Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000006

Orthogroup ID

OG0008556

Physical Location & Seq

Genomic Coordinates Reverse (-)

32874505 .. 32878171

Gene Structure 3667 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug06G0206100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1020 bp

ATGGCACCTACTCGTGAGTTTGCGCAGCAGATTGAGGAAGAGACTGTGAAGTTTGCGCATTACTTGGGTATTAAAGTGGTTTCTATTGTTGGTGGGCAGTCAATTGAGGAACAGGGTTTTAAGATTAGGCAAGGATGTGAGGTTGTTATTGCTACGCCGGGGCGGTTGATTGATTGTTTGGAGAGGCGTTATGCTGTTTTGAATCAGTGCAATTATGTTGTTCTTAATGAGGCCGATAGGATGATTGATATGGGGTTTGAGCCGCAGGTTGTAGGTGTTTTGGATGCAATGCCTTCCAGCAATTTCAAACCTGAGAATGAGGATGAAGAGCTTGATGACAAGAAGATTTACAGAACCACTTATATGTTTAGTGCCACCATGCCTCCTGTGGTGGAGCGCCTTGCTCAGAAGTATTTGAGGAATCCTGTTGTGGTTACAATTGGCAGAGCTGGAAAGACCACTGATTTGATCACTCAGAATGTTGTCTGGAGTAAGGATGCAGAGAAGTTTGAGAGGCTAAAGAGATTGCTTGACGAACTTGGTGATAAGACTGCTATTGTGTTTGTTAACACCAAGAAAACTGCTGATTATGTAGCCAAGAGTTTGGATAAGAATGGATATCGTGTGACCACTTTGCATGGGGGGAAATCACAAGACCAGAGGGAAATTAGCCTTGAAGATTTTAGGACCAGGAGATACAATGTCCTTGTTGCAACGGATGTTGCTGGACGTGGTATTGATATACCTGATGTGGCCCATGTAATTAATTATGATATGCCCTCAAGTATTGAAACATACACCCATCGTATTGAACGTACTGGACGTGCAGGGAAGACTGGTGTAGACACATCATTGTTGACAATTCACGACACTGATGTCTTCTATGATCTCAAGCAGATGCTCATTCAGAGTAACAGTCATGTTCCTCCTGAACTGGCAAAACATGAAGCCTCGAAGTTCAAGCCTGGTTCTATTCCTGATAGGCCACCTAGACGTAATGACACTATCTTTACGCATTGA

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

DUF4378 VARLMGL

Protein Analysis

339

Amino Acids

38.38

Weight (kDa)

6.28

Isoelectric Point (pI)

38.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	1 - 133	1.4e-24	DEAD/DEAH box helicase
Helicase_C	PF00271	168 - 277	1.1e-34	Helicase conserved C-terminal 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: OG0008556)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G63430 AT3G63430
fragaria_vesca	FvH4_2g22810 FvH4_2g22810 FvH4_2g22810
malus_domestica	MD03G1256300.v1.1 MD11G1277100.v1.1
prunus_persica	Prupe.8G233400_v2.0.a1
pyrus_communis	pycom03g20300 pycom03g20310 pycom11g24510
rosa_chinensis	RchiOBHm_Chr6g0289731
rosa_laevigata	RLG00000012272
rosa_multiflora	Rmu_co8011000.1_g000001 Rmu_sc0005640.1_g000024
rosa_roxburghii	Rroxscaffold_7G00177610 Rroxscaffold_7G00178110
rosa_rugosa	Rorug06G0206100
rosa_samantha	Rh6AG318000 Rh6BG325300 Rh6CG330900 Rh6DG316600
rosa_wichuraiana	Rw6G027400

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	875
Acc16I	TGCGCA	2 cut(s)	24, 57
Acc36I	ACCTGC	1 cut(s)	256
AccB1I	GGYRCC	1 cut(s)	4
AccI	GTMKAC	1 cut(s)	843
AciI	CCGC	2 cut(s)	163, 263
AfaI	GTAC	1 cut(s)	817
AgsI	TTSAA	6 cut(s)	202, 307, 677, 791, 812, 961
AjiI	CACGTC	2 cut(s)	731, 824
AjnI	CCWGG	2 cut(s)	689, 964
AluBI	AGCT	2 cut(s)	331, 449
AluI	AGCT	2 cut(s)	331, 449
Alw26I	GTCTC	1 cut(s)	35
AoxI	GGCC	3 cut(s)	231, 753, 983
ApeKI	GCWGC	1 cut(s)	25
ArsI	GACNNNNNNTTYG	2 cut(s)	448, 480
AseI	ATTAAT	1 cut(s)	765
AspLEI	GCGC	3 cut(s)	25, 58, 399
AspS9I	GGNCC	2 cut(s)	687, 754
AsuC2I	CCSGG	1 cut(s)	159
AsuHPI	GGTGA	1 cut(s)	554
AvaII	GGWCC	1 cut(s)	687
BanI	GGYRCC	1 cut(s)	4
BauI	CACGAG	1 cut(s)	12
BbsI	GAAGAC	2 cut(s)	839, 871
BbvI	GCAGC	1 cut(s)	37
BccI	CCATC	1 cut(s)	810
BciT130I	CCWGG	2 cut(s)	691, 966
BclI	TGATCA	1 cut(s)	468
BcnI	CCSGG	1 cut(s)	159
BcoDI	GTCTC	1 cut(s)	35
BfaI	CTAG	1 cut(s)	990
BfoI	RGCGCY	1 cut(s)	400
BfuAI	ACCTGC	1 cut(s)	256
BisI	GCNGC	2 cut(s)	26, 263
BlsI	GCNGC	2 cut(s)	27, 264
Bme1390I	CCNGG	3 cut(s)	159, 691, 966
Bme18I	GGWCC	1 cut(s)	687
BmgBI	CACGTC	2 cut(s)	731, 824
BmgT120I	GGNCC	2 cut(s)	687, 754
BmiI	GGNNCC	1 cut(s)	6
BmrFI	CCNGG	3 cut(s)	159, 691, 966
BmsI	GCATC	3 cut(s)	274, 487, 888
BpiI	GAAGAC	2 cut(s)	839, 871
BpmI	CTGGAG	1 cut(s)	508
BpuEI	CTTGAG	2 cut(s)	766, 875
BpuMI	CCSGG	1 cut(s)	159
BsaJI	CCNNGG	1 cut(s)	158
BsaXI	ACNNNNNCTCC	2 cut(s)	367, 397
Bse1I	ACTGG	3 cut(s)	823, 841, 939
Bse3DI	GCAATG	1 cut(s)	294
BseBI	CCWGG	2 cut(s)	691, 966
BseDI	CCNNGG	1 cut(s)	158
BseGI	GGATG	6 cut(s)	140, 246, 289, 328, 502, 724
BseMI	GCAATG	1 cut(s)	294
BseMII	CTCAG	3 cut(s)	303, 419, 488
BseNI	ACTGG	3 cut(s)	823, 841, 939
BseXI	GCAGC	1 cut(s)	37
BsgI	GTGCAG	1 cut(s)	846
BshFI	GGCC	3 cut(s)	233, 755, 985
BshNI	GGYRCC	1 cut(s)	4
BsiSI	CCGG	1 cut(s)	158
BsmAI	GTCTC	1 cut(s)	35
BsnI	GGCC	3 cut(s)	233, 755, 985
Bsp143I	GATC	2 cut(s)	468, 886
BspACI	CCGC	2 cut(s)	163, 263
BspANI	GGCC	3 cut(s)	233, 755, 985
BspCNI	CTCAG	3 cut(s)	304, 418, 487
BspLI	GGNNCC	1 cut(s)	6
BspMI	ACCTGC	1 cut(s)	256
BspQI	GCTCTTC	1 cut(s)	321
BspT107I	GGYRCC	1 cut(s)	4
BsrDI	GCAATG	1 cut(s)	294
BsrI	ACTGG	3 cut(s)	823, 841, 939
BssECI	CCNNGG	1 cut(s)	158
BssMI	GATC	2 cut(s)	468, 886
BssSI	CACGAG	1 cut(s)	12
Bst2BI	CACGAG	1 cut(s)	12
Bst2UI	CCWGG	2 cut(s)	691, 966
Bst4CI	ACNGT	2 cut(s)	46, 917
Bst6I	CTCTTC	2 cut(s)	33, 321
BstDEI	CTNAG	3 cut(s)	312, 405, 474
BstF5I	GGATG	6 cut(s)	140, 246, 289, 328, 502, 724
BstH2I	RGCGCY	1 cut(s)	400
BstHHI	GCGC	3 cut(s)	25, 58, 399
BstKTI	GATC	2 cut(s)	471, 889
BstMAI	GTCTC	1 cut(s)	35
BstMBI	GATC	2 cut(s)	468, 886
BstNI	CCWGG	2 cut(s)	691, 966
BstSCI	CCNGG	3 cut(s)	157, 689, 964
BstV1I	GCAGC	1 cut(s)	37
BstV2I	GAAGAC	2 cut(s)	839, 871
BstXI	CCANNNNNNTGG	1 cut(s)	604
BsuRI	GGCC	3 cut(s)	233, 755, 985
BtrI	CACGTC	2 cut(s)	731, 824
BtsCI	GGATG	6 cut(s)	140, 246, 289, 328, 502, 724
BtsIMutI	CAGTG	3 cut(s)	212, 459, 870
BveI	ACCTGC	1 cut(s)	256
CfoI	GCGC	3 cut(s)	25, 58, 399
Cfr13I	GGNCC	2 cut(s)	687, 754
Csp6I	GTAC	1 cut(s)	816
CviAII	CATG	5 cut(s)	379, 638, 758, 920, 944
CviQI	GTAC	1 cut(s)	816
DdeI	CTNAG	3 cut(s)	312, 405, 474
DpnI	GATC	2 cut(s)	470, 888
DpnII	GATC	2 cut(s)	468, 886
DrdI	GACNNNNNNGTC	1 cut(s)	875
DseDI	GACNNNNNNGTC	1 cut(s)	875
Eam1104I	CTCTTC	2 cut(s)	33, 321
EarI	CTCTTC	2 cut(s)	33, 321
Eco32I	GATATC	1 cut(s)	620
Eco47I	GGWCC	1 cut(s)	687
EcoRII	CCWGG	2 cut(s)	689, 964
EcoRV	GATATC	1 cut(s)	620
FaeI	CATG	5 cut(s)	382, 641, 761, 923, 947
FatI	CATG	5 cut(s)	378, 637, 757, 919, 943
FbaI	TGATCA	1 cut(s)	468
FblI	GTMKAC	1 cut(s)	843
Fnu4HI	GCNGC	2 cut(s)	26, 263
FokI	GGATG	6 cut(s)	147, 253, 296, 335, 509, 731
Fsp4HI	GCNGC	2 cut(s)	26, 263
FspBI	CTAG	1 cut(s)	990
FspI	TGCGCA	2 cut(s)	24, 57
GlaI	GCGC	3 cut(s)	24, 57, 398
GluI	GCNGC	2 cut(s)	26, 263
GsuI	CTGGAG	1 cut(s)	508
HaeII	RGCGCY	1 cut(s)	400
HaeIII	GGCC	3 cut(s)	233, 755, 985
HapII	CCGG	1 cut(s)	158
HhaI	GCGC	3 cut(s)	25, 58, 399
Hin1II	CATG	5 cut(s)	382, 641, 761, 923, 947
Hin6I	GCGC	3 cut(s)	23, 56, 397
HinP1I	GCGC	3 cut(s)	23, 56, 397
HincII	GTYRAC	2 cut(s)	568, 858
HindII	GTYRAC	2 cut(s)	568, 858
HinfI	GANTC	2 cut(s)	202, 421
HpaI	GTTAAC	1 cut(s)	568
HpaII	CCGG	1 cut(s)	158
HphI	GGTGA	1 cut(s)	554
Hpy166II	GTNNAC	3 cut(s)	568, 844, 858
Hpy188I	TCNGA	3 cut(s)	408, 477, 909
Hpy188III	TCNNGA	5 cut(s)	14, 487, 866, 929, 977
Hpy8I	GTNNAC	3 cut(s)	568, 844, 858
HpyAV	CCTTC	1 cut(s)	303
HpyCH4III	ACNGT	2 cut(s)	46, 917
HpyCH4IV	ACGT	4 cut(s)	730, 814, 823, 994
HpyCH4V	TGCA	6 cut(s)	210, 287, 500, 637, 713, 827
HpyF3I	CTNAG	3 cut(s)	312, 405, 474
HpySE526I	ACGT	4 cut(s)	730, 814, 823, 994
Hsp92II	CATG	5 cut(s)	382, 641, 761, 923, 947
HspAI	GCGC	3 cut(s)	23, 56, 397
Ksp22I	TGATCA	1 cut(s)	468
KspAI	GTTAAC	1 cut(s)	568
Kzo9I	GATC	2 cut(s)	468, 886
LguI	GCTCTTC	1 cut(s)	321
LmnI	GCTCC	1 cut(s)	394
Lsp1109I	GCAGC	1 cut(s)	37
LweI	GCATC	3 cut(s)	274, 487, 888
MaeI	CTAG	1 cut(s)	990
MaeII	ACGT	4 cut(s)	730, 814, 823, 994
MaeIII	GTNAC	3 cut(s)	433, 625, 911
MalI	GATC	2 cut(s)	470, 888
MboI	GATC	2 cut(s)	468, 886
MboII	GAAGA	6 cut(s)	50, 338, 355, 689, 844, 871
MfeI	CAATTG	2 cut(s)	102, 438
MluCI	AATT	8 cut(s)	102, 211, 301, 438, 666, 762, 766, 861
MseI	TTAA	5 cut(s)	72, 120, 225, 567, 765
MslI	CAYNNNNRTG	1 cut(s)	362
MspI	CCGG	1 cut(s)	158
MspR9I	CCNGG	3 cut(s)	159, 691, 966
MunI	CAATTG	2 cut(s)	102, 438
MvaI	CCWGG	2 cut(s)	691, 966
NciI	CCSGG	1 cut(s)	159
NdeII	GATC	2 cut(s)	468, 886
NlaIII	CATG	5 cut(s)	382, 641, 761, 923, 947
NlaIV	GGNNCC	1 cut(s)	6
NmuCI	GTSAC	1 cut(s)	625
NsbI	TGCGCA	2 cut(s)	24, 57
PciSI	GCTCTTC	1 cut(s)	321
PcsI	WCGNNNNNNNCGW	2 cut(s)	811, 820
PfeI	GAWTC	2 cut(s)	202, 421
PkrI	GCNGC	2 cut(s)	27, 264
PshBI	ATTAAT	1 cut(s)	765
Psp6I	CCWGG	2 cut(s)	689, 964
PspGI	CCWGG	2 cut(s)	689, 964
PspN4I	GGNNCC	1 cut(s)	6
PspPI	GGNCC	2 cut(s)	687, 754
RsaI	GTAC	1 cut(s)	817
RsaNI	GTAC	1 cut(s)	816
RseI	CAYNNNNRTG	1 cut(s)	362
SapI	GCTCTTC	1 cut(s)	321
SaqAI	TTAA	5 cut(s)	72, 120, 225, 567, 765
SatI	GCNGC	2 cut(s)	26, 263
Sau3AI	GATC	2 cut(s)	468, 886
Sau96I	GGNCC	2 cut(s)	687, 754
ScrFI	CCNGG	3 cut(s)	159, 691, 966
SfaNI	GCATC	3 cut(s)	274, 487, 888
SinI	GGWCC	1 cut(s)	687
SmiMI	CAYNNNNRTG	1 cut(s)	362
SmlI	CTYRAG	2 cut(s)	781, 890
SmoI	CTYRAG	2 cut(s)	781, 890
Sse9I	AATT	8 cut(s)	102, 211, 301, 438, 666, 762, 766, 861
SsiI	CCGC	2 cut(s)	163, 263
SspMI	CTAG	1 cut(s)	990
StyD4I	CCNGG	3 cut(s)	157, 689, 964
TaaI	ACNGT	2 cut(s)	46, 917
TaiI	ACGT	4 cut(s)	733, 817, 826, 997
TaqI	TCGA	1 cut(s)	953
TasI	AATT	8 cut(s)	102, 211, 301, 438, 666, 762, 766, 861
TauI	GCSGC	1 cut(s)	265
TfiI	GAWTC	2 cut(s)	202, 421
Tru1I	TTAA	5 cut(s)	72, 120, 225, 567, 765
Tru9I	TTAA	5 cut(s)	72, 120, 225, 567, 765
TscAI	CASTG	3 cut(s)	212, 466, 877
TseFI	GTSAC	1 cut(s)	625
TseI	GCWGC	1 cut(s)	25
Tsp45I	GTSAC	1 cut(s)	625
TspDTI	ATGAA	2 cut(s)	339, 960
TspGWI	ACGGA	1 cut(s)	731
TspRI	CASTG	3 cut(s)	212, 466, 877
VpaK11BI	GGWCC	1 cut(s)	687
VspI	ATTAAT	1 cut(s)	765
XcmI	CCANNNNNNNNNTGG	1 cut(s)	385
XmiI	GTMKAC	1 cut(s)	843
XspI	CTAG	1 cut(s)	990

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