Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0000816

Physical Location & Seq

Genomic Coordinates Reverse (-)

47083351 .. 47085764

Gene Structure 2414 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0296500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 414 bp

ATGTCTTATTATATAATGGCCAGATACAAGTGCTCCAAGGATAAACATATGCAATTGTTGAGACATTCAAGGAGACTGATTGCAGCTGGAGCAGGAATTGCCTTAATTGATTCAGTGGTAGAAGAGTCAAAGAACAGCAGGGATCCACCTACTGGTTTTGCTTTAATAAGACCTCCAGGACACTATGCAATTTCAAAGGGTCTGATGGGGTTTTGTGTGTTTGGAAATATTGCAATTGCAGCTCATTATGCTCAACGTGCACATGGCTTGAAGGGTGTCTTTATAATTGATTTTGATGTTCACCACGGGAATGGGACAAATGATGCTTTCTATGAGGATCCGGATATATTCTTCCTTTCAAATCACCAAAAAGTAGTGCAAAGATGGCCTTGCTTATGGAATGGTACACAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000038 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005794 GO:0005886 GO:0006082 GO:0006629 GO:0006631 GO:0006633 GO:0006643 GO:0006665 GO:0006672 GO:0006807 GO:0008150 GO:0008152 GO:0008610 GO:0009058 GO:0009987 GO:0012505 GO:0016020 GO:0016053 GO:0016410 GO:0016740 GO:0016746 GO:0016747 GO:0019752 GO:0030148 GO:0032787 GO:0034641 GO:0042761 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044271 GO:0044281 GO:0044283 GO:0044424 GO:0044444 GO:0044464 GO:0046394 GO:0046467 GO:0046513 GO:0050291 GO:0071704 GO:0071944 GO:0072330 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00600 ko01100 ko04071 map00600 map01100 map04071

Pfam Domains

Protein Families

TRAM_LAG1_CLN8

Protein Analysis

137

Amino Acids

15.41

Weight (kDa)

9.07

Isoelectric Point (pI)

42.25

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Hist_deacetyl	PF00850	24 - 131	1.3e-33	Histone deacetylase domain

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)

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Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000816)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G13580 AT1G13580 AT1G13580 AT3G25540 AT3G25540 AT3G25540
fragaria_vesca	FvH4_4g28710 FvH4_4g28710 FvH4_4g28710 FvH4_4g28710 FvH4_4g28710 FvH4_4g28710 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070 FvH4_5g13070
malus_domestica	MD06G1207300.v1.1 MD13G1053200.v1.1 MD14G1217800.v1.1 MD16G1052200.v1.1
prunus_persica	Prupe.1G298900_v2.0.a1 Prupe.5G211700_v2.0.a1
pyrus_communis	pycom06g18520 pycom13g04760 pycom14g18060 pycom16g04580
rosa_chinensis	RchiOBHm_Chr4g0436831 RchiOBHm_Chr7g0184061
rosa_laevigata	RLG00000005004 RLG00000006493
rosa_multiflora	Rmu_sc0001837.1_g000015 Rmu_sc0004712.1_g000010 Rmu_sc0025350.1_g000014
rosa_roxburghii	Rroxscaffold_2G00110680 Rroxscaffold_3G00269920 Rroxscaffold_5G00377880
rosa_rugosa	Rorug04G0296500 Rorug04G0296500 Rorug06G0461800 Rorug06G0461900 Rorug06G0462000 Rorug06G0462100 Rorug06G0462200 Rorug06G0462300 Rorug06G0462400 Rorug06G0462400
rosa_samantha	Rh2AG465300 Rh2CG361300 Rh2CG451700 Rh4BG359900 Rh4CG374200 Rh4DG353900 Rh6CG248500 Rh6DG208700 Rh7BG063800 Rh7CG064500 Rh7DG064000
rosa_wichuraiana	Rw4G030710 Rw7G005240

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	284
AccB7I	CCANNNNNTGG	1 cut(s)	152
AccIII	TCCGGA	1 cut(s)	340
AclWI	GGATC	4 cut(s)	137, 150, 332, 345
AcoI	YGGCCR	1 cut(s)	18
AfaI	GTAC	1 cut(s)	406
AfiI	CCNNNNNNNGG	1 cut(s)	152
AgsI	TTSAA	4 cut(s)	69, 195, 271, 360
AjnI	CCWGG	1 cut(s)	175
AluBI	AGCT	2 cut(s)	86, 242
AluI	AGCT	2 cut(s)	86, 242
Alw21I	GWGCWC	2 cut(s)	35, 262
Alw26I	GTCTC	2 cut(s)	55, 67
Alw44I	GTGCAC	1 cut(s)	258
AlwI	GGATC	4 cut(s)	137, 150, 332, 345
Aor13HI	TCCGGA	1 cut(s)	340
AoxI	GGCC	2 cut(s)	18, 386
ApaLI	GTGCAC	1 cut(s)	258
ApeKI	GCWGC	2 cut(s)	83, 239
AsuHPI	GGTGA	2 cut(s)	293, 356
BaeGI	GKGCMC	1 cut(s)	262
BalI	TGGCCA	1 cut(s)	20
BamHI	GGATCC	2 cut(s)	142, 337
Bbv12I	GWGCWC	2 cut(s)	35, 262
BbvI	GCAGC	2 cut(s)	95, 251
BccI	CCATC	2 cut(s)	199, 378
BciT130I	CCWGG	1 cut(s)	177
BcoDI	GTCTC	2 cut(s)	55, 67
BisI	GCNGC	2 cut(s)	84, 240
BlsI	GCNGC	2 cut(s)	85, 241
Bme1390I	CCNGG	1 cut(s)	177
BmiI	GGNNCC	2 cut(s)	144, 339
BmrFI	CCNGG	1 cut(s)	177
BmsI	GCATC	1 cut(s)	313
BpmI	CTGGAG	2 cut(s)	108, 159
BsaJI	CCNNGG	2 cut(s)	36, 304
BsaWI	WCCGGW	1 cut(s)	340
BsaXI	ACNNNNNCTCC	2 cut(s)	17, 47
Bsc4I	CCNNNNNNNGG	1 cut(s)	152
Bse1I	ACTGG	1 cut(s)	157
BseAI	TCCGGA	1 cut(s)	340
BseBI	CCWGG	1 cut(s)	177
BseDI	CCNNGG	2 cut(s)	36, 304
BseLI	CCNNNNNNNGG	1 cut(s)	152
BseNI	ACTGG	1 cut(s)	157
BseSI	GKGCMC	1 cut(s)	262
BseXI	GCAGC	2 cut(s)	95, 251
BshFI	GGCC	2 cut(s)	20, 388
BsiHKAI	GWGCWC	2 cut(s)	35, 262
BsiSI	CCGG	1 cut(s)	341
BslFI	GGGAC	1 cut(s)	328
BslI	CCNNNNNNNGG	1 cut(s)	152
BsmAI	GTCTC	2 cut(s)	55, 67
BsmFI	GGGAC	1 cut(s)	328
BsnI	GGCC	2 cut(s)	20, 388
Bsp1286I	GDGCHC	2 cut(s)	35, 262
Bsp13I	TCCGGA	1 cut(s)	340
Bsp143I	GATC	2 cut(s)	142, 337
BspANI	GGCC	2 cut(s)	20, 388
BspEI	TCCGGA	1 cut(s)	340
BspLI	GGNNCC	2 cut(s)	144, 339
BspPI	GGATC	4 cut(s)	137, 150, 332, 345
BsrI	ACTGG	1 cut(s)	157
BssECI	CCNNGG	2 cut(s)	36, 304
BssMI	GATC	2 cut(s)	142, 337
BssT1I	CCWWGG	1 cut(s)	36
Bst2UI	CCWGG	1 cut(s)	177
Bst6I	CTCTTC	1 cut(s)	117
BstAPI	GCANNNNNTGC	1 cut(s)	98
BstDSI	CCRYGG	1 cut(s)	304
BstKTI	GATC	2 cut(s)	145, 340
BstMAI	GTCTC	2 cut(s)	55, 67
BstMBI	GATC	2 cut(s)	142, 337
BstMWI	GCNNNNNNNGC	6 cut(s)	89, 98, 239, 248, 257, 385
BstNI	CCWGG	1 cut(s)	177
BstSCI	CCNGG	1 cut(s)	175
BstSLI	GKGCMC	1 cut(s)	262
BstV1I	GCAGC	2 cut(s)	95, 251
BstX2I	RGATCY	2 cut(s)	142, 337
BstXI	CCANNNNNNTGG	1 cut(s)	311
BstYI	RGATCY	2 cut(s)	142, 337
BsuRI	GGCC	2 cut(s)	20, 388
BtgI	CCRYGG	1 cut(s)	304
BtsIMutI	CAGTG	1 cut(s)	120
Csp6I	GTAC	1 cut(s)	405
CviAII	CATG	1 cut(s)	263
CviJI	RGCY	5 cut(s)	20, 86, 242, 267, 388
CviKI_1	RGCY	5 cut(s)	20, 86, 242, 267, 388
CviQI	GTAC	1 cut(s)	405
DpnI	GATC	2 cut(s)	144, 339
DpnII	GATC	2 cut(s)	142, 337
EaeI	YGGCCR	1 cut(s)	18
Eam1104I	CTCTTC	1 cut(s)	117
EarI	CTCTTC	1 cut(s)	117
Eco130I	CCWWGG	1 cut(s)	36
EcoRII	CCWGG	1 cut(s)	175
EcoT14I	CCWWGG	1 cut(s)	36
ErhI	CCWWGG	1 cut(s)	36
FaeI	CATG	1 cut(s)	266
FalI	AAGNNNNNCTT	4 cut(s)	263, 295, 373, 405
FaqI	GGGAC	1 cut(s)	328
FatI	CATG	1 cut(s)	262
FauNDI	CATATG	1 cut(s)	48
Fnu4HI	GCNGC	2 cut(s)	84, 240
Fsp4HI	GCNGC	2 cut(s)	84, 240
GluI	GCNGC	2 cut(s)	84, 240
GsuI	CTGGAG	2 cut(s)	108, 159
HaeIII	GGCC	2 cut(s)	20, 388
HapII	CCGG	1 cut(s)	341
Hin1II	CATG	1 cut(s)	266
HinfI	GANTC	2 cut(s)	110, 125
HpaII	CCGG	1 cut(s)	341
HphI	GGTGA	2 cut(s)	293, 356
Hpy166II	GTNNAC	3 cut(s)	260, 301, 407
Hpy188I	TCNGA	1 cut(s)	204
Hpy188III	TCNNGA	1 cut(s)	341
Hpy8I	GTNNAC	3 cut(s)	260, 301, 407
HpyAV	CCTTC	1 cut(s)	265
HpyCH4IV	ACGT	1 cut(s)	256
HpyCH4V	TGCA	7 cut(s)	52, 83, 188, 233, 239, 260, 379
HpyF10VI	GCNNNNNNNGC	6 cut(s)	89, 98, 239, 248, 257, 385
HpySE526I	ACGT	1 cut(s)	256
Hsp92II	CATG	1 cut(s)	266
Kpn2I	TCCGGA	1 cut(s)	340
Kzo9I	GATC	2 cut(s)	142, 337
LmnI	GCTCC	2 cut(s)	38, 89
LpnPI	CCDG	8 cut(s)	34, 72, 78, 124, 138, 162, 189, 354
Lsp1109I	GCAGC	2 cut(s)	95, 251
LweI	GCATC	1 cut(s)	313
MaeII	ACGT	1 cut(s)	256
MalI	GATC	2 cut(s)	144, 339
MboI	GATC	2 cut(s)	142, 337
MboII	GAAGA	2 cut(s)	134, 343
MfeI	CAATTG	2 cut(s)	53, 234
MflI	RGATCY	2 cut(s)	142, 337
MhlI	GDGCHC	2 cut(s)	35, 262
MlsI	TGGCCA	1 cut(s)	20
MluCI	AATT	6 cut(s)	53, 96, 105, 189, 234, 285
MluNI	TGGCCA	1 cut(s)	20
MlyI	GAGTC	1 cut(s)	134
MnlI	CCTC	2 cut(s)	183, 328
Mox20I	TGGCCA	1 cut(s)	20
MroI	TCCGGA	1 cut(s)	340
MscI	TGGCCA	1 cut(s)	20
MseI	TTAA	2 cut(s)	104, 164
MslI	CAYNNNNRTG	1 cut(s)	309
Msp20I	TGGCCA	1 cut(s)	20
MspA1I	CMGCKG	1 cut(s)	86
MspI	CCGG	1 cut(s)	341
MspR9I	CCNGG	1 cut(s)	177
MunI	CAATTG	2 cut(s)	53, 234
MvaI	CCWGG	1 cut(s)	177
MwoI	GCNNNNNNNGC	6 cut(s)	89, 98, 239, 248, 257, 385
NdeI	CATATG	1 cut(s)	48
NdeII	GATC	2 cut(s)	142, 337
NlaIII	CATG	1 cut(s)	266
NlaIV	GGNNCC	2 cut(s)	144, 339
PfeI	GAWTC	1 cut(s)	110
PflMI	CCANNNNNTGG	1 cut(s)	152
PfoI	TCCNGGA	1 cut(s)	175
PkrI	GCNGC	2 cut(s)	85, 241
PleI	GAGTC	1 cut(s)	133
PpsI	GAGTC	1 cut(s)	133
PsiI	TTATAA	1 cut(s)	284
Psp6I	CCWGG	1 cut(s)	175
PspGI	CCWGG	1 cut(s)	175
PspN4I	GGNNCC	2 cut(s)	144, 339
PsuI	RGATCY	2 cut(s)	142, 337
PvuII	CAGCTG	1 cut(s)	86
RsaI	GTAC	1 cut(s)	406
RsaNI	GTAC	1 cut(s)	405
RseI	CAYNNNNRTG	1 cut(s)	309
SaqAI	TTAA	2 cut(s)	104, 164
SatI	GCNGC	2 cut(s)	84, 240
Sau3AI	GATC	2 cut(s)	142, 337
SchI	GAGTC	1 cut(s)	134
ScrFI	CCNGG	1 cut(s)	177
SduI	GDGCHC	2 cut(s)	35, 262
SetI	ASST	5 cut(s)	88, 151, 175, 244, 259
SfaNI	GCATC	1 cut(s)	313
SmiMI	CAYNNNNRTG	1 cut(s)	309
Sse9I	AATT	6 cut(s)	53, 96, 105, 189, 234, 285
SspI	AATATT	1 cut(s)	229
StyD4I	CCNGG	1 cut(s)	175
StyI	CCWWGG	1 cut(s)	36
TaiI	ACGT	1 cut(s)	259
TasI	AATT	6 cut(s)	53, 96, 105, 189, 234, 285
TfiI	GAWTC	1 cut(s)	110
Tru1I	TTAA	2 cut(s)	104, 164
Tru9I	TTAA	2 cut(s)	104, 164
TscAI	CASTG	1 cut(s)	120
TseI	GCWGC	2 cut(s)	83, 239
TspRI	CASTG	1 cut(s)	120
Van91I	CCANNNNNTGG	1 cut(s)	152
VneI	GTGCAC	1 cut(s)	258

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