Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0009011

Physical Location & Seq

Genomic Coordinates Reverse (-)

29821024 .. 29825563

Gene Structure 4540 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0263000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1119 bp

ATGAAACAGGATGAATTTTTTGTTAAGCTTATCCAGAGGAAGAGTGCTGGTTGGTTCAATGTGGAATCTGCTGAAGATCTGCTTGGCAATATTCTTTCAAGGCTTCCAGTTAAGCTCCTTCTAACTATCAAGGTCGTTTCTAAACTTTGGCATAGATTGATTTGCAGTCCCAATTTCACTAGACTGCATTTAAGCAAATCAAGAGAAAACTCCATCTATATACTTTATCCTTTTATGGATGATAAAAGAAGTCTGTATTTCATGGATGCTGACGGGGTGATCACCGGAACAATCAGTCTTCCTGGTTTAAAAAATATACCATCTCTATGTATGATTGCTTCCTACAATGGGTTGATATGTTTCACTAATTATCCTTGGTTTCCTCATTCATTTAAGACTCGAGCAGTAGTGACAGGCTTGGAAATTCGAATTTGCAATCCTGCAACTCGTGAAGTTTGGCTCCTTCCTAATGGGAGCCCACTGAAACAGGAGCTAGGAATTGGGGTTGCCTTTGGCCCGGGAATCAGCGAGTATAGGGTACTTCGGTTTTTCTGTTCCAAATCCAAATCTGATGTAATTCACCCTGAGTGTGAGATATTTTCATCAAGCACTGGAACCTGGGGAAGCTTAGGTTTTGTTCAGCATTGTCCTATGGGTGCACATCATGTATTTGTTCAAGGAAAAGTTTTTTGGTTTATTCCTTCAGAAGAAGATCATAATATCCCTGGATCCATTCTTTCAGTTGGTTTGGATGAAGATTTTAGAATTATCAGACTTCCAGTTGCGGTCACTGAACATGCCTTCTTGGTTGATCTTGAAGGTCAATTATCACTGATCGTTGTATTTGATGATGATGACACTATGGTTATATGGATTTTGAAGGATGAAAATGAGTCCATTTGGGAGGAGAAATGTCGTGATGGTATTCCCTATGAAACTGTGGAGTGTCTTGACTCTGTAGCTGCAAGAAAAAATGACATTTTTTTCATCACTGAAGAACGCTATTTCATCTTCAGTATGATAAAAATGTCCTGGAAAGAAATTCATTTCAAAGAACTATTTGAACAACATTCTCCTGTTGTTTTTACGTACACAGAAAGCCTCCTCCCTTGTCACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006412 GO:0006518 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009451 GO:0009987 GO:0010467 GO:0016070 GO:0016787 GO:0016788 GO:0019538 GO:0032543 GO:0034641 GO:0034645 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:0140053 GO:1901360 GO:1901363 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PPR PPR_2 PPR_3 PPR_long

Protein Analysis

372

Amino Acids

42.65

Weight (kDa)

5.67

Isoelectric Point (pI)

42.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
F-box	PF00646	25 - 61	1.1e-06	F-box domain
FBA_3	PF08268	107 - 305	1.5e-15	F-box associated beta propeller domain
FBA_1	PF07734	142 - 369	1.7e-12	F-box associated beta propeller 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: OG0009011)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G01110 AT5G01110
fragaria_vesca	FvH4_3g27950 FvH4_3g27950
malus_domestica	MD02G1234700.v1.1 MD02G1235100.v1.1 MD07G1079700.v1.1
prunus_persica	Prupe.2G102900_v2.0.a1
rosa_chinensis	RchiOBHm_Chr5g0050671
rosa_laevigata	RLG00000034717 RLG00000034720
rosa_multiflora	Rmu_ssc0000350.1_g000039
rosa_roxburghii	Rroxscaffold_1G00030130
rosa_rugosa	Rorug05G0262900 Rorug05G0263000 Rorug05G0263000 Rorug05G0263000
rosa_samantha	Rh5AG334900 Rh5BG344200 Rh5CG372100 Rh5DG357300
rosa_wichuraiana	Rw5G031590

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	785
AclWI	GGATC	2 cut(s)	723, 736
AcsI	RAATTY	4 cut(s)	14, 423, 429, 1041
AcuI	CTGAAG	4 cut(s)	93, 687, 997, 1014
AfaI	GTAC	2 cut(s)	540, 1091
AfiI	CCNNNNNNNGG	1 cut(s)	348
AgsI	TTSAA	7 cut(s)	58, 99, 677, 818, 880, 1051, 1064
AjnI	CCWGG	4 cut(s)	301, 617, 724, 1031
AjuI	GAANNNNNNNTTGG	4 cut(s)	66, 98, 673, 705
AluBI	AGCT	5 cut(s)	28, 115, 493, 627, 962
AluI	AGCT	5 cut(s)	28, 115, 493, 627, 962
Alw21I	GWGCWC	1 cut(s)	661
Alw44I	GTGCAC	1 cut(s)	657
AlwI	GGATC	2 cut(s)	723, 736
Ama87I	CYCGRG	2 cut(s)	399, 517
AoxI	GGCC	1 cut(s)	514
ApaLI	GTGCAC	1 cut(s)	657
ApeKI	GCWGC	1 cut(s)	962
ApoI	RAATTY	4 cut(s)	14, 423, 429, 1041
AspS9I	GGNCC	1 cut(s)	515
AsuC2I	CCSGG	2 cut(s)	518, 519
AsuHPI	GGTGA	3 cut(s)	274, 289, 572
AsuII	TTCGAA	1 cut(s)	427
AvaI	CYCGRG	2 cut(s)	399, 517
BaeGI	GKGCMC	1 cut(s)	661
BaeI	ACNNNNGTAYC	2 cut(s)	530, 563
BamHI	GGATCC	1 cut(s)	728
BanII	GRGCYC	1 cut(s)	479
BarI	GAAGNNNNNNTAC	2 cut(s)	322, 354
BauI	CACGAG	1 cut(s)	447
BbsI	GAAGAC	1 cut(s)	290
Bbv12I	GWGCWC	1 cut(s)	661
BbvI	GCAGC	1 cut(s)	949
BccI	CCATC	3 cut(s)	221, 328, 914
BciT130I	CCWGG	4 cut(s)	303, 619, 726, 1033
BclI	TGATCA	1 cut(s)	279
BcnI	CCSGG	2 cut(s)	518, 519
BfaI	CTAG	2 cut(s)	180, 494
BfmI	CTRYAG	1 cut(s)	957
BglII	AGATCT	1 cut(s)	76
BisI	GCNGC	1 cut(s)	963
BlsI	GCNGC	1 cut(s)	964
Bme1390I	CCNGG	6 cut(s)	303, 518, 519, 619, 726, 1033
BmeT110I	CYCGRG	2 cut(s)	399, 517
BmgT120I	GGNCC	1 cut(s)	515
BmiI	GGNNCC	4 cut(s)	461, 476, 616, 730
BmrFI	CCNGG	6 cut(s)	303, 518, 519, 619, 726, 1033
BmsI	GCATC	1 cut(s)	256
BpiI	GAAGAC	1 cut(s)	290
Bpu10I	CCTNAGC	1 cut(s)	628
Bpu14I	TTCGAA	1 cut(s)	427
BpuMI	CCSGG	2 cut(s)	518, 519
BsaAI	YACGTR	1 cut(s)	1089
BsaJI	CCNNGG	4 cut(s)	374, 517, 618, 724
BsaWI	WCCGGW	1 cut(s)	284
Bsc4I	CCNNNNNNNGG	1 cut(s)	348
Bse1I	ACTGG	3 cut(s)	107, 616, 779
BseBI	CCWGG	4 cut(s)	303, 619, 726, 1033
BseDI	CCNNGG	4 cut(s)	374, 517, 618, 724
BseGI	GGATG	5 cut(s)	16, 244, 271, 757, 889
BseLI	CCNNNNNNNGG	1 cut(s)	348
BseMII	CTCAG	1 cut(s)	576
BseNI	ACTGG	3 cut(s)	107, 616, 779
BseRI	GAGGAG	2 cut(s)	920, 1094
BseSI	GKGCMC	1 cut(s)	661
BseXI	GCAGC	1 cut(s)	949
BshFI	GGCC	1 cut(s)	516
BsiHKAI	GWGCWC	1 cut(s)	661
BsiHKCI	CYCGRG	2 cut(s)	399, 517
BsiSI	CCGG	2 cut(s)	285, 518
BslFI	GGGAC	1 cut(s)	153
BslI	CCNNNNNNNGG	1 cut(s)	348
BsmFI	GGGAC	1 cut(s)	153
BsnI	GGCC	1 cut(s)	516
BsoBI	CYCGRG	2 cut(s)	399, 517
Bsp119I	TTCGAA	1 cut(s)	427
Bsp1286I	GDGCHC	2 cut(s)	479, 661
Bsp143I	GATC	6 cut(s)	76, 279, 712, 728, 811, 834
BspACI	CCGC	1 cut(s)	785
BspANI	GGCC	1 cut(s)	516
BspCNI	CTCAG	1 cut(s)	577
BspLI	GGNNCC	4 cut(s)	461, 476, 616, 730
BspPI	GGATC	2 cut(s)	723, 736
BspT104I	TTCGAA	1 cut(s)	427
BsrI	ACTGG	3 cut(s)	107, 616, 779
BssECI	CCNNGG	4 cut(s)	374, 517, 618, 724
BssMI	GATC	6 cut(s)	76, 279, 712, 728, 811, 834
BssSI	CACGAG	1 cut(s)	447
BssT1I	CCWWGG	1 cut(s)	374
Bst2BI	CACGAG	1 cut(s)	447
Bst2UI	CCWGG	4 cut(s)	303, 619, 726, 1033
Bst4CI	ACNGT	1 cut(s)	940
Bst6I	CTCTTC	1 cut(s)	35
BstBAI	YACGTR	1 cut(s)	1089
BstBI	TTCGAA	1 cut(s)	427
BstDEI	CTNAG	2 cut(s)	585, 628
BstF5I	GGATG	5 cut(s)	16, 244, 271, 757, 889
BstKTI	GATC	6 cut(s)	79, 282, 715, 731, 814, 837
BstMBI	GATC	6 cut(s)	76, 279, 712, 728, 811, 834
BstNI	CCWGG	4 cut(s)	303, 619, 726, 1033
BstNSI	RCATGY	1 cut(s)	800
BstSCI	CCNGG	6 cut(s)	301, 516, 517, 617, 724, 1031
BstSFI	CTRYAG	1 cut(s)	957
BstSLI	GKGCMC	1 cut(s)	661
BstSNI	TACGTA	1 cut(s)	1089
BstV1I	GCAGC	1 cut(s)	949
BstV2I	GAAGAC	1 cut(s)	290
BstX2I	RGATCY	2 cut(s)	76, 728
BstYI	RGATCY	2 cut(s)	76, 728
BsuRI	GGCC	1 cut(s)	516
BtsCI	GGATG	5 cut(s)	16, 244, 271, 757, 889
BtsIMutI	CAGTG	6 cut(s)	479, 609, 789, 830, 990, 1114
Cfr13I	GGNCC	1 cut(s)	515
Cfr9I	CCCGGG	1 cut(s)	517
Csp6I	GTAC	2 cut(s)	539, 1090
CviAII	CATG	3 cut(s)	262, 665, 797
CviQI	GTAC	2 cut(s)	539, 1090
DdeI	CTNAG	2 cut(s)	585, 628
DpnI	GATC	6 cut(s)	78, 281, 714, 730, 813, 836
DpnII	GATC	6 cut(s)	76, 279, 712, 728, 811, 834
DraI	TTTAAA	1 cut(s)	309
Eam1104I	CTCTTC	1 cut(s)	35
EarI	CTCTTC	1 cut(s)	35
Eco105I	TACGTA	1 cut(s)	1089
Eco130I	CCWWGG	1 cut(s)	374
Eco24I	GRGCYC	1 cut(s)	479
Eco57I	CTGAAG	4 cut(s)	93, 687, 997, 1014
Eco88I	CYCGRG	2 cut(s)	399, 517
EcoRII	CCWGG	4 cut(s)	301, 617, 724, 1031
EcoT14I	CCWWGG	1 cut(s)	374
EcoT38I	GRGCYC	1 cut(s)	479
ErhI	CCWWGG	1 cut(s)	374
FaeI	CATG	3 cut(s)	265, 668, 800
FalI	AAGNNNNNCTT	2 cut(s)	66, 98
FaqI	GGGAC	1 cut(s)	153
FatI	CATG	3 cut(s)	261, 664, 796
FbaI	TGATCA	1 cut(s)	279
Fnu4HI	GCNGC	1 cut(s)	963
FokI	GGATG	5 cut(s)	23, 251, 278, 764, 896
FriOI	GRGCYC	1 cut(s)	479
Fsp4HI	GCNGC	1 cut(s)	963
FspBI	CTAG	2 cut(s)	180, 494
GluI	GCNGC	1 cut(s)	963
HaeIII	GGCC	1 cut(s)	516
HapII	CCGG	2 cut(s)	285, 518
Hin1II	CATG	3 cut(s)	265, 668, 800
HindIII	AAGCTT	2 cut(s)	26, 625
HinfI	GANTC	5 cut(s)	65, 397, 522, 893, 953
HpaII	CCGG	2 cut(s)	285, 518
HphI	GGTGA	3 cut(s)	274, 289, 572
Hpy166II	GTNNAC	2 cut(s)	659, 1092
Hpy188I	TCNGA	3 cut(s)	571, 706, 773
Hpy188III	TCNNGA	6 cut(s)	34, 201, 449, 815, 917, 950
Hpy8I	GTNNAC	2 cut(s)	659, 1092
HpyAV	CCTTC	6 cut(s)	128, 473, 711, 811, 812, 874
HpyCH4III	ACNGT	1 cut(s)	940
HpyCH4IV	ACGT	1 cut(s)	1088
HpyCH4V	TGCA	6 cut(s)	165, 187, 435, 443, 659, 965
HpyF3I	CTNAG	2 cut(s)	585, 628
HpySE526I	ACGT	1 cut(s)	1088
Hsp92II	CATG	3 cut(s)	265, 668, 800
Ksp22I	TGATCA	1 cut(s)	279
Kzo9I	GATC	6 cut(s)	76, 279, 712, 728, 811, 834
LmnI	GCTCC	4 cut(s)	120, 465, 474, 490
Lsp1109I	GCAGC	1 cut(s)	949
LweI	GCATC	1 cut(s)	256
MaeI	CTAG	2 cut(s)	180, 494
MaeII	ACGT	1 cut(s)	1088
MaeIII	GTNAC	3 cut(s)	409, 787, 1112
MalI	GATC	6 cut(s)	78, 281, 714, 730, 813, 836
MboI	GATC	6 cut(s)	76, 279, 712, 728, 811, 834
MboII	GAAGA	8 cut(s)	52, 86, 290, 719, 722, 767, 1003, 1007
MflI	RGATCY	2 cut(s)	76, 728
MhlI	GDGCHC	2 cut(s)	479, 661
MlyI	GAGTC	3 cut(s)	391, 902, 947
MnlI	CCTC	5 cut(s)	30, 393, 898, 1112, 1115
MseI	TTAA	5 cut(s)	24, 111, 191, 308, 393
MslI	CAYNNNNRTG	1 cut(s)	325
MspI	CCGG	2 cut(s)	285, 518
MspR9I	CCNGG	6 cut(s)	303, 518, 519, 619, 726, 1033
MvaI	CCWGG	4 cut(s)	303, 619, 726, 1033
NciI	CCSGG	2 cut(s)	518, 519
NdeII	GATC	6 cut(s)	76, 279, 712, 728, 811, 834
NlaIII	CATG	3 cut(s)	265, 668, 800
NlaIV	GGNNCC	4 cut(s)	461, 476, 616, 730
NmuCI	GTSAC	3 cut(s)	409, 787, 1112
NspI	RCATGY	1 cut(s)	800
NspV	TTCGAA	1 cut(s)	427
PaeR7I	CTCGAG	1 cut(s)	399
PfeI	GAWTC	2 cut(s)	65, 522
PfoI	TCCNGGA	1 cut(s)	1031
PkrI	GCNGC	1 cut(s)	964
PleI	GAGTC	3 cut(s)	391, 901, 947
PpsI	GAGTC	3 cut(s)	391, 901, 947
Ppu21I	YACGTR	1 cut(s)	1089
Psp6I	CCWGG	4 cut(s)	301, 617, 724, 1031
PspGI	CCWGG	4 cut(s)	301, 617, 724, 1031
PspN4I	GGNNCC	4 cut(s)	461, 476, 616, 730
PspPI	GGNCC	1 cut(s)	515
PspXI	VCTCGAGB	1 cut(s)	399
PsuI	RGATCY	2 cut(s)	76, 728
RsaI	GTAC	2 cut(s)	540, 1091
RsaNI	GTAC	2 cut(s)	539, 1090
RseI	CAYNNNNRTG	1 cut(s)	325
SaqAI	TTAA	5 cut(s)	24, 111, 191, 308, 393
SatI	GCNGC	1 cut(s)	963
Sau3AI	GATC	6 cut(s)	76, 279, 712, 728, 811, 834
Sau96I	GGNCC	1 cut(s)	515
SchI	GAGTC	3 cut(s)	391, 902, 947
ScrFI	CCNGG	6 cut(s)	303, 518, 519, 619, 726, 1033
SduI	GDGCHC	2 cut(s)	479, 661
SfaNI	GCATC	1 cut(s)	256
SfcI	CTRYAG	1 cut(s)	957
Sfr274I	CTCGAG	1 cut(s)	399
SfuI	TTCGAA	1 cut(s)	427
SlaI	CTCGAG	1 cut(s)	399
SmaI	CCCGGG	1 cut(s)	519
SmiMI	CAYNNNNRTG	1 cut(s)	325
SmlI	CTYRAG	1 cut(s)	399
SmoI	CTYRAG	1 cut(s)	399
SnaBI	TACGTA	1 cut(s)	1089
SsiI	CCGC	1 cut(s)	785
SspI	AATATT	1 cut(s)	91
SspMI	CTAG	2 cut(s)	180, 494
StyD4I	CCNGG	6 cut(s)	301, 516, 517, 617, 724, 1031
StyI	CCWWGG	1 cut(s)	374
TaaI	ACNGT	1 cut(s)	940
TaiI	ACGT	1 cut(s)	1091
TaqI	TCGA	2 cut(s)	400, 427
TfiI	GAWTC	2 cut(s)	65, 522
Tru1I	TTAA	5 cut(s)	24, 111, 191, 308, 393
Tru9I	TTAA	5 cut(s)	24, 111, 191, 308, 393
TscAI	CASTG	5 cut(s)	486, 616, 796, 837, 997
TseFI	GTSAC	3 cut(s)	409, 787, 1112
TseI	GCWGC	1 cut(s)	962
Tsp45I	GTSAC	3 cut(s)	409, 787, 1112
TspMI	CCCGGG	1 cut(s)	517
TspRI	CASTG	5 cut(s)	486, 616, 796, 837, 997
VneI	GTGCAC	1 cut(s)	657
XapI	RAATTY	4 cut(s)	14, 423, 429, 1041
XceI	RCATGY	1 cut(s)	800
XhoI	CTCGAG	1 cut(s)	399
XmaI	CCCGGG	1 cut(s)	517
XspI	CTAG	2 cut(s)	180, 494

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