Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0006532

Physical Location & Seq

Genomic Coordinates Reverse (-)

54855754 .. 54857771

Gene Structure 2018 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00373710.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 582 bp

ATGGCAGCAACAATGGCTACTACAATGGCAATAATGAACGCCAAGTGCTTAAGCACCACCACCAACTCCTCCTCCAAACTCATCCCCAACCTCAAGCCAATCACCACCACAAAACCTATCTCCCTCCTCTCCATCCAAAGCCTTCCAAAGGGTCTAACCAGCTCAGCCCTAGCCGGAGCCATCTTCGCCACCATAAGCGCCTCCGAACCTGCCTTGGCTGCTCAGCAAATCGCTCAAATCGCCGAAGGCGACAACCGTGGCCTTGCCCTCCTCCTCCCCATCATTCCCGCCATCGCTTGGGTCCTCTTTAACATCTTCCAGCCGGCTCTCAACCAAATCAACCGCATGGTCAACAAGAGCGTCATCATTGGTCTAGGGCTTGGCGGTCTCGCCGCTTCGGGGTTCGTGTCCACTCCTGAAGCTTCTGCCAATGAAATGGCCATGATTGGTGAAGCAGCTGCAAAGGCCGGTGACAGCAGGGGACAGCTCCTCCTCATAGTGGTGGCTCCGGCTATTCTTTGGGTGCTCTACAACATTCTACAACCGGCTTTGAACCAGCTTAACAAGATGAGGTCAGAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0008150 GO:0009314 GO:0009416 GO:0009507 GO:0009521 GO:0009523 GO:0009532 GO:0009533 GO:0009534 GO:0009535 GO:0009536 GO:0009570 GO:0009579 GO:0009628 GO:0009642 GO:0009644 GO:0009892 GO:0009987 GO:0010109 GO:0010205 GO:0016020 GO:0019222 GO:0019725 GO:0031323 GO:0031324 GO:0031976 GO:0031984 GO:0032991 GO:0034357 GO:0042548 GO:0042592 GO:0042651 GO:0043155 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043467 GO:0044422 GO:0044424 GO:0044425 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0045454 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0055035 GO:0065007 GO:0065008 GO:0098796 GO:1905156

KEGG Pathways

Metabolic & Signaling

ko00195 ko01100 map00195 map01100

Pfam Domains

Protein Families

PsbY

Protein Analysis

193

Amino Acids

20.02

Weight (kDa)

9.52

Isoelectric Point (pI)

44.79

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PsbY	PF06298	84 - 116	1e-14	Photosystem II protein Y (PsbY)
PsbY	PF06298	158 - 190	5.6e-11	Photosystem II protein Y (PsbY)

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

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Publication-ready

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Orthologous Genes (Group: OG0006532)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G67740
fragaria_vesca	FvH4_4g25080
malus_domestica	MD13G1106700.v1.1 MD16G1106800.v1.1
prunus_persica	Prupe.1G239600_v2.0.a1 Prupe.5G159900_v2.0.a1
pyrus_communis	pycom13g09250 pycom16g09100
rosa_chinensis	RchiOBHm_Chr4g0432261 RchiOBHm_Chr7g0191491
rosa_laevigata	RLG00000004444
rosa_multiflora	Rmu_co8440915.1_g000001 Rmu_sc0002661.1_g000012 Rmu_sc0037235.1_g000001
rosa_roxburghii	Rroxscaffold_157G00438430 Rroxscaffold_3G00263750 Rroxscaffold_5G00373710
rosa_rugosa	Rorug04G0255700
rosa_samantha	Rh4AG312800 Rh4BG320400 Rh4CG335600 Rh4DG315700 Rh7AG118800 Rh7CG123600 Rh7DG121700
rosa_wichuraiana	Rw4G027190

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	217
AccB7I	CCANNNNNTGG	1 cut(s)	297
AciI	CCGC	4 cut(s)	288, 343, 384, 393
AcoI	YGGCCR	1 cut(s)	438
AcuI	CTGAAG	1 cut(s)	438
AfiI	CCNNNNNNNGG	4 cut(s)	148, 297, 399, 499
AflII	CTTAAG	1 cut(s)	49
AgsI	TTSAA	1 cut(s)	553
AluBI	AGCT	5 cut(s)	162, 422, 458, 487, 559
AluI	AGCT	5 cut(s)	162, 422, 458, 487, 559
Alw21I	GWGCWC	1 cut(s)	528
Alw26I	GTCTC	1 cut(s)	392
AoxI	GGCC	3 cut(s)	259, 438, 465
ApeKI	GCWGC	4 cut(s)	5, 218, 455, 458
AspLEI	GCGC	1 cut(s)	200
AspS9I	GGNCC	1 cut(s)	301
AsuHPI	GGTGA	3 cut(s)	94, 461, 482
AvaII	GGWCC	1 cut(s)	301
BalI	TGGCCA	1 cut(s)	440
Bbv12I	GWGCWC	1 cut(s)	528
BbvI	GCAGC	4 cut(s)	17, 205, 445, 467
BccI	CCATC	4 cut(s)	140, 188, 287, 299
BcoDI	GTCTC	1 cut(s)	392
BfaI	CTAG	2 cut(s)	170, 374
BfoI	RGCGCY	1 cut(s)	201
BfrI	CTTAAG	1 cut(s)	49
BfuAI	ACCTGC	1 cut(s)	217
BisI	GCNGC	5 cut(s)	6, 219, 393, 456, 459
BlpI	GCTNAGC	2 cut(s)	163, 222
BlsI	GCNGC	5 cut(s)	7, 220, 394, 457, 460
Bme18I	GGWCC	1 cut(s)	301
BmgT120I	GGNCC	1 cut(s)	301
BmiI	GGNNCC	3 cut(s)	178, 302, 507
Bpu1102I	GCTNAGC	2 cut(s)	163, 222
BpuEI	CTTGAG	1 cut(s)	77
BsaI	GGTCTC	1 cut(s)	392
BsaJI	CCNNGG	2 cut(s)	213, 256
BsaXI	ACNNNNNCTCC	4 cut(s)	56, 86, 474, 504
Bsc4I	CCNNNNNNNGG	4 cut(s)	148, 297, 399, 499
Bse118I	RCCGGY	3 cut(s)	322, 467, 544
BseDI	CCNNGG	2 cut(s)	213, 256
BseGI	GGATG	2 cut(s)	81, 132
BseLI	CCNNNNNNNGG	4 cut(s)	148, 297, 399, 499
BseMII	CTCAG	2 cut(s)	177, 236
BseRI	GAGGAG	7 cut(s)	58, 61, 116, 260, 263, 479, 482
BseXI	GCAGC	4 cut(s)	17, 205, 445, 467
BshFI	GGCC	3 cut(s)	261, 440, 467
BsiHKAI	GWGCWC	1 cut(s)	528
BsiSI	CCGG	5 cut(s)	174, 323, 468, 509, 545
BslFI	GGGAC	1 cut(s)	495
BslI	CCNNNNNNNGG	4 cut(s)	148, 297, 399, 499
BsmAI	GTCTC	1 cut(s)	392
BsmFI	GGGAC	1 cut(s)	495
BsnI	GGCC	3 cut(s)	261, 440, 467
Bso31I	GGTCTC	1 cut(s)	392
Bsp1286I	GDGCHC	1 cut(s)	528
Bsp1720I	GCTNAGC	2 cut(s)	163, 222
BspACI	CCGC	4 cut(s)	288, 343, 384, 393
BspANI	GGCC	3 cut(s)	261, 440, 467
BspCNI	CTCAG	2 cut(s)	176, 235
BspLI	GGNNCC	3 cut(s)	178, 302, 507
BspMI	ACCTGC	1 cut(s)	217
BspTI	CTTAAG	1 cut(s)	49
BspTNI	GGTCTC	1 cut(s)	392
BsrFI	RCCGGY	3 cut(s)	322, 467, 544
BssAI	RCCGGY	3 cut(s)	322, 467, 544
BssECI	CCNNGG	2 cut(s)	213, 256
BssT1I	CCWWGG	1 cut(s)	213
Bst4CI	ACNGT	1 cut(s)	257
BstAFI	CTTAAG	1 cut(s)	49
BstC8I	GCNNGC	1 cut(s)	324
BstDEI	CTNAG	2 cut(s)	163, 222
BstDSI	CCRYGG	1 cut(s)	256
BstENI	CCTNNNNNAGG	1 cut(s)	146
BstF5I	GGATG	2 cut(s)	81, 132
BstH2I	RGCGCY	1 cut(s)	201
BstHHI	GCGC	1 cut(s)	200
BstMAI	GTCTC	1 cut(s)	392
BstMWI	GCNNNNNNNGC	5 cut(s)	14, 185, 218, 239, 464
BstV1I	GCAGC	4 cut(s)	17, 205, 445, 467
BstXI	CCANNNNNNTGG	1 cut(s)	436
BsuRI	GGCC	3 cut(s)	261, 440, 467
BtgI	CCRYGG	1 cut(s)	256
BtgZI	GCGATG	1 cut(s)	277
BtsCI	GGATG	2 cut(s)	81, 132
BveI	ACCTGC	1 cut(s)	217
Cac8I	GCNNGC	1 cut(s)	324
CfoI	GCGC	1 cut(s)	200
Cfr10I	RCCGGY	3 cut(s)	322, 467, 544
Cfr13I	GGNCC	1 cut(s)	301
CseI	GACGC	1 cut(s)	349
CviAII	CATG	2 cut(s)	346, 442
DdeI	CTNAG	2 cut(s)	163, 222
EaeI	YGGCCR	1 cut(s)	438
Eco130I	CCWWGG	1 cut(s)	213
Eco31I	GGTCTC	1 cut(s)	392
Eco47I	GGWCC	1 cut(s)	301
Eco57I	CTGAAG	1 cut(s)	438
EcoNI	CCTNNNNNAGG	1 cut(s)	146
EcoO109I	RGGNCCY	1 cut(s)	301
EcoT14I	CCWWGG	1 cut(s)	213
ErhI	CCWWGG	1 cut(s)	213
FaeI	CATG	2 cut(s)	349, 445
FaiI	YATR	4 cut(s)	194, 347, 443, 497
FaqI	GGGAC	1 cut(s)	495
FatI	CATG	2 cut(s)	345, 441
FauI	CCCGC	1 cut(s)	295
Fnu4HI	GCNGC	5 cut(s)	6, 219, 393, 456, 459
FokI	GGATG	2 cut(s)	68, 119
Fsp4HI	GCNGC	5 cut(s)	6, 219, 393, 456, 459
FspBI	CTAG	2 cut(s)	170, 374
GlaI	GCGC	1 cut(s)	199
GluI	GCNGC	5 cut(s)	6, 219, 393, 456, 459
HaeII	RGCGCY	1 cut(s)	201
HaeIII	GGCC	3 cut(s)	261, 440, 467
HapII	CCGG	5 cut(s)	174, 323, 468, 509, 545
HgaI	GACGC	1 cut(s)	349
HhaI	GCGC	1 cut(s)	200
Hin1II	CATG	2 cut(s)	349, 445
Hin6I	GCGC	1 cut(s)	198
HinP1I	GCGC	1 cut(s)	198
HincII	GTYRAC	1 cut(s)	352
HindII	GTYRAC	1 cut(s)	352
HindIII	AAGCTT	1 cut(s)	420
HpaII	CCGG	5 cut(s)	174, 323, 468, 509, 545
HphI	GGTGA	3 cut(s)	94, 461, 482
Hpy166II	GTNNAC	2 cut(s)	352, 411
Hpy188I	TCNGA	2 cut(s)	205, 577
Hpy188III	TCNNGA	1 cut(s)	416
Hpy8I	GTNNAC	2 cut(s)	352, 411
HpyAV	CCTTC	2 cut(s)	152, 239
HpyCH4III	ACNGT	1 cut(s)	257
HpyCH4V	TGCA	1 cut(s)	461
HpyF10VI	GCNNNNNNNGC	5 cut(s)	14, 185, 218, 239, 464
HpyF3I	CTNAG	2 cut(s)	163, 222
Hsp92II	CATG	2 cut(s)	349, 445
HspAI	GCGC	1 cut(s)	198
KroI	GCCGGC	1 cut(s)	322
KroNI	GCCGGC	1 cut(s)	324
LmnI	GCTCC	3 cut(s)	176, 492, 511
Lsp1109I	GCAGC	4 cut(s)	17, 205, 445, 467
MaeI	CTAG	2 cut(s)	170, 374
MaeIII	GTNAC	1 cut(s)	470
MboII	GAAGA	2 cut(s)	175, 307
MhlI	GDGCHC	1 cut(s)	528
MlsI	TGGCCA	1 cut(s)	440
MluNI	TGGCCA	1 cut(s)	440
Mox20I	TGGCCA	1 cut(s)	440
MroNI	GCCGGC	1 cut(s)	322
MscI	TGGCCA	1 cut(s)	440
MseI	TTAA	3 cut(s)	50, 309, 561
MslI	CAYNNNNRTG	1 cut(s)	500
Msp20I	TGGCCA	1 cut(s)	440
MspA1I	CMGCKG	1 cut(s)	458
MspCI	CTTAAG	1 cut(s)	49
MspI	CCGG	5 cut(s)	174, 323, 468, 509, 545
MwoI	GCNNNNNNNGC	5 cut(s)	14, 185, 218, 239, 464
NaeI	GCCGGC	1 cut(s)	324
NgoMIV	GCCGGC	1 cut(s)	322
NlaIII	CATG	2 cut(s)	349, 445
NlaIV	GGNNCC	3 cut(s)	178, 302, 507
NmuCI	GTSAC	1 cut(s)	470
PcsI	WCGNNNNNNNCGW	1 cut(s)	246
PdiI	GCCGGC	1 cut(s)	324
PflMI	CCANNNNNTGG	1 cut(s)	297
PkrI	GCNGC	5 cut(s)	7, 220, 394, 457, 460
PpuMI	RGGWCCY	1 cut(s)	301
Psp5II	RGGWCCY	1 cut(s)	301
PspN4I	GGNNCC	3 cut(s)	178, 302, 507
PspPI	GGNCC	1 cut(s)	301
PspPPI	RGGWCCY	1 cut(s)	301
PvuII	CAGCTG	1 cut(s)	458
RseI	CAYNNNNRTG	1 cut(s)	500
SaqAI	TTAA	3 cut(s)	50, 309, 561
SatI	GCNGC	5 cut(s)	6, 219, 393, 456, 459
Sau96I	GGNCC	1 cut(s)	301
SduI	GDGCHC	1 cut(s)	528
SetI	ASST	9 cut(s)	93, 118, 164, 211, 424, 460, 489, 561, 575
SinI	GGWCC	1 cut(s)	301
SmiMI	CAYNNNNRTG	1 cut(s)	500
SmlI	CTYRAG	2 cut(s)	49, 92
SmoI	CTYRAG	2 cut(s)	49, 92
SsiI	CCGC	4 cut(s)	288, 343, 384, 393
SspMI	CTAG	2 cut(s)	170, 374
StyI	CCWWGG	1 cut(s)	213
TaaI	ACNGT	1 cut(s)	257
TauI	GCSGC	1 cut(s)	395
Tru1I	TTAA	3 cut(s)	50, 309, 561
Tru9I	TTAA	3 cut(s)	50, 309, 561
TseFI	GTSAC	1 cut(s)	470
TseI	GCWGC	4 cut(s)	5, 218, 455, 458
Tsp45I	GTSAC	1 cut(s)	470
TspDTI	ATGAA	2 cut(s)	50, 447
Van91I	CCANNNNNTGG	1 cut(s)	297
Vha464I	CTTAAG	1 cut(s)	49
VpaK11BI	GGWCC	1 cut(s)	301
XagI	CCTNNNNNAGG	1 cut(s)	146
XspI	CTAG	2 cut(s)	170, 374

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