Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0005678

Physical Location & Seq

Genomic Coordinates Forward (+)

34302905 .. 34303722

Gene Structure 818 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG199600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 621 bp

ATGGCTGCATCTGTTCATCTTGCTCCAGAGCTCTTCCCTCTTGTCATTTCCAGGACAGGGAAGAATAGACCTAATAAAGAGTATAAAATGCACTCCAGGTGTGCATTACCTTCTGAAGGAGCTTCATCAACTCGCCGACTTGTAGTATATGCGGGTGCTTCTATCCTTGCGGTTCTAGCAACTAACTATGGGTTAGCGCCATTGCCTGTTTTGGCAGATGACAAATCAAATGATGAAGAGGAGAGGGATGGAGTTTTAGGTGCTATCCAGTCGCTGCTCGAAACCAATACGAAAACTAAGTCTGGAAGAGTGTTGCCAAAGGCATATTTGAAGACTGCAAAAGAAGTTGTGAAGACACTGCGGGAATCAGTACAGGAAGATCCCAAGGATAATGCAAAGTTTAGACGTACTGCAGATGCAGCAAAGGAATCAATTCGAGAGTATTTGAGCAATTGGAGGGGACAGCCAACGGTGTCTCAAGAGGAATCTTATGTCGAGTTAGAGAAAGCAATAAGATCATTGGCCGGCTTTTACTCGAAGGCAGGACCATCTGCCCCATTGCCTGAAGAAGTGAAGTCAGAAATATTGAGGGATTTAGATACAGCTGAAAAGTTTTTATGA

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

206

Amino Acids

22.68

Weight (kDa)

8.53

Isoelectric Point (pI)

56.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PSII_Pbs27	PF13326	46 - 206	2e-46	Photosystem II Pbs27

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

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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	3 cut(s)	152, 170, 361
AclWI	GGATC	1 cut(s)	374
AcoI	YGGCCR	1 cut(s)	522
AcuI	CTGAAG	2 cut(s)	135, 585
AfaI	GTAC	2 cut(s)	372, 409
AfiI	CCNNNNNNNGG	2 cut(s)	57, 116
AgsI	TTSAA	1 cut(s)	331
AjnI	CCWGG	2 cut(s)	50, 95
AluBI	AGCT	3 cut(s)	31, 122, 605
AluI	AGCT	3 cut(s)	31, 122, 605
Alw21I	GWGCWC	1 cut(s)	33
Alw26I	GTCTC	1 cut(s)	480
AlwI	GGATC	1 cut(s)	374
AlwNI	CAGNNNCTG	1 cut(s)	274
AoxI	GGCC	1 cut(s)	522
ApeKI	GCWGC	3 cut(s)	5, 274, 419
ArsI	GACNNNNNNTTYG	2 cut(s)	284, 316
Asp700I	GAANNNNTTC	1 cut(s)	432
AspLEI	GCGC	1 cut(s)	199
AspS9I	GGNCC	1 cut(s)	545
AvaII	GGWCC	1 cut(s)	545
BanII	GRGCYC	1 cut(s)	33
BbsI	GAAGAC	2 cut(s)	338, 359
Bbv12I	GWGCWC	1 cut(s)	33
BbvI	GCAGC	2 cut(s)	261, 431
BccI	CCATC	2 cut(s)	242, 556
BciT130I	CCWGG	2 cut(s)	52, 97
BcoDI	GTCTC	1 cut(s)	480
BfaI	CTAG	1 cut(s)	176
BfmI	CTRYAG	1 cut(s)	411
BfoI	RGCGCY	1 cut(s)	200
BisI	GCNGC	3 cut(s)	6, 275, 420
BlsI	GCNGC	3 cut(s)	7, 276, 421
Bme1390I	CCNGG	2 cut(s)	52, 97
Bme18I	GGWCC	1 cut(s)	545
BmgT120I	GGNCC	1 cut(s)	545
BmrFI	CCNGG	2 cut(s)	52, 97
BmsI	GCATC	2 cut(s)	17, 406
BpiI	GAAGAC	2 cut(s)	338, 359
BpmI	CTGGAG	2 cut(s)	9, 79
BpuEI	CTTGAG	1 cut(s)	462
BsaJI	CCNNGG	1 cut(s)	384
Bsc4I	CCNNNNNNNGG	2 cut(s)	57, 116
Bse118I	RCCGGY	1 cut(s)	524
Bse1I	ACTGG	1 cut(s)	268
Bse3DI	GCAATG	2 cut(s)	200, 557
BseBI	CCWGG	2 cut(s)	52, 97
BseDI	CCNNGG	1 cut(s)	384
BseGI	GGATG	1 cut(s)	253
BseLI	CCNNNNNNNGG	2 cut(s)	57, 116
BseMI	GCAATG	2 cut(s)	200, 557
BseNI	ACTGG	1 cut(s)	268
BseRI	GAGGAG	1 cut(s)	254
BseXI	GCAGC	2 cut(s)	261, 431
BshFI	GGCC	1 cut(s)	524
BsiHKAI	GWGCWC	1 cut(s)	33
BsiSI	CCGG	1 cut(s)	525
BslFI	GGGAC	1 cut(s)	474
BslI	CCNNNNNNNGG	2 cut(s)	57, 116
BsmAI	GTCTC	1 cut(s)	480
BsmFI	GGGAC	1 cut(s)	474
BsnI	GGCC	1 cut(s)	524
Bsp1286I	GDGCHC	1 cut(s)	33
Bsp143I	GATC	2 cut(s)	379, 515
BspACI	CCGC	3 cut(s)	152, 170, 361
BspANI	GGCC	1 cut(s)	524
BspMAI	CTGCAG	1 cut(s)	415
BspPI	GGATC	1 cut(s)	374
BspQI	GCTCTTC	1 cut(s)	38
BsrDI	GCAATG	2 cut(s)	200, 557
BsrFI	RCCGGY	1 cut(s)	524
BsrI	ACTGG	1 cut(s)	268
BssAI	RCCGGY	1 cut(s)	524
BssECI	CCNNGG	1 cut(s)	384
BssMI	GATC	2 cut(s)	379, 515
BssT1I	CCWWGG	1 cut(s)	384
Bst2UI	CCWGG	2 cut(s)	52, 97
Bst4CI	ACNGT	1 cut(s)	472
Bst6I	CTCTTC	3 cut(s)	38, 231, 301
BstC8I	GCNNGC	1 cut(s)	526
BstDEI	CTNAG	1 cut(s)	297
BstENI	CCTNNNNNAGG	1 cut(s)	114
BstF5I	GGATG	1 cut(s)	253
BstH2I	RGCGCY	1 cut(s)	200
BstHHI	GCGC	1 cut(s)	199
BstKTI	GATC	2 cut(s)	382, 518
BstMAI	GTCTC	1 cut(s)	480
BstMBI	GATC	2 cut(s)	379, 515
BstMWI	GCNNNNNNNGC	2 cut(s)	176, 419
BstNI	CCWGG	2 cut(s)	52, 97
BstSCI	CCNGG	2 cut(s)	50, 95
BstSFI	CTRYAG	1 cut(s)	411
BstV1I	GCAGC	2 cut(s)	261, 431
BstV2I	GAAGAC	2 cut(s)	338, 359
BstX2I	RGATCY	1 cut(s)	379
BstYI	RGATCY	1 cut(s)	379
BsuRI	GGCC	1 cut(s)	524
BtsCI	GGATG	1 cut(s)	253
BtsI	GCAGTG	1 cut(s)	356
BtsIMutI	CAGTG	1 cut(s)	356
Cac8I	GCNNGC	1 cut(s)	526
CaiI	CAGNNNCTG	1 cut(s)	274
CfoI	GCGC	1 cut(s)	199
Cfr10I	RCCGGY	1 cut(s)	524
Cfr13I	GGNCC	1 cut(s)	545
Csp6I	GTAC	2 cut(s)	371, 408
CviJI	RGCY	7 cut(s)	5, 31, 122, 466, 524, 528, 605
CviKI_1	RGCY	7 cut(s)	5, 31, 122, 466, 524, 528, 605
CviQI	GTAC	2 cut(s)	371, 408
DdeI	CTNAG	1 cut(s)	297
DpnI	GATC	2 cut(s)	381, 517
DpnII	GATC	2 cut(s)	379, 515
EaeI	YGGCCR	1 cut(s)	522
Eam1104I	CTCTTC	3 cut(s)	38, 231, 301
EarI	CTCTTC	3 cut(s)	38, 231, 301
Ecl136II	GAGCTC	1 cut(s)	31
Eco130I	CCWWGG	1 cut(s)	384
Eco24I	GRGCYC	1 cut(s)	33
Eco47I	GGWCC	1 cut(s)	545
Eco53kI	GAGCTC	1 cut(s)	31
Eco57I	CTGAAG	2 cut(s)	135, 585
EcoICRI	GAGCTC	1 cut(s)	31
EcoNI	CCTNNNNNAGG	1 cut(s)	114
EcoRII	CCWGG	2 cut(s)	50, 95
EcoT14I	CCWWGG	1 cut(s)	384
EcoT38I	GRGCYC	1 cut(s)	33
ErhI	CCWWGG	1 cut(s)	384
FaiI	YATR	7 cut(s)	84, 148, 150, 189, 325, 492, 619
FaqI	GGGAC	1 cut(s)	474
FauI	CCCGC	2 cut(s)	145, 354
Fnu4HI	GCNGC	3 cut(s)	6, 275, 420
FokI	GGATG	1 cut(s)	260
FriOI	GRGCYC	1 cut(s)	33
Fsp4HI	GCNGC	3 cut(s)	6, 275, 420
FspBI	CTAG	1 cut(s)	176
GlaI	GCGC	1 cut(s)	198
GluI	GCNGC	3 cut(s)	6, 275, 420
GsuI	CTGGAG	2 cut(s)	9, 79
HaeII	RGCGCY	1 cut(s)	200
HaeIII	GGCC	1 cut(s)	524
HapII	CCGG	1 cut(s)	525
HhaI	GCGC	1 cut(s)	199
Hin6I	GCGC	1 cut(s)	197
HinP1I	GCGC	1 cut(s)	197
HinfI	GANTC	3 cut(s)	365, 428, 485
HpaII	CCGG	1 cut(s)	525
Hpy188I	TCNGA	2 cut(s)	115, 580
Hpy188III	TCNNGA	4 cut(s)	26, 303, 437, 479
HpyAV	CCTTC	3 cut(s)	110, 120, 532
HpyCH4III	ACNGT	1 cut(s)	472
HpyCH4IV	ACGT	1 cut(s)	406
HpyCH4V	TGCA	7 cut(s)	8, 91, 104, 338, 395, 413, 419
HpyF10VI	GCNNNNNNNGC	2 cut(s)	176, 419
HpyF3I	CTNAG	1 cut(s)	297
HpySE526I	ACGT	1 cut(s)	406
HspAI	GCGC	1 cut(s)	197
KroI	GCCGGC	1 cut(s)	524
KroNI	GCCGGC	1 cut(s)	526
Kzo9I	GATC	2 cut(s)	379, 515
LguI	GCTCTTC	1 cut(s)	38
LmnI	GCTCC	2 cut(s)	28, 119
Lsp1109I	GCAGC	2 cut(s)	261, 431
LweI	GCATC	2 cut(s)	17, 406
MaeI	CTAG	1 cut(s)	176
MaeII	ACGT	1 cut(s)	406
MalI	GATC	2 cut(s)	381, 517
MboI	GATC	2 cut(s)	379, 515
MboII	GAAGA	8 cut(s)	25, 73, 248, 318, 343, 364, 389, 578
MfeI	CAATTG	1 cut(s)	451
MflI	RGATCY	1 cut(s)	379
MhlI	GDGCHC	1 cut(s)	33
MluCI	AATT	2 cut(s)	432, 451
MnlI	CCTC	6 cut(s)	48, 232, 237, 450, 475, 582
MroNI	GCCGGC	1 cut(s)	524
MroXI	GAANNNNTTC	1 cut(s)	432
MspA1I	CMGCKG	1 cut(s)	605
MspI	CCGG	1 cut(s)	525
MspR9I	CCNGG	2 cut(s)	52, 97
MunI	CAATTG	1 cut(s)	451
MvaI	CCWGG	2 cut(s)	52, 97
MwoI	GCNNNNNNNGC	2 cut(s)	176, 419
NaeI	GCCGGC	1 cut(s)	526
NdeII	GATC	2 cut(s)	379, 515
NgoMIV	GCCGGC	1 cut(s)	524
PciSI	GCTCTTC	1 cut(s)	38
PdiI	GCCGGC	1 cut(s)	526
PdmI	GAANNNNTTC	1 cut(s)	432
PfeI	GAWTC	3 cut(s)	365, 428, 485
PfoI	TCCNGGA	1 cut(s)	50
PkrI	GCNGC	3 cut(s)	7, 276, 421
Psp124BI	GAGCTC	1 cut(s)	33
Psp6I	CCWGG	2 cut(s)	50, 95
PspGI	CCWGG	2 cut(s)	50, 95
PspPI	GGNCC	1 cut(s)	545
PstI	CTGCAG	1 cut(s)	415
PstNI	CAGNNNCTG	1 cut(s)	274
PsuI	RGATCY	1 cut(s)	379
PvuII	CAGCTG	1 cut(s)	605
RsaI	GTAC	2 cut(s)	372, 409
RsaNI	GTAC	2 cut(s)	371, 408
SacI	GAGCTC	1 cut(s)	33
SapI	GCTCTTC	1 cut(s)	38
SatI	GCNGC	3 cut(s)	6, 275, 420
Sau3AI	GATC	2 cut(s)	379, 515
Sau96I	GGNCC	1 cut(s)	545
ScrFI	CCNGG	2 cut(s)	52, 97
SduI	GDGCHC	1 cut(s)	33
SetI	ASST	8 cut(s)	33, 73, 101, 112, 124, 262, 409, 607
SfaNI	GCATC	2 cut(s)	17, 406
SfcI	CTRYAG	1 cut(s)	411
SinI	GGWCC	1 cut(s)	545
SmlI	CTYRAG	1 cut(s)	477
SmoI	CTYRAG	1 cut(s)	477
Sse9I	AATT	2 cut(s)	432, 451
SsiI	CCGC	3 cut(s)	152, 170, 361
SspI	AATATT	1 cut(s)	585
SspMI	CTAG	1 cut(s)	176
SstI	GAGCTC	1 cut(s)	33
StyD4I	CCNGG	2 cut(s)	50, 95
StyI	CCWWGG	1 cut(s)	384
TaaI	ACNGT	1 cut(s)	472
TaiI	ACGT	1 cut(s)	409
TaqI	TCGA	4 cut(s)	279, 436, 495, 536
TasI	AATT	2 cut(s)	432, 451
TatI	WGTACW	1 cut(s)	370
TfiI	GAWTC	3 cut(s)	365, 428, 485
TscAI	CASTG	1 cut(s)	363
TseI	GCWGC	3 cut(s)	5, 274, 419
TspDTI	ATGAA	3 cut(s)	5, 114, 249
TspRI	CASTG	1 cut(s)	363
VpaK11BI	GGWCC	1 cut(s)	545
XagI	CCTNNNNNAGG	1 cut(s)	114
XmnI	GAANNNNTTC	1 cut(s)	432
XspI	CTAG	1 cut(s)	176

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