATGCACCCGCACCTGCATCTCGGTCGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0005575 GO:0005911 GO:0006355 GO:0008150 GO:0009314 GO:0009416 GO:0009506 GO:0009628 GO:0009639 GO:0009641 GO:0009719 GO:0009725 GO:0009889 GO:0010033 GO:0010218 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0030054 GO:0031323 GO:0031326 GO:0042221 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0055044 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HALZ HD-ZIP_N Homeobox

Protein Analysis

314

Amino Acids

33.7

Weight (kDa)

5.73

Isoelectric Point (pI)

57.27

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HD-ZIP_N	PF04618	1 - 96	1.1e-19	HD-ZIP protein N terminus
HALZ	PF02183	194 - 228	1.7e-10	Homeobox associated leucine zipper

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)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0013963)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G60390
fragaria_vesca	FvH4_7g09820 FvH4_7g09820 FvH4_7g09820
malus_domestica	MD02G1216800.v1.1
prunus_persica	Prupe.2G127300_v2.0.a1
pyrus_communis	pycom02g17850
rosa_chinensis	RchiOBHm_Chr1g0346981
rosa_laevigata	RLG00000028766
rosa_multiflora	Rmu_co8350045.1_g000001 Rmu_sc0002705.1_g000018
rosa_roxburghii	Rroxscaffold_4G00308000
rosa_samantha	Rh1AG202800 Rh1BG168800 Rh1CG187500 Rh1DG199500
rosa_wichuraiana	Rw1G016990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	937
AatII	GACGTC	1 cut(s)	173
Acc36I	ACCTGC	1 cut(s)	937
AccB7I	CCANNNNNTGG	1 cut(s)	754
AccBSI	CCGCTC	1 cut(s)	270
AciI	CCGC	9 cut(s)	203, 206, 270, 305, 330, 357, 360, 899, 924
AclWI	GGATC	1 cut(s)	889
AcoI	YGGCCR	1 cut(s)	832
AcyI	GRCGYC	1 cut(s)	170
AdeI	CACNNNGTG	1 cut(s)	735
AfiI	CCNNNNNNNGG	2 cut(s)	205, 754
AflIII	ACRYGT	2 cut(s)	366, 420
AgsI	TTSAA	6 cut(s)	97, 427, 494, 551, 563, 580
AjiI	CACGTC	1 cut(s)	193
AjnI	CCWGG	2 cut(s)	198, 838
AluBI	AGCT	3 cut(s)	382, 670, 685
AluI	AGCT	3 cut(s)	382, 670, 685
Alw21I	GWGCWC	2 cut(s)	323, 435
Alw26I	GTCTC	3 cut(s)	285, 408, 766
AlwI	GGATC	1 cut(s)	889
AlwNI	CAGNNNCTG	1 cut(s)	406
Ama87I	CYCGRG	1 cut(s)	413
AoxI	GGCC	3 cut(s)	832, 860, 882
ApeKI	GCWGC	3 cut(s)	279, 409, 901
AseI	ATTAAT	1 cut(s)	555
AspLEI	GCGC	2 cut(s)	279, 504
AspS9I	GGNCC	1 cut(s)	882
AsuHPI	GGTGA	3 cut(s)	17, 382, 721
AvaI	CYCGRG	1 cut(s)	413
BaeGI	GKGCMC	2 cut(s)	679, 740
BalI	TGGCCA	1 cut(s)	834
BbsI	GAAGAC	2 cut(s)	60, 231
Bbv12I	GWGCWC	2 cut(s)	323, 435
BbvCI	CCTCAGC	1 cut(s)	671
BbvI	GCAGC	3 cut(s)	291, 396, 913
BccI	CCATC	1 cut(s)	864
BceAI	ACGGC	1 cut(s)	364
BcgI	CGANNNNNNTGC	1 cut(s)	921
BciT130I	CCWGG	2 cut(s)	200, 840
BclI	TGATCA	1 cut(s)	601
BcoDI	GTCTC	3 cut(s)	285, 408, 766
BfaI	CTAG	1 cut(s)	786
BfmI	CTRYAG	1 cut(s)	807
BfuAI	ACCTGC	1 cut(s)	937
BglI	GCCNNNNNGGC	1 cut(s)	831
BisI	GCNGC	6 cut(s)	204, 280, 358, 361, 410, 902
BlsI	GCNGC	6 cut(s)	205, 281, 359, 362, 411, 903
Bme1390I	CCNGG	2 cut(s)	200, 840
BmeT110I	CYCGRG	1 cut(s)	413
BmgBI	CACGTC	1 cut(s)	193
BmgT120I	GGNCC	1 cut(s)	882
BmiI	GGNNCC	1 cut(s)	58
BmrFI	CCNGG	2 cut(s)	200, 840
BmsI	GCATC	3 cut(s)	907, 913, 941
BpiI	GAAGAC	2 cut(s)	60, 231
BpmI	CTGGAG	1 cut(s)	96
Bpu10I	CCTNAGC	3 cut(s)	266, 498, 671
BpuEI	CTTGAG	1 cut(s)	665
BsaBI	GATNNNNATC	1 cut(s)	600
BsaHI	GRCGYC	1 cut(s)	170
BsaJI	CCNNGG	4 cut(s)	393, 838, 839, 878
BsaXI	ACNNNNNCTCC	2 cut(s)	507, 537
Bsc4I	CCNNNNNNNGG	2 cut(s)	205, 754
Bse1I	ACTGG	3 cut(s)	748, 835, 911
Bse3DI	GCAATG	2 cut(s)	358, 887
Bse8I	GATNNNNATC	1 cut(s)	600
BseBI	CCWGG	2 cut(s)	200, 840
BseDI	CCNNGG	4 cut(s)	393, 838, 839, 878
BseGI	GGATG	2 cut(s)	764, 770
BseJI	GATNNNNATC	1 cut(s)	600
BseLI	CCNNNNNNNGG	2 cut(s)	205, 754
BseMI	GCAATG	2 cut(s)	358, 887
BseMII	CTCAG	3 cut(s)	257, 489, 662
BseNI	ACTGG	3 cut(s)	748, 835, 911
BseRI	GAGGAG	1 cut(s)	303
BseSI	GKGCMC	2 cut(s)	679, 740
BseXI	GCAGC	3 cut(s)	291, 396, 913
Bsh1285I	CGRYCG	1 cut(s)	941
BshFI	GGCC	3 cut(s)	834, 862, 884
BsiEI	CGRYCG	1 cut(s)	941
BsiHKAI	GWGCWC	2 cut(s)	323, 435
BsiHKCI	CYCGRG	1 cut(s)	413
BsiSI	CCGG	2 cut(s)	385, 815
BslI	CCNNNNNNNGG	2 cut(s)	205, 754
BsmAI	GTCTC	3 cut(s)	285, 408, 766
BsmBI	CGTCTC	1 cut(s)	285
BsmI	GAATGC	1 cut(s)	569
BsnI	GGCC	3 cut(s)	834, 862, 884
BsoBI	CYCGRG	1 cut(s)	413
Bsp1286I	GDGCHC	4 cut(s)	323, 435, 679, 740
Bsp143I	GATC	3 cut(s)	157, 601, 894
BspACI	CCGC	9 cut(s)	203, 206, 270, 305, 330, 357, 360, 899, 924
BspANI	GGCC	3 cut(s)	834, 862, 884
BspCNI	CTCAG	3 cut(s)	258, 490, 663
BspLI	GGNNCC	1 cut(s)	58
BspMI	ACCTGC	1 cut(s)	937
BspPI	GGATC	1 cut(s)	889
BsrBI	CCGCTC	1 cut(s)	270
BsrDI	GCAATG	2 cut(s)	358, 887
BsrI	ACTGG	3 cut(s)	748, 835, 911
BssECI	CCNNGG	4 cut(s)	393, 838, 839, 878
BssMI	GATC	3 cut(s)	157, 601, 894
BssNI	GRCGYC	1 cut(s)	170
BssT1I	CCWWGG	1 cut(s)	393
Bst2UI	CCWGG	2 cut(s)	200, 840
Bst4CI	ACNGT	5 cut(s)	66, 256, 451, 696, 811
Bst6I	CTCTTC	1 cut(s)	630
BstACI	GRCGYC	1 cut(s)	170
BstAPI	GCANNNNNTGC	1 cut(s)	406
BstC8I	GCNNGC	1 cut(s)	323
BstDEI	CTNAG	5 cut(s)	266, 498, 573, 608, 671
BstDSI	CCRYGG	1 cut(s)	878
BstF5I	GGATG	2 cut(s)	764, 770
BstHHI	GCGC	2 cut(s)	279, 504
BstKTI	GATC	3 cut(s)	160, 604, 897
BstMAI	GTCTC	3 cut(s)	285, 408, 766
BstMBI	GATC	3 cut(s)	157, 601, 894
BstMCI	CGRYCG	1 cut(s)	941
BstMWI	GCNNNNNNNGC	8 cut(s)	276, 327, 357, 406, 744, 797, 831, 898
BstNI	CCWGG	2 cut(s)	200, 840
BstNSI	RCATGY	3 cut(s)	370, 424, 706
BstSCI	CCNGG	2 cut(s)	198, 838
BstSFI	CTRYAG	1 cut(s)	807
BstSLI	GKGCMC	2 cut(s)	679, 740
BstV1I	GCAGC	3 cut(s)	291, 396, 913
BstV2I	GAAGAC	2 cut(s)	60, 231
BsuRI	GGCC	3 cut(s)	834, 862, 884
BtgI	CCRYGG	1 cut(s)	878
BtrI	CACGTC	1 cut(s)	193
BtsCI	GGATG	2 cut(s)	764, 770
BtsIMutI	CAGTG	2 cut(s)	153, 755
BveI	ACCTGC	1 cut(s)	937
Cac8I	GCNNGC	1 cut(s)	323
CaiI	CAGNNNCTG	1 cut(s)	406
CfoI	GCGC	2 cut(s)	279, 504
Cfr13I	GGNCC	1 cut(s)	882
CspCI	CAANNNNNGTGG	2 cut(s)	493, 528
CviAII	CATG	6 cut(s)	103, 367, 421, 703, 733, 744
DdeI	CTNAG	5 cut(s)	266, 498, 573, 608, 671
DpnI	GATC	3 cut(s)	159, 603, 896
DpnII	GATC	3 cut(s)	157, 601, 894
DraIII	CACNNNGTG	1 cut(s)	735
EaeI	YGGCCR	1 cut(s)	832
Eam1104I	CTCTTC	1 cut(s)	630
EarI	CTCTTC	1 cut(s)	630
EciI	GGCGGA	2 cut(s)	320, 345
Eco130I	CCWWGG	1 cut(s)	393
Eco88I	CYCGRG	1 cut(s)	413
EcoRII	CCWGG	2 cut(s)	198, 838
EcoT14I	CCWWGG	1 cut(s)	393
ErhI	CCWWGG	1 cut(s)	393
Esp3I	CGTCTC	1 cut(s)	285
FaeI	CATG	6 cut(s)	106, 370, 424, 706, 736, 747
FaiI	YATR	7 cut(s)	54, 104, 368, 422, 704, 734, 745
FatI	CATG	6 cut(s)	102, 366, 420, 702, 732, 743
FauI	CCCGC	3 cut(s)	263, 906, 931
FbaI	TGATCA	1 cut(s)	601
Fnu4HI	GCNGC	6 cut(s)	204, 280, 358, 361, 410, 902
FokI	GGATG	2 cut(s)	751, 757
Fsp4HI	GCNGC	6 cut(s)	204, 280, 358, 361, 410, 902
FspBI	CTAG	1 cut(s)	786
GlaI	GCGC	2 cut(s)	278, 503
GluI	GCNGC	6 cut(s)	204, 280, 358, 361, 410, 902
GsuI	CTGGAG	1 cut(s)	96
HaeIII	GGCC	3 cut(s)	834, 862, 884
HapII	CCGG	2 cut(s)	385, 815
HhaI	GCGC	2 cut(s)	279, 504
Hin1I	GRCGYC	1 cut(s)	170
Hin1II	CATG	6 cut(s)	106, 370, 424, 706, 736, 747
Hin6I	GCGC	2 cut(s)	277, 502
HinP1I	GCGC	2 cut(s)	277, 502
HindIII	AAGCTT	1 cut(s)	683
HinfI	GANTC	4 cut(s)	109, 150, 186, 625
HpaII	CCGG	2 cut(s)	385, 815
HphI	GGTGA	3 cut(s)	17, 382, 721
Hpy166II	GTNNAC	1 cut(s)	196
Hpy188I	TCNGA	2 cut(s)	246, 529
Hpy188III	TCNNGA	2 cut(s)	113, 942
Hpy8I	GTNNAC	1 cut(s)	196
Hpy99I	CGWCG	5 cut(s)	172, 175, 194, 341, 344
HpyAV	CCTTC	1 cut(s)	750
HpyCH4III	ACNGT	5 cut(s)	66, 256, 451, 696, 811
HpyCH4IV	ACGT	2 cut(s)	170, 192
HpyCH4V	TGCA	7 cut(s)	106, 567, 652, 664, 706, 920, 932
HpyF10VI	GCNNNNNNNGC	8 cut(s)	276, 327, 357, 406, 744, 797, 831, 898
HpyF3I	CTNAG	5 cut(s)	266, 498, 573, 608, 671
HpySE526I	ACGT	2 cut(s)	170, 192
Hsp92I	GRCGYC	1 cut(s)	170
Hsp92II	CATG	6 cut(s)	106, 370, 424, 706, 736, 747
HspAI	GCGC	2 cut(s)	277, 502
Ksp22I	TGATCA	1 cut(s)	601
Kzo9I	GATC	3 cut(s)	157, 601, 894
LmnI	GCTCC	4 cut(s)	56, 387, 397, 430
Lsp1109I	GCAGC	3 cut(s)	291, 396, 913
LweI	GCATC	3 cut(s)	907, 913, 941
MaeI	CTAG	1 cut(s)	786
MaeII	ACGT	2 cut(s)	170, 192
MaeIII	GTNAC	1 cut(s)	5
MalI	GATC	3 cut(s)	159, 603, 896
MbiI	CCGCTC	1 cut(s)	270
MboI	GATC	3 cut(s)	157, 601, 894
MhlI	GDGCHC	4 cut(s)	323, 435, 679, 740
MlsI	TGGCCA	1 cut(s)	834
MluCI	AATT	4 cut(s)	460, 477, 552, 556
MluNI	TGGCCA	1 cut(s)	834
MlyI	GAGTC	1 cut(s)	103
Mox20I	TGGCCA	1 cut(s)	834
MscI	TGGCCA	1 cut(s)	834
MseI	TTAA	1 cut(s)	555
MslI	CAYNNNNRTG	2 cut(s)	707, 748
Msp20I	TGGCCA	1 cut(s)	834
MspI	CCGG	2 cut(s)	385, 815
MspR9I	CCNGG	2 cut(s)	200, 840
Mva1269I	GAATGC	1 cut(s)	569
MvaI	CCWGG	2 cut(s)	200, 840
MwoI	GCNNNNNNNGC	8 cut(s)	276, 327, 357, 406, 744, 797, 831, 898
NdeII	GATC	3 cut(s)	157, 601, 894
NlaIII	CATG	6 cut(s)	106, 370, 424, 706, 736, 747
NlaIV	GGNNCC	1 cut(s)	58
NmeAIII	GCCGAG	1 cut(s)	306
NmuCI	GTSAC	1 cut(s)	5
NspI	RCATGY	3 cut(s)	370, 424, 706
PaeR7I	CTCGAG	1 cut(s)	413
PaqCI	CACCTGC	1 cut(s)	937
PasI	CCCWGGG	1 cut(s)	839
PciI	ACATGT	2 cut(s)	366, 420
PcsI	WCGNNNNNNNCGW	1 cut(s)	333
PctI	GAATGC	1 cut(s)	569
PfeI	GAWTC	3 cut(s)	150, 186, 625
PflMI	CCANNNNNTGG	1 cut(s)	754
PkrI	GCNGC	6 cut(s)	205, 281, 359, 362, 411, 903
PleI	GAGTC	1 cut(s)	103
PpsI	GAGTC	1 cut(s)	103
PscI	ACATGT	2 cut(s)	366, 420
PshBI	ATTAAT	1 cut(s)	555
Psp6I	CCWGG	2 cut(s)	198, 838
PspGI	CCWGG	2 cut(s)	198, 838
PspN4I	GGNNCC	1 cut(s)	58
PspPI	GGNCC	1 cut(s)	882
PspXI	VCTCGAGB	1 cut(s)	413
PstNI	CAGNNNCTG	1 cut(s)	406
RseI	CAYNNNNRTG	2 cut(s)	707, 748
SaqAI	TTAA	1 cut(s)	555
SatI	GCNGC	6 cut(s)	204, 280, 358, 361, 410, 902
Sau3AI	GATC	3 cut(s)	157, 601, 894
Sau96I	GGNCC	1 cut(s)	882
SchI	GAGTC	1 cut(s)	103
ScrFI	CCNGG	2 cut(s)	200, 840
SduI	GDGCHC	4 cut(s)	323, 435, 679, 740
SfaNI	GCATC	3 cut(s)	907, 913, 941
SfcI	CTRYAG	1 cut(s)	807
Sfr274I	CTCGAG	1 cut(s)	413
SlaI	CTCGAG	1 cut(s)	413
SmiMI	CAYNNNNRTG	2 cut(s)	707, 748
SmlI	CTYRAG	2 cut(s)	413, 680
SmoI	CTYRAG	2 cut(s)	413, 680
Sse9I	AATT	4 cut(s)	460, 477, 552, 556
SsiI	CCGC	9 cut(s)	203, 206, 270, 305, 330, 357, 360, 899, 924
SspMI	CTAG	1 cut(s)	786
StyD4I	CCNGG	2 cut(s)	198, 838
StyI	CCWWGG	1 cut(s)	393
TaaI	ACNGT	5 cut(s)	66, 256, 451, 696, 811
TaiI	ACGT	2 cut(s)	173, 195
TaqI	TCGA	7 cut(s)	160, 189, 219, 260, 371, 414, 907
TaqII	GACCGA	1 cut(s)	927
TasI	AATT	4 cut(s)	460, 477, 552, 556
TauI	GCSGC	3 cut(s)	206, 360, 363
TfiI	GAWTC	3 cut(s)	150, 186, 625
Tru1I	TTAA	1 cut(s)	555
Tru9I	TTAA	1 cut(s)	555
TscAI	CASTG	2 cut(s)	160, 755
TseFI	GTSAC	1 cut(s)	5
TseI	GCWGC	3 cut(s)	279, 409, 901
Tsp45I	GTSAC	1 cut(s)	5
TspDTI	ATGAA	2 cut(s)	725, 732
TspRI	CASTG	2 cut(s)	160, 755
Van91I	CCANNNNNTGG	1 cut(s)	754
VspI	ATTAAT	1 cut(s)	555
XceI	RCATGY	3 cut(s)	370, 424, 706
XcmI	CCANNNNNNNNNTGG	1 cut(s)	876
XhoI	CTCGAG	1 cut(s)	413
XspI	CTAG	1 cut(s)	786
ZraI	GACGTC	1 cut(s)	171

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