Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0005903

Physical Location & Seq

Genomic Coordinates Forward (+)

53391883 .. 53394667

Gene Structure 2785 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0361300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 942 bp

ATGTCTCTCTTGAACCAGCTCTTCAATAGAGGCGTTTTCGGCACAAAATGCAAAACATGTCTGAACTTGGCAATTTCGCGGATTAAGTTGCTGCAAAACAAGAGAGATATGCAGCTTAAACATATGCGCAAGGAGATTGCTCAGTTTTTGCAGGCTGGCCAAGAAGCAATAGCTCGAATTCGGGTGGAGCATGTTATACGAGAGCAAAACATATGGGCTGCTTATGAGATATTGGAGCTTTTCTGTGAATTTGTCCTCGCACGGGTTCCCATTATTGAGAGCCAAAAGGATTGCCCACCAGAACTACGAGAGGCTATATCAAGCATAATTTTTTCTGCCCCAAGATGTTCAGAAGTTCCGGATTTATTGCAGATCAAGAATTTGTTTACAGCAAAATATGGGAAGGAATTTATAGCATCTGCCTCTGAGCTTCGTCCTGATTCTGGTGTCAACCGAACTATAATTGAAAAGCTTTCAGTTAGTGCTCCCTCTGGAGAGGCAAGGCTCAAGGTATTGAAGGAAATCGCACAAGAGTACAATCTGAATTGGGATTCTTCTAGCACGGAAGCGGAATTCAGTAGAAAACATGAAGATCTGCTGGGTGGATCCAAGCACATAAGTGGTGGAGCTGCACTGCCTTCTCGAGTTCCTGCAAATCAAGTGTCTTTTAGTTCTCCGCCTTCTAATGGTGCACATTATATTCAGACCGCAGAGATTAAACCAGAACCTCAACAACACATTCCTGCTCCAAGATCTTTAATTCAGACGCATGTGTCAAGTACCGATGAGATTCAGCCATCAATTAATAATGATGCAGTACCAGTTAGGGAAACAAGACCACAATCATCTGTGATCCTGGAGAAAGCTCGAGCTGCCATTGCGTCTGCTGAACGCGCATGTGCTGCTGCCCGTTCAGCTGCTGAGCTGGTTAAGTCATTATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0008150 GO:0009791 GO:0009888 GO:0009889 GO:0009960 GO:0010154 GO:0010468 GO:0010556 GO:0010817 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0032879 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051049 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0065008 GO:0080090 GO:0140110 GO:1903506 GO:2000012 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko04010 ko04011 ko04013 ko04022 ko04111 ko04371 ko04921 ko05202 ko05418 map04010 map04011 map04013 map04022 map04111 map04371 map04921 map05202 map05418

Pfam Domains

Protein Families

SRF-TF

Protein Analysis

313

Amino Acids

34.6

Weight (kDa)

8.69

Isoelectric Point (pI)

58.29

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ist1	PF03398	18 - 181	8.5e-66	Regulator of Vps4 activity in the MVB pathway

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0005903)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g40280 FvH4_4g35860
malus_domestica	MD02G1221000.v1.1 MD15G1322300.v1.1
prunus_persica	Prupe.2G120200_v2.0.a1
pyrus_communis	pycom02g18540
rosa_chinensis	RchiOBHm_Chr3g0480601 RchiOBHm_Chr4g0445441 RchiOBHm_Chr6g0300471
rosa_laevigata	RLG00000005740 RLG00000011335 RLG00000012216
rosa_multiflora	Rmu_sc0001476.1_g000003 Rmu_sc0001509.1_g000008
rosa_roxburghii	Rroxscaffold_5G00385950 Rroxscaffold_7G00167760
rosa_rugosa	Rorug04G0361300 Rorug06G0296300
rosa_samantha	Rh4AG422800 Rh4BG434800 Rh4CG449700 Rh4DG431000 Rh6AG408900 Rh6BG416200 Rh6CG423700 Rh6DG409400
rosa_wichuraiana	Rw4G036260 Rw6G035780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	772
Acc16I	TGCGCA	1 cut(s)	128
AccII	CGCG	2 cut(s)	79, 894
AccIII	TCCGGA	1 cut(s)	358
AciI	CCGC	4 cut(s)	79, 569, 677, 708
AclWI	GGATC	3 cut(s)	600, 613, 847
AcoI	YGGCCR	1 cut(s)	157
AcsI	RAATTY	5 cut(s)	177, 248, 379, 407, 572
AfaI	GTAC	3 cut(s)	536, 781, 819
AfiI	CCNNNNNNNGG	3 cut(s)	262, 443, 686
AflIII	ACRYGT	1 cut(s)	56
AgsI	TTSAA	4 cut(s)	13, 25, 467, 517
AjnI	CCWGG	1 cut(s)	855
AleI	CACNNNNGTG	1 cut(s)	618
Alw21I	GWGCWC	2 cut(s)	487, 694
Alw26I	GTCTC	1 cut(s)	9
Alw44I	GTGCAC	1 cut(s)	690
AlwI	GGATC	3 cut(s)	600, 613, 847
AlwNI	CAGNNNCTG	1 cut(s)	920
Ama87I	CYCGRG	2 cut(s)	642, 867
Aor13HI	TCCGGA	1 cut(s)	358
AoxI	GGCC	1 cut(s)	157
ApaLI	GTGCAC	1 cut(s)	690
ApeKI	GCWGC	8 cut(s)	91, 112, 218, 629, 872, 902, 905, 917
ApoI	RAATTY	5 cut(s)	177, 248, 379, 407, 572
ArsI	GACNNNNNNTTYG	2 cut(s)	647, 679
AseI	ATTAAT	1 cut(s)	804
AspLEI	GCGC	2 cut(s)	129, 896
AvaI	CYCGRG	2 cut(s)	642, 867
BaeGI	GKGCMC	1 cut(s)	694
BalI	TGGCCA	1 cut(s)	159
BamHI	GGATCC	1 cut(s)	605
Bbv12I	GWGCWC	2 cut(s)	487, 694
BbvI	GCAGC	8 cut(s)	78, 124, 205, 616, 859, 889, 892, 904
BccI	CCATC	1 cut(s)	805
BciT130I	CCWGG	1 cut(s)	857
BcoDI	GTCTC	1 cut(s)	9
BfaI	CTAG	1 cut(s)	558
BglII	AGATCT	2 cut(s)	592, 752
BisI	GCNGC	8 cut(s)	92, 113, 219, 630, 873, 903, 906, 918
BlpI	GCTNAGC	1 cut(s)	921
BlsI	GCNGC	8 cut(s)	93, 114, 220, 631, 874, 904, 907, 919
Bme1390I	CCNGG	1 cut(s)	857
BmeT110I	CYCGRG	2 cut(s)	642, 867
BmiI	GGNNCC	2 cut(s)	267, 607
BmrFI	CCNGG	1 cut(s)	857
BmsI	GCATC	2 cut(s)	425, 802
BpmI	CTGGAG	2 cut(s)	513, 878
Bpu1102I	GCTNAGC	1 cut(s)	921
BpuEI	CTTGAG	1 cut(s)	491
BsaWI	WCCGGW	1 cut(s)	358
Bsc4I	CCNNNNNNNGG	3 cut(s)	262, 443, 686
Bse1I	ACTGG	1 cut(s)	821
Bse3DI	GCAATG	1 cut(s)	876
BseAI	TCCGGA	1 cut(s)	358
BseBI	CCWGG	1 cut(s)	857
BseLI	CCNNNNNNNGG	3 cut(s)	262, 443, 686
BseMI	GCAATG	1 cut(s)	876
BseMII	CTCAG	3 cut(s)	155, 417, 912
BseNI	ACTGG	1 cut(s)	821
BseSI	GKGCMC	1 cut(s)	694
BseXI	GCAGC	8 cut(s)	78, 124, 205, 616, 859, 889, 892, 904
BseYI	CCCAGC	1 cut(s)	598
BsgI	GTGCAG	1 cut(s)	615
Bsh1236I	CGCG	2 cut(s)	79, 894
BshFI	GGCC	1 cut(s)	159
BsiHKAI	GWGCWC	2 cut(s)	487, 694
BsiHKCI	CYCGRG	2 cut(s)	642, 867
BsiSI	CCGG	1 cut(s)	359
BslI	CCNNNNNNNGG	3 cut(s)	262, 443, 686
BsmAI	GTCTC	1 cut(s)	9
BsnI	GGCC	1 cut(s)	159
BsoBI	CYCGRG	2 cut(s)	642, 867
Bsp1286I	GDGCHC	2 cut(s)	487, 694
Bsp13I	TCCGGA	1 cut(s)	358
Bsp143I	GATC	5 cut(s)	372, 592, 605, 752, 852
Bsp1720I	GCTNAGC	1 cut(s)	921
BspACI	CCGC	4 cut(s)	79, 569, 677, 708
BspANI	GGCC	1 cut(s)	159
BspCNI	CTCAG	3 cut(s)	154, 418, 913
BspEI	TCCGGA	1 cut(s)	358
BspFNI	CGCG	2 cut(s)	79, 894
BspLI	GGNNCC	2 cut(s)	267, 607
BspPI	GGATC	3 cut(s)	600, 613, 847
BspQI	GCTCTTC	1 cut(s)	26
BsrDI	GCAATG	1 cut(s)	876
BsrI	ACTGG	1 cut(s)	821
BssMI	GATC	5 cut(s)	372, 592, 605, 752, 852
Bst2UI	CCWGG	1 cut(s)	857
Bst6I	CTCTTC	1 cut(s)	26
BstAPI	GCANNNNNTGC	2 cut(s)	48, 902
BstC8I	GCNNGC	2 cut(s)	153, 157
BstDEI	CTNAG	3 cut(s)	141, 426, 921
BstFNI	CGCG	2 cut(s)	79, 894
BstHHI	GCGC	2 cut(s)	129, 896
BstKTI	GATC	5 cut(s)	375, 595, 608, 755, 855
BstMAI	GTCTC	1 cut(s)	9
BstMBI	GATC	5 cut(s)	372, 592, 605, 752, 852
BstMWI	GCNNNNNNNGC	7 cut(s)	39, 48, 872, 878, 893, 902, 914
BstNI	CCWGG	1 cut(s)	857
BstNSI	RCATGY	4 cut(s)	60, 194, 773, 900
BstSCI	CCNGG	1 cut(s)	855
BstSLI	GKGCMC	1 cut(s)	694
BstUI	CGCG	2 cut(s)	79, 894
BstV1I	GCAGC	8 cut(s)	78, 124, 205, 616, 859, 889, 892, 904
BstX2I	RGATCY	3 cut(s)	592, 605, 752
BstYI	RGATCY	3 cut(s)	592, 605, 752
BsuRI	GGCC	1 cut(s)	159
BtsI	GCAGTG	1 cut(s)	632
BtsIMutI	CAGTG	1 cut(s)	632
Cac8I	GCNNGC	2 cut(s)	153, 157
CaiI	CAGNNNCTG	1 cut(s)	920
CfoI	GCGC	2 cut(s)	129, 896
CseI	GACGC	2 cut(s)	775, 870
Csp6I	GTAC	3 cut(s)	535, 780, 818
CviAII	CATG	5 cut(s)	57, 191, 587, 770, 897
CviQI	GTAC	3 cut(s)	535, 780, 818
DdeI	CTNAG	3 cut(s)	141, 426, 921
DpnI	GATC	5 cut(s)	374, 594, 607, 754, 854
DpnII	GATC	5 cut(s)	372, 592, 605, 752, 852
DrdI	GACNNNNNNGTC	1 cut(s)	772
DseDI	GACNNNNNNGTC	1 cut(s)	772
EaeI	YGGCCR	1 cut(s)	157
Eam1104I	CTCTTC	1 cut(s)	26
EarI	CTCTTC	1 cut(s)	26
EciI	GGCGGA	1 cut(s)	666
Eco88I	CYCGRG	2 cut(s)	642, 867
EcoRI	GAATTC	2 cut(s)	177, 572
EcoRII	CCWGG	1 cut(s)	855
FaeI	CATG	5 cut(s)	60, 194, 590, 773, 900
FatI	CATG	5 cut(s)	56, 190, 586, 769, 896
FauNDI	CATATG	2 cut(s)	123, 212
Fnu4HI	GCNGC	8 cut(s)	92, 113, 219, 630, 873, 903, 906, 918
Fsp4HI	GCNGC	8 cut(s)	92, 113, 219, 630, 873, 903, 906, 918
FspBI	CTAG	1 cut(s)	558
FspI	TGCGCA	1 cut(s)	128
GlaI	GCGC	2 cut(s)	128, 895
GluI	GCNGC	8 cut(s)	92, 113, 219, 630, 873, 903, 906, 918
GsaI	CCCAGC	1 cut(s)	602
GsuI	CTGGAG	2 cut(s)	513, 878
HaeIII	GGCC	1 cut(s)	159
HapII	CCGG	1 cut(s)	359
HgaI	GACGC	2 cut(s)	775, 870
HhaI	GCGC	2 cut(s)	129, 896
Hin1II	CATG	5 cut(s)	60, 194, 590, 773, 900
Hin6I	GCGC	2 cut(s)	127, 894
HinP1I	GCGC	2 cut(s)	127, 894
HincII	GTYRAC	1 cut(s)	451
HindII	GTYRAC	1 cut(s)	451
HindIII	AAGCTT	1 cut(s)	470
HinfI	GANTC	3 cut(s)	440, 551, 790
HpaII	CCGG	1 cut(s)	359
Hpy166II	GTNNAC	3 cut(s)	387, 451, 692
Hpy188I	TCNGA	6 cut(s)	63, 352, 427, 543, 705, 765
Hpy188III	TCNNGA	6 cut(s)	10, 359, 376, 437, 492, 642
Hpy8I	GTNNAC	3 cut(s)	387, 451, 692
HpyAV	CCTTC	4 cut(s)	397, 511, 648, 690
HpyCH4V	TGCA	9 cut(s)	51, 94, 112, 151, 370, 632, 653, 692, 815
HpyF10VI	GCNNNNNNNGC	7 cut(s)	39, 48, 872, 878, 893, 902, 914
HpyF3I	CTNAG	3 cut(s)	141, 426, 921
Hsp92II	CATG	5 cut(s)	60, 194, 590, 773, 900
HspAI	GCGC	2 cut(s)	127, 894
Kpn2I	TCCGGA	1 cut(s)	358
Kzo9I	GATC	5 cut(s)	372, 592, 605, 752, 852
LguI	GCTCTTC	1 cut(s)	26
LmnI	GCTCC	5 cut(s)	187, 235, 490, 626, 751
Lsp1109I	GCAGC	8 cut(s)	78, 124, 205, 616, 859, 889, 892, 904
LweI	GCATC	2 cut(s)	425, 802
MaeI	CTAG	1 cut(s)	558
MalI	GATC	5 cut(s)	374, 594, 607, 754, 854
MboI	GATC	5 cut(s)	372, 592, 605, 752, 852
MboII	GAAGA	3 cut(s)	13, 546, 602
MflI	RGATCY	3 cut(s)	592, 605, 752
MhlI	GDGCHC	2 cut(s)	487, 694
MlsI	TGGCCA	1 cut(s)	159
MluNI	TGGCCA	1 cut(s)	159
MnlI	CCTC	7 cut(s)	23, 266, 304, 433, 490, 499, 738
Mox20I	TGGCCA	1 cut(s)	159
MroI	TCCGGA	1 cut(s)	358
MscI	TGGCCA	1 cut(s)	159
MseI	TTAA	6 cut(s)	84, 117, 717, 758, 804, 930
MslI	CAYNNNNRTG	1 cut(s)	618
Msp20I	TGGCCA	1 cut(s)	159
MspA1I	CMGCKG	1 cut(s)	917
MspI	CCGG	1 cut(s)	359
MspR9I	CCNGG	1 cut(s)	857
MvaI	CCWGG	1 cut(s)	857
MvnI	CGCG	2 cut(s)	79, 894
MwoI	GCNNNNNNNGC	7 cut(s)	39, 48, 872, 878, 893, 902, 914
NdeI	CATATG	2 cut(s)	123, 212
NdeII	GATC	5 cut(s)	372, 592, 605, 752, 852
NlaIII	CATG	5 cut(s)	60, 194, 590, 773, 900
NlaIV	GGNNCC	2 cut(s)	267, 607
NsbI	TGCGCA	1 cut(s)	128
NspI	RCATGY	4 cut(s)	60, 194, 773, 900
OliI	CACNNNNGTG	1 cut(s)	618
PaeR7I	CTCGAG	2 cut(s)	642, 867
PciI	ACATGT	1 cut(s)	56
PciSI	GCTCTTC	1 cut(s)	26
PfeI	GAWTC	3 cut(s)	440, 551, 790
PfoI	TCCNGGA	1 cut(s)	855
PkrI	GCNGC	8 cut(s)	93, 114, 220, 631, 874, 904, 907, 919
PscI	ACATGT	1 cut(s)	56
PshBI	ATTAAT	1 cut(s)	804
Psp6I	CCWGG	1 cut(s)	855
PspFI	CCCAGC	1 cut(s)	598
PspGI	CCWGG	1 cut(s)	855
PspN4I	GGNNCC	2 cut(s)	267, 607
PspXI	VCTCGAGB	1 cut(s)	867
PstNI	CAGNNNCTG	1 cut(s)	920
PsuI	RGATCY	3 cut(s)	592, 605, 752
PvuII	CAGCTG	1 cut(s)	917
RsaI	GTAC	3 cut(s)	536, 781, 819
RsaNI	GTAC	3 cut(s)	535, 780, 818
RseI	CAYNNNNRTG	1 cut(s)	618
SapI	GCTCTTC	1 cut(s)	26
SaqAI	TTAA	6 cut(s)	84, 117, 717, 758, 804, 930
SatI	GCNGC	8 cut(s)	92, 113, 219, 630, 873, 903, 906, 918
Sau3AI	GATC	5 cut(s)	372, 592, 605, 752, 852
ScrFI	CCNGG	1 cut(s)	857
SduI	GDGCHC	2 cut(s)	487, 694
SfaNI	GCATC	2 cut(s)	425, 802
Sfr274I	CTCGAG	2 cut(s)	642, 867
SlaI	CTCGAG	2 cut(s)	642, 867
SmiMI	CAYNNNNRTG	1 cut(s)	618
SmlI	CTYRAG	3 cut(s)	506, 642, 867
SmoI	CTYRAG	3 cut(s)	506, 642, 867
SsiI	CCGC	4 cut(s)	79, 569, 677, 708
SspMI	CTAG	1 cut(s)	558
StyD4I	CCNGG	1 cut(s)	855
TaqI	TCGA	3 cut(s)	175, 643, 868
TatI	WGTACW	1 cut(s)	534
TfiI	GAWTC	3 cut(s)	440, 551, 790
Tru1I	TTAA	6 cut(s)	84, 117, 717, 758, 804, 930
Tru9I	TTAA	6 cut(s)	84, 117, 717, 758, 804, 930
TscAI	CASTG	1 cut(s)	639
TseI	GCWGC	8 cut(s)	91, 112, 218, 629, 872, 902, 905, 917
TspDTI	ATGAA	1 cut(s)	603
TspGWI	ACGGA	1 cut(s)	578
TspRI	CASTG	1 cut(s)	639
VneI	GTGCAC	1 cut(s)	690
VspI	ATTAAT	1 cut(s)	804
XapI	RAATTY	5 cut(s)	177, 248, 379, 407, 572
XceI	RCATGY	4 cut(s)	60, 194, 773, 900
XhoI	CTCGAG	2 cut(s)	642, 867
XspI	CTAG	1 cut(s)	558

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