Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0001626

Physical Location & Seq

Genomic Coordinates Forward (+)

8205646 .. 8208555

Gene Structure 2910 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00287170.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 507 bp

ATGAAGGCTGCCAAAGGCAAAGGAACTGTGAAGAAGGACAAGAAAGAAGTATTGAAGCCTGTTGACGACAGAAAGGTAGGAAAGCGAAAGGCAGTGGCTGAGGTTAACAAGAGCACCGGAAAATTGGCCAAGAACTCAAAATCGGCCAAAAAGGACCCTAACAAACCAAAGAAGCCTGCTAGTGCTTTTTTTGTTTTTCTTGAAGAGTTCAGAATAACTTACAAGCAAGAGCACCCGAATGTGAAAGCTGTGTCAGCTGTGGGGAAAGCTGGCGGAGCAAAGTGGAAATCTATGTCTGCCGCGGAGAAAGCTCCATATGAAGCTAAAGCAGCTAAAAGGAAAACGGAGTATGAAAAACTTATGAATGCCTACAACACTAAACAGGAGGATACGGATGGTGATGATGATGAAGAACCTGAAAAACCAAAAGCCAGTGTGACCCATGAAGATGAGGAGAGTGGGGAGGAAGATGATGAAGATGACGATGATGAGGATGATGAAGATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko03410 ko04140 ko04217 map03410 map04140 map04217

Pfam Domains

Protein Families

HMG_box

Protein Analysis

168

Amino Acids

18.67

Weight (kDa)

5.67

Isoelectric Point (pI)

32.21

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HMG_box_2	PF09011	53 - 125	1.8e-12	HMG-box domain
HMG_box	PF00505	56 - 125	9.1e-21	HMG (high mobility group) box
HMG_WDHD1	PF24815	59 - 109	4.4e-10	WDHD1 HMG box

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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: OG0001626)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G51880 AT3G51880 AT3G51880 AT3G51880 AT3G51880
fragaria_vesca	FvH4_6g11530 FvH4_6g11530 FvH4_6g11530 FvH4_6g11530 FvH4_7g24360 FvH4_7g24360 FvH4_7g24360
malus_domestica	MD01G1132900.v1.1 MD07G1220600.v1.1
prunus_persica	Prupe.2G249000_v2.0.a1 Prupe.2G249000_v2.0.a1 Prupe.6G276300_v2.0.a1 Prupe.6G276300_v2.0.a1 Prupe.6G276300_v2.0.a1 Prupe.6G276300_v2.0.a1
pyrus_communis	pycom01g16950 pycom07g19960
rosa_chinensis	RchiOBHm_Chr1g0370021 RchiOBHm_Chr3g0463231
rosa_laevigata	RLG00000024799
rosa_multiflora	Rmu_co8427781.1_g000001 Rmu_sc0005056.1_g000014 Rmu_sc0008079.1_g000019 Rmu_sc0022743.1_g000005 Rmu_sc0022743.1_g000006
rosa_roxburghii	Rroxscaffold_4G00286860 Rroxscaffold_4G00287170 Rroxscaffold_6G00416770
rosa_rugosa	Rorug01G0353500 Rorug03G0062700 Rorug03G0062700 Rorug03G0062700 Rorug03G0062800 Rorug03G0062800
rosa_samantha	Rh1AG362200 Rh1BG325400 Rh1CG338700 Rh1DG355900 Rh3AG120800 Rh3BG125300 Rh3CG127300 Rh3DG126500
rosa_wichuraiana	Rw1G031870 Rw3G010260

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	302
AciI	CCGC	3 cut(s)	273, 300, 302
AcoI	YGGCCR	2 cut(s)	126, 144
AgsI	TTSAA	2 cut(s)	55, 203
AluBI	AGCT	6 cut(s)	248, 257, 269, 311, 323, 332
AluI	AGCT	6 cut(s)	248, 257, 269, 311, 323, 332
Alw21I	GWGCWC	2 cut(s)	116, 234
AlwNI	CAGNNNCTG	1 cut(s)	98
AoxI	GGCC	2 cut(s)	126, 144
ApeKI	GCWGC	2 cut(s)	8, 329
AspS9I	GGNCC	1 cut(s)	154
AsuHPI	GGTGA	1 cut(s)	410
AvaII	GGWCC	1 cut(s)	154
BalI	TGGCCA	1 cut(s)	128
Bbv12I	GWGCWC	2 cut(s)	116, 234
BbvCI	CCTCAGC	1 cut(s)	99
BbvI	GCAGC	1 cut(s)	341
BccI	CCATC	1 cut(s)	389
BciVI	GTATCC	1 cut(s)	382
BfaI	CTAG	1 cut(s)	180
BfuI	GTATCC	1 cut(s)	382
BisI	GCNGC	3 cut(s)	9, 300, 330
BlsI	GCNGC	3 cut(s)	10, 301, 331
Bme18I	GGWCC	1 cut(s)	154
BmgT120I	GGNCC	1 cut(s)	154
BmiI	GGNNCC	1 cut(s)	156
Bpu10I	CCTNAGC	1 cut(s)	99
BsaJI	CCNNGG	1 cut(s)	300
BsaWI	WCCGGW	1 cut(s)	116
Bse1I	ACTGG	1 cut(s)	432
BseDI	CCNNGG	1 cut(s)	300
BseGI	GGATG	2 cut(s)	400, 499
BseMII	CTCAG	1 cut(s)	90
BseNI	ACTGG	1 cut(s)	432
BseRI	GAGGAG	1 cut(s)	467
BseXI	GCAGC	1 cut(s)	341
Bsh1236I	CGCG	1 cut(s)	302
BshFI	GGCC	2 cut(s)	128, 146
BsiHKAI	GWGCWC	2 cut(s)	116, 234
BsiSI	CCGG	1 cut(s)	117
BsmI	GAATGC	1 cut(s)	370
BsnI	GGCC	2 cut(s)	128, 146
Bsp1286I	GDGCHC	2 cut(s)	116, 234
BspACI	CCGC	3 cut(s)	273, 300, 302
BspANI	GGCC	2 cut(s)	128, 146
BspCNI	CTCAG	1 cut(s)	91
BspFNI	CGCG	1 cut(s)	302
BspLI	GGNNCC	1 cut(s)	156
BsrI	ACTGG	1 cut(s)	432
BssECI	CCNNGG	1 cut(s)	300
Bst4CI	ACNGT	1 cut(s)	28
Bst6I	CTCTTC	1 cut(s)	198
BstC8I	GCNNGC	2 cut(s)	177, 271
BstDEI	CTNAG	1 cut(s)	99
BstDSI	CCRYGG	1 cut(s)	300
BstF5I	GGATG	2 cut(s)	400, 499
BstFNI	CGCG	1 cut(s)	302
BstMWI	GCNNNNNNNGC	4 cut(s)	254, 275, 308, 329
BstUI	CGCG	1 cut(s)	302
BstV1I	GCAGC	1 cut(s)	341
BsuI	GTATCC	1 cut(s)	382
BsuRI	GGCC	2 cut(s)	128, 146
BtgI	CCRYGG	1 cut(s)	300
BtsCI	GGATG	2 cut(s)	400, 499
BtsI	GCAGTG	1 cut(s)	99
BtsIMutI	CAGTG	2 cut(s)	99, 439
Cac8I	GCNNGC	2 cut(s)	177, 271
CaiI	CAGNNNCTG	1 cut(s)	98
Cfr13I	GGNCC	1 cut(s)	154
Cfr42I	CCGCGG	1 cut(s)	303
CviAII	CATG	1 cut(s)	443
DdeI	CTNAG	1 cut(s)	99
EaeI	YGGCCR	2 cut(s)	126, 144
Eam1104I	CTCTTC	1 cut(s)	198
EarI	CTCTTC	1 cut(s)	198
EciI	GGCGGA	1 cut(s)	288
Eco47I	GGWCC	1 cut(s)	154
EcoO109I	RGGNCCY	1 cut(s)	154
FaeI	CATG	1 cut(s)	446
FaiI	YATR	6 cut(s)	293, 316, 318, 351, 362, 444
FatI	CATG	1 cut(s)	442
FauNDI	CATATG	1 cut(s)	316
Fnu4HI	GCNGC	3 cut(s)	9, 300, 330
FokI	GGATG	1 cut(s)	407
Fsp4HI	GCNGC	3 cut(s)	9, 300, 330
FspBI	CTAG	1 cut(s)	180
GluI	GCNGC	3 cut(s)	9, 300, 330
HaeIII	GGCC	2 cut(s)	128, 146
HapII	CCGG	1 cut(s)	117
Hin1II	CATG	1 cut(s)	446
HincII	GTYRAC	2 cut(s)	64, 106
HindII	GTYRAC	2 cut(s)	64, 106
HpaI	GTTAAC	1 cut(s)	106
HpaII	CCGG	1 cut(s)	117
HphI	GGTGA	1 cut(s)	410
Hpy166II	GTNNAC	2 cut(s)	64, 106
Hpy188I	TCNGA	1 cut(s)	212
Hpy188III	TCNNGA	1 cut(s)	200
Hpy8I	GTNNAC	2 cut(s)	64, 106
HpyAV	CCTTC	1 cut(s)	28
HpyCH4III	ACNGT	1 cut(s)	28
HpyF10VI	GCNNNNNNNGC	4 cut(s)	254, 275, 308, 329
HpyF3I	CTNAG	1 cut(s)	99
Hsp92II	CATG	1 cut(s)	446
KspAI	GTTAAC	1 cut(s)	106
KspI	CCGCGG	1 cut(s)	303
LmnI	GCTCC	2 cut(s)	275, 316
LpnPI	CCDG	7 cut(s)	72, 130, 189, 255, 368, 429, 445
Lsp1109I	GCAGC	1 cut(s)	341
MaeI	CTAG	1 cut(s)	180
MaeIII	GTNAC	1 cut(s)	436
MboII	GAAGA	6 cut(s)	43, 215, 422, 458, 479, 488
MhlI	GDGCHC	2 cut(s)	116, 234
MlsI	TGGCCA	1 cut(s)	128
MluCI	AATT	1 cut(s)	122
MluNI	TGGCCA	1 cut(s)	128
MnlI	CCTC	5 cut(s)	94, 379, 445, 457, 484
Mox20I	TGGCCA	1 cut(s)	128
MscI	TGGCCA	1 cut(s)	128
MseI	TTAA	1 cut(s)	105
MslI	CAYNNNNRTG	2 cut(s)	237, 447
Msp20I	TGGCCA	1 cut(s)	128
MspA1I	CMGCKG	2 cut(s)	257, 302
MspI	CCGG	1 cut(s)	117
Mva1269I	GAATGC	1 cut(s)	370
MvnI	CGCG	1 cut(s)	302
MwoI	GCNNNNNNNGC	4 cut(s)	254, 275, 308, 329
NdeI	CATATG	1 cut(s)	316
NlaIII	CATG	1 cut(s)	446
NlaIV	GGNNCC	1 cut(s)	156
NmuCI	GTSAC	1 cut(s)	436
PctI	GAATGC	1 cut(s)	370
PkrI	GCNGC	3 cut(s)	10, 301, 331
PpuMI	RGGWCCY	1 cut(s)	154
Psp5II	RGGWCCY	1 cut(s)	154
PspN4I	GGNNCC	1 cut(s)	156
PspPI	GGNCC	1 cut(s)	154
PspPPI	RGGWCCY	1 cut(s)	154
PstNI	CAGNNNCTG	1 cut(s)	98
PvuII	CAGCTG	1 cut(s)	257
RseI	CAYNNNNRTG	2 cut(s)	237, 447
SacII	CCGCGG	1 cut(s)	303
SaqAI	TTAA	1 cut(s)	105
SatI	GCNGC	3 cut(s)	9, 300, 330
Sau96I	GGNCC	1 cut(s)	154
SduI	GDGCHC	2 cut(s)	116, 234
SetI	ASST	9 cut(s)	78, 105, 250, 259, 271, 313, 325, 334, 418
Sfr303I	CCGCGG	1 cut(s)	303
SgrBI	CCGCGG	1 cut(s)	303
SinI	GGWCC	1 cut(s)	154
SmiMI	CAYNNNNRTG	2 cut(s)	237, 447
Sse9I	AATT	1 cut(s)	122
SsiI	CCGC	3 cut(s)	273, 300, 302
SspMI	CTAG	1 cut(s)	180
TaaI	ACNGT	1 cut(s)	28
TasI	AATT	1 cut(s)	122
TauI	GCSGC	1 cut(s)	302
Tru1I	TTAA	1 cut(s)	105
Tru9I	TTAA	1 cut(s)	105
TscAI	CASTG	2 cut(s)	99, 439
TseFI	GTSAC	1 cut(s)	436
TseI	GCWGC	2 cut(s)	8, 329
Tsp45I	GTSAC	1 cut(s)	436
TspDTI	ATGAA	7 cut(s)	17, 333, 366, 377, 423, 459, 489
TspGWI	ACGGA	2 cut(s)	359, 407
TspRI	CASTG	2 cut(s)	99, 439
VpaK11BI	GGWCC	1 cut(s)	154
XspI	CTAG	1 cut(s)	180

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