Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000003

Orthogroup ID

OG0002228

Physical Location & Seq

Genomic Coordinates Forward (+)

565362 .. 567192

Gene Structure 1831 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug03G0007200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1107 bp

ATGCAGAGAGGTCAAATGCAAATGGGAACCCCTCCTTTCTGTTTATATTCAATTATGTGTCATGAGCAGTTGTCAGCCCATTTGGTGGTTGTGATGGGAACTCAATATTATGATGGCCGGGAAAATCTTCACACTAATTACCCAATTGCTGATCTCTTGCAGATGATTGGTCATGCATGTCGCCCTAAGAAAGATAATTCTGGGAAATGTGTCATCCTCTGCCATGCTCCTCGTAAAGAATACTACAAGAAGTTCTTATATGAAGCATTGCCTGTTGAAAGTCATTTGCACCATTATTTTCATGACAATCTAGATGCAGAAGTTGTAGCCCAAGGAGTTACACACGCACATAATTCTGAGTACCTTTCAGAGCTTGTTGAAAATACACTGAATGACCTGGAAACAAGCAAATGTGTTGCTGTGGAGGATGGGGATGTTTCTGCCTTGAATCTTGGGTATTCGCAACTTTCCATACGACCTGGAGAGGAAGAGGTGATTCGAAGGTTGATTAACCACCACAGATTTTCCTTTGAGAATCCCAACTTCACAGATCCTCACGTCAAAGCAAATGCTCTTCTTCAGGCCCATTTTGCAAGGCATCATGTGGCTGGGGACCTATCATTGGACCAGCTTGAGGTTCTCCTTTCTGCAAGTAGGTTGCTTCACGCAATATTTGATGTCATTGCCAGCAATGGATGGCTAAACCTTTCTCTCCTAGCAATGGAAGTCAGCCAGATGGTGACTCGGGGGATGTGGGATCATGACTTGATGCTACTACAACTTCCTCACTTCACGAGGGAGCTGGCAAAGAGATGCCAAAAGTTTCCTGGAAAGAATATAGAGAGGGTATCTGATATGGTTGACATGGAGTATGATGAAAGGCGGGAACTACTTCAGGAAGTACTTCATATGTCAGATATACAGTTGGAGGATATTGAACAATTTTGCAAACGATTTCCCAACATTGGAATGACATTTAAGGTGCTAGGGAGTGAGAATGTAAGAGCTGGGGAGGAAGTCACTTTGCAAGTTGATATGACTGTGAACAGGTTGGCCCTCTTCATGCCCCGAGGTATCCCACGACCAAAGAAGAGGGGTGGTGGCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006325 GO:0006338 GO:0006355 GO:0006996 GO:0007154 GO:0007165 GO:0007275 GO:0008150 GO:0008283 GO:0009719 GO:0009725 GO:0009733 GO:0009735 GO:0009736 GO:0009739 GO:0009755 GO:0009787 GO:0009788 GO:0009889 GO:0009890 GO:0009892 GO:0009966 GO:0009968 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0010646 GO:0010648 GO:0016043 GO:0019219 GO:0019222 GO:0022622 GO:0023051 GO:0023052 GO:0023057 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032501 GO:0032502 GO:0032870 GO:0033993 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045892 GO:0045934 GO:0048364 GO:0048519 GO:0048523 GO:0048580 GO:0048583 GO:0048585 GO:0048731 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051239 GO:0051252 GO:0051253 GO:0051276 GO:0051716 GO:0060255 GO:0065007 GO:0070887 GO:0071310 GO:0071368 GO:0071495 GO:0071840 GO:0080090 GO:0097159 GO:0099402 GO:1901363 GO:1901419 GO:1901420 GO:1901700 GO:1902679 GO:1903506 GO:1903507 GO:1905957 GO:1905958 GO:2000023 GO:2000026 GO:2000069 GO:2000112 GO:2000113 GO:2000280 GO:2001141

KEGG Pathways

Metabolic & Signaling

ko05165 ko05203 map05165 map05203

Pfam Domains

Protein Families

CHDCT2 Chromo DUF1086 DUF1087 Helicase_C PHD SNF2_N

Protein Analysis

368

Amino Acids

42.08

Weight (kDa)

6.01

Isoelectric Point (pI)

41.64

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_SNRNP200	PF23445	111 - 143	2.9e-06	Winged Helix-turn-helix domain
Sec63	PF02889	153 - 347	2e-27	Sec63 Brl domain

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: OG0002228)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G25170 AT2G25170 AT2G25170 AT2G25170 AT4G31900 AT4G31900 AT4G31900
fragaria_vesca	FvH4_2g40920
malus_domestica	MD08G1058800.v1.1 MD15G1037700.v1.1
prunus_persica	Prupe.1G391600_v2.0.a1
pyrus_communis	pycom08g04860 pycom08g04870 pycom15g03490
rosa_chinensis	RchiOBHm_Chr3g0455421 RchiOBHm_Chr6g0299661
rosa_laevigata	RLG00000011399 RLG00000025364
rosa_multiflora	Rmu_co8019708.1_g000001 Rmu_co8099568.1_g000001 Rmu_sc0022216.1_g000002 Rmu_sc0024261.1_g000001 Rmu_sc0024262.1_g000001
rosa_roxburghii	Rroxscaffold_6G00424300 Rroxscaffold_7G00168470
rosa_rugosa	Rorug03G0007200 Rorug03G0007300 Rorug03G0007400 Rorug04G0013500 Rorug06G0291400
rosa_samantha	Rh3AG066700 Rh3BG069100 Rh3CG067500 Rh3DG069000 Rh5AG515500 Rh6AG402100 Rh6BG410600 Rh6CG416300 Rh6CG416400 Rh6DG403500
rosa_wichuraiana	Rw2G021110 Rw3G005270 Rw6G035200

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	85
AciI	CCGC	1 cut(s)	883
AclWI	GGATC	2 cut(s)	545, 765
AcoI	YGGCCR	1 cut(s)	115
AcuI	CTGAAG	2 cut(s)	563, 878
AfaI	GTAC	2 cut(s)	362, 903
AfiI	CCNNNNNNNGG	5 cut(s)	85, 622, 634, 721, 965
AgsI	TTSAA	5 cut(s)	51, 278, 380, 448, 938
AjiI	CACGTC	1 cut(s)	559
AjnI	CCWGG	3 cut(s)	396, 478, 826
AluBI	AGCT	4 cut(s)	373, 631, 802, 1007
AluI	AGCT	4 cut(s)	373, 631, 802, 1007
AlwI	GGATC	2 cut(s)	545, 765
Ama87I	CYCGRG	2 cut(s)	744, 1068
AoxI	GGCC	3 cut(s)	115, 582, 1053
Asp700I	GAANNNNTTC	3 cut(s)	126, 891, 903
AspS9I	GGNCC	4 cut(s)	583, 613, 625, 1054
AsuC2I	CCSGG	1 cut(s)	119
AsuHPI	GGTGA	2 cut(s)	505, 751
AsuII	TTCGAA	1 cut(s)	499
AvaI	CYCGRG	2 cut(s)	744, 1068
AvaII	GGWCC	2 cut(s)	613, 625
BauI	CACGAG	1 cut(s)	793
BccI	CCATC	5 cut(s)	88, 107, 422, 690, 730
BciT130I	CCWGG	3 cut(s)	398, 480, 828
BciVI	GTATCC	1 cut(s)	1085
BcnI	CCSGG	1 cut(s)	119
BfaI	CTAG	4 cut(s)	311, 716, 986, 1105
BfuI	GTATCC	1 cut(s)	1085
BmcAI	AGTACT	1 cut(s)	903
Bme1390I	CCNGG	4 cut(s)	119, 398, 480, 828
Bme18I	GGWCC	2 cut(s)	613, 625
BmeT110I	CYCGRG	2 cut(s)	744, 1068
BmgBI	CACGTC	1 cut(s)	559
BmgT120I	GGNCC	4 cut(s)	583, 613, 625, 1054
BmiI	GGNNCC	2 cut(s)	28, 614
BmrFI	CCNGG	4 cut(s)	119, 398, 480, 828
BmsI	GCATC	4 cut(s)	304, 607, 759, 803
BpmI	CTGGAG	1 cut(s)	501
Bpu14I	TTCGAA	1 cut(s)	499
BpuEI	CTTGAG	1 cut(s)	653
BpuMI	CCSGG	1 cut(s)	119
BsaJI	CCNNGG	2 cut(s)	331, 1069
Bsc4I	CCNNNNNNNGG	5 cut(s)	85, 622, 634, 721, 965
Bse3DI	GCAATG	4 cut(s)	266, 681, 697, 726
BseBI	CCWGG	3 cut(s)	398, 480, 828
BseDI	CCNNGG	2 cut(s)	331, 1069
BseGI	GGATG	5 cut(s)	213, 433, 439, 701, 756
BseLI	CCNNNNNNNGG	5 cut(s)	85, 622, 634, 721, 965
BseMI	GCAATG	4 cut(s)	266, 681, 697, 726
BseMII	CTCAG	1 cut(s)	348
BseRI	GAGGAG	1 cut(s)	219
BseYI	CCCAGC	2 cut(s)	608, 1007
BshFI	GGCC	3 cut(s)	117, 584, 1055
BsiHKCI	CYCGRG	2 cut(s)	744, 1068
BsiSI	CCGG	1 cut(s)	118
BslFI	GGGAC	1 cut(s)	626
BslI	CCNNNNNNNGG	5 cut(s)	85, 622, 634, 721, 965
BsmFI	GGGAC	1 cut(s)	626
BsnI	GGCC	3 cut(s)	117, 584, 1055
BsoBI	CYCGRG	2 cut(s)	744, 1068
Bsp119I	TTCGAA	1 cut(s)	499
Bsp143I	GATC	3 cut(s)	151, 550, 757
BspACI	CCGC	1 cut(s)	883
BspANI	GGCC	3 cut(s)	117, 584, 1055
BspCNI	CTCAG	1 cut(s)	349
BspHI	TCATGA	3 cut(s)	61, 301, 760
BspLI	GGNNCC	2 cut(s)	28, 614
BspPI	GGATC	2 cut(s)	545, 765
BspQI	GCTCTTC	1 cut(s)	579
BspT104I	TTCGAA	1 cut(s)	499
BsrDI	GCAATG	4 cut(s)	266, 681, 697, 726
BssECI	CCNNGG	2 cut(s)	331, 1069
BssMI	GATC	3 cut(s)	151, 550, 757
BssSI	CACGAG	1 cut(s)	793
BssT1I	CCWWGG	1 cut(s)	331
Bst2BI	CACGAG	1 cut(s)	793
Bst2UI	CCWGG	3 cut(s)	398, 480, 828
Bst4CI	ACNGT	2 cut(s)	924, 1042
Bst6I	CTCTTC	4 cut(s)	483, 579, 1064, 1085
BstBI	TTCGAA	1 cut(s)	499
BstC8I	GCNNGC	2 cut(s)	688, 804
BstDEI	CTNAG	2 cut(s)	186, 357
BstF5I	GGATG	5 cut(s)	213, 433, 439, 701, 756
BstKTI	GATC	3 cut(s)	154, 553, 760
BstMBI	GATC	3 cut(s)	151, 550, 757
BstMWI	GCNNNNNNNGC	1 cut(s)	590
BstNI	CCWGG	3 cut(s)	398, 480, 828
BstNSI	RCATGY	1 cut(s)	180
BstSCI	CCNGG	4 cut(s)	117, 396, 478, 826
BstX2I	RGATCY	1 cut(s)	550
BstYI	RGATCY	1 cut(s)	550
BsuI	GTATCC	1 cut(s)	1085
BsuRI	GGCC	3 cut(s)	117, 584, 1055
BtrI	CACGTC	1 cut(s)	559
BtsCI	GGATG	5 cut(s)	213, 433, 439, 701, 756
BtsIMutI	CAGTG	1 cut(s)	386
Cac8I	GCNNGC	2 cut(s)	688, 804
CciI	TCATGA	3 cut(s)	61, 301, 760
Cfr13I	GGNCC	4 cut(s)	583, 613, 625, 1054
Csp6I	GTAC	2 cut(s)	361, 902
CviAII	CATG	9 cut(s)	62, 173, 177, 224, 302, 602, 761, 865, 1063
CviQI	GTAC	2 cut(s)	361, 902
DdeI	CTNAG	2 cut(s)	186, 357
DpnI	GATC	3 cut(s)	153, 552, 759
DpnII	GATC	3 cut(s)	151, 550, 757
EaeI	YGGCCR	1 cut(s)	115
Eam1104I	CTCTTC	4 cut(s)	483, 579, 1064, 1085
EarI	CTCTTC	4 cut(s)	483, 579, 1064, 1085
Eco130I	CCWWGG	1 cut(s)	331
Eco47I	GGWCC	2 cut(s)	613, 625
Eco57I	CTGAAG	2 cut(s)	563, 878
Eco88I	CYCGRG	2 cut(s)	744, 1068
EcoO109I	RGGNCCY	1 cut(s)	613
EcoRII	CCWGG	3 cut(s)	396, 478, 826
EcoT14I	CCWWGG	1 cut(s)	331
EcoT22I	ATGCAT	1 cut(s)	178
ErhI	CCWWGG	1 cut(s)	331
FaeI	CATG	9 cut(s)	65, 176, 180, 227, 305, 605, 764, 868, 1066
FalI	AAGNNNNNCTT	2 cut(s)	239, 271
FaqI	GGGAC	1 cut(s)	626
FatI	CATG	9 cut(s)	61, 172, 176, 223, 301, 601, 760, 864, 1062
FauI	CCCGC	1 cut(s)	876
FauNDI	CATATG	1 cut(s)	909
FokI	GGATG	5 cut(s)	200, 440, 446, 708, 763
FspBI	CTAG	4 cut(s)	311, 716, 986, 1105
GsaI	CCCAGC	2 cut(s)	612, 1011
GsuI	CTGGAG	1 cut(s)	501
HaeIII	GGCC	3 cut(s)	117, 584, 1055
HapII	CCGG	1 cut(s)	118
Hin1II	CATG	9 cut(s)	65, 176, 180, 227, 305, 605, 764, 868, 1066
HincII	GTYRAC	1 cut(s)	862
HindII	GTYRAC	1 cut(s)	862
HinfI	GANTC	4 cut(s)	448, 496, 535, 742
HpaII	CCGG	1 cut(s)	118
HphI	GGTGA	2 cut(s)	505, 751
Hpy166II	GTNNAC	2 cut(s)	862, 1045
Hpy188I	TCNGA	4 cut(s)	358, 370, 853, 916
Hpy188III	TCNNGA	6 cut(s)	62, 302, 311, 761, 793, 896
Hpy8I	GTNNAC	2 cut(s)	862, 1045
HpyAV	CCTTC	1 cut(s)	495
HpyCH4III	ACNGT	2 cut(s)	924, 1042
HpyCH4IV	ACGT	1 cut(s)	558
HpyF10VI	GCNNNNNNNGC	1 cut(s)	590
HpyF3I	CTNAG	2 cut(s)	186, 357
HpySE526I	ACGT	1 cut(s)	558
Hsp92II	CATG	9 cut(s)	65, 176, 180, 227, 305, 605, 764, 868, 1066
Kzo9I	GATC	3 cut(s)	151, 550, 757
LguI	GCTCTTC	1 cut(s)	579
LmnI	GCTCC	2 cut(s)	232, 799
LweI	GCATC	4 cut(s)	304, 607, 759, 803
MaeI	CTAG	4 cut(s)	311, 716, 986, 1105
MaeII	ACGT	1 cut(s)	558
MaeIII	GTNAC	3 cut(s)	337, 739, 1018
MalI	GATC	3 cut(s)	153, 552, 759
MboI	GATC	3 cut(s)	151, 550, 757
MboII	GAAGA	6 cut(s)	119, 500, 566, 569, 1051, 1102
MfeI	CAATTG	1 cut(s)	144
MflI	RGATCY	1 cut(s)	550
MluCI	AATT	6 cut(s)	51, 136, 144, 196, 352, 941
MlyI	GAGTC	1 cut(s)	736
MmeI	TCCRAC	1 cut(s)	906
Mph1103I	ATGCAT	1 cut(s)	178
MroXI	GAANNNNTTC	3 cut(s)	126, 891, 903
MseI	TTAA	2 cut(s)	510, 978
MslI	CAYNNNNRTG	1 cut(s)	968
MspI	CCGG	1 cut(s)	118
MspR9I	CCNGG	4 cut(s)	119, 398, 480, 828
MunI	CAATTG	1 cut(s)	144
MvaI	CCWGG	3 cut(s)	398, 480, 828
MwoI	GCNNNNNNNGC	1 cut(s)	590
NciI	CCSGG	1 cut(s)	119
NdeI	CATATG	1 cut(s)	909
NdeII	GATC	3 cut(s)	151, 550, 757
NlaIII	CATG	9 cut(s)	65, 176, 180, 227, 305, 605, 764, 868, 1066
NlaIV	GGNNCC	2 cut(s)	28, 614
NmuCI	GTSAC	2 cut(s)	739, 1018
NsiI	ATGCAT	1 cut(s)	178
NspI	RCATGY	1 cut(s)	180
NspV	TTCGAA	1 cut(s)	499
PagI	TCATGA	3 cut(s)	61, 301, 760
PciSI	GCTCTTC	1 cut(s)	579
PdmI	GAANNNNTTC	3 cut(s)	126, 891, 903
PfeI	GAWTC	3 cut(s)	448, 496, 535
PflMI	CCANNNNNTGG	1 cut(s)	85
PfoI	TCCNGGA	1 cut(s)	826
PleI	GAGTC	1 cut(s)	736
PpsI	GAGTC	1 cut(s)	736
PpuMI	RGGWCCY	1 cut(s)	613
Psp5II	RGGWCCY	1 cut(s)	613
Psp6I	CCWGG	3 cut(s)	396, 478, 826
PspFI	CCCAGC	2 cut(s)	608, 1007
PspGI	CCWGG	3 cut(s)	396, 478, 826
PspN4I	GGNNCC	2 cut(s)	28, 614
PspPI	GGNCC	4 cut(s)	583, 613, 625, 1054
PspPPI	RGGWCCY	1 cut(s)	613
PsuI	RGATCY	1 cut(s)	550
RsaI	GTAC	2 cut(s)	362, 903
RsaNI	GTAC	2 cut(s)	361, 902
RseI	CAYNNNNRTG	1 cut(s)	968
SapI	GCTCTTC	1 cut(s)	579
SaqAI	TTAA	2 cut(s)	510, 978
Sau3AI	GATC	3 cut(s)	151, 550, 757
Sau96I	GGNCC	4 cut(s)	583, 613, 625, 1054
ScaI	AGTACT	1 cut(s)	903
SchI	GAGTC	1 cut(s)	736
ScrFI	CCNGG	4 cut(s)	119, 398, 480, 828
SfaNI	GCATC	4 cut(s)	304, 607, 759, 803
SfuI	TTCGAA	1 cut(s)	499
SinI	GGWCC	2 cut(s)	613, 625
SmiMI	CAYNNNNRTG	1 cut(s)	968
SmlI	CTYRAG	1 cut(s)	632
SmoI	CTYRAG	1 cut(s)	632
Sse9I	AATT	6 cut(s)	51, 136, 144, 196, 352, 941
SsiI	CCGC	1 cut(s)	883
SspI	AATATT	2 cut(s)	107, 672
SspMI	CTAG	4 cut(s)	311, 716, 986, 1105
StyD4I	CCNGG	4 cut(s)	117, 396, 478, 826
StyI	CCWWGG	1 cut(s)	331
TaaI	ACNGT	2 cut(s)	924, 1042
TaiI	ACGT	1 cut(s)	561
TaqI	TCGA	1 cut(s)	499
TasI	AATT	6 cut(s)	51, 136, 144, 196, 352, 941
TatI	WGTACW	1 cut(s)	901
TfiI	GAWTC	3 cut(s)	448, 496, 535
Tru1I	TTAA	2 cut(s)	510, 978
Tru9I	TTAA	2 cut(s)	510, 978
TscAI	CASTG	1 cut(s)	393
TseFI	GTSAC	2 cut(s)	739, 1018
Tsp45I	GTSAC	2 cut(s)	739, 1018
TspDTI	ATGAA	5 cut(s)	276, 290, 891, 896, 1051
TspRI	CASTG	1 cut(s)	393
Van91I	CCANNNNNTGG	1 cut(s)	85
VpaK11BI	GGWCC	2 cut(s)	613, 625
XbaI	TCTAGA	1 cut(s)	310
XceI	RCATGY	1 cut(s)	180
XcmI	CCANNNNNNNNNTGG	1 cut(s)	824
XmnI	GAANNNNTTC	3 cut(s)	126, 891, 903
XspI	CTAG	4 cut(s)	311, 716, 986, 1105
ZrmI	AGTACT	1 cut(s)	903
Zsp2I	ATGCAT	1 cut(s)	178

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