Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0004762

Physical Location & Seq

Genomic Coordinates Forward (+)

52600343 .. 52604685

Gene Structure 4343 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0353700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1260 bp

ATGGGGCGAGAAAATCCGGCGGAAAAAGCCCTAATTCTTCTGAGGACCAGACTCTGTGACCCGAATTTCATTTTCCGGCCGCTCTGTGAATCTTCCGACTCGAATTACAGCAAGCTGAAGTTTTTAGTATCGAGTTCGATTACCGAGGCGTGCAATAACTCTATCCTGCTTCTGGGTCCTCGTGGTTCTGGAAAAATTGCTGTATTGGATCTTGTGATCAGTGATTTATTACAAGAATATCCTGATACCATTACAGTGATTAGGTTGAGTGGCCTTTTGCATAGCGATGAGAATTGTGCGTTAAAGGAAATTTCTAGACAGCTATGTACGGAGCATCAGTTGTTGTTTTCAAAAATGGCATCATTTGATGAGAACTCCCAGTTTCTGATAGCCATGTTACGGGAATGCGGATTAGCACATAAAACAATCATTTTTGTGCTGGATGAGTTTGACTTATTTGCTCTGGGAAAACAGCGATTACTTTATAATTTGCTTGATGCACTGCAATCAGTGACATCTCAAGCTGTTGTTATTGGTGTCAGTTGCCGACTGGATGCGGATCAGCTTTTGGAAAAAAGAGTAATATCTCGATTTTCAAATAGAAAGCTTTTGTTTCTTCCTCCCTCTAAGGAAGACATACAGCGATTGTTGGAGCACATTTTATTATTGCCAACAGACTCGGGCCTTCCTACAGACTATGTTGTTGAGTTCAATGCGAAACTTCAAAACATATTGGCTGATGAGAGGTTCGAAGAGATTATATACACATATCTAAATATTGATTCCACAGTCAAAGATTTCTTGAGATATCTATTCCGTGCTGTTTCTAATATGGACTTGCAATCTGGAATGCTGTCGCTTGAAAACTTCAAAACTGCACTTTCCAATATCCAAAGGCATCCGAAGATGGAATGCATAAAAGATTGTTCAATATTGGAACTTTACATTTTGGTATGCATGAAGAGGTTGGAAGTTAAAGAGCACAACTCATACAATTTCACTACTGTAATGAAAGAGTACAAAAGCGTACATGATTCGTTCCAGACATCTGACTATTATGCAAAGAATGTGTGCTTACGGGCATTTGAACACCTTCTGCAACGTGGACTGATTGAATTTATAGACAACAGAGGGCAAAACCAGTCTGTTGAATATCGTCCGGTGAAACTTTTAATCTCATTTCATCAACTACATCAGGGCCTGAAATCATATCGTTCTTGTCCTGCCATTCTTCAGAAAATAATGGATCGTGAAAAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000724 GO:0000725 GO:0000726 GO:0003674 GO:0003824 GO:0003887 GO:0005488 GO:0006139 GO:0006259 GO:0006281 GO:0006284 GO:0006285 GO:0006287 GO:0006289 GO:0006302 GO:0006303 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009411 GO:0009416 GO:0009628 GO:0009987 GO:0010224 GO:0016740 GO:0016772 GO:0016779 GO:0016829 GO:0016835 GO:0018130 GO:0019438 GO:0030145 GO:0033554 GO:0034061 GO:0034641 GO:0034645 GO:0034654 GO:0043167 GO:0043169 GO:0043170 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0046483 GO:0046872 GO:0046914 GO:0050896 GO:0051575 GO:0051716 GO:0071704 GO:0071897 GO:0090304 GO:0097510 GO:0140097 GO:1901360 GO:1901362 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko03410 ko03450 map03410 map03450

Pfam Domains

Protein Families

BRCT DNA_pol_B_palm DNA_pol_B_thumb DNA_pol_lambd_f HHH_8 LIM

Protein Analysis

419

Amino Acids

48.21

Weight (kDa)

6.57

Isoelectric Point (pI)

49.14

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
ORC4_C	PF14629	216 - 400	1.2e-41	Origin recognition complex (ORC) subunit 4 C-terminus

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: OG0004762)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G10520 AT1G10520
fragaria_vesca	FvH4_4g35010 FvH4_4g35030
malus_domestica	MD16G1086600.v1.1 MD16G1086700.v1.1
prunus_persica	Prupe.1G259900_v2.0.a1 Prupe.1G259900_v2.0.a1 Prupe.1G259900_v2.0.a1 Prupe.1G259900_v2.0.a1
pyrus_communis	pycom16g07470
rosa_chinensis	RchiOBHm_Chr4g0444541 RchiOBHm_Chr4g0444551
rosa_laevigata	RLG00000005822 RLG00000005825
rosa_multiflora	Rmu_sc0003839.1_g000005 Rmu_sc0012648.1_g000007
rosa_roxburghii	Rroxscaffold_5G00385000 Rroxscaffold_5G00385010
rosa_rugosa	Rorug04G0353500 Rorug04G0353600 Rorug04G0353700 Rorug04G0353800
rosa_samantha	Rh4AG413800 Rh4BG425500 Rh4CG439900 Rh4CG440200 Rh4DG420800 Rh4DG421100
rosa_wichuraiana	Rw4G035540 Rw4G035550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	486
AccBSI	CCGCTC	1 cut(s)	82
AciI	CCGC	4 cut(s)	20, 80, 408, 557
AclWI	GGATC	3 cut(s)	216, 567, 1254
AcoI	YGGCCR	1 cut(s)	77
AcsI	RAATTY	3 cut(s)	64, 309, 1115
AcuI	CTGAAG	2 cut(s)	137, 1217
AfaI	GTAC	3 cut(s)	328, 1019, 1029
AfiI	CCNNNNNNNGG	2 cut(s)	172, 399
AluBI	AGCT	5 cut(s)	115, 322, 524, 565, 607
AluI	AGCT	5 cut(s)	115, 322, 524, 565, 607
Alw21I	GWGCWC	2 cut(s)	657, 984
AlwI	GGATC	3 cut(s)	216, 567, 1254
AlwNI	CAGNNNCTG	3 cut(s)	54, 385, 1201
Ama87I	CYCGRG	1 cut(s)	679
AoxI	GGCC	4 cut(s)	77, 271, 682, 1198
ApoI	RAATTY	3 cut(s)	64, 309, 1115
Asp700I	GAANNNNTTC	1 cut(s)	1092
AspS9I	GGNCC	4 cut(s)	45, 176, 682, 1198
AsuHPI	GGTGA	1 cut(s)	1174
AsuII	TTCGAA	1 cut(s)	750
AvaI	CYCGRG	1 cut(s)	679
AvaII	GGWCC	2 cut(s)	45, 176
BauI	CACGAG	1 cut(s)	180
BbsI	GAAGAC	1 cut(s)	639
Bbv12I	GWGCWC	2 cut(s)	657, 984
BccI	CCATC	1 cut(s)	901
BclI	TGATCA	1 cut(s)	216
BfaI	CTAG	1 cut(s)	315
BfmI	CTRYAG	1 cut(s)	690
BisI	GCNGC	1 cut(s)	80
BlsI	GCNGC	1 cut(s)	81
Bme18I	GGWCC	2 cut(s)	45, 176
BmeT110I	CYCGRG	1 cut(s)	679
BmgT120I	GGNCC	4 cut(s)	45, 176, 682, 1198
BmiI	GGNNCC	1 cut(s)	177
BmrI	ACTGGG	1 cut(s)	373
BmsI	GCATC	5 cut(s)	343, 368, 487, 544, 907
BmuI	ACTGGG	1 cut(s)	373
BpiI	GAAGAC	1 cut(s)	639
BplI	GAGNNNNNCTC	2 cut(s)	971, 1003
Bpu14I	TTCGAA	1 cut(s)	750
BpuEI	CTTGAG	2 cut(s)	504, 823
BsaBI	GATNNNNATC	1 cut(s)	558
BsaJI	CCNNGG	1 cut(s)	144
BsaWI	WCCGGW	1 cut(s)	1159
BsaXI	ACNNNNNCTCC	2 cut(s)	323, 353
Bsc4I	CCNNNNNNNGG	2 cut(s)	172, 399
Bse1I	ACTGG	3 cut(s)	379, 555, 1141
Bse8I	GATNNNNATC	1 cut(s)	558
BseDI	CCNNGG	1 cut(s)	144
BseGI	GGATG	3 cut(s)	448, 559, 898
BseJI	GATNNNNATC	1 cut(s)	558
BseLI	CCNNNNNNNGG	2 cut(s)	172, 399
BseMII	CTCAG	1 cut(s)	32
BseNI	ACTGG	3 cut(s)	379, 555, 1141
BseX3I	CGGCCG	1 cut(s)	77
BsgI	GTGCAG	1 cut(s)	861
Bsh1285I	CGRYCG	1 cut(s)	80
BshFI	GGCC	4 cut(s)	79, 273, 684, 1200
BsiEI	CGRYCG	1 cut(s)	80
BsiHKAI	GWGCWC	2 cut(s)	657, 984
BsiHKCI	CYCGRG	1 cut(s)	679
BsiSI	CCGG	3 cut(s)	17, 76, 1160
BslI	CCNNNNNNNGG	2 cut(s)	172, 399
BsmI	GAATGC	3 cut(s)	410, 855, 917
BsnI	GGCC	4 cut(s)	79, 273, 684, 1200
BsoBI	CYCGRG	1 cut(s)	679
Bsp119I	TTCGAA	1 cut(s)	750
Bsp1286I	GDGCHC	2 cut(s)	657, 984
Bsp143I	GATC	4 cut(s)	208, 216, 559, 1246
BspACI	CCGC	4 cut(s)	20, 80, 408, 557
BspANI	GGCC	4 cut(s)	79, 273, 684, 1200
BspCNI	CTCAG	1 cut(s)	33
BspLI	GGNNCC	1 cut(s)	177
BspPI	GGATC	3 cut(s)	216, 567, 1254
BspT104I	TTCGAA	1 cut(s)	750
BsrBI	CCGCTC	1 cut(s)	82
BsrI	ACTGG	3 cut(s)	379, 555, 1141
BssECI	CCNNGG	1 cut(s)	144
BssMI	GATC	4 cut(s)	208, 216, 559, 1246
BssSI	CACGAG	1 cut(s)	180
Bst2BI	CACGAG	1 cut(s)	180
Bst4CI	ACNGT	3 cut(s)	256, 790, 1006
Bst6I	CTCTTC	2 cut(s)	747, 956
BstBI	TTCGAA	1 cut(s)	750
BstC8I	GCNNGC	2 cut(s)	113, 151
BstDEI	CTNAG	2 cut(s)	41, 627
BstF5I	GGATG	3 cut(s)	448, 559, 898
BstKTI	GATC	4 cut(s)	211, 219, 562, 1249
BstMBI	GATC	4 cut(s)	208, 216, 559, 1246
BstMCI	CGRYCG	1 cut(s)	80
BstMWI	GCNNNNNNNGC	1 cut(s)	26
BstSFI	CTRYAG	1 cut(s)	690
BstV2I	GAAGAC	1 cut(s)	639
BstX2I	RGATCY	1 cut(s)	208
BstYI	RGATCY	1 cut(s)	208
BstZI	CGGCCG	1 cut(s)	77
BsuRI	GGCC	4 cut(s)	79, 273, 684, 1200
BtgZI	GCGATG	1 cut(s)	300
BtsCI	GGATG	3 cut(s)	448, 559, 898
BtsI	GCAGTG	1 cut(s)	500
BtsIMutI	CAGTG	4 cut(s)	226, 261, 500, 516
Cac8I	GCNNGC	2 cut(s)	113, 151
CaiI	CAGNNNCTG	3 cut(s)	54, 385, 1201
Cfr13I	GGNCC	4 cut(s)	45, 176, 682, 1198
Csp6I	GTAC	3 cut(s)	327, 1018, 1028
CviAII	CATG	3 cut(s)	394, 958, 1031
CviQI	GTAC	3 cut(s)	327, 1018, 1028
DdeI	CTNAG	2 cut(s)	41, 627
DpnI	GATC	4 cut(s)	210, 218, 561, 1248
DpnII	GATC	4 cut(s)	208, 216, 559, 1246
EaeI	YGGCCR	1 cut(s)	77
EagI	CGGCCG	1 cut(s)	77
Eam1104I	CTCTTC	2 cut(s)	747, 956
EarI	CTCTTC	2 cut(s)	747, 956
EciI	GGCGGA	1 cut(s)	35
EclXI	CGGCCG	1 cut(s)	77
Eco32I	GATATC	1 cut(s)	809
Eco47I	GGWCC	2 cut(s)	45, 176
Eco52I	CGGCCG	1 cut(s)	77
Eco57I	CTGAAG	2 cut(s)	137, 1217
Eco88I	CYCGRG	1 cut(s)	679
EcoO109I	RGGNCCY	2 cut(s)	176, 1198
EcoRV	GATATC	1 cut(s)	809
EcoT22I	ATGCAT	2 cut(s)	917, 959
FaeI	CATG	3 cut(s)	397, 961, 1034
FatI	CATG	3 cut(s)	393, 957, 1030
FbaI	TGATCA	1 cut(s)	216
Fnu4HI	GCNGC	1 cut(s)	80
FokI	GGATG	3 cut(s)	455, 566, 885
Fsp4HI	GCNGC	1 cut(s)	80
FspBI	CTAG	1 cut(s)	315
GluI	GCNGC	1 cut(s)	80
HaeIII	GGCC	4 cut(s)	79, 273, 684, 1200
HapII	CCGG	3 cut(s)	17, 76, 1160
Hin1II	CATG	3 cut(s)	397, 961, 1034
HindIII	AAGCTT	1 cut(s)	605
HinfI	GANTC	6 cut(s)	51, 89, 98, 677, 782, 1034
HpaII	CCGG	3 cut(s)	17, 76, 1160
HphI	GGTGA	1 cut(s)	1174
Hpy166II	GTNNAC	1 cut(s)	1106
Hpy188I	TCNGA	6 cut(s)	42, 97, 387, 903, 1051, 1236
Hpy188III	TCNNGA	8 cut(s)	189, 242, 315, 588, 802, 846, 1042, 1250
Hpy8I	GTNNAC	1 cut(s)	1106
HpyAV	CCTTC	2 cut(s)	695, 1103
HpyCH4III	ACNGT	3 cut(s)	256, 790, 1006
HpyCH4IV	ACGT	1 cut(s)	1102
HpyF10VI	GCNNNNNNNGC	1 cut(s)	26
HpyF3I	CTNAG	2 cut(s)	41, 627
HpySE526I	ACGT	1 cut(s)	1102
Hsp92II	CATG	3 cut(s)	397, 961, 1034
Ksp22I	TGATCA	1 cut(s)	216
Kzo9I	GATC	4 cut(s)	208, 216, 559, 1246
LmnI	GCTCC	2 cut(s)	331, 652
LweI	GCATC	5 cut(s)	343, 368, 487, 544, 907
MaeI	CTAG	1 cut(s)	315
MaeII	ACGT	1 cut(s)	1102
MaeIII	GTNAC	3 cut(s)	56, 396, 511
MalI	GATC	4 cut(s)	210, 218, 561, 1248
MbiI	CCGCTC	1 cut(s)	82
MboI	GATC	4 cut(s)	208, 216, 559, 1246
MboII	GAAGA	8 cut(s)	29, 84, 608, 644, 764, 916, 973, 1223
MflI	RGATCY	1 cut(s)	208
MhlI	GDGCHC	2 cut(s)	657, 984
MluCI	AATT	9 cut(s)	33, 64, 103, 195, 292, 309, 487, 994, 1115
MlyI	GAGTC	3 cut(s)	45, 92, 671
MmeI	TCCRAC	3 cut(s)	120, 630, 948
MnlI	CCTC	8 cut(s)	36, 139, 189, 630, 634, 738, 957, 1124
Mph1103I	ATGCAT	2 cut(s)	917, 959
MroXI	GAANNNNTTC	1 cut(s)	1092
MseI	TTAA	3 cut(s)	302, 975, 1172
MslI	CAYNNNNRTG	3 cut(s)	254, 285, 434
MspI	CCGG	3 cut(s)	17, 76, 1160
Mva1269I	GAATGC	3 cut(s)	410, 855, 917
MwoI	GCNNNNNNNGC	1 cut(s)	26
NdeII	GATC	4 cut(s)	208, 216, 559, 1246
NlaIII	CATG	3 cut(s)	397, 961, 1034
NlaIV	GGNNCC	1 cut(s)	177
NmuCI	GTSAC	2 cut(s)	56, 511
NsiI	ATGCAT	2 cut(s)	917, 959
NspV	TTCGAA	1 cut(s)	750
PctI	GAATGC	3 cut(s)	410, 855, 917
PdmI	GAANNNNTTC	1 cut(s)	1092
PfeI	GAWTC	3 cut(s)	89, 782, 1034
PkrI	GCNGC	1 cut(s)	81
PleI	GAGTC	3 cut(s)	45, 92, 671
PpsI	GAGTC	3 cut(s)	45, 92, 671
PpuMI	RGGWCCY	1 cut(s)	176
PsiI	TTATAA	1 cut(s)	486
Psp5II	RGGWCCY	1 cut(s)	176
PspN4I	GGNNCC	1 cut(s)	177
PspPI	GGNCC	4 cut(s)	45, 176, 682, 1198
PspPPI	RGGWCCY	1 cut(s)	176
PstNI	CAGNNNCTG	3 cut(s)	54, 385, 1201
PsuI	RGATCY	1 cut(s)	208
RsaI	GTAC	3 cut(s)	328, 1019, 1029
RsaNI	GTAC	3 cut(s)	327, 1018, 1028
RseI	CAYNNNNRTG	3 cut(s)	254, 285, 434
SaqAI	TTAA	3 cut(s)	302, 975, 1172
SatI	GCNGC	1 cut(s)	80
Sau3AI	GATC	4 cut(s)	208, 216, 559, 1246
Sau96I	GGNCC	4 cut(s)	45, 176, 682, 1198
SchI	GAGTC	3 cut(s)	45, 92, 671
SduI	GDGCHC	2 cut(s)	657, 984
SfaNI	GCATC	5 cut(s)	343, 368, 487, 544, 907
SfcI	CTRYAG	1 cut(s)	690
SfuI	TTCGAA	1 cut(s)	750
SinI	GGWCC	2 cut(s)	45, 176
SmiMI	CAYNNNNRTG	3 cut(s)	254, 285, 434
SmlI	CTYRAG	2 cut(s)	519, 802
SmoI	CTYRAG	2 cut(s)	519, 802
Sse9I	AATT	9 cut(s)	33, 64, 103, 195, 292, 309, 487, 994, 1115
SsiI	CCGC	4 cut(s)	20, 80, 408, 557
SspI	AATATT	2 cut(s)	778, 933
SspMI	CTAG	1 cut(s)	315
TaaI	ACNGT	3 cut(s)	256, 790, 1006
TaiI	ACGT	1 cut(s)	1105
TaqI	TCGA	5 cut(s)	101, 131, 137, 589, 750
TasI	AATT	9 cut(s)	33, 64, 103, 195, 292, 309, 487, 994, 1115
TatI	WGTACW	1 cut(s)	1017
TauI	GCSGC	1 cut(s)	82
TfiI	GAWTC	3 cut(s)	89, 782, 1034
Tru1I	TTAA	3 cut(s)	302, 975, 1172
Tru9I	TTAA	3 cut(s)	302, 975, 1172
TscAI	CASTG	4 cut(s)	226, 261, 507, 516
TseFI	GTSAC	2 cut(s)	56, 511
Tsp45I	GTSAC	2 cut(s)	56, 511
TspDTI	ATGAA	4 cut(s)	58, 974, 1025, 1172
TspGWI	ACGGA	2 cut(s)	344, 806
TspRI	CASTG	4 cut(s)	226, 261, 507, 516
VpaK11BI	GGWCC	2 cut(s)	45, 176
XapI	RAATTY	3 cut(s)	64, 309, 1115
XbaI	TCTAGA	1 cut(s)	314
XmnI	GAANNNNTTC	1 cut(s)	1092
XspI	CTAG	1 cut(s)	315
Zsp2I	ATGCAT	2 cut(s)	917, 959

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