Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0004116

Physical Location & Seq

Genomic Coordinates Forward (+)

49469073 .. 49471462

Gene Structure 2390 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00118220.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1017 bp

ATGACAAGTCAGCTGCGGCGTAGTTTGCTGCAGGCGATGAAACAAATTAAGCAACTGCCACCAGCCTTTCCTTACCCTCTTCCATTTCTTCGTTCTTACTCAACAGCAGAATTGCAACCTCAGTTATCACCAAAGCTTGTTAAGATCATGGAGCAAAGGCTGTCGCTTATCGAACAAAGGAATGCTTGTCTCCACAGTATCATAAACCAGTCGGATGCCACAGCAGAAGAGTATGCAAGGGCGAATAAGGAGCTTCGCAAAATTAGCTCATCCATGGACCTTATAAATCAGTTAAGAGCCATACACAAGGAGATTGATGGGTTGAGGTCACTCATGGCTGAATCTGCTCAAGATAAAGACATGCTTGATATGGTGACCACTGAGTTGGATCAGGCCATCAACGAAGAGAAAAGACTGCACAATTTGTTGCTCAAGACTCTACTCCCCAAGGATGATGCCGATGAGAGGGATTGCATATTGGAGGAACTGGTGGGGGAGGAGGCTTCTTTGTTTGCAATGGACATATTTAAAATGTATGAGAGATTCTCTCACAATAAAGGCTGGATGTTTGAAGTCTTGGATATTACCGAGTCTGATCTTAAAGGATATAAGGAAGCAAGTGCGGCAATCTCAGGGGCTGATGTTTATGGGAATCTTAAATTTGAGAGTGAGAAGTCTGGACGCATTCATACTAGTGCTGTTTCTGTTGCTATCCTCCCCCAAGCTGATCAGGTAGATGTCCACCTGAGGAACGAAGATTTGAAAATTGATACCTATAGATCTGGTGGTTCTGGGGGTCAGCATGCAAATACTACAAACAGTGCGGTTAGAATAACTCATATTCCAACTGGGATGACCATAGCCATACAAGATGAACGATCCCAACATATGCTTCTGTTTGAGATTGCTTCTCTTAAATTGGCAAAAGTGGTTTCGTGGCGTTTGGTAAGGTTCTATTTGGGATTGCTTCCAAAATTGGCAAAAGTGGTTTTGGTGGCGTTTGGTGAAAAGAGTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PCRF RF-1

Protein Analysis

338

Amino Acids

38.11

Weight (kDa)

6.18

Isoelectric Point (pI)

53.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PCRF	PF03462	60 - 236	3.2e-32	PCRF domain
RF-1	PF00472	244 - 296	3.7e-20	RF-1 domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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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: OG0004116)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G47020 AT2G47020 AT2G47020 AT2G47020 AT2G47020
fragaria_vesca	FvH4_6g25260 FvH4_6g25260 FvH4_6g25260 FvH4_6g25260 FvH4_6g25260 FvH4_6g25260 FvH4_6g25260 FvH4_6g25260 FvH4_6g25260
malus_domestica	MD05G1002600.v1.1
prunus_persica	Prupe.7G036500_v2.0.a1 Prupe.7G036500_v2.0.a1 Prupe.7G036500_v2.0.a1 Prupe.7G036500_v2.0.a1 Prupe.7G036500_v2.0.a1 Prupe.7G036500_v2.0.a1 Prupe.7G036500_v2.0.a1
pyrus_communis	pycom05g00250
rosa_chinensis	RchiOBHm_Chr2g0125161
rosa_laevigata	RLG00000018851
rosa_multiflora	Rmu_sc0003505.1_g000032
rosa_roxburghii	Rroxscaffold_2G00118220 Rroxscaffold_2G00118690
rosa_rugosa	Rorug02G0256000
rosa_samantha	Rh2AG314300 Rh2BG322500 Rh2DG340900
rosa_wichuraiana	Rw2G025430

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	284
AciI	CCGC	3 cut(s)	16, 623, 824
AclWI	GGATC	2 cut(s)	396, 873
AcsI	RAATTY	1 cut(s)	659
AfiI	CCNNNNNNNGG	1 cut(s)	465
AgsI	TTSAA	2 cut(s)	572, 763
AhlI	ACTAGT	1 cut(s)	692
AjuI	GAANNNNNNNTTGG	2 cut(s)	876, 908
AluBI	AGCT	5 cut(s)	13, 136, 253, 267, 725
AluI	AGCT	5 cut(s)	13, 136, 253, 267, 725
Alw26I	GTCTC	1 cut(s)	194
AlwI	GGATC	2 cut(s)	396, 873
AlwNI	CAGNNNCTG	1 cut(s)	638
AoxI	GGCC	1 cut(s)	393
ApeKI	GCWGC	2 cut(s)	13, 28
ApoI	RAATTY	1 cut(s)	659
AspS9I	GGNCC	1 cut(s)	277
AsuHPI	GGTGA	3 cut(s)	120, 385, 1016
AvaII	GGWCC	1 cut(s)	277
AxyI	CCTNAGG	1 cut(s)	746
BbvI	GCAGC	1 cut(s)	15
BccI	CCATC	2 cut(s)	311, 404
BclI	TGATCA	1 cut(s)	727
BcoDI	GTCTC	1 cut(s)	194
BcuI	ACTAGT	1 cut(s)	692
BfaI	CTAG	1 cut(s)	693
BfmI	CTRYAG	2 cut(s)	29, 775
BglII	AGATCT	1 cut(s)	779
BisI	GCNGC	4 cut(s)	14, 17, 29, 624
BlsI	GCNGC	4 cut(s)	15, 18, 30, 625
Bme18I	GGWCC	1 cut(s)	277
BmgT120I	GGNCC	1 cut(s)	277
BmrI	ACTGGG	1 cut(s)	858
BmsI	GCATC	2 cut(s)	205, 445
BmuI	ACTGGG	1 cut(s)	858
BplI	GAGNNNNNCTC	4 cut(s)	530, 562, 532, 564
BpuEI	CTTGAG	2 cut(s)	333, 416
BsaJI	CCNNGG	2 cut(s)	273, 447
Bsc4I	CCNNNNNNNGG	1 cut(s)	465
Bse1I	ACTGG	3 cut(s)	208, 492, 853
Bse21I	CCTNAGG	1 cut(s)	746
Bse3DI	GCAATG	1 cut(s)	522
BseDI	CCNNGG	2 cut(s)	273, 447
BseGI	GGATG	5 cut(s)	220, 269, 457, 570, 858
BseLI	CCNNNNNNNGG	1 cut(s)	465
BseMI	GCAATG	1 cut(s)	522
BseMII	CTCAG	4 cut(s)	134, 372, 645, 737
BseNI	ACTGG	3 cut(s)	208, 492, 853
BseRI	GAGGAG	1 cut(s)	512
BseXI	GCAGC	1 cut(s)	15
BsgI	GTGCAG	1 cut(s)	401
BshFI	GGCC	1 cut(s)	395
BslI	CCNNNNNNNGG	1 cut(s)	465
BsmAI	GTCTC	1 cut(s)	194
BsmI	GAATGC	2 cut(s)	187, 684
BsnI	GGCC	1 cut(s)	395
Bsp143I	GATC	6 cut(s)	144, 388, 595, 727, 779, 878
Bsp19I	CCATGG	1 cut(s)	273
BspACI	CCGC	3 cut(s)	16, 623, 824
BspANI	GGCC	1 cut(s)	395
BspCNI	CTCAG	4 cut(s)	133, 373, 644, 738
BspMAI	CTGCAG	1 cut(s)	33
BspPI	GGATC	2 cut(s)	396, 873
BsrDI	GCAATG	1 cut(s)	522
BsrI	ACTGG	3 cut(s)	208, 492, 853
BssECI	CCNNGG	2 cut(s)	273, 447
BssMI	GATC	6 cut(s)	144, 388, 595, 727, 779, 878
BssT1I	CCWWGG	2 cut(s)	273, 447
Bst4CI	ACNGT	2 cut(s)	197, 821
Bst6I	CTCTTC	3 cut(s)	84, 222, 399
BstC8I	GCNNGC	2 cut(s)	33, 804
BstDEI	CTNAG	4 cut(s)	120, 381, 631, 746
BstDSI	CCRYGG	1 cut(s)	273
BstEII	GGTNACC	1 cut(s)	373
BstF5I	GGATG	5 cut(s)	220, 269, 457, 570, 858
BstKTI	GATC	6 cut(s)	147, 391, 598, 730, 782, 881
BstMAI	GTCTC	1 cut(s)	194
BstMBI	GATC	6 cut(s)	144, 388, 595, 727, 779, 878
BstMWI	GCNNNNNNNGC	4 cut(s)	25, 264, 344, 623
BstNSI	RCATGY	2 cut(s)	364, 806
BstPI	GGTNACC	1 cut(s)	373
BstSFI	CTRYAG	2 cut(s)	29, 775
BstV1I	GCAGC	1 cut(s)	15
BstX2I	RGATCY	1 cut(s)	779
BstXI	CCANNNNNNTGG	1 cut(s)	385
BstYI	RGATCY	1 cut(s)	779
Bsu36I	CCTNAGG	1 cut(s)	746
BsuRI	GGCC	1 cut(s)	395
BtgI	CCRYGG	1 cut(s)	273
BtgZI	GCGATG	1 cut(s)	50
BtsCI	GGATG	5 cut(s)	220, 269, 457, 570, 858
BtsIMutI	CAGTG	2 cut(s)	378, 826
Cac8I	GCNNGC	2 cut(s)	33, 804
CaiI	CAGNNNCTG	1 cut(s)	638
Cfr13I	GGNCC	1 cut(s)	277
CseI	GACGC	1 cut(s)	690
CviAII	CATG	5 cut(s)	148, 274, 334, 361, 803
DdeI	CTNAG	4 cut(s)	120, 381, 631, 746
DpnI	GATC	6 cut(s)	146, 390, 597, 729, 781, 880
DpnII	GATC	6 cut(s)	144, 388, 595, 727, 779, 878
DraI	TTTAAA	1 cut(s)	529
Eam1104I	CTCTTC	3 cut(s)	84, 222, 399
EarI	CTCTTC	3 cut(s)	84, 222, 399
Eco130I	CCWWGG	2 cut(s)	273, 447
Eco47I	GGWCC	1 cut(s)	277
Eco81I	CCTNAGG	1 cut(s)	746
Eco91I	GGTNACC	1 cut(s)	373
EcoO65I	GGTNACC	1 cut(s)	373
EcoT14I	CCWWGG	2 cut(s)	273, 447
ErhI	CCWWGG	2 cut(s)	273, 447
FaeI	CATG	5 cut(s)	151, 277, 337, 364, 806
FalI	AAGNNNNNCTT	4 cut(s)	169, 201, 348, 380
FatI	CATG	5 cut(s)	147, 273, 333, 360, 802
FauNDI	CATATG	1 cut(s)	888
FbaI	TGATCA	1 cut(s)	727
Fnu4HI	GCNGC	4 cut(s)	14, 17, 29, 624
FokI	GGATG	5 cut(s)	227, 256, 464, 577, 865
Fsp4HI	GCNGC	4 cut(s)	14, 17, 29, 624
FspBI	CTAG	1 cut(s)	693
GluI	GCNGC	4 cut(s)	14, 17, 29, 624
HaeIII	GGCC	1 cut(s)	395
HgaI	GACGC	1 cut(s)	690
Hin1II	CATG	5 cut(s)	151, 277, 337, 364, 806
HindIII	AAGCTT	1 cut(s)	134
HinfI	GANTC	5 cut(s)	341, 436, 543, 590, 652
HphI	GGTGA	3 cut(s)	120, 385, 1016
Hpy166II	GTNNAC	1 cut(s)	742
Hpy188I	TCNGA	2 cut(s)	214, 595
Hpy188III	TCNNGA	3 cut(s)	350, 433, 678
Hpy8I	GTNNAC	1 cut(s)	742
HpyCH4III	ACNGT	2 cut(s)	197, 821
HpyCH4V	TGCA	7 cut(s)	31, 115, 236, 418, 474, 515, 806
HpyF10VI	GCNNNNNNNGC	4 cut(s)	25, 264, 344, 623
HpyF3I	CTNAG	4 cut(s)	120, 381, 631, 746
Hsp92II	CATG	5 cut(s)	151, 277, 337, 364, 806
Ksp22I	TGATCA	1 cut(s)	727
Kzo9I	GATC	6 cut(s)	144, 388, 595, 727, 779, 878
LmnI	GCTCC	2 cut(s)	151, 250
Lsp1109I	GCAGC	1 cut(s)	15
LweI	GCATC	2 cut(s)	205, 445
MaeI	CTAG	1 cut(s)	693
MaeIII	GTNAC	2 cut(s)	327, 373
MalI	GATC	6 cut(s)	146, 390, 597, 729, 781, 880
MboI	GATC	6 cut(s)	144, 388, 595, 727, 779, 878
MboII	GAAGA	5 cut(s)	71, 80, 239, 416, 767
MflI	RGATCY	1 cut(s)	779
MluCI	AATT	8 cut(s)	45, 110, 261, 421, 659, 765, 917, 974
MlyI	GAGTC	2 cut(s)	430, 599
MmeI	TCCRAC	3 cut(s)	192, 366, 869
MnlI	CCTC	9 cut(s)	87, 129, 318, 459, 475, 490, 493, 725, 741
MseI	TTAA	7 cut(s)	48, 141, 293, 528, 600, 657, 915
MslI	CAYNNNNRTG	1 cut(s)	693
MspA1I	CMGCKG	1 cut(s)	13
Mva1269I	GAATGC	2 cut(s)	187, 684
MwoI	GCNNNNNNNGC	4 cut(s)	25, 264, 344, 623
NcoI	CCATGG	1 cut(s)	273
NdeI	CATATG	1 cut(s)	888
NdeII	GATC	6 cut(s)	144, 388, 595, 727, 779, 878
NlaIII	CATG	5 cut(s)	151, 277, 337, 364, 806
NmuCI	GTSAC	2 cut(s)	327, 373
NspI	RCATGY	2 cut(s)	364, 806
PaeI	GCATGC	1 cut(s)	806
PctI	GAATGC	2 cut(s)	187, 684
PfeI	GAWTC	3 cut(s)	341, 543, 652
PkrI	GCNGC	4 cut(s)	15, 18, 30, 625
PleI	GAGTC	2 cut(s)	430, 598
PpsI	GAGTC	2 cut(s)	430, 598
PsiI	TTATAA	1 cut(s)	284
PspEI	GGTNACC	1 cut(s)	373
PspPI	GGNCC	1 cut(s)	277
PstI	CTGCAG	1 cut(s)	33
PstNI	CAGNNNCTG	1 cut(s)	638
PsuI	RGATCY	1 cut(s)	779
PvuII	CAGCTG	1 cut(s)	13
RseI	CAYNNNNRTG	1 cut(s)	693
SaqAI	TTAA	7 cut(s)	48, 141, 293, 528, 600, 657, 915
SatI	GCNGC	4 cut(s)	14, 17, 29, 624
Sau3AI	GATC	6 cut(s)	144, 388, 595, 727, 779, 878
Sau96I	GGNCC	1 cut(s)	277
SchI	GAGTC	2 cut(s)	430, 599
SfaNI	GCATC	2 cut(s)	205, 445
SfcI	CTRYAG	2 cut(s)	29, 775
SinI	GGWCC	1 cut(s)	277
SmiMI	CAYNNNNRTG	1 cut(s)	693
SmlI	CTYRAG	2 cut(s)	348, 431
SmoI	CTYRAG	2 cut(s)	348, 431
SpeI	ACTAGT	1 cut(s)	692
SphI	GCATGC	1 cut(s)	806
Sse9I	AATT	8 cut(s)	45, 110, 261, 421, 659, 765, 917, 974
SsiI	CCGC	3 cut(s)	16, 623, 824
SspMI	CTAG	1 cut(s)	693
StyI	CCWWGG	2 cut(s)	273, 447
TaaI	ACNGT	2 cut(s)	197, 821
TaqI	TCGA	1 cut(s)	171
TasI	AATT	8 cut(s)	45, 110, 261, 421, 659, 765, 917, 974
TauI	GCSGC	2 cut(s)	19, 626
TfiI	GAWTC	3 cut(s)	341, 543, 652
Tru1I	TTAA	7 cut(s)	48, 141, 293, 528, 600, 657, 915
Tru9I	TTAA	7 cut(s)	48, 141, 293, 528, 600, 657, 915
TscAI	CASTG	2 cut(s)	385, 826
TseFI	GTSAC	2 cut(s)	327, 373
TseI	GCWGC	2 cut(s)	13, 28
Tsp45I	GTSAC	2 cut(s)	327, 373
TspDTI	ATGAA	3 cut(s)	53, 677, 888
TspRI	CASTG	2 cut(s)	385, 826
VpaK11BI	GGWCC	1 cut(s)	277
XapI	RAATTY	1 cut(s)	659
XceI	RCATGY	2 cut(s)	364, 806
XspI	CTAG	1 cut(s)	693

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