Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr4

Orthogroup ID

OG0005678

Physical Location & Seq

Genomic Coordinates Reverse (-)

52613010 .. 52613833

Gene Structure 824 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw4G026390.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 504 bp

ATGGCTACGTCTGTTTATCTTGCTCCAGAGCTCTTCCCTCTTGTCATTTCCAGGACAGGGAAGAATAGAATGAGACCTAATAAAGAGTATCAAATGCACTCTAGGTGTGGATTACCTTCTCAAGGAGCTTCATCTACTCACCGACTTGTAGTATATGCGGGTGCTTCTATCCTTGCGGTTCTAGCCACTGACTATGGGTTAGTGCCATTGCCTGTTTTGGCAGATGACAAGTCAAATGGTGAAGAGGAGAAGGATGGATCTGGAAGAGTGTTGCCAAAGGCATATTTGAAGACTGCAAAAGAAGTTGCGAAGACACTGTGGGAATCAGTACAGGAAGATCCCAAGGATAAAGCAAAGTTTAGACAGGAATCTTATGTCGAGTTAGAGAAAGCAATAAGATCATTGGCTGGCTTTTACTCGAAGGCAGGACCATCTGCCCCATTGCCTGAAGAAGTGAAGTCAGAAATATTGAGGGATTTAGATACAACTGAAAAGTTTTTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006091 GO:0008150 GO:0008152 GO:0009507 GO:0009534 GO:0009536 GO:0009543 GO:0009579 GO:0009987 GO:0010207 GO:0015979 GO:0016043 GO:0019684 GO:0022607 GO:0031976 GO:0031977 GO:0031978 GO:0031984 GO:0034622 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043933 GO:0044085 GO:0044237 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0065003 GO:0071840

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PSII_Pbs27

Protein Analysis

167

Amino Acids

18.43

Weight (kDa)

7.77

Isoelectric Point (pI)

54.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PSII_Pbs27	PF13326	122 - 167	1.1e-15	Photosystem II Pbs27

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0005678)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G05385 AT1G05385
fragaria_vesca	FvH4_4g15520 FvH4_4g15520 FvH4_4g15520
malus_domestica	MD16G1193700.v1.1
prunus_persica	Prupe.1G013400_v2.0.a1
pyrus_communis	pycom16g16340
rosa_chinensis	RchiOBHm_Chr4g0416241 RchiOBHm_Chr4g0430981
rosa_laevigata	RLG00000008003 RLG00000034653
rosa_roxburghii	Rroxscaffold_1G00031800 Rroxscaffold_5G00360090
rosa_rugosa	Rorug01G0090300 Rorug04G0140200 Rorug04G0140200 Rorug05G0252200 Rorug05G0252300 Rorug05G0252400
rosa_samantha	Rh4AG202200 Rh4BG199600 Rh4CG213700 Rh4DG199500 Rh5AG328000 Rh5CG363600
rosa_wichuraiana	Rw4G017100 Rw4G026390

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	2 cut(s)	158, 176
AclWI	GGATC	2 cut(s)	265, 332
AcuI	CTGAAG	1 cut(s)	468
AfaI	GTAC	1 cut(s)	330
AfiI	CCNNNNNNNGG	2 cut(s)	57, 122
AgsI	TTSAA	1 cut(s)	289
AjnI	CCWGG	1 cut(s)	50
AluBI	AGCT	2 cut(s)	31, 128
AluI	AGCT	2 cut(s)	31, 128
Alw21I	GWGCWC	1 cut(s)	33
Alw26I	GTCTC	1 cut(s)	67
AlwI	GGATC	2 cut(s)	265, 332
AspS9I	GGNCC	1 cut(s)	428
AsuHPI	GGTGA	2 cut(s)	131, 251
AvaII	GGWCC	1 cut(s)	428
BanII	GRGCYC	1 cut(s)	33
BbsI	GAAGAC	2 cut(s)	296, 317
Bbv12I	GWGCWC	1 cut(s)	33
BccI	CCATC	2 cut(s)	248, 439
BciT130I	CCWGG	1 cut(s)	52
BcoDI	GTCTC	1 cut(s)	67
BfaI	CTAG	2 cut(s)	102, 182
Bme1390I	CCNGG	1 cut(s)	52
Bme18I	GGWCC	1 cut(s)	428
BmgT120I	GGNCC	1 cut(s)	428
BmrFI	CCNGG	1 cut(s)	52
BpiI	GAAGAC	2 cut(s)	296, 317
BpmI	CTGGAG	1 cut(s)	9
BpuEI	CTTGAG	1 cut(s)	105
BsaI	GGTCTC	1 cut(s)	67
BsaJI	CCNNGG	1 cut(s)	342
Bsc4I	CCNNNNNNNGG	2 cut(s)	57, 122
Bse3DI	GCAATG	2 cut(s)	206, 440
BseBI	CCWGG	1 cut(s)	52
BseDI	CCNNGG	1 cut(s)	342
BseGI	GGATG	1 cut(s)	259
BseLI	CCNNNNNNNGG	2 cut(s)	57, 122
BseMI	GCAATG	2 cut(s)	206, 440
BseRI	GAGGAG	1 cut(s)	260
BsiHKAI	GWGCWC	1 cut(s)	33
BslI	CCNNNNNNNGG	2 cut(s)	57, 122
BsmAI	GTCTC	1 cut(s)	67
Bso31I	GGTCTC	1 cut(s)	67
Bsp1286I	GDGCHC	1 cut(s)	33
Bsp143I	GATC	3 cut(s)	257, 337, 398
BspACI	CCGC	2 cut(s)	158, 176
BspPI	GGATC	2 cut(s)	265, 332
BspQI	GCTCTTC	1 cut(s)	38
BspTNI	GGTCTC	1 cut(s)	67
BsrDI	GCAATG	2 cut(s)	206, 440
BssECI	CCNNGG	1 cut(s)	342
BssMI	GATC	3 cut(s)	257, 337, 398
BssT1I	CCWWGG	1 cut(s)	342
Bst2UI	CCWGG	1 cut(s)	52
Bst4CI	ACNGT	1 cut(s)	318
Bst6I	CTCTTC	3 cut(s)	38, 237, 259
BstC8I	GCNNGC	1 cut(s)	409
BstENI	CCTNNNNNAGG	1 cut(s)	120
BstF5I	GGATG	1 cut(s)	259
BstKTI	GATC	3 cut(s)	260, 340, 401
BstMAI	GTCTC	1 cut(s)	67
BstMBI	GATC	3 cut(s)	257, 337, 398
BstMWI	GCNNNNNNNGC	1 cut(s)	182
BstNI	CCWGG	1 cut(s)	52
BstSCI	CCNGG	1 cut(s)	50
BstV2I	GAAGAC	2 cut(s)	296, 317
BstX2I	RGATCY	2 cut(s)	257, 337
BstYI	RGATCY	2 cut(s)	257, 337
BtsCI	GGATG	1 cut(s)	259
BtsIMutI	CAGTG	2 cut(s)	186, 314
Cac8I	GCNNGC	1 cut(s)	409
Cfr13I	GGNCC	1 cut(s)	428
Csp6I	GTAC	1 cut(s)	329
CviJI	RGCY	6 cut(s)	5, 31, 128, 185, 407, 411
CviKI_1	RGCY	6 cut(s)	5, 31, 128, 185, 407, 411
CviQI	GTAC	1 cut(s)	329
DpnI	GATC	3 cut(s)	259, 339, 400
DpnII	GATC	3 cut(s)	257, 337, 398
Eam1104I	CTCTTC	3 cut(s)	38, 237, 259
EarI	CTCTTC	3 cut(s)	38, 237, 259
Ecl136II	GAGCTC	1 cut(s)	31
Eco130I	CCWWGG	1 cut(s)	342
Eco24I	GRGCYC	1 cut(s)	33
Eco31I	GGTCTC	1 cut(s)	67
Eco47I	GGWCC	1 cut(s)	428
Eco53kI	GAGCTC	1 cut(s)	31
Eco57I	CTGAAG	1 cut(s)	468
EcoICRI	GAGCTC	1 cut(s)	31
EcoNI	CCTNNNNNAGG	1 cut(s)	120
EcoRII	CCWGG	1 cut(s)	50
EcoT14I	CCWWGG	1 cut(s)	342
EcoT38I	GRGCYC	1 cut(s)	33
ErhI	CCWWGG	1 cut(s)	342
FaiI	YATR	6 cut(s)	154, 156, 195, 283, 375, 502
FauI	CCCGC	1 cut(s)	151
FokI	GGATG	1 cut(s)	266
FriOI	GRGCYC	1 cut(s)	33
FspBI	CTAG	2 cut(s)	102, 182
GsuI	CTGGAG	1 cut(s)	9
HinfI	GANTC	2 cut(s)	323, 368
HphI	GGTGA	2 cut(s)	131, 251
Hpy188I	TCNGA	1 cut(s)	463
Hpy188III	TCNNGA	2 cut(s)	26, 261
HpyAV	CCTTC	3 cut(s)	126, 244, 415
HpyCH4III	ACNGT	1 cut(s)	318
HpyCH4IV	ACGT	1 cut(s)	8
HpyCH4V	TGCA	2 cut(s)	97, 296
HpyF10VI	GCNNNNNNNGC	1 cut(s)	182
HpySE526I	ACGT	1 cut(s)	8
Kzo9I	GATC	3 cut(s)	257, 337, 398
LguI	GCTCTTC	1 cut(s)	38
LmnI	GCTCC	2 cut(s)	28, 125
MaeI	CTAG	2 cut(s)	102, 182
MaeII	ACGT	1 cut(s)	8
MalI	GATC	3 cut(s)	259, 339, 400
MboI	GATC	3 cut(s)	257, 337, 398
MboII	GAAGA	8 cut(s)	25, 73, 254, 276, 301, 322, 347, 461
MflI	RGATCY	2 cut(s)	257, 337
MhlI	GDGCHC	1 cut(s)	33
MnlI	CCTC	3 cut(s)	48, 238, 465
MspR9I	CCNGG	1 cut(s)	52
MvaI	CCWGG	1 cut(s)	52
MwoI	GCNNNNNNNGC	1 cut(s)	182
NdeII	GATC	3 cut(s)	257, 337, 398
PciSI	GCTCTTC	1 cut(s)	38
PfeI	GAWTC	2 cut(s)	323, 368
PfoI	TCCNGGA	1 cut(s)	50
Psp124BI	GAGCTC	1 cut(s)	33
Psp6I	CCWGG	1 cut(s)	50
PspGI	CCWGG	1 cut(s)	50
PspPI	GGNCC	1 cut(s)	428
PsuI	RGATCY	2 cut(s)	257, 337
RsaI	GTAC	1 cut(s)	330
RsaNI	GTAC	1 cut(s)	329
SacI	GAGCTC	1 cut(s)	33
SapI	GCTCTTC	1 cut(s)	38
Sau3AI	GATC	3 cut(s)	257, 337, 398
Sau96I	GGNCC	1 cut(s)	428
ScrFI	CCNGG	1 cut(s)	52
SduI	GDGCHC	1 cut(s)	33
SetI	ASST	6 cut(s)	11, 33, 79, 107, 118, 130
SinI	GGWCC	1 cut(s)	428
SmlI	CTYRAG	1 cut(s)	120
SmoI	CTYRAG	1 cut(s)	120
SsiI	CCGC	2 cut(s)	158, 176
SspI	AATATT	1 cut(s)	468
SspMI	CTAG	2 cut(s)	102, 182
SstI	GAGCTC	1 cut(s)	33
StyD4I	CCNGG	1 cut(s)	50
StyI	CCWWGG	1 cut(s)	342
TaaI	ACNGT	1 cut(s)	318
TaiI	ACGT	1 cut(s)	11
TaqI	TCGA	2 cut(s)	378, 419
TatI	WGTACW	1 cut(s)	328
TfiI	GAWTC	2 cut(s)	323, 368
TscAI	CASTG	2 cut(s)	193, 321
TspDTI	ATGAA	1 cut(s)	120
TspRI	CASTG	2 cut(s)	193, 321
VpaK11BI	GGWCC	1 cut(s)	428
XagI	CCTNNNNNAGG	1 cut(s)	120
XspI	CTAG	2 cut(s)	102, 182

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