Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0009356

Physical Location & Seq

Genomic Coordinates Forward (+)

65788374 .. 65793484

Gene Structure 5111 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00387030.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1173 bp

ATGGGGGCAACTTCCCTGAGCGTTGACCCTCATAATACAACAATGACTTGGCAAGTGCTTGAGCATAACCCGTCTACTGCTCTGCACAGACATCATCGTCGTCGTCGTCGATCAATCACCAATAATTTTCAATTAATAGCCTCTTCTTCTTCTTCTTCTTCTCCGCTCAGTCGCCGCCACTTCGTCTCCGAGACGGCGGCGCTGTCTCTCGCCCTAACGGTGCCTCTCCTCCCTATCGACCCCGGCGTCGTCCTTCTCGACATCGCTTTCGTCCCCGACGACCCTAAACACGGATTTCTGTTGGGAACAAGGCAGACACTTTTGGAGACCAAGGACGGTGGACAAAGCTGGGCGCCGCGGTCAATTCCGTCTGCTGAAGATGAAGATTTTAACTACAGATTCAATGCCATAAGCTTCAAAGGGAAGGAGGGCTGGATTGTGGGAAAGCCTGCAATTCTGTTACACACTTCTGATGCTGGCGACAGCTGGGAACGGATACCGCTAAGCTCTCAGCTTCCGGGAGATATGGTATATATAAAGGCAACTGGTGAGAAGAGCGCAGAGATGGTGACTGACGAAGGTGCGATTTATGTGACCTCCAATAGGGGATACAATTGGAGGGCTGCTGTTCAGGAGACTGTTTCAGCTACTCTTAATAGAACAGTCTCTAGTGGCATTAGCGGTGCAAGTTACTACACAGGAACTTTTAATGCGGTCAATCGCTCGCCAAATGGAAGCTATGTTGCTGTCTCAAGTCGTGGTAACTTCTTCCTTACTTGGGAGCCTGGTCAGCCATACTGGCAGCCACATAACAGATCAGTTGCAAGAAGAATCCAAAACATGGGTTGGAGAGCTGATGGTGGTCTTTGGCTTCTTGTTCGTGGAGGGGGACTTTTTCTGAGCAAAGGTACAGGGATAACAGAGGAGTTTGAAGAAGTTCCAGTCCAAAGCCGGGGTTTTGGCATTCTTGACGTTGGGTTCCGATCAAAGGATGAGGCTTGGGCAGCGGGTGGAAGTGGGATTTTATTGCGAACTACCAATGGTGGCAAGACATGGGTCCGTGACAAAGCAGCCGACAATATTGCTGCAAATCTATACTCTGTAAAGTTTATCGATGACAATCAAGGATTTGTGCTGGGGAACGATGGGGTATTGCTTCGGTATCTTGGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006996 GO:0008150 GO:0009507 GO:0009526 GO:0009532 GO:0009533 GO:0009534 GO:0009535 GO:0009536 GO:0009570 GO:0009579 GO:0009657 GO:0009719 GO:0009725 GO:0009735 GO:0009941 GO:0009987 GO:0010033 GO:0010035 GO:0010038 GO:0016020 GO:0016043 GO:0031967 GO:0031975 GO:0031976 GO:0031977 GO:0031984 GO:0034357 GO:0042221 GO:0042651 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044436 GO:0044444 GO:0044446 GO:0044464 GO:0046686 GO:0050896 GO:0055035 GO:0071840

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

PSII_BNR

Protein Analysis

390

Amino Acids

42.65

Weight (kDa)

8.69

Isoelectric Point (pI)

40.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
PSII_BNR	PF14870	83 - 388	2.3e-121	Photosynthesis system II assembly factor YCF48

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0009356)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G23120 AT5G23120
fragaria_vesca	FvH4_4g36890 FvH4_4g36890
malus_domestica	MD00G1043400.v1.1 MD13G1005900.v1.1 MD15G1106700.v1.1 MD16G1002000.v1.1
prunus_persica	Prupe.1G347100_v2.0.a1
pyrus_communis	pycom13g00490 pycom16g00370
rosa_chinensis	RchiOBHm_Chr4g0446671
rosa_laevigata	RLG00000005641
rosa_multiflora	Rmu_sc0001753.1_g000042 Rmu_sc0001753.1_g000043
rosa_roxburghii	Rroxscaffold_5G00387030
rosa_rugosa	Rorug04G0373600
rosa_samantha	Rh4AG435000 Rh4BG444000 Rh4CG461300 Rh4DG442800
rosa_wichuraiana	Rw4G037190

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	2 cut(s)	96, 245
AccB1I	GGYRCC	2 cut(s)	220, 352
AccB7I	CCANNNNNTGG	1 cut(s)	841
AccBSI	CCGCTC	1 cut(s)	166
AccI	GTMKAC	1 cut(s)	74
AccII	CGCG	1 cut(s)	358
AciI	CCGC	9 cut(s)	164, 175, 197, 356, 358, 500, 681, 713, 1007
AcuI	CTGAAG	1 cut(s)	396
AcyI	GRCGYC	2 cut(s)	246, 353
AfaI	GTAC	1 cut(s)	910
AfiI	CCNNNNNNNGG	6 cut(s)	290, 603, 778, 841, 952, 988
AgsI	TTSAA	4 cut(s)	131, 403, 418, 932
AjnI	CCWGG	1 cut(s)	784
AluBI	AGCT	8 cut(s)	348, 414, 486, 507, 514, 647, 738, 854
AluI	AGCT	8 cut(s)	348, 414, 486, 507, 514, 647, 738, 854
Alw26I	GTCTC	7 cut(s)	185, 190, 210, 320, 629, 670, 754
ApeKI	GCWGC	5 cut(s)	623, 802, 1004, 1070, 1085
ArsI	GACNNNNNNTTYG	2 cut(s)	251, 283
AseI	ATTAAT	1 cut(s)	134
Asp700I	GAANNNNTTC	1 cut(s)	936
AspLEI	GCGC	3 cut(s)	202, 355, 560
AspS9I	GGNCC	1 cut(s)	1057
AsuC2I	CCSGG	3 cut(s)	243, 519, 953
AsuHPI	GGTGA	3 cut(s)	109, 560, 580
AvaII	GGWCC	1 cut(s)	1057
BanI	GGYRCC	2 cut(s)	220, 352
BbvI	GCAGC	5 cut(s)	610, 814, 1016, 1072, 1082
BccI	CCATC	3 cut(s)	559, 851, 1139
BceAI	ACGGC	1 cut(s)	210
BcgI	CGANNNNNNTGC	2 cut(s)	1064, 1098
BciT130I	CCWGG	1 cut(s)	786
BciVI	GTATCC	2 cut(s)	489, 602
BcnI	CCSGG	3 cut(s)	243, 519, 953
BcoDI	GTCTC	7 cut(s)	185, 190, 210, 320, 629, 670, 754
BfaI	CTAG	1 cut(s)	669
BfmI	CTRYAG	1 cut(s)	394
BfoI	RGCGCY	2 cut(s)	203, 356
BfuI	GTATCC	2 cut(s)	489, 602
BglI	GCCNNNNNGGC	1 cut(s)	799
BisI	GCNGC	8 cut(s)	175, 198, 356, 624, 803, 1005, 1071, 1086
BlpI	GCTNAGC	1 cut(s)	503
BlsI	GCNGC	8 cut(s)	176, 199, 357, 625, 804, 1006, 1072, 1087
Bme1390I	CCNGG	4 cut(s)	243, 519, 786, 953
Bme18I	GGWCC	1 cut(s)	1057
BmgT120I	GGNCC	1 cut(s)	1057
BmiI	GGNNCC	5 cut(s)	222, 354, 783, 980, 1058
BmrFI	CCNGG	4 cut(s)	243, 519, 786, 953
BmsI	GCATC	1 cut(s)	463
BoxI	GACNNNNGTC	1 cut(s)	1055
Bpu10I	CCTNAGC	1 cut(s)	17
Bpu1102I	GCTNAGC	1 cut(s)	503
BpuEI	CTTGAG	2 cut(s)	80, 736
BpuMI	CCSGG	3 cut(s)	243, 519, 953
Bsa29I	ATCGAT	1 cut(s)	1113
BsaBI	GATNNNNATC	1 cut(s)	1119
BsaHI	GRCGYC	2 cut(s)	246, 353
BsaI	GGTCTC	1 cut(s)	320
BsaJI	CCNNGG	4 cut(s)	241, 330, 356, 952
BsaXI	ACNNNNNCTCC	4 cut(s)	170, 200, 513, 543
Bsc4I	CCNNNNNNNGG	6 cut(s)	290, 603, 778, 841, 952, 988
Bse1I	ACTGG	3 cut(s)	550, 803, 941
Bse8I	GATNNNNATC	1 cut(s)	1119
BseBI	CCWGG	1 cut(s)	786
BseCI	ATCGAT	1 cut(s)	1113
BseDI	CCNNGG	4 cut(s)	241, 330, 356, 952
BseGI	GGATG	1 cut(s)	997
BseJI	GATNNNNATC	1 cut(s)	1119
BseLI	CCNNNNNNNGG	6 cut(s)	290, 603, 778, 841, 952, 988
BseMII	CTCAG	4 cut(s)	8, 181, 524, 890
BseNI	ACTGG	3 cut(s)	550, 803, 941
BseRI	GAGGAG	2 cut(s)	218, 938
BseXI	GCAGC	5 cut(s)	610, 814, 1016, 1072, 1082
BseYI	CCCAGC	3 cut(s)	348, 486, 1135
BsgI	GTGCAG	1 cut(s)	68
Bsh1236I	CGCG	1 cut(s)	358
BshNI	GGYRCC	2 cut(s)	220, 352
BshVI	ATCGAT	1 cut(s)	1113
BsiSI	CCGG	3 cut(s)	243, 518, 952
BslFI	GGGAC	2 cut(s)	257, 903
BslI	CCNNNNNNNGG	6 cut(s)	290, 603, 778, 841, 952, 988
BsmAI	GTCTC	7 cut(s)	185, 190, 210, 320, 629, 670, 754
BsmBI	CGTCTC	2 cut(s)	185, 190
BsmFI	GGGAC	2 cut(s)	257, 903
BsmI	GAATGC	1 cut(s)	963
Bso31I	GGTCTC	1 cut(s)	320
Bsp143I	GATC	3 cut(s)	110, 815, 983
Bsp1720I	GCTNAGC	1 cut(s)	503
BspACI	CCGC	9 cut(s)	164, 175, 197, 356, 358, 500, 681, 713, 1007
BspCNI	CTCAG	4 cut(s)	9, 180, 523, 891
BspDI	ATCGAT	1 cut(s)	1113
BspFNI	CGCG	1 cut(s)	358
BspLI	GGNNCC	5 cut(s)	222, 354, 783, 980, 1058
BspQI	GCTCTTC	1 cut(s)	548
BspT107I	GGYRCC	2 cut(s)	220, 352
BspTNI	GGTCTC	1 cut(s)	320
BsrBI	CCGCTC	1 cut(s)	166
BsrI	ACTGG	3 cut(s)	550, 803, 941
BssECI	CCNNGG	4 cut(s)	241, 330, 356, 952
BssMI	GATC	3 cut(s)	110, 815, 983
BssNI	GRCGYC	2 cut(s)	246, 353
BssT1I	CCWWGG	1 cut(s)	330
Bst2UI	CCWGG	1 cut(s)	786
Bst4CI	ACNGT	4 cut(s)	220, 338, 640, 664
Bst6I	CTCTTC	2 cut(s)	148, 548
BstACI	GRCGYC	2 cut(s)	246, 353
BstC8I	GCNNGC	3 cut(s)	450, 478, 725
BstDEI	CTNAG	5 cut(s)	17, 167, 503, 510, 899
BstDSI	CCRYGG	1 cut(s)	356
BstENI	CCTNNNNNAGG	1 cut(s)	601
BstF5I	GGATG	1 cut(s)	997
BstFNI	CGCG	1 cut(s)	358
BstH2I	RGCGCY	2 cut(s)	203, 356
BstHHI	GCGC	3 cut(s)	202, 355, 560
BstKTI	GATC	3 cut(s)	113, 818, 986
BstMAI	GTCTC	7 cut(s)	185, 190, 210, 320, 629, 670, 754
BstMBI	GATC	3 cut(s)	110, 815, 983
BstMWI	GCNNNNNNNGC	3 cut(s)	790, 799, 1004
BstNI	CCWGG	1 cut(s)	786
BstPAI	GACNNNNGTC	1 cut(s)	1055
BstSCI	CCNGG	4 cut(s)	241, 517, 784, 951
BstSFI	CTRYAG	1 cut(s)	394
BstUI	CGCG	1 cut(s)	358
BstV1I	GCAGC	5 cut(s)	610, 814, 1016, 1072, 1082
Bsu15I	ATCGAT	1 cut(s)	1113
BsuI	GTATCC	2 cut(s)	489, 602
BsuTUI	ATCGAT	1 cut(s)	1113
BtgI	CCRYGG	1 cut(s)	356
BtgZI	GCGATG	1 cut(s)	247
BtsCI	GGATG	1 cut(s)	997
Cac8I	GCNNGC	3 cut(s)	450, 478, 725
CfoI	GCGC	3 cut(s)	202, 355, 560
Cfr13I	GGNCC	1 cut(s)	1057
Cfr42I	CCGCGG	1 cut(s)	359
ClaI	ATCGAT	1 cut(s)	1113
CseI	GACGC	1 cut(s)	235
Csp6I	GTAC	1 cut(s)	909
CspCI	CAANNNNNGTGG	2 cut(s)	319, 354
CviAII	CATG	2 cut(s)	841, 1053
CviQI	GTAC	1 cut(s)	909
DdeI	CTNAG	5 cut(s)	17, 167, 503, 510, 899
DinI	GGCGCC	1 cut(s)	354
DpnI	GATC	3 cut(s)	112, 817, 985
DpnII	GATC	3 cut(s)	110, 815, 983
DrdI	GACNNNNNNGTC	2 cut(s)	96, 245
DseDI	GACNNNNNNGTC	2 cut(s)	96, 245
Eam1104I	CTCTTC	2 cut(s)	148, 548
EarI	CTCTTC	2 cut(s)	148, 548
Eco130I	CCWWGG	1 cut(s)	330
Eco31I	GGTCTC	1 cut(s)	320
Eco47I	GGWCC	1 cut(s)	1057
Eco57I	CTGAAG	1 cut(s)	396
EcoNI	CCTNNNNNAGG	1 cut(s)	601
EcoRII	CCWGG	1 cut(s)	784
EcoT14I	CCWWGG	1 cut(s)	330
EgeI	GGCGCC	1 cut(s)	354
EheI	GGCGCC	1 cut(s)	354
ErhI	CCWWGG	1 cut(s)	330
Esp3I	CGTCTC	2 cut(s)	185, 190
FaeI	CATG	2 cut(s)	844, 1056
FaqI	GGGAC	2 cut(s)	257, 903
FatI	CATG	2 cut(s)	840, 1052
FauI	CCCGC	1 cut(s)	1000
FblI	GTMKAC	1 cut(s)	74
Fnu4HI	GCNGC	8 cut(s)	175, 198, 356, 624, 803, 1005, 1071, 1086
FokI	GGATG	1 cut(s)	1004
Fsp4HI	GCNGC	8 cut(s)	175, 198, 356, 624, 803, 1005, 1071, 1086
FspBI	CTAG	1 cut(s)	669
GlaI	GCGC	3 cut(s)	201, 354, 559
GluI	GCNGC	8 cut(s)	175, 198, 356, 624, 803, 1005, 1071, 1086
GsaI	CCCAGC	3 cut(s)	352, 490, 1139
HaeII	RGCGCY	2 cut(s)	203, 356
HapII	CCGG	3 cut(s)	243, 518, 952
HgaI	GACGC	1 cut(s)	235
HhaI	GCGC	3 cut(s)	202, 355, 560
Hin1I	GRCGYC	2 cut(s)	246, 353
Hin1II	CATG	2 cut(s)	844, 1056
Hin6I	GCGC	3 cut(s)	200, 353, 558
HinP1I	GCGC	3 cut(s)	200, 353, 558
HincII	GTYRAC	1 cut(s)	25
HindII	GTYRAC	1 cut(s)	25
HindIII	AAGCTT	1 cut(s)	412
HinfI	GANTC	2 cut(s)	399, 831
HpaII	CCGG	3 cut(s)	243, 518, 952
HphI	GGTGA	3 cut(s)	109, 560, 580
Hpy166II	GTNNAC	3 cut(s)	25, 75, 341
Hpy188I	TCNGA	4 cut(s)	190, 472, 900, 983
Hpy188III	TCNNGA	3 cut(s)	257, 632, 968
Hpy8I	GTNNAC	3 cut(s)	25, 75, 341
Hpy99I	CGWCG	6 cut(s)	102, 105, 108, 111, 251, 281
HpyAV	CCTTC	3 cut(s)	263, 418, 572
HpyCH4III	ACNGT	4 cut(s)	220, 338, 640, 664
HpyCH4IV	ACGT	1 cut(s)	972
HpyCH4V	TGCA	5 cut(s)	85, 452, 686, 824, 1088
HpyF10VI	GCNNNNNNNGC	3 cut(s)	790, 799, 1004
HpyF3I	CTNAG	5 cut(s)	17, 167, 503, 510, 899
HpySE526I	ACGT	1 cut(s)	972
Hsp92I	GRCGYC	2 cut(s)	246, 353
Hsp92II	CATG	2 cut(s)	844, 1056
HspAI	GCGC	3 cut(s)	200, 353, 558
KasI	GGCGCC	1 cut(s)	352
KspI	CCGCGG	1 cut(s)	359
Kzo9I	GATC	3 cut(s)	110, 815, 983
LguI	GCTCTTC	1 cut(s)	548
LmnI	GCTCC	1 cut(s)	781
Lsp1109I	GCAGC	5 cut(s)	610, 814, 1016, 1072, 1082
LweI	GCATC	1 cut(s)	463
MaeI	CTAG	1 cut(s)	669
MaeII	ACGT	1 cut(s)	972
MaeIII	GTNAC	6 cut(s)	459, 568, 592, 689, 761, 1061
MalI	GATC	3 cut(s)	112, 817, 985
MbiI	CCGCTC	1 cut(s)	166
MboI	GATC	3 cut(s)	110, 815, 983
MfeI	CAATTG	1 cut(s)	613
MluCI	AATT	5 cut(s)	124, 131, 363, 453, 613
Mly113I	GGCGCC	1 cut(s)	353
MmeI	TCCRAC	1 cut(s)	827
MroXI	GAANNNNTTC	1 cut(s)	936
MseI	TTAA	4 cut(s)	134, 390, 654, 708
MspA1I	CMGCKG	3 cut(s)	358, 486, 1007
MspI	CCGG	3 cut(s)	243, 518, 952
MspR9I	CCNGG	4 cut(s)	243, 519, 786, 953
MunI	CAATTG	1 cut(s)	613
Mva1269I	GAATGC	1 cut(s)	963
MvaI	CCWGG	1 cut(s)	786
MvnI	CGCG	1 cut(s)	358
MwoI	GCNNNNNNNGC	3 cut(s)	790, 799, 1004
NarI	GGCGCC	1 cut(s)	353
NciI	CCSGG	3 cut(s)	243, 519, 953
NdeII	GATC	3 cut(s)	110, 815, 983
NlaIII	CATG	2 cut(s)	844, 1056
NlaIV	GGNNCC	5 cut(s)	222, 354, 783, 980, 1058
NmuCI	GTSAC	3 cut(s)	568, 592, 1061
PciSI	GCTCTTC	1 cut(s)	548
PcsI	WCGNNNNNNNCGW	5 cut(s)	103, 106, 243, 255, 276
PctI	GAATGC	1 cut(s)	963
PdmI	GAANNNNTTC	1 cut(s)	936
PfeI	GAWTC	2 cut(s)	399, 831
PflMI	CCANNNNNTGG	1 cut(s)	841
PfoI	TCCNGGA	1 cut(s)	517
PkrI	GCNGC	8 cut(s)	176, 199, 357, 625, 804, 1006, 1072, 1087
PluTI	GGCGCC	1 cut(s)	356
PshAI	GACNNNNGTC	1 cut(s)	1055
PshBI	ATTAAT	1 cut(s)	134
Psp6I	CCWGG	1 cut(s)	784
PspFI	CCCAGC	3 cut(s)	348, 486, 1135
PspGI	CCWGG	1 cut(s)	784
PspN4I	GGNNCC	5 cut(s)	222, 354, 783, 980, 1058
PspPI	GGNCC	1 cut(s)	1057
PvuII	CAGCTG	1 cut(s)	486
RsaI	GTAC	1 cut(s)	910
RsaNI	GTAC	1 cut(s)	909
SacII	CCGCGG	1 cut(s)	359
SapI	GCTCTTC	1 cut(s)	548
SaqAI	TTAA	4 cut(s)	134, 390, 654, 708
SatI	GCNGC	8 cut(s)	175, 198, 356, 624, 803, 1005, 1071, 1086
Sau3AI	GATC	3 cut(s)	110, 815, 983
Sau96I	GGNCC	1 cut(s)	1057
ScrFI	CCNGG	4 cut(s)	243, 519, 786, 953
SfaNI	GCATC	1 cut(s)	463
SfcI	CTRYAG	1 cut(s)	394
SfoI	GGCGCC	1 cut(s)	354
Sfr303I	CCGCGG	1 cut(s)	359
SgrBI	CCGCGG	1 cut(s)	359
SinI	GGWCC	1 cut(s)	1057
SmlI	CTYRAG	2 cut(s)	59, 751
SmoI	CTYRAG	2 cut(s)	59, 751
Sse9I	AATT	5 cut(s)	124, 131, 363, 453, 613
SsiI	CCGC	9 cut(s)	164, 175, 197, 356, 358, 500, 681, 713, 1007
SspDI	GGCGCC	1 cut(s)	352
SspI	AATATT	1 cut(s)	1081
SspMI	CTAG	1 cut(s)	669
StyD4I	CCNGG	4 cut(s)	241, 517, 784, 951
StyI	CCWWGG	1 cut(s)	330
TaaI	ACNGT	4 cut(s)	220, 338, 640, 664
TaiI	ACGT	1 cut(s)	975
TaqI	TCGA	4 cut(s)	109, 237, 258, 1113
TasI	AATT	5 cut(s)	124, 131, 363, 453, 613
TauI	GCSGC	3 cut(s)	177, 200, 358
TfiI	GAWTC	2 cut(s)	399, 831
Tru1I	TTAA	4 cut(s)	134, 390, 654, 708
Tru9I	TTAA	4 cut(s)	134, 390, 654, 708
TseFI	GTSAC	3 cut(s)	568, 592, 1061
TseI	GCWGC	5 cut(s)	623, 802, 1004, 1070, 1085
Tsp45I	GTSAC	3 cut(s)	568, 592, 1061
TspDTI	ATGAA	1 cut(s)	396
TspGWI	ACGGA	4 cut(s)	306, 357, 508, 1049
Van91I	CCANNNNNTGG	1 cut(s)	841
VpaK11BI	GGWCC	1 cut(s)	1057
VspI	ATTAAT	1 cut(s)	134
XagI	CCTNNNNNAGG	1 cut(s)	601
XmiI	GTMKAC	1 cut(s)	74
XmnI	GAANNNNTTC	1 cut(s)	936
XspI	CTAG	1 cut(s)	669

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