Rroxscaffold_2G00107490

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
GWHEROQ00000002
OG0007092
Physical Location & Seq
Forward (+)
31434890 .. 31436581
1692 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00107490.1

Sequence Viewer

Length: 576 bp
ATGCCTAAGGCTGCCGGCCAAGGTTCCTCTGTTTTCGGTGCTCATACAACCTTTCGATTTCAGCTTTGCCCTTTTGTAGTTGTTGGAACTATGTGGTATGGTTCAGCAACTACCCCGATTGAATTGTTTGGTCCCACGCGCTATCAATGGGATCGGGGATACTTCCAACAAGAAATATATCGAAGAATTGGTGCTGGCTTAACCGAAAATCAAAGTTTATCCGAAGCTTGGTCTAAAATTCCTGAAAAGTTAGCTTTTTATGATTACATCAGCAATAATCCTGCAAAAAGGGGATTATTCAAAGCGGGCTCAATGGACAACGGGGATGGAATAGCTGTTGGGTGGTTAGGACATCCTATCTTTGGAGATAAAGAGGGGCATGAACTTTTTGTACGTCGTATGCCGACGTTTTTGAAACATTTCCAATTGTTTTGGTCAACGGGGACAGAATTATTAGAGCCGATGTTCCTTTTAGAAGGGCGAGAATCAAAATATAGTGTTGAACAAGTAGGTGTAACTGTTCAGTTCTATGGCGGTGAACTGAATGGAGTCGGTTATAGTGACCACGCTTTGTGA
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

191

Amino Acids

21.47

Weight (kDa)

6.2

Isoelectric Point (pI)

31.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PSII PF00421 20 - 189 4.3e-63 Photosystem II protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 139
AciI CCGC 2 cut(s) 305, 534
AclWI GGATC 1 cut(s) 159
AcoI YGGCCR 1 cut(s) 16
AcsI RAATTY 1 cut(s) 237
AfaI GTAC 1 cut(s) 393
AfiI CCNNNNNNNGG 2 cut(s) 228, 362
AgsI TTSAA 4 cut(s) 122, 301, 415, 503
AluBI AGCT 4 cut(s) 64, 227, 254, 335
AluI AGCT 4 cut(s) 64, 227, 254, 335
Alw21I GWGCWC 1 cut(s) 43
AlwI GGATC 1 cut(s) 159
AoxI GGCC 1 cut(s) 16
ApeKI GCWGC 1 cut(s) 11
ApoI RAATTY 1 cut(s) 237
Asp700I GAANNNNTTC 1 cut(s) 419
AspLEI GCGC 1 cut(s) 141
AspS9I GGNCC 1 cut(s) 131
AsuHPI GGTGA 1 cut(s) 548
AvaII GGWCC 1 cut(s) 131
AxyI CCTNAGG 1 cut(s) 6
BanII GRGCYC 1 cut(s) 311
Bbv12I GWGCWC 1 cut(s) 43
BccI CCATC 1 cut(s) 320
BciVI GTATCC 1 cut(s) 152
BfuI GTATCC 1 cut(s) 152
BisI GCNGC 1 cut(s) 12
BlsI GCNGC 1 cut(s) 13
Bme18I GGWCC 1 cut(s) 131
BmgT120I GGNCC 1 cut(s) 131
BmiI GGNNCC 2 cut(s) 25, 133
BsaJI CCNNGG 1 cut(s) 19
Bsc4I CCNNNNNNNGG 2 cut(s) 228, 362
Bse118I RCCGGY 1 cut(s) 14
Bse21I CCTNAGG 1 cut(s) 6
BseDI CCNNGG 1 cut(s) 19
BseGI GGATG 2 cut(s) 331, 352
BseLI CCNNNNNNNGG 2 cut(s) 228, 362
Bsh1236I CGCG 1 cut(s) 139
BshFI GGCC 1 cut(s) 18
BsiHKAI GWGCWC 1 cut(s) 43
BsiSI CCGG 1 cut(s) 15
BslFI GGGAC 2 cut(s) 117, 457
BslI CCNNNNNNNGG 2 cut(s) 228, 362
BsmFI GGGAC 2 cut(s) 117, 457
BsnI GGCC 1 cut(s) 18
Bsp1286I GDGCHC 2 cut(s) 43, 311
Bsp143I GATC 1 cut(s) 151
BspACI CCGC 2 cut(s) 305, 534
BspANI GGCC 1 cut(s) 18
BspFNI CGCG 1 cut(s) 139
BspLI GGNNCC 2 cut(s) 25, 133
BspPI GGATC 1 cut(s) 159
BsrFI RCCGGY 1 cut(s) 14
BssAI RCCGGY 1 cut(s) 14
BssECI CCNNGG 1 cut(s) 19
BssMI GATC 1 cut(s) 151
BssT1I CCWWGG 1 cut(s) 19
Bst4CI ACNGT 1 cut(s) 520
BstC8I GCNNGC 3 cut(s) 16, 196, 307
BstDEI CTNAG 1 cut(s) 6
BstF5I GGATG 2 cut(s) 331, 352
BstFNI CGCG 1 cut(s) 139
BstHHI GCGC 1 cut(s) 141
BstKTI GATC 1 cut(s) 154
BstMBI GATC 1 cut(s) 151
BstUI CGCG 1 cut(s) 139
Bsu36I CCTNAGG 1 cut(s) 6
BsuI GTATCC 1 cut(s) 152
BsuRI GGCC 1 cut(s) 18
BtsCI GGATG 2 cut(s) 331, 352
Cac8I GCNNGC 3 cut(s) 16, 196, 307
CfoI GCGC 1 cut(s) 141
Cfr10I RCCGGY 1 cut(s) 14
Cfr13I GGNCC 1 cut(s) 131
Csp6I GTAC 1 cut(s) 392
CviAII CATG 1 cut(s) 380
CviJI RGCY 9 cut(s) 11, 18, 64, 198, 227, 254, 309, 335, 460
CviKI_1 RGCY 9 cut(s) 11, 18, 64, 198, 227, 254, 309, 335, 460
CviQI GTAC 1 cut(s) 392
DdeI CTNAG 1 cut(s) 6
DpnI GATC 1 cut(s) 153
DpnII GATC 1 cut(s) 151
EaeI YGGCCR 1 cut(s) 16
Eco130I CCWWGG 1 cut(s) 19
Eco24I GRGCYC 1 cut(s) 311
Eco47I GGWCC 1 cut(s) 131
Eco81I CCTNAGG 1 cut(s) 6
EcoT14I CCWWGG 1 cut(s) 19
EcoT38I GRGCYC 1 cut(s) 311
ErhI CCWWGG 1 cut(s) 19
FaeI CATG 1 cut(s) 383
FaqI GGGAC 2 cut(s) 117, 457
FatI CATG 1 cut(s) 379
FauI CCCGC 1 cut(s) 298
Fnu4HI GCNGC 1 cut(s) 12
FokI GGATG 2 cut(s) 338, 339
FriOI GRGCYC 1 cut(s) 311
Fsp4HI GCNGC 1 cut(s) 12
GlaI GCGC 1 cut(s) 140
GluI GCNGC 1 cut(s) 12
HaeIII GGCC 1 cut(s) 18
HapII CCGG 1 cut(s) 15
HhaI GCGC 1 cut(s) 141
Hin1II CATG 1 cut(s) 383
Hin6I GCGC 1 cut(s) 139
HinP1I GCGC 1 cut(s) 139
HincII GTYRAC 1 cut(s) 438
HindII GTYRAC 1 cut(s) 438
HindIII AAGCTT 1 cut(s) 225
HinfI GANTC 2 cut(s) 485, 549
HpaII CCGG 1 cut(s) 15
HphI GGTGA 1 cut(s) 548
Hpy166II GTNNAC 2 cut(s) 438, 539
Hpy188I TCNGA 1 cut(s) 223
Hpy188III TCNNGA 1 cut(s) 242
Hpy8I GTNNAC 2 cut(s) 438, 539
Hpy99I CGWCG 2 cut(s) 399, 409
HpyAV CCTTC 1 cut(s) 470
HpyCH4III ACNGT 1 cut(s) 520
HpyCH4IV ACGT 2 cut(s) 394, 407
HpyCH4V TGCA 1 cut(s) 284
HpyF3I CTNAG 1 cut(s) 6
HpySE526I ACGT 2 cut(s) 394, 407
Hsp92II CATG 1 cut(s) 383
HspAI GCGC 1 cut(s) 139
KroI GCCGGC 1 cut(s) 14
KroNI GCCGGC 1 cut(s) 16
Kzo9I GATC 1 cut(s) 151
LpnPI CCDG 4 cut(s) 28, 180, 255, 294
MaeII ACGT 2 cut(s) 394, 407
MaeIII GTNAC 2 cut(s) 514, 560
MalI GATC 1 cut(s) 153
MboI GATC 1 cut(s) 151
MboII GAAGA 1 cut(s) 195
MfeI CAATTG 1 cut(s) 425
MhlI GDGCHC 2 cut(s) 43, 311
MluCI AATT 5 cut(s) 122, 186, 237, 425, 449
MlyI GAGTC 1 cut(s) 558
MmeI TCCRAC 2 cut(s) 64, 190
MnlI CCTC 2 cut(s) 37, 367
MroNI GCCGGC 1 cut(s) 14
MroXI GAANNNNTTC 1 cut(s) 419
MseI TTAA 1 cut(s) 200
MspI CCGG 1 cut(s) 15
MunI CAATTG 1 cut(s) 425
MvnI CGCG 1 cut(s) 139
NaeI GCCGGC 1 cut(s) 16
NdeII GATC 1 cut(s) 151
NgoMIV GCCGGC 1 cut(s) 14
NlaIII CATG 1 cut(s) 383
NlaIV GGNNCC 2 cut(s) 25, 133
NmuCI GTSAC 1 cut(s) 560
PdiI GCCGGC 1 cut(s) 16
PdmI GAANNNNTTC 1 cut(s) 419
PfeI GAWTC 1 cut(s) 485
PkrI GCNGC 1 cut(s) 13
PleI GAGTC 1 cut(s) 557
PpsI GAGTC 1 cut(s) 557
PspN4I GGNNCC 2 cut(s) 25, 133
PspPI GGNCC 1 cut(s) 131
PsrI GAACNNNNNNTAC 2 cut(s) 375, 407
RsaI GTAC 1 cut(s) 393
RsaNI GTAC 1 cut(s) 392
SaqAI TTAA 1 cut(s) 200
SatI GCNGC 1 cut(s) 12
Sau3AI GATC 1 cut(s) 151
Sau96I GGNCC 1 cut(s) 131
SchI GAGTC 1 cut(s) 558
SduI GDGCHC 2 cut(s) 43, 311
SetI ASST 9 cut(s) 25, 53, 66, 229, 256, 337, 397, 410, 514
SinI GGWCC 1 cut(s) 131
Sse9I AATT 5 cut(s) 122, 186, 237, 425, 449
SsiI CCGC 2 cut(s) 305, 534
StyI CCWWGG 1 cut(s) 19
TaaI ACNGT 1 cut(s) 520
TaiI ACGT 2 cut(s) 397, 410
TaqI TCGA 2 cut(s) 55, 181
TasI AATT 5 cut(s) 122, 186, 237, 425, 449
TfiI GAWTC 1 cut(s) 485
Tru1I TTAA 1 cut(s) 200
Tru9I TTAA 1 cut(s) 200
TseFI GTSAC 1 cut(s) 560
TseI GCWGC 1 cut(s) 11
Tsp45I GTSAC 1 cut(s) 560
TspDTI ATGAA 1 cut(s) 396
VpaK11BI GGWCC 1 cut(s) 131
XapI RAATTY 1 cut(s) 237
XmnI GAANNNNTTC 1 cut(s) 419
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.