Rroxscaffold_3G00233680

One of the components of the core complex of photosystem II (PSII). It binds chlorophyll and helps catalyze the primary light-induced photochemical processes of PSII. PSII is a light- driven water plastoquinone oxidoreductase, using light energy to abstract electrons from H(2)O, generating O(2) and a proton gradient subsequently used for ATP formation

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0007092
Physical Location & Seq
Reverse (-)
19862497 .. 19863165
669 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00233680.1

Sequence Viewer

Length: 669 bp
ATGAGGCCTCCGTTCGACAAAAAAAGCTTCACCACTCGGCTCGATCCGTTCATGAAACTTGTTCAGAACTTCAATCGAGTTCACCAGTCCAAGAATCGTGAAAATTGGTGGTCTAGAACTCGAGATATCCGCGTTGACTCAAAATCGAGCTCAAATCGGACCGAGCTTCCCGCCGCCGCTACGGGCCTCCCCGCTGTGCAAGGCAGCCACGAACAGTGCGCAAGGACCAAAAGAAGTCAATGGAAGAAGTTTGGTGAGGATTGGTGGCCGAGAGAGGAGGGAGATATGGCCGGTGGAAATTCTGCAGCAGCGATTTACGGCCGGAACGAGGGAGAGAGCTGCAATTTTACAAAAAAACTAGCTTTTTATGATTACATCAGCAATAATCCGGCAAAAGGGGGATTATTCGGAGCGGGCTCAATGGACAACGGGGATGGAATAGCTGTTGGGTGGTTAGGACATCCTATCTTTAGAGATAAAGAGGGGCATGAACTTTTTGTACGTCGTATGCCGACGTTTTTTGAAACATTTCCAGTTGTTTTGGTCGACGGGGACGGAATTGTTAGAGCCGATGTTCCTTTTAGAAGGGCAGAATCAAAATATAGTGTCGAACAAGTAGGTGTAACTGTTGAGTTCTATGGCGGCGAACTGAATGGAGTCGGGTTATAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00195 ko01100 map00195 map01100
Pfam Domains
Protein Families
PSII

Protein Analysis

222

Amino Acids

24.95

Weight (kDa)

8.85

Isoelectric Point (pI)

41.79

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PSII PF00421 115 - 220 1e-45 Photosystem II protein
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 220
AccBSI CCGCTC 1 cut(s) 413
AccI GTMKAC 1 cut(s) 546
AccII CGCG 1 cut(s) 132
AciI CCGC 7 cut(s) 130, 171, 174, 177, 192, 413, 642
AclWI GGATC 1 cut(s) 38
AcoI YGGCCR 3 cut(s) 266, 288, 319
AcsI RAATTY 1 cut(s) 298
AfaI GTAC 1 cut(s) 501
AfiI CCNNNNNNNGG 2 cut(s) 328, 395
AgsI TTSAA 2 cut(s) 73, 524
AluBI AGCT 6 cut(s) 27, 150, 166, 339, 362, 443
AluI AGCT 6 cut(s) 27, 150, 166, 339, 362, 443
Alw21I GWGCWC 1 cut(s) 152
AlwI GGATC 1 cut(s) 38
Ama87I CYCGRG 1 cut(s) 120
AoxI GGCC 5 cut(s) 5, 184, 266, 288, 319
ApeKI GCWGC 4 cut(s) 204, 305, 308, 339
ApoI RAATTY 1 cut(s) 298
Asp700I GAANNNNTTC 1 cut(s) 528
AspLEI GCGC 1 cut(s) 221
AspS9I GGNCC 3 cut(s) 159, 184, 225
AsuHPI GGTGA 3 cut(s) 22, 74, 266
AvaI CYCGRG 1 cut(s) 120
AvaII GGWCC 2 cut(s) 159, 225
BanII GRGCYC 2 cut(s) 152, 419
Bbv12I GWGCWC 1 cut(s) 152
BbvI GCAGC 4 cut(s) 216, 317, 320, 326
BccI CCATC 1 cut(s) 428
BceAI ACGGC 1 cut(s) 334
BfaI CTAG 2 cut(s) 114, 359
BfmI CTRYAG 1 cut(s) 303
BisI GCNGC 7 cut(s) 174, 177, 205, 306, 309, 340, 643
BlsI GCNGC 7 cut(s) 175, 178, 206, 307, 310, 341, 644
Bme18I GGWCC 2 cut(s) 159, 225
BmeT110I CYCGRG 1 cut(s) 120
BmgT120I GGNCC 3 cut(s) 159, 184, 225
Bsc4I CCNNNNNNNGG 2 cut(s) 328, 395
Bse118I RCCGGY 1 cut(s) 290
Bse1I ACTGG 2 cut(s) 85, 533
BseGI GGATG 2 cut(s) 439, 460
BseLI CCNNNNNNNGG 2 cut(s) 328, 395
BseNI ACTGG 2 cut(s) 85, 533
BseRI GAGGAG 1 cut(s) 290
BseX3I CGGCCG 1 cut(s) 319
BseXI GCAGC 4 cut(s) 216, 317, 320, 326
Bsh1236I CGCG 1 cut(s) 132
Bsh1285I CGRYCG 1 cut(s) 322
BshFI GGCC 5 cut(s) 7, 186, 268, 290, 321
BsiEI CGRYCG 1 cut(s) 322
BsiHKAI GWGCWC 1 cut(s) 152
BsiHKCI CYCGRG 1 cut(s) 120
BsiSI CCGG 3 cut(s) 291, 322, 389
BslFI GGGAC 1 cut(s) 566
BslI CCNNNNNNNGG 2 cut(s) 328, 395
BsmFI GGGAC 1 cut(s) 566
BsnI GGCC 5 cut(s) 7, 186, 268, 290, 321
BsoBI CYCGRG 1 cut(s) 120
Bsp1286I GDGCHC 2 cut(s) 152, 419
Bsp143I GATC 1 cut(s) 43
BspACI CCGC 7 cut(s) 130, 171, 174, 177, 192, 413, 642
BspANI GGCC 5 cut(s) 7, 186, 268, 290, 321
BspFNI CGCG 1 cut(s) 132
BspHI TCATGA 1 cut(s) 51
BspMAI CTGCAG 1 cut(s) 307
BspPI GGATC 1 cut(s) 38
BsrBI CCGCTC 1 cut(s) 413
BsrFI RCCGGY 1 cut(s) 290
BsrI ACTGG 2 cut(s) 85, 533
BssAI RCCGGY 1 cut(s) 290
BssMI GATC 1 cut(s) 43
Bst4CI ACNGT 2 cut(s) 216, 628
BstC8I GCNNGC 1 cut(s) 415
BstF5I GGATG 2 cut(s) 439, 460
BstFNI CGCG 1 cut(s) 132
BstHHI GCGC 1 cut(s) 221
BstKTI GATC 1 cut(s) 46
BstMBI GATC 1 cut(s) 43
BstMCI CGRYCG 1 cut(s) 322
BstSFI CTRYAG 1 cut(s) 303
BstUI CGCG 1 cut(s) 132
BstV1I GCAGC 4 cut(s) 216, 317, 320, 326
BstZI CGGCCG 1 cut(s) 319
BsuRI GGCC 5 cut(s) 7, 186, 268, 290, 321
BtsCI GGATG 2 cut(s) 439, 460
BtsIMutI CAGTG 1 cut(s) 221
Cac8I GCNNGC 1 cut(s) 415
CciI TCATGA 1 cut(s) 51
CfoI GCGC 1 cut(s) 221
Cfr10I RCCGGY 1 cut(s) 290
Cfr13I GGNCC 3 cut(s) 159, 184, 225
CpoI CGGWCCG 1 cut(s) 159
Csp6I GTAC 1 cut(s) 500
CspI CGGWCCG 1 cut(s) 159
CviAII CATG 2 cut(s) 52, 488
CviQI GTAC 1 cut(s) 500
DpnI GATC 1 cut(s) 45
DpnII GATC 1 cut(s) 43
EaeI YGGCCR 3 cut(s) 266, 288, 319
EagI CGGCCG 1 cut(s) 319
Ecl136II GAGCTC 1 cut(s) 150
EclXI CGGCCG 1 cut(s) 319
Eco147I AGGCCT 1 cut(s) 7
Eco24I GRGCYC 2 cut(s) 152, 419
Eco32I GATATC 1 cut(s) 127
Eco47I GGWCC 2 cut(s) 159, 225
Eco52I CGGCCG 1 cut(s) 319
Eco53kI GAGCTC 1 cut(s) 150
Eco88I CYCGRG 1 cut(s) 120
EcoICRI GAGCTC 1 cut(s) 150
EcoRV GATATC 1 cut(s) 127
EcoT38I GRGCYC 2 cut(s) 152, 419
FaeI CATG 2 cut(s) 55, 491
FaiI YATR 8 cut(s) 53, 287, 369, 489, 509, 603, 639, 667
FaqI GGGAC 1 cut(s) 566
FatI CATG 2 cut(s) 51, 487
FauI CCCGC 3 cut(s) 178, 199, 406
FblI GTMKAC 1 cut(s) 546
Fnu4HI GCNGC 7 cut(s) 174, 177, 205, 306, 309, 340, 643
FokI GGATG 2 cut(s) 446, 447
FriOI GRGCYC 2 cut(s) 152, 419
Fsp4HI GCNGC 7 cut(s) 174, 177, 205, 306, 309, 340, 643
FspBI CTAG 2 cut(s) 114, 359
FspI TGCGCA 1 cut(s) 220
GlaI GCGC 1 cut(s) 220
GluI GCNGC 7 cut(s) 174, 177, 205, 306, 309, 340, 643
HaeIII GGCC 5 cut(s) 7, 186, 268, 290, 321
HapII CCGG 3 cut(s) 291, 322, 389
HhaI GCGC 1 cut(s) 221
Hin1II CATG 2 cut(s) 55, 491
Hin6I GCGC 1 cut(s) 219
HinP1I GCGC 1 cut(s) 219
HincII GTYRAC 2 cut(s) 136, 547
HindII GTYRAC 2 cut(s) 136, 547
HindIII AAGCTT 1 cut(s) 25
HinfI GANTC 4 cut(s) 94, 137, 593, 657
HpaII CCGG 3 cut(s) 291, 322, 389
HphI GGTGA 3 cut(s) 22, 74, 266
Hpy166II GTNNAC 3 cut(s) 82, 136, 547
Hpy188I TCNGA 3 cut(s) 66, 159, 410
Hpy188III TCNNGA 4 cut(s) 52, 98, 114, 122
Hpy8I GTNNAC 3 cut(s) 82, 136, 547
Hpy99I CGWCG 3 cut(s) 507, 517, 551
HpyAV CCTTC 1 cut(s) 579
HpyCH4III ACNGT 2 cut(s) 216, 628
HpyCH4IV ACGT 2 cut(s) 502, 515
HpyCH4V TGCA 3 cut(s) 199, 305, 342
HpySE526I ACGT 2 cut(s) 502, 515
Hsp92II CATG 2 cut(s) 55, 491
HspAI GCGC 1 cut(s) 219
Kzo9I GATC 1 cut(s) 43
LmnI GCTCC 1 cut(s) 410
LpnPI CCDG 5 cut(s) 98, 304, 335, 402, 546
Lsp1109I GCAGC 4 cut(s) 216, 317, 320, 326
MaeI CTAG 2 cut(s) 114, 359
MaeII ACGT 2 cut(s) 502, 515
MaeIII GTNAC 1 cut(s) 622
MalI GATC 1 cut(s) 45
MbiI CCGCTC 1 cut(s) 413
MboI GATC 1 cut(s) 43
MboII GAAGA 1 cut(s) 256
MhlI GDGCHC 2 cut(s) 152, 419
MluCI AATT 4 cut(s) 103, 298, 343, 558
MlyI GAGTC 2 cut(s) 131, 666
MnlI CCTC 7 cut(s) 18, 197, 250, 268, 271, 322, 475
MroXI GAANNNNTTC 1 cut(s) 528
MspA1I CMGCKG 1 cut(s) 194
MspI CCGG 3 cut(s) 291, 322, 389
MvnI CGCG 1 cut(s) 132
NdeII GATC 1 cut(s) 43
NlaIII CATG 2 cut(s) 55, 491
NmeAIII GCCGAG 2 cut(s) 16, 294
NsbI TGCGCA 1 cut(s) 220
PaeR7I CTCGAG 1 cut(s) 120
PagI TCATGA 1 cut(s) 51
PceI AGGCCT 1 cut(s) 7
PcsI WCGNNNNNNNCGW 1 cut(s) 324
PdmI GAANNNNTTC 1 cut(s) 528
PfeI GAWTC 2 cut(s) 94, 593
PkrI GCNGC 7 cut(s) 175, 178, 206, 307, 310, 341, 644
PleI GAGTC 2 cut(s) 131, 665
PpsI GAGTC 2 cut(s) 131, 665
Psp124BI GAGCTC 1 cut(s) 152
PspPI GGNCC 3 cut(s) 159, 184, 225
PsrI GAACNNNNNNTAC 2 cut(s) 483, 515
PstI CTGCAG 1 cut(s) 307
RsaI GTAC 1 cut(s) 501
RsaNI GTAC 1 cut(s) 500
Rsr2I CGGWCCG 1 cut(s) 159
RsrII CGGWCCG 1 cut(s) 159
SacI GAGCTC 1 cut(s) 152
SalI GTCGAC 1 cut(s) 545
SatI GCNGC 7 cut(s) 174, 177, 205, 306, 309, 340, 643
Sau3AI GATC 1 cut(s) 43
Sau96I GGNCC 3 cut(s) 159, 184, 225
SchI GAGTC 2 cut(s) 131, 666
SduI GDGCHC 2 cut(s) 152, 419
SetI ASST 9 cut(s) 29, 152, 168, 341, 364, 445, 505, 518, 622
SfcI CTRYAG 1 cut(s) 303
Sfr274I CTCGAG 1 cut(s) 120
SinI GGWCC 2 cut(s) 159, 225
SlaI CTCGAG 1 cut(s) 120
SmlI CTYRAG 1 cut(s) 120
SmoI CTYRAG 1 cut(s) 120
Sse9I AATT 4 cut(s) 103, 298, 343, 558
SseBI AGGCCT 1 cut(s) 7
SsiI CCGC 7 cut(s) 130, 171, 174, 177, 192, 413, 642
SspMI CTAG 2 cut(s) 114, 359
SstI GAGCTC 1 cut(s) 152
StuI AGGCCT 1 cut(s) 7
TaaI ACNGT 2 cut(s) 216, 628
TaiI ACGT 2 cut(s) 505, 518
TaqI TCGA 7 cut(s) 15, 42, 76, 121, 146, 546, 609
TaqII GACCGA 1 cut(s) 176
TasI AATT 4 cut(s) 103, 298, 343, 558
TauI GCSGC 3 cut(s) 176, 179, 645
TfiI GAWTC 2 cut(s) 94, 593
TscAI CASTG 1 cut(s) 221
TseI GCWGC 4 cut(s) 204, 305, 308, 339
TspDTI ATGAA 3 cut(s) 40, 68, 504
TspGWI ACGGA 2 cut(s) 36, 570
TspRI CASTG 1 cut(s) 221
VpaK11BI GGWCC 2 cut(s) 159, 225
XapI RAATTY 1 cut(s) 298
XbaI TCTAGA 1 cut(s) 113
XhoI CTCGAG 1 cut(s) 120
XmiI GTMKAC 1 cut(s) 546
XmnI GAANNNNTTC 1 cut(s) 528
XspI CTAG 2 cut(s) 114, 359
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.