Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0007170

Physical Location & Seq

Genomic Coordinates Reverse (-)

9040427 .. 9044973

Gene Structure 4547 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00086910.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 975 bp

ATGTACGAGTTTATTTGTGATCGTGGAATGGAAAAGAAACGAACAGATGACAGTGAGTTGGGTCCAGTTCCTCCACTGAGATTGGACAGATTTGGGTTTTTGAAGCAGGAACCATCTCCTAACGGCTTACCCAAGGGCAGGTCAGCCTTTGAATTCGAGAGGGAGGAAAGGAGGGTTAGGAAATGGAGGAAGATGATTGGAGTTGGAGGCAGTGATTGGAAATATTATCTTAGGAGAAAACCTCATGTTGTCAAAAGGAGAATAAGAAAAGGAATTCCTGATTGTTTAAGAGGTCTGGTATGGCAGTTGATCTCTGGAAGTCGGGATCTTTTGTTGATGAACCCTGGTGTTTATGAGCAATTGGTAATTTATGAGACATCAGCTTCAGAGCTGGATATAATTCGAGATATATCGCGTACCTTCCCTTCACATGTTTTCTTCCAGCAGAGACATGGTCCTGGTCAGAGGTCTCTCTACAATGTTTTGAAGGCATACTCTGTCTTTGACAGAGATGTTGGATATGTTCAGGTAGGTCTACCACTGGTACAACAATACCTTTTCCAGTTTGACCAGTTGGTAAGGGAGCAGTTGCCAAAGCTCGGAGAGCATTTTACCCAAGAAACGATAAATCCCAGCATGTATGCAAGCCAGTGGTTCATTACTGTTTTTTCATATTCTTTTCCTTTCCATTTGGCTCTTCGAATTTGGGATGTCTTTCTCTATGAGGGTGTTAAAATCGTTTTTAAAGTTGGTTTGGCCCTATTAAAATATTGCCACGACGACTTGGTAAAATTACCCTTCGAGAAACTTATTCATGCTTTGCGTAACTTCCCCGAGGATGCAATGGACCCTGACATGTTACTTCCAATGGCTTACTCTATCAAGGTATCCAAGTGCTTGGAGGAATTGAAACAGCAGTATGATAAGAAGAATGGGAAGAACCTTCAGCCTACAGAGGATGAGAAGCCGGCTTAA

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

RabGAP-TBC

Protein Analysis

324

Amino Acids

38.06

Weight (kDa)

9.13

Isoelectric Point (pI)

46.53

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RabGAP-TBC	PF00566	94 - 176	3.2e-14	Rab-GTPase-TBC domain
RabGAP-TBC	PF00566	179 - 262	5e-25	Rab-GTPase-TBC domain
RabGap-TBC_2	PF23436	180 - 275	2.4e-23	RabGAP TBC domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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: OG0007170)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G02460 AT3G02460 AT3G02460 AT3G02460 AT5G15930
fragaria_vesca	FvH4_6g45750 FvH4_6g45750 FvH4_6g45750 FvH4_6g45750 FvH4_6g45750
malus_domestica	MD09G1080000.v1.1 MD17G1070500.v1.1
prunus_persica	Prupe.3G243700_v2.0.a1
pyrus_communis	pycom09g00670 pycom17g07040
rosa_chinensis	RchiOBHm_Chr2g0163941
rosa_laevigata	RLG00000021427
rosa_multiflora	Rmu_sc0006491.1_g000001
rosa_roxburghii	Rroxscaffold_2G00086910
rosa_rugosa	Rorug02G0505100
rosa_samantha	Rh2AG573700 Rh2BG584400 Rh2CG555300 Rh2DG593800
rosa_wichuraiana	Rw2G047440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	129
AccI	GTMKAC	1 cut(s)	535
AccII	CGCG	1 cut(s)	415
AclWI	GGATC	1 cut(s)	333
AcsI	RAATTY	3 cut(s)	152, 273, 702
AcuI	CTGAAG	2 cut(s)	369, 929
AfaI	GTAC	3 cut(s)	5, 418, 546
AfiI	CCNNNNNNNGG	2 cut(s)	138, 599
AflIII	ACRYGT	2 cut(s)	430, 855
AgsI	TTSAA	4 cut(s)	103, 152, 487, 910
AjnI	CCWGG	2 cut(s)	343, 457
AluBI	AGCT	3 cut(s)	383, 391, 598
AluI	AGCT	3 cut(s)	383, 391, 598
Alw26I	GTCTC	3 cut(s)	368, 442, 474
AlwI	GGATC	1 cut(s)	333
Ama87I	CYCGRG	1 cut(s)	833
AoxI	GGCC	1 cut(s)	756
ApoI	RAATTY	3 cut(s)	152, 273, 702
AspS9I	GGNCC	4 cut(s)	62, 455, 757, 847
AsuII	TTCGAA	1 cut(s)	700
AvaI	CYCGRG	1 cut(s)	833
AvaII	GGWCC	3 cut(s)	62, 455, 847
BarI	GAAGNNNNNNTAC	2 cut(s)	409, 441
BccI	CCATC	1 cut(s)	121
BceAI	ACGGC	1 cut(s)	139
BciT130I	CCWGG	2 cut(s)	345, 459
BciVI	GTATCC	1 cut(s)	898
BcoDI	GTCTC	3 cut(s)	368, 442, 474
BfmI	CTRYAG	1 cut(s)	951
BfuAI	ACCTGC	1 cut(s)	129
BfuI	GTATCC	1 cut(s)	898
Bme1390I	CCNGG	2 cut(s)	345, 459
Bme18I	GGWCC	3 cut(s)	62, 455, 847
BmeT110I	CYCGRG	1 cut(s)	833
BmgT120I	GGNCC	4 cut(s)	62, 455, 757, 847
BmiI	GGNNCC	3 cut(s)	63, 111, 849
BmrFI	CCNGG	2 cut(s)	345, 459
BmsI	GCATC	1 cut(s)	829
BplI	GAGNNNNNCTC	2 cut(s)	226, 258
Bpu14I	TTCGAA	1 cut(s)	700
BsaI	GGTCTC	1 cut(s)	474
BsaJI	CCNNGG	3 cut(s)	132, 343, 834
Bsc4I	CCNNNNNNNGG	2 cut(s)	138, 599
Bse118I	RCCGGY	1 cut(s)	967
Bse1I	ACTGG	5 cut(s)	65, 546, 562, 571, 649
Bse3DI	GCAATG	1 cut(s)	849
BseBI	CCWGG	2 cut(s)	345, 459
BseDI	CCNNGG	3 cut(s)	132, 343, 834
BseGI	GGATG	3 cut(s)	715, 844, 964
BseLI	CCNNNNNNNGG	2 cut(s)	138, 599
BseMI	GCAATG	1 cut(s)	849
BseMII	CTCAG	1 cut(s)	68
BseNI	ACTGG	5 cut(s)	65, 546, 562, 571, 649
BseYI	CCCAGC	1 cut(s)	632
Bsh1236I	CGCG	1 cut(s)	415
BshFI	GGCC	1 cut(s)	758
BsiHKCI	CYCGRG	1 cut(s)	833
BsiSI	CCGG	1 cut(s)	968
BslI	CCNNNNNNNGG	2 cut(s)	138, 599
BsmAI	GTCTC	3 cut(s)	368, 442, 474
BsnI	GGCC	1 cut(s)	758
Bso31I	GGTCTC	1 cut(s)	474
BsoBI	CYCGRG	1 cut(s)	833
Bsp119I	TTCGAA	1 cut(s)	700
Bsp143I	GATC	3 cut(s)	19, 309, 325
BspANI	GGCC	1 cut(s)	758
BspCNI	CTCAG	1 cut(s)	69
BspFNI	CGCG	1 cut(s)	415
BspLI	GGNNCC	3 cut(s)	63, 111, 849
BspMI	ACCTGC	1 cut(s)	129
BspPI	GGATC	1 cut(s)	333
BspQI	GCTCTTC	1 cut(s)	702
BspT104I	TTCGAA	1 cut(s)	700
BspTNI	GGTCTC	1 cut(s)	474
BsrDI	GCAATG	1 cut(s)	849
BsrFI	RCCGGY	1 cut(s)	967
BsrI	ACTGG	5 cut(s)	65, 546, 562, 571, 649
BssAI	RCCGGY	1 cut(s)	967
BssECI	CCNNGG	3 cut(s)	132, 343, 834
BssMI	GATC	3 cut(s)	19, 309, 325
BssT1I	CCWWGG	1 cut(s)	132
Bst2UI	CCWGG	2 cut(s)	345, 459
Bst4CI	ACNGT	2 cut(s)	53, 664
Bst6I	CTCTTC	1 cut(s)	702
BstBI	TTCGAA	1 cut(s)	700
BstC8I	GCNNGC	2 cut(s)	646, 969
BstDEI	CTNAG	2 cut(s)	77, 230
BstF5I	GGATG	3 cut(s)	715, 844, 964
BstFNI	CGCG	1 cut(s)	415
BstKTI	GATC	3 cut(s)	22, 312, 328
BstMAI	GTCTC	3 cut(s)	368, 442, 474
BstMBI	GATC	3 cut(s)	19, 309, 325
BstMWI	GCNNNNNNNGC	1 cut(s)	604
BstNI	CCWGG	2 cut(s)	345, 459
BstNSI	RCATGY	3 cut(s)	434, 640, 859
BstSCI	CCNGG	2 cut(s)	343, 457
BstSFI	CTRYAG	1 cut(s)	951
BstUI	CGCG	1 cut(s)	415
BstX2I	RGATCY	1 cut(s)	325
BstXI	CCANNNNNNTGG	1 cut(s)	898
BstYI	RGATCY	1 cut(s)	325
BsuI	GTATCC	1 cut(s)	898
BsuRI	GGCC	1 cut(s)	758
BtsCI	GGATG	3 cut(s)	715, 844, 964
BtsI	GCAGTG	1 cut(s)	217
BtsIMutI	CAGTG	5 cut(s)	58, 74, 217, 539, 656
BveI	ACCTGC	1 cut(s)	129
Cac8I	GCNNGC	2 cut(s)	646, 969
Cfr10I	RCCGGY	1 cut(s)	967
Cfr13I	GGNCC	4 cut(s)	62, 455, 757, 847
Csp6I	GTAC	3 cut(s)	4, 417, 545
CspCI	CAANNNNNGTGG	2 cut(s)	63, 98
CviAII	CATG	6 cut(s)	245, 431, 452, 637, 815, 856
CviQI	GTAC	3 cut(s)	4, 417, 545
DdeI	CTNAG	2 cut(s)	77, 230
DpnI	GATC	3 cut(s)	21, 311, 327
DpnII	GATC	3 cut(s)	19, 309, 325
DraI	TTTAAA	1 cut(s)	745
Eam1104I	CTCTTC	1 cut(s)	702
EarI	CTCTTC	1 cut(s)	702
Eco130I	CCWWGG	1 cut(s)	132
Eco31I	GGTCTC	1 cut(s)	474
Eco47I	GGWCC	3 cut(s)	62, 455, 847
Eco57I	CTGAAG	2 cut(s)	369, 929
Eco88I	CYCGRG	1 cut(s)	833
EcoRI	GAATTC	2 cut(s)	152, 273
EcoRII	CCWGG	2 cut(s)	343, 457
EcoT14I	CCWWGG	1 cut(s)	132
ErhI	CCWWGG	1 cut(s)	132
FaeI	CATG	6 cut(s)	248, 434, 455, 640, 818, 859
FatI	CATG	6 cut(s)	244, 430, 451, 636, 814, 855
FblI	GTMKAC	1 cut(s)	535
FokI	GGATG	3 cut(s)	722, 851, 971
GsaI	CCCAGC	1 cut(s)	636
HaeIII	GGCC	1 cut(s)	758
HapII	CCGG	1 cut(s)	968
Hin1II	CATG	6 cut(s)	248, 434, 455, 640, 818, 859
HpaII	CCGG	1 cut(s)	968
Hpy166II	GTNNAC	1 cut(s)	536
Hpy188I	TCNGA	3 cut(s)	388, 465, 602
Hpy188III	TCNNGA	6 cut(s)	157, 278, 315, 323, 404, 802
Hpy8I	GTNNAC	1 cut(s)	536
Hpy99I	CGWCG	1 cut(s)	782
HpyAV	CCTTC	5 cut(s)	430, 435, 481, 808, 953
HpyCH4III	ACNGT	2 cut(s)	53, 664
HpyCH4V	TGCA	2 cut(s)	644, 842
HpyF10VI	GCNNNNNNNGC	1 cut(s)	604
HpyF3I	CTNAG	2 cut(s)	77, 230
Hsp92II	CATG	6 cut(s)	248, 434, 455, 640, 818, 859
KroI	GCCGGC	1 cut(s)	967
KroNI	GCCGGC	1 cut(s)	969
Kzo9I	GATC	3 cut(s)	19, 309, 325
LguI	GCTCTTC	1 cut(s)	702
LmnI	GCTCC	1 cut(s)	583
LweI	GCATC	1 cut(s)	829
MaeIII	GTNAC	2 cut(s)	824, 858
MalI	GATC	3 cut(s)	21, 311, 327
MboI	GATC	3 cut(s)	19, 309, 325
MboII	GAAGA	5 cut(s)	202, 430, 689, 940, 949
MfeI	CAATTG	1 cut(s)	359
MflI	RGATCY	1 cut(s)	325
MluCI	AATT	8 cut(s)	152, 273, 359, 366, 399, 702, 791, 905
MmeI	TCCRAC	2 cut(s)	184, 496
MroNI	GCCGGC	1 cut(s)	967
MseI	TTAA	5 cut(s)	287, 732, 744, 764, 973
MspI	CCGG	1 cut(s)	968
MspR9I	CCNGG	2 cut(s)	345, 459
MunI	CAATTG	1 cut(s)	359
MvaI	CCWGG	2 cut(s)	345, 459
MvnI	CGCG	1 cut(s)	415
MwoI	GCNNNNNNNGC	1 cut(s)	604
NaeI	GCCGGC	1 cut(s)	969
NdeII	GATC	3 cut(s)	19, 309, 325
NgoMIV	GCCGGC	1 cut(s)	967
NlaIII	CATG	6 cut(s)	248, 434, 455, 640, 818, 859
NlaIV	GGNNCC	3 cut(s)	63, 111, 849
NspI	RCATGY	3 cut(s)	434, 640, 859
NspV	TTCGAA	1 cut(s)	700
PciI	ACATGT	2 cut(s)	430, 855
PciSI	GCTCTTC	1 cut(s)	702
PdiI	GCCGGC	1 cut(s)	969
PflFI	GACNNNGTC	1 cut(s)	453
PscI	ACATGT	2 cut(s)	430, 855
Psp6I	CCWGG	2 cut(s)	343, 457
PspFI	CCCAGC	1 cut(s)	632
PspGI	CCWGG	2 cut(s)	343, 457
PspN4I	GGNNCC	3 cut(s)	63, 111, 849
PspPI	GGNCC	4 cut(s)	62, 455, 757, 847
PsuI	RGATCY	1 cut(s)	325
PsyI	GACNNNGTC	1 cut(s)	453
RsaI	GTAC	3 cut(s)	5, 418, 546
RsaNI	GTAC	3 cut(s)	4, 417, 545
SapI	GCTCTTC	1 cut(s)	702
SaqAI	TTAA	5 cut(s)	287, 732, 744, 764, 973
Sau3AI	GATC	3 cut(s)	19, 309, 325
Sau96I	GGNCC	4 cut(s)	62, 455, 757, 847
ScrFI	CCNGG	2 cut(s)	345, 459
SfaNI	GCATC	1 cut(s)	829
SfcI	CTRYAG	1 cut(s)	951
SfuI	TTCGAA	1 cut(s)	700
SinI	GGWCC	3 cut(s)	62, 455, 847
Sse9I	AATT	8 cut(s)	152, 273, 359, 366, 399, 702, 791, 905
SspI	AATATT	2 cut(s)	224, 770
StyD4I	CCNGG	2 cut(s)	343, 457
StyI	CCWWGG	1 cut(s)	132
TaaI	ACNGT	2 cut(s)	53, 664
TaqI	TCGA	4 cut(s)	156, 403, 700, 801
TasI	AATT	8 cut(s)	152, 273, 359, 366, 399, 702, 791, 905
Tru1I	TTAA	5 cut(s)	287, 732, 744, 764, 973
Tru9I	TTAA	5 cut(s)	287, 732, 744, 764, 973
TscAI	CASTG	5 cut(s)	58, 81, 217, 546, 656
TspDTI	ATGAA	4 cut(s)	353, 646, 660, 803
TspRI	CASTG	5 cut(s)	58, 81, 217, 546, 656
Tth111I	GACNNNGTC	1 cut(s)	453
VpaK11BI	GGWCC	3 cut(s)	62, 455, 847
XapI	RAATTY	3 cut(s)	152, 273, 702
XceI	RCATGY	3 cut(s)	434, 640, 859
XcmI	CCANNNNNNNNNTGG	1 cut(s)	449
XmiI	GTMKAC	1 cut(s)	535

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