Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0016900

Physical Location & Seq

Genomic Coordinates Reverse (-)

10135915 .. 10140764

Gene Structure 4850 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00226550.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1038 bp

ATGGAAAGTGCCAGGAAAAACTATAAGAAACCAAAGATGTTGGACCAAAAAGAAAGAAAGGAAGCAAAGATGCTGATGATTTCTGAAATGAAACGAGAGAAGGAGACATATGAGAAAGCAAGGATGCTGAAGGAGTACATAGAAAATATCAGGGCTGCATACACTAAGGATTTTACAAGTGAAGATGGTGAAAAGAGGCAGATGGCAGTTGCTACCTATCTTGTCGATAAACTTTGTCTGAGGGCTGGAAATGATATGGATGATGATGAAATTGATACTGTTGAGTGCTGCAAATTAAAAGTAGAGAACGTCAAAAGAATTCCCCTAACTCGTTGGAGATGTGAAAATACTGTTGACGTTGAGCTTCCTGTTTACAAGGCAATTGAAGAGTTTCTGGCTGGAAAGAATGCTAGTGAAGGTCTATTTGACAAGTTGGAGGATACGAGCAAATTGAATGCACATCTAGAGGAACTGATGCCTGGTCTTACAGGAAAAGTATTCCGTACATACAATGCCTGCAGTACATTGGATGAAATATTGAACAAAGAAACTCCCTCTGGAGCTGTTTCAGAGAAAGCAGGTGTTTATAGACAGGCAACCAGGGAGGTTGCTATCATCTGTAATTTTCAGCGTACTGTCGCAAGGCCTGGTGGTGTACGGATGTACTGGTTAAAAGAGAACATGAGTGAGTTGCAGGGCACATTGACAGAGCTGAAAGCAGATTTGGACAGGGCAGTAATGGGATTACCCCCACTGAGAAATTCTAATGGAGAACGAAAGAGAACCCTGACCCCAGAAGAGTTAGAGAGGACGATAGCTGAAACAATTCAGATGATTGAAAAATTGGAACAGGATATGAGAACCCAAGAGAACCAGAAATACACGTCAGTTGGAATGCCCAAAATCAAGTATCTTGACCCTAGGATCGCTGTTGCATGGTGTAAGCGAAATGAAGTTCCTATTAACATGATATACACCGAGTATTATATGCCAATGTTTGAGTGGGCAATGGATGTGGATATCGACTTCAGATTCTGA

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

Topo_C_assoc Topoisom_I Topoisom_I_N

Protein Analysis

345

Amino Acids

40.17

Weight (kDa)

5.73

Isoelectric Point (pI)

41.22

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Topoisom_I	PF01028	31 - 241	4.3e-57	Eukaryotic DNA topoisomerase I, catalytic core
Topo_C_assoc	PF14370	278 - 345	1.1e-20	C-terminal topoisomerase domain

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: OG0016900)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g41220
rosa_laevigata	RLG00000001192 RLG00000001193 RLG00000001200 RLG00000001202 RLG00000001203
rosa_multiflora	Rmu_sc0000768.1_g000025
rosa_roxburghii	Rroxscaffold_3G00226480 Rroxscaffold_3G00226490 Rroxscaffold_3G00226550
rosa_rugosa	Rorug07G0286300
rosa_samantha	Rh7AG441000 Rh7BG413800 Rh7CG462700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	569
Acc36I	ACCTGC	1 cut(s)	569
AclWI	GGATC	1 cut(s)	932
AcsI	RAATTY	2 cut(s)	318, 760
AcuI	CTGAAG	2 cut(s)	149, 1012
AfaI	GTAC	6 cut(s)	137, 505, 523, 634, 657, 665
AflIII	ACRYGT	1 cut(s)	882
AgsI	TTSAA	4 cut(s)	386, 454, 541, 839
AjiI	CACGTC	1 cut(s)	885
AjnI	CCWGG	4 cut(s)	11, 478, 599, 646
AjuI	GAANNNNNNNTTGG	2 cut(s)	707, 739
AluBI	AGCT	4 cut(s)	364, 563, 712, 818
AluI	AGCT	4 cut(s)	364, 563, 712, 818
Alw26I	GTCTC	1 cut(s)	98
AlwI	GGATC	1 cut(s)	932
AlwNI	CAGNNNCTG	1 cut(s)	1035
AoxI	GGCC	1 cut(s)	644
ApeKI	GCWGC	2 cut(s)	155, 288
ApoI	RAATTY	2 cut(s)	318, 760
Asp700I	GAANNNNTTC	2 cut(s)	390, 825
AspA2I	CCTAGG	1 cut(s)	920
AspS9I	GGNCC	1 cut(s)	43
AsuHPI	GGTGA	1 cut(s)	200
AvaII	GGWCC	1 cut(s)	43
AvrII	CCTAGG	1 cut(s)	920
BaeGI	GKGCMC	1 cut(s)	701
BbvI	GCAGC	2 cut(s)	142, 275
BccI	CCATC	2 cut(s)	179, 196
BciT130I	CCWGG	4 cut(s)	13, 480, 601, 648
BciVI	GTATCC	1 cut(s)	433
BcoDI	GTCTC	1 cut(s)	98
BfaI	CTAG	3 cut(s)	411, 464, 921
BfmI	CTRYAG	1 cut(s)	517
BfuAI	ACCTGC	1 cut(s)	569
BfuI	GTATCC	1 cut(s)	433
BisI	GCNGC	2 cut(s)	156, 289
BlnI	CCTAGG	1 cut(s)	920
BlsI	GCNGC	2 cut(s)	157, 290
Bme1390I	CCNGG	4 cut(s)	13, 480, 601, 648
Bme18I	GGWCC	1 cut(s)	43
BmgBI	CACGTC	1 cut(s)	885
BmgT120I	GGNCC	1 cut(s)	43
BmrFI	CCNGG	4 cut(s)	13, 480, 601, 648
BmsI	GCATC	3 cut(s)	60, 114, 465
BpmI	CTGGAG	1 cut(s)	579
BsaJI	CCNNGG	2 cut(s)	600, 920
Bse1I	ACTGG	1 cut(s)	671
Bse3DI	GCAATG	1 cut(s)	1014
BseBI	CCWGG	4 cut(s)	13, 480, 601, 648
BseDI	CCNNGG	2 cut(s)	600, 920
BseGI	GGATG	5 cut(s)	129, 265, 535, 666, 1018
BseMI	GCAATG	1 cut(s)	1014
BseMII	CTCAG	2 cut(s)	230, 746
BseNI	ACTGG	1 cut(s)	671
BseSI	GKGCMC	1 cut(s)	701
BseXI	GCAGC	2 cut(s)	142, 275
BshFI	GGCC	1 cut(s)	646
BsmAI	GTCTC	1 cut(s)	98
BsmI	GAATGC	3 cut(s)	412, 460, 900
BsnI	GGCC	1 cut(s)	646
Bsp1286I	GDGCHC	1 cut(s)	701
Bsp143I	GATC	1 cut(s)	924
BspANI	GGCC	1 cut(s)	646
BspCNI	CTCAG	2 cut(s)	231, 747
BspMAI	CTGCAG	1 cut(s)	521
BspMI	ACCTGC	1 cut(s)	569
BspPI	GGATC	1 cut(s)	932
BsrDI	GCAATG	1 cut(s)	1014
BsrI	ACTGG	1 cut(s)	671
BssECI	CCNNGG	2 cut(s)	600, 920
BssMI	GATC	1 cut(s)	924
BssT1I	CCWWGG	1 cut(s)	920
Bst2UI	CCWGG	4 cut(s)	13, 480, 601, 648
Bst4CI	ACNGT	3 cut(s)	280, 352, 637
Bst6I	CTCTTC	2 cut(s)	381, 792
BstC8I	GCNNGC	1 cut(s)	517
BstDEI	CTNAG	3 cut(s)	165, 239, 755
BstF5I	GGATG	5 cut(s)	129, 265, 535, 666, 1018
BstKTI	GATC	1 cut(s)	927
BstMAI	GTCTC	1 cut(s)	98
BstMBI	GATC	1 cut(s)	924
BstNI	CCWGG	4 cut(s)	13, 480, 601, 648
BstSCI	CCNGG	4 cut(s)	11, 478, 599, 646
BstSFI	CTRYAG	1 cut(s)	517
BstSLI	GKGCMC	1 cut(s)	701
BstV1I	GCAGC	2 cut(s)	142, 275
BsuI	GTATCC	1 cut(s)	433
BsuRI	GGCC	1 cut(s)	646
BtrI	CACGTC	1 cut(s)	885
BtsCI	GGATG	5 cut(s)	129, 265, 535, 666, 1018
BtsIMutI	CAGTG	1 cut(s)	752
BveI	ACCTGC	1 cut(s)	569
Cac8I	GCNNGC	1 cut(s)	517
CaiI	CAGNNNCTG	1 cut(s)	1035
Cfr13I	GGNCC	1 cut(s)	43
Csp6I	GTAC	6 cut(s)	136, 504, 522, 633, 656, 664
CspCI	CAANNNNNGTGG	2 cut(s)	996, 1031
CviAII	CATG	3 cut(s)	682, 936, 967
CviJI	RGCY	8 cut(s)	155, 245, 364, 398, 563, 646, 712, 818
CviKI_1	RGCY	8 cut(s)	155, 245, 364, 398, 563, 646, 712, 818
CviQI	GTAC	6 cut(s)	136, 504, 522, 633, 656, 664
DdeI	CTNAG	3 cut(s)	165, 239, 755
DpnI	GATC	1 cut(s)	926
DpnII	GATC	1 cut(s)	924
Eam1104I	CTCTTC	2 cut(s)	381, 792
EarI	CTCTTC	2 cut(s)	381, 792
Eco130I	CCWWGG	1 cut(s)	920
Eco147I	AGGCCT	1 cut(s)	646
Eco32I	GATATC	1 cut(s)	1021
Eco47I	GGWCC	1 cut(s)	43
Eco57I	CTGAAG	2 cut(s)	149, 1012
EcoRI	GAATTC	1 cut(s)	318
EcoRII	CCWGG	4 cut(s)	11, 478, 599, 646
EcoRV	GATATC	1 cut(s)	1021
EcoT14I	CCWWGG	1 cut(s)	920
ErhI	CCWWGG	1 cut(s)	920
FaeI	CATG	3 cut(s)	685, 939, 970
FatI	CATG	3 cut(s)	681, 935, 966
FauNDI	CATATG	1 cut(s)	109
Fnu4HI	GCNGC	2 cut(s)	156, 289
FokI	GGATG	5 cut(s)	136, 272, 542, 673, 1025
Fsp4HI	GCNGC	2 cut(s)	156, 289
FspBI	CTAG	3 cut(s)	411, 464, 921
GluI	GCNGC	2 cut(s)	156, 289
GsuI	CTGGAG	1 cut(s)	579
HaeIII	GGCC	1 cut(s)	646
Hin1II	CATG	3 cut(s)	685, 939, 970
HincII	GTYRAC	1 cut(s)	355
HindII	GTYRAC	1 cut(s)	355
HinfI	GANTC	1 cut(s)	1032
HphI	GGTGA	1 cut(s)	200
Hpy166II	GTNNAC	3 cut(s)	355, 373, 656
Hpy188I	TCNGA	6 cut(s)	85, 240, 571, 831, 1031, 1037
Hpy188III	TCNNGA	3 cut(s)	464, 558, 914
Hpy8I	GTNNAC	3 cut(s)	355, 373, 656
HpyAV	CCTTC	3 cut(s)	94, 124, 410
HpyCH4III	ACNGT	3 cut(s)	280, 352, 637
HpyCH4IV	ACGT	3 cut(s)	309, 357, 884
HpyCH4V	TGCA	6 cut(s)	158, 291, 458, 519, 694, 935
HpyF3I	CTNAG	3 cut(s)	165, 239, 755
HpySE526I	ACGT	3 cut(s)	309, 357, 884
Hsp92II	CATG	3 cut(s)	685, 939, 970
Kzo9I	GATC	1 cut(s)	924
LmnI	GCTCC	1 cut(s)	560
Lsp1109I	GCAGC	2 cut(s)	142, 275
LweI	GCATC	3 cut(s)	60, 114, 465
MaeI	CTAG	3 cut(s)	411, 464, 921
MaeII	ACGT	3 cut(s)	309, 357, 884
MalI	GATC	1 cut(s)	926
MboI	GATC	1 cut(s)	924
MboII	GAAGA	3 cut(s)	194, 398, 809
MfeI	CAATTG	1 cut(s)	381
MhlI	GDGCHC	1 cut(s)	701
MluCI	AATT	9 cut(s)	270, 293, 318, 381, 449, 622, 760, 825, 842
MmeI	TCCRAC	4 cut(s)	21, 314, 414, 871
MnlI	CCTC	7 cut(s)	189, 234, 430, 460, 565, 598, 801
MroXI	GAANNNNTTC	2 cut(s)	390, 825
MseI	TTAA	3 cut(s)	296, 671, 963
MspR9I	CCNGG	4 cut(s)	13, 480, 601, 648
MunI	CAATTG	1 cut(s)	381
Mva1269I	GAATGC	3 cut(s)	412, 460, 900
MvaI	CCWGG	4 cut(s)	13, 480, 601, 648
NdeI	CATATG	1 cut(s)	109
NdeII	GATC	1 cut(s)	924
NlaIII	CATG	3 cut(s)	685, 939, 970
PaqCI	CACCTGC	1 cut(s)	569
PceI	AGGCCT	1 cut(s)	646
PctI	GAATGC	3 cut(s)	412, 460, 900
PdmI	GAANNNNTTC	2 cut(s)	390, 825
PfeI	GAWTC	1 cut(s)	1032
PkrI	GCNGC	2 cut(s)	157, 290
Psp6I	CCWGG	4 cut(s)	11, 478, 599, 646
PspGI	CCWGG	4 cut(s)	11, 478, 599, 646
PspPI	GGNCC	1 cut(s)	43
PsrI	GAACNNNNNNTAC	2 cut(s)	863, 895
PstI	CTGCAG	1 cut(s)	521
PstNI	CAGNNNCTG	1 cut(s)	1035
RsaI	GTAC	6 cut(s)	137, 505, 523, 634, 657, 665
RsaNI	GTAC	6 cut(s)	136, 504, 522, 633, 656, 664
SaqAI	TTAA	3 cut(s)	296, 671, 963
SatI	GCNGC	2 cut(s)	156, 289
Sau3AI	GATC	1 cut(s)	924
Sau96I	GGNCC	1 cut(s)	43
ScrFI	CCNGG	4 cut(s)	13, 480, 601, 648
SduI	GDGCHC	1 cut(s)	701
SfaNI	GCATC	3 cut(s)	60, 114, 465
SfcI	CTRYAG	1 cut(s)	517
SinI	GGWCC	1 cut(s)	43
Sse9I	AATT	9 cut(s)	270, 293, 318, 381, 449, 622, 760, 825, 842
SseBI	AGGCCT	1 cut(s)	646
SspI	AATATT	1 cut(s)	537
SspMI	CTAG	3 cut(s)	411, 464, 921
StuI	AGGCCT	1 cut(s)	646
StyD4I	CCNGG	4 cut(s)	11, 478, 599, 646
StyI	CCWWGG	1 cut(s)	920
TaaI	ACNGT	3 cut(s)	280, 352, 637
TaiI	ACGT	3 cut(s)	312, 360, 887
TaqI	TCGA	2 cut(s)	225, 1023
TasI	AATT	9 cut(s)	270, 293, 318, 381, 449, 622, 760, 825, 842
TatI	WGTACW	3 cut(s)	135, 521, 663
TfiI	GAWTC	1 cut(s)	1032
Tru1I	TTAA	3 cut(s)	296, 671, 963
Tru9I	TTAA	3 cut(s)	296, 671, 963
TscAI	CASTG	1 cut(s)	759
TseI	GCWGC	2 cut(s)	155, 288
TspDTI	ATGAA	4 cut(s)	104, 282, 546, 966
TspGWI	ACGGA	2 cut(s)	491, 673
TspRI	CASTG	1 cut(s)	759
VpaK11BI	GGWCC	1 cut(s)	43
XapI	RAATTY	2 cut(s)	318, 760
XbaI	TCTAGA	1 cut(s)	463
XcmI	CCANNNNNNNNNTGG	1 cut(s)	999
XmaJI	CCTAGG	1 cut(s)	920
XmnI	GAANNNNTTC	2 cut(s)	390, 825
XspI	CTAG	3 cut(s)	411, 464, 921

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