Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000006

Orthogroup ID

OG0001329

Physical Location & Seq

Genomic Coordinates Reverse (-)

58393455 .. 58395626

Gene Structure 2172 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug06G0456400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 321 bp

ATGGAGGTGCTAATCAGGGAAATGATATTTAGAGATACGGAGGAGTCCTTGCGGTTGCACTTGGACGAAATATACCACAGGGCCAAGCTGATTCCTGCTCCGAAATCATTCATCGAGTCTCTGGAGGAAGTGAGACGACTTGATGATGGTGATAATCTGGAATTGCTTGGATTGGAGTGTCCTATTTGTATGCAGGTGTTTGCAGATACCAGCATTACTCGGTTGCCATGCTCCCACTATTATCATCGACATTGCATTGTCCAGTGGCTCCAGATCAATCATGTCTGCCCCACTTGTCGACACCCTAATGCTCCGAGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Rhomboid

Protein Analysis

106

Amino Acids

12.47

Weight (kDa)

5.74

Isoelectric Point (pI)

62.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RING_2	PF13639	59 - 100	1.8e-13	Ring finger domain
zf-C3HC4_2	PF13923	59 - 99	4.8e-10	Zinc finger, C3HC4 type (RING finger)
zf-rbx1	PF12678	59 - 100	2.6e-07	RING-H2 zinc finger domain
zf-RING_11	PF17123	59 - 86	1.1e-07	RING-like zinc finger
zf-C3HC4	PF00097	60 - 99	1e-07	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	60 - 97	2.5e-06	RING-type zinc-finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0001329)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G18600
fragaria_vesca	FvH4_5g13610 FvH4_5g13610 FvH4_5g13610 FvH4_5g13620 FvH4_5g13640 FvH4_5g13640 FvH4_5g13640 FvH4_5g13640
malus_domestica	MD14G1214000.v1.1
prunus_persica	Prupe.3G124800_v2.0.a1 Prupe.3G124800_v2.0.a1 Prupe.3G124800_v2.0.a1 Prupe.5G207200_v2.0.a1 Prupe.5G207200_v2.0.a1 Prupe.5G207200_v2.0.a1 Prupe.5G207300_v2.0.a1
pyrus_communis	pycom14g17740 pycom16g17930
rosa_chinensis	RchiOBHm_Chr1g0346931 RchiOBHm_Chr1g0346941 RchiOBHm_Chr6g0258631 RchiOBHm_Chr6g0258651 RchiOBHm_Chr7g0183321 RchiOBHm_Chr7g0183341 RchiOBHm_Chr7g0198541
rosa_laevigata	RLG00000005055 RLG00000005057 RLG00000024525
rosa_multiflora	Rmu_co8273229.1_g000001 Rmu_sc0008602.1_g000004
rosa_roxburghii	Rroxscaffold_2G00110010 Rroxscaffold_3G00270550 Rroxscaffold_3G00270560
rosa_rugosa	Rorug03G0286600.1 Rorug04G0408600 Rorug06G0456400 Rorug06G0456500 Rorug06G0456600 Rorug06G0456600 Rorug06G0456800 Rorug07G0030500
rosa_samantha	Rh7AG058100 Rh7AG058300 Rh7BG057900 Rh7BG058200 Rh7CG059500 Rh7CG059700 Rh7CG059800 Rh7CG059900 Rh7DG057800 Rh7DG058000
rosa_wichuraiana	Rw7G004770 Rw7G004790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	184
Acc36I	ACCTGC	1 cut(s)	184
AccI	GTMKAC	1 cut(s)	298
AciI	CCGC	1 cut(s)	52
AluBI	AGCT	1 cut(s)	88
AluI	AGCT	1 cut(s)	88
Alw26I	GTCTC	2 cut(s)	123, 127
AoxI	GGCC	1 cut(s)	81
Asp700I	GAANNNNTTC	1 cut(s)	107
AspS9I	GGNCC	1 cut(s)	81
AsuHPI	GGTGA	1 cut(s)	161
BccI	CCATC	1 cut(s)	140
BcoDI	GTCTC	2 cut(s)	123, 127
BfuAI	ACCTGC	1 cut(s)	184
BmgT120I	GGNCC	1 cut(s)	81
BmiI	GGNNCC	1 cut(s)	269
BpmI	CTGGAG	2 cut(s)	143, 254
Bse1I	ACTGG	1 cut(s)	262
Bse3DI	GCAATG	1 cut(s)	250
BseMI	GCAATG	1 cut(s)	250
BseNI	ACTGG	1 cut(s)	262
BseRI	GAGGAG	1 cut(s)	56
BshFI	GGCC	1 cut(s)	83
BsmAI	GTCTC	2 cut(s)	123, 127
BsmBI	CGTCTC	1 cut(s)	127
BsnI	GGCC	1 cut(s)	83
Bsp143I	GATC	1 cut(s)	273
BspACI	CCGC	1 cut(s)	52
BspANI	GGCC	1 cut(s)	83
BspLI	GGNNCC	1 cut(s)	269
BspMI	ACCTGC	1 cut(s)	184
BsrDI	GCAATG	1 cut(s)	250
BsrI	ACTGG	1 cut(s)	262
BssMI	GATC	1 cut(s)	273
BstKTI	GATC	1 cut(s)	276
BstMAI	GTCTC	2 cut(s)	123, 127
BstMBI	GATC	1 cut(s)	273
BsuRI	GGCC	1 cut(s)	83
BtsIMutI	CAGTG	1 cut(s)	269
BveI	ACCTGC	1 cut(s)	184
Cfr13I	GGNCC	1 cut(s)	81
CviAII	CATG	2 cut(s)	228, 281
CviJI	RGCY	3 cut(s)	83, 88, 268
CviKI_1	RGCY	3 cut(s)	83, 88, 268
DpnI	GATC	1 cut(s)	275
DpnII	GATC	1 cut(s)	273
Esp3I	CGTCTC	1 cut(s)	127
FaeI	CATG	2 cut(s)	231, 284
FaiI	YATR	4 cut(s)	73, 191, 229, 282
FatI	CATG	2 cut(s)	227, 280
FblI	GTMKAC	1 cut(s)	298
GsuI	CTGGAG	2 cut(s)	143, 254
HaeIII	GGCC	1 cut(s)	83
Hin1II	CATG	2 cut(s)	231, 284
HincII	GTYRAC	1 cut(s)	299
HindII	GTYRAC	1 cut(s)	299
HinfI	GANTC	3 cut(s)	44, 91, 116
HphI	GGTGA	1 cut(s)	161
Hpy166II	GTNNAC	1 cut(s)	299
Hpy188I	TCNGA	2 cut(s)	102, 315
Hpy188III	TCNNGA	3 cut(s)	122, 158, 271
Hpy8I	GTNNAC	1 cut(s)	299
HpyCH4V	TGCA	4 cut(s)	58, 193, 203, 255
Hsp92II	CATG	2 cut(s)	231, 284
Kzo9I	GATC	1 cut(s)	273
LmnI	GCTCC	4 cut(s)	103, 236, 273, 316
LpnPI	CCDG	8 cut(s)	64, 107, 108, 143, 179, 223, 275, 284
MalI	GATC	1 cut(s)	275
MboI	GATC	1 cut(s)	273
MluCI	AATT	1 cut(s)	161
MlyI	GAGTC	2 cut(s)	53, 125
MnlI	CCTC	2 cut(s)	34, 118
MroXI	GAANNNNTTC	1 cut(s)	107
MslI	CAYNNNNRTG	1 cut(s)	306
NdeII	GATC	1 cut(s)	273
NlaIII	CATG	2 cut(s)	231, 284
NlaIV	GGNNCC	1 cut(s)	269
PaqCI	CACCTGC	1 cut(s)	184
PdmI	GAANNNNTTC	1 cut(s)	107
PfeI	GAWTC	1 cut(s)	91
PleI	GAGTC	2 cut(s)	52, 124
PpsI	GAGTC	2 cut(s)	52, 124
PspN4I	GGNNCC	1 cut(s)	269
PspPI	GGNCC	1 cut(s)	81
RseI	CAYNNNNRTG	1 cut(s)	306
SalI	GTCGAC	1 cut(s)	297
Sau3AI	GATC	1 cut(s)	273
Sau96I	GGNCC	1 cut(s)	81
SchI	GAGTC	2 cut(s)	53, 125
SetI	ASST	3 cut(s)	9, 90, 198
SmiMI	CAYNNNNRTG	1 cut(s)	306
Sse9I	AATT	1 cut(s)	161
SsiI	CCGC	1 cut(s)	52
TaqI	TCGA	3 cut(s)	114, 247, 298
TasI	AATT	1 cut(s)	161
TfiI	GAWTC	1 cut(s)	91
TscAI	CASTG	1 cut(s)	269
TspDTI	ATGAA	1 cut(s)	100
TspGWI	ACGGA	1 cut(s)	53
TspRI	CASTG	1 cut(s)	269
XmiI	GTMKAC	1 cut(s)	298
XmnI	GAANNNNTTC	1 cut(s)	107

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