Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0001478

Physical Location & Seq

Genomic Coordinates Forward (+)

56522786 .. 56523178

Gene Structure 393 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0400000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 393 bp

ATGCACGCTGGCGGGTGGATCTGCCACCTACTTGTGGTGAAGGATTACGTCTCTCTCAGACGCCTTGTTGGAAAAATTTTGACAGCCAGAGCTTTCAATAAGAGATCTTTTATGAGGATGTTCCGGCAAGCATGGCGGTTAAATGGACTCTACACCATTCAAGAGCATGAAGATCGCTTCCTCTTTACCTTGTCGGACCCAACTGATCGTAACCGGATTCTCCGGGGTGGTCCGTGGGGTTTTGACAGAGCTCCGGTGGTTTTGGCACCATATGATGGGGTTGGTGCGATCAAAGACGTACCACTTACCACCCTAGATTTCTGGATCAAGGTGCGTGGACTACCACCGGATTTTCACACTGATCGCTGTCTTCGAAAGATTGGCAGAGTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko04139 ko04919 ko05016 ko05202 map04139 map04919 map05016 map05202

Pfam Domains

Protein Families

PAH Sin3_corepress Sin3a_C

Protein Analysis

130

Amino Acids

15.11

Weight (kDa)

10.45

Isoelectric Point (pI)

41.71

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DUF4283	PF14111	22 - 91	2.1e-08	Domain of unknown function (DUF4283)

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

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Publication-ready

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Orthologous Genes (Group: OG0001478)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G23810 AT1G24210 AT1G24220 AT1G24220 AT1G24230 AT1G24250 AT1G27240 AT1G27260 AT1G27270 AT1G27280
fragaria_vesca	FvH4_3g01921 FvH4_3g01930 FvH4_5g11770 FvH4_5g22630
malus_domestica	MD08G1247800.v1.1
pyrus_communis	pycom08g21470 pycom15g39040
rosa_chinensis	RchiOBHm_Chr5g0002831 RchiOBHm_Chr5g0002841
rosa_laevigata	RLG00000003026 RLG00000003029 RLG00000031063 RLG00000031064
rosa_multiflora	Rmu_co8115592.1_g000001 Rmu_co8158784.1_g000001 Rmu_sc0012670.1_g000008 Rmu_sc0012670.1_g000009 Rmu_sc0013603.1_g000011 Rmu_sc0013603.1_g000012
rosa_roxburghii	Rroxscaffold_1G00073010 Rroxscaffold_1G00073020 Rroxscaffold_3G00248150
rosa_rugosa	Rorug04G0400000 Rorug04G0400100
rosa_samantha	Rh5AG022900 Rh5BG025500 Rh5BG025600 Rh5CG025400 Rh5CG025500 Rh5DG024000 Rh5DG024100 Rh7AG255700 Rh7AG256500 Rh7BG250100 Rh7CG272100 Rh7CG272900 Rh7CG273000 Rh7DG262900
rosa_wichuraiana	Rw5G002120 Rw5G002140 Rw7G021870

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	265
AccB7I	CCANNNNNTGG	1 cut(s)	275
AciI	CCGC	2 cut(s)	12, 136
AclWI	GGATC	2 cut(s)	26, 332
AcsI	RAATTY	1 cut(s)	75
AcyI	GRCGYC	1 cut(s)	61
AfaI	GTAC	1 cut(s)	300
AfiI	CCNNNNNNNGG	2 cut(s)	34, 275
AgsI	TTSAA	2 cut(s)	97, 161
AluBI	AGCT	2 cut(s)	92, 251
AluI	AGCT	2 cut(s)	92, 251
Alw21I	GWGCWC	1 cut(s)	253
Alw26I	GTCTC	1 cut(s)	55
AlwI	GGATC	2 cut(s)	26, 332
ApoI	RAATTY	1 cut(s)	75
AspS9I	GGNCC	2 cut(s)	196, 230
AsuC2I	CCSGG	1 cut(s)	224
AsuHPI	GGTGA	1 cut(s)	49
AsuII	TTCGAA	1 cut(s)	373
AvaII	GGWCC	2 cut(s)	196, 230
BanI	GGYRCC	1 cut(s)	265
BanII	GRGCYC	1 cut(s)	253
BbsI	GAAGAC	1 cut(s)	362
Bbv12I	GWGCWC	1 cut(s)	253
BccI	CCATC	1 cut(s)	269
BcgI	CGANNNNNNTGC	2 cut(s)	155, 189
BcnI	CCSGG	1 cut(s)	224
BcoDI	GTCTC	1 cut(s)	55
BfaI	CTAG	1 cut(s)	314
BglII	AGATCT	1 cut(s)	104
Bme1390I	CCNGG	1 cut(s)	224
Bme18I	GGWCC	2 cut(s)	196, 230
BmgT120I	GGNCC	2 cut(s)	196, 230
BmiI	GGNNCC	2 cut(s)	198, 267
BmrFI	CCNGG	1 cut(s)	224
BpiI	GAAGAC	1 cut(s)	362
Bpu14I	TTCGAA	1 cut(s)	373
BpuMI	CCSGG	1 cut(s)	224
BsaHI	GRCGYC	1 cut(s)	61
BsaJI	CCNNGG	2 cut(s)	223, 233
BsaWI	WCCGGW	3 cut(s)	213, 253, 346
Bsc4I	CCNNNNNNNGG	2 cut(s)	34, 275
BseDI	CCNNGG	2 cut(s)	223, 233
BseGI	GGATG	1 cut(s)	123
BseLI	CCNNNNNNNGG	2 cut(s)	34, 275
BseMII	CTCAG	1 cut(s)	70
BshNI	GGYRCC	1 cut(s)	265
BsiHKAI	GWGCWC	1 cut(s)	253
BsiSI	CCGG	5 cut(s)	124, 214, 223, 254, 347
BslI	CCNNNNNNNGG	2 cut(s)	34, 275
BsmAI	GTCTC	1 cut(s)	55
BsmBI	CGTCTC	1 cut(s)	55
Bsp119I	TTCGAA	1 cut(s)	373
Bsp1286I	GDGCHC	1 cut(s)	253
Bsp143I	GATC	7 cut(s)	18, 104, 172, 205, 288, 324, 361
BspACI	CCGC	2 cut(s)	12, 136
BspCNI	CTCAG	1 cut(s)	69
BspLI	GGNNCC	2 cut(s)	198, 267
BspPI	GGATC	2 cut(s)	26, 332
BspT104I	TTCGAA	1 cut(s)	373
BspT107I	GGYRCC	1 cut(s)	265
BssECI	CCNNGG	2 cut(s)	223, 233
BssMI	GATC	7 cut(s)	18, 104, 172, 205, 288, 324, 361
BssNI	GRCGYC	1 cut(s)	61
BstACI	GRCGYC	1 cut(s)	61
BstBI	TTCGAA	1 cut(s)	373
BstC8I	GCNNGC	3 cut(s)	6, 10, 129
BstDEI	CTNAG	1 cut(s)	56
BstDSI	CCRYGG	1 cut(s)	233
BstF5I	GGATG	1 cut(s)	123
BstKTI	GATC	7 cut(s)	21, 107, 175, 208, 291, 327, 364
BstMAI	GTCTC	1 cut(s)	55
BstMBI	GATC	7 cut(s)	18, 104, 172, 205, 288, 324, 361
BstMWI	GCNNNNNNNGC	1 cut(s)	133
BstSCI	CCNGG	1 cut(s)	222
BstV2I	GAAGAC	1 cut(s)	362
BstX2I	RGATCY	2 cut(s)	18, 104
BstYI	RGATCY	2 cut(s)	18, 104
BtgI	CCRYGG	1 cut(s)	233
BtsCI	GGATG	1 cut(s)	123
BtsIMutI	CAGTG	1 cut(s)	357
Cac8I	GCNNGC	3 cut(s)	6, 10, 129
Cfr13I	GGNCC	2 cut(s)	196, 230
CseI	GACGC	1 cut(s)	69
Csp6I	GTAC	1 cut(s)	299
CspCI	CAANNNNNGTGG	2 cut(s)	316, 351
CviAII	CATG	2 cut(s)	132, 167
CviJI	RGCY	3 cut(s)	86, 92, 251
CviKI_1	RGCY	3 cut(s)	86, 92, 251
CviQI	GTAC	1 cut(s)	299
DdeI	CTNAG	1 cut(s)	56
DpnI	GATC	7 cut(s)	20, 106, 174, 207, 290, 326, 363
DpnII	GATC	7 cut(s)	18, 104, 172, 205, 288, 324, 361
Ecl136II	GAGCTC	1 cut(s)	251
Eco24I	GRGCYC	1 cut(s)	253
Eco47I	GGWCC	2 cut(s)	196, 230
Eco53kI	GAGCTC	1 cut(s)	251
EcoICRI	GAGCTC	1 cut(s)	251
EcoT38I	GRGCYC	1 cut(s)	253
Esp3I	CGTCTC	1 cut(s)	55
FaeI	CATG	2 cut(s)	135, 170
FaiI	YATR	5 cut(s)	113, 133, 168, 271, 273
FatI	CATG	2 cut(s)	131, 166
FauI	CCCGC	1 cut(s)	5
FauNDI	CATATG	1 cut(s)	271
FokI	GGATG	1 cut(s)	130
FriOI	GRGCYC	1 cut(s)	253
FspBI	CTAG	1 cut(s)	314
HapII	CCGG	5 cut(s)	124, 214, 223, 254, 347
HgaI	GACGC	1 cut(s)	69
Hin1I	GRCGYC	1 cut(s)	61
Hin1II	CATG	2 cut(s)	135, 170
HinfI	GANTC	2 cut(s)	147, 217
HpaII	CCGG	5 cut(s)	124, 214, 223, 254, 347
HphI	GGTGA	1 cut(s)	49
Hpy166II	GTNNAC	1 cut(s)	338
Hpy188I	TCNGA	2 cut(s)	59, 196
Hpy188III	TCNNGA	2 cut(s)	161, 322
Hpy8I	GTNNAC	1 cut(s)	338
HpyAV	CCTTC	1 cut(s)	34
HpyCH4IV	ACGT	2 cut(s)	48, 297
HpyCH4V	TGCA	1 cut(s)	4
HpyF10VI	GCNNNNNNNGC	1 cut(s)	133
HpyF3I	CTNAG	1 cut(s)	56
HpySE526I	ACGT	2 cut(s)	48, 297
Hsp92I	GRCGYC	1 cut(s)	61
Hsp92II	CATG	2 cut(s)	135, 170
Kzo9I	GATC	7 cut(s)	18, 104, 172, 205, 288, 324, 361
LmnI	GCTCC	1 cut(s)	256
LpnPI	CCDG	7 cut(s)	100, 137, 227, 236, 267, 307, 360
MaeI	CTAG	1 cut(s)	314
MaeII	ACGT	2 cut(s)	48, 297
MaeIII	GTNAC	1 cut(s)	209
MalI	GATC	7 cut(s)	20, 106, 174, 207, 290, 326, 363
MboI	GATC	7 cut(s)	18, 104, 172, 205, 288, 324, 361
MboII	GAAGA	2 cut(s)	182, 362
MflI	RGATCY	2 cut(s)	18, 104
MhlI	GDGCHC	1 cut(s)	253
MluCI	AATT	1 cut(s)	75
MlyI	GAGTC	1 cut(s)	141
MmeI	TCCRAC	2 cut(s)	49, 174
MnlI	CCTC	2 cut(s)	108, 191
MseI	TTAA	1 cut(s)	140
MspI	CCGG	5 cut(s)	124, 214, 223, 254, 347
MspR9I	CCNGG	1 cut(s)	224
MwoI	GCNNNNNNNGC	1 cut(s)	133
NciI	CCSGG	1 cut(s)	224
NdeI	CATATG	1 cut(s)	271
NdeII	GATC	7 cut(s)	18, 104, 172, 205, 288, 324, 361
NlaIII	CATG	2 cut(s)	135, 170
NlaIV	GGNNCC	2 cut(s)	198, 267
NspV	TTCGAA	1 cut(s)	373
PcsI	WCGNNNNNNNCGW	1 cut(s)	370
PfeI	GAWTC	1 cut(s)	217
PflMI	CCANNNNNTGG	1 cut(s)	275
PleI	GAGTC	1 cut(s)	141
PpsI	GAGTC	1 cut(s)	141
Psp124BI	GAGCTC	1 cut(s)	253
PspN4I	GGNNCC	2 cut(s)	198, 267
PspPI	GGNCC	2 cut(s)	196, 230
PsuI	RGATCY	2 cut(s)	18, 104
RsaI	GTAC	1 cut(s)	300
RsaNI	GTAC	1 cut(s)	299
SacI	GAGCTC	1 cut(s)	253
SaqAI	TTAA	1 cut(s)	140
Sau3AI	GATC	7 cut(s)	18, 104, 172, 205, 288, 324, 361
Sau96I	GGNCC	2 cut(s)	196, 230
SchI	GAGTC	1 cut(s)	141
ScrFI	CCNGG	1 cut(s)	224
SduI	GDGCHC	1 cut(s)	253
SetI	ASST	7 cut(s)	30, 51, 94, 191, 253, 300, 333
SfuI	TTCGAA	1 cut(s)	373
SinI	GGWCC	2 cut(s)	196, 230
Sse9I	AATT	1 cut(s)	75
SsiI	CCGC	2 cut(s)	12, 136
SspMI	CTAG	1 cut(s)	314
SstI	GAGCTC	1 cut(s)	253
StyD4I	CCNGG	1 cut(s)	222
TaiI	ACGT	2 cut(s)	51, 300
TaqI	TCGA	1 cut(s)	373
TasI	AATT	1 cut(s)	75
TfiI	GAWTC	1 cut(s)	217
Tru1I	TTAA	1 cut(s)	140
Tru9I	TTAA	1 cut(s)	140
TscAI	CASTG	1 cut(s)	364
TspDTI	ATGAA	1 cut(s)	183
TspGWI	ACGGA	1 cut(s)	222
TspRI	CASTG	1 cut(s)	364
Van91I	CCANNNNNTGG	1 cut(s)	275
VpaK11BI	GGWCC	2 cut(s)	196, 230
XapI	RAATTY	1 cut(s)	75
XspI	CTAG	1 cut(s)	314

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