Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000001

Orthogroup ID

OG0003353

Physical Location & Seq

Genomic Coordinates Forward (+)

4788670 .. 4789114

Gene Structure 445 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug01G0028300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 291 bp

ATGAAACCCGACCCAATATACGTACACGACGTCAATGACTCCCCACACGAACAAGAAGGTCCTGGAGGATCTGCAAAAATCCCGTCGAAGCGCCTCTGCAACAAGATCGCCGGATTCTCGACCCATCTCATGAAGCGCATCCAGAAGGGCCCCGTCCGCGGCATCTCCCTCAAGCTCCAAGAGGAGGAGCGCGAGCGCCGCATGGACTTTGTCCCCGACGAGTCCGCCATGAAGACCGACGAGATCGCCGTCGACAAGGAGACCGTCGATCAAGAAGGTGGATCCCTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009451 GO:0009507 GO:0009536 GO:0009987 GO:0016070 GO:0016787 GO:0016788 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0090305 GO:0097159 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DYW_deaminase PPR PPR_2

Protein Analysis

96

Amino Acids

10.73

Weight (kDa)

5.59

Isoelectric Point (pI)

48.87

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ribosomal_S17e	PF00833	25 - 90	1.4e-29	Ribosomal S17

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: OG0003353)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G04780
fragaria_vesca	FvH4_7g02270
malus_domestica	MD05G1362900.v1.1 MD05G1363000.v1.1 MD10G1340500.v1.1
prunus_persica	Prupe.2G071000_v2.0.a1 Prupe.2G073400_v2.0.a1
pyrus_communis	pycom05g32940 pycom10g29030
rosa_chinensis	RchiOBHm_Chr1g0319571 RchiOBHm_Chr6g0267541 RchiOBHm_Chr7g0197341
rosa_laevigata	RLG00000030470
rosa_multiflora	Rmu_sc0001522.1_g000010 Rmu_sc0002539.1_g000062 Rmu_sc0031493.1_g000001
rosa_roxburghii	Rroxscaffold_4G00284250 Rroxscaffold_4G00328280 Rroxscaffold_7G00200640
rosa_rugosa	Rorug01G0028300 Rorug01G0028400 Rorug01G0028500 Rorug01G0028600 Rorug06G0033600 Rorug06G0033600
rosa_samantha	Rh1AG040400 Rh1BG037600 Rh1CG041600 Rh1DG028300 Rh6AG155100 Rh6BG155700 Rh6CG150900 Rh6DG141000
rosa_wichuraiana	Rw0G012790 Rw1G003340 Rw6G013310

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	33
AccI	GTMKAC	1 cut(s)	252
AccII	CGCG	2 cut(s)	159, 192
AciI	CCGC	4 cut(s)	157, 159, 199, 225
AclWI	GGATC	3 cut(s)	76, 276, 289
AcyI	GRCGYC	1 cut(s)	30
AfaI	GTAC	1 cut(s)	24
AfiI	CCNNNNNNNGG	2 cut(s)	158, 184
AjnI	CCWGG	1 cut(s)	61
AluBI	AGCT	1 cut(s)	175
AluI	AGCT	1 cut(s)	175
Alw26I	GTCTC	1 cut(s)	254
AlwI	GGATC	3 cut(s)	76, 276, 289
AoxI	GGCC	1 cut(s)	148
ApaI	GGGCCC	1 cut(s)	152
ArsI	GACNNNNNNTTYG	2 cut(s)	68, 100
AspLEI	GCGC	4 cut(s)	93, 138, 192, 198
AspS9I	GGNCC	3 cut(s)	59, 148, 149
AvaII	GGWCC	1 cut(s)	59
BaeGI	GKGCMC	1 cut(s)	152
BamHI	GGATCC	1 cut(s)	281
BanII	GRGCYC	1 cut(s)	152
BbsI	GAAGAC	1 cut(s)	239
BccI	CCATC	1 cut(s)	132
BceAI	ACGGC	1 cut(s)	233
BcgI	CGANNNNNNTGC	2 cut(s)	88, 122
BciT130I	CCWGG	1 cut(s)	63
BcoDI	GTCTC	1 cut(s)	254
BfoI	RGCGCY	2 cut(s)	94, 199
BisI	GCNGC	2 cut(s)	160, 199
BlsI	GCNGC	2 cut(s)	161, 200
Bme1390I	CCNGG	1 cut(s)	63
Bme18I	GGWCC	1 cut(s)	59
BmgT120I	GGNCC	3 cut(s)	59, 148, 149
BmiI	GGNNCC	3 cut(s)	150, 151, 283
BmrFI	CCNGG	1 cut(s)	63
BmsI	GCATC	2 cut(s)	147, 171
BpiI	GAAGAC	1 cut(s)	239
BpmI	CTGGAG	1 cut(s)	84
BpuEI	CTTGAG	1 cut(s)	155
BsaAI	YACGTR	1 cut(s)	22
BsaHI	GRCGYC	1 cut(s)	30
BsaI	GGTCTC	1 cut(s)	254
BsaJI	CCNNGG	1 cut(s)	157
Bsc4I	CCNNNNNNNGG	2 cut(s)	158, 184
BseBI	CCWGG	1 cut(s)	63
BseDI	CCNNGG	1 cut(s)	157
BseGI	GGATG	1 cut(s)	138
BseLI	CCNNNNNNNGG	2 cut(s)	158, 184
BseRI	GAGGAG	2 cut(s)	197, 200
BseSI	GKGCMC	1 cut(s)	152
Bsh1236I	CGCG	2 cut(s)	159, 192
BshFI	GGCC	1 cut(s)	150
BsiSI	CCGG	1 cut(s)	111
BslFI	GGGAC	1 cut(s)	197
BslI	CCNNNNNNNGG	2 cut(s)	158, 184
BsmAI	GTCTC	1 cut(s)	254
BsmFI	GGGAC	1 cut(s)	197
BsnI	GGCC	1 cut(s)	150
Bso31I	GGTCTC	1 cut(s)	254
Bsp120I	GGGCCC	1 cut(s)	148
Bsp1286I	GDGCHC	1 cut(s)	152
Bsp143I	GATC	5 cut(s)	68, 105, 243, 268, 281
BspACI	CCGC	4 cut(s)	157, 159, 199, 225
BspANI	GGCC	1 cut(s)	150
BspFNI	CGCG	2 cut(s)	159, 192
BspHI	TCATGA	1 cut(s)	129
BspLI	GGNNCC	3 cut(s)	150, 151, 283
BspPI	GGATC	3 cut(s)	76, 276, 289
BspTNI	GGTCTC	1 cut(s)	254
BssECI	CCNNGG	1 cut(s)	157
BssMI	GATC	5 cut(s)	68, 105, 243, 268, 281
BssNI	GRCGYC	1 cut(s)	30
Bst2UI	CCWGG	1 cut(s)	63
Bst4CI	ACNGT	1 cut(s)	265
BstACI	GRCGYC	1 cut(s)	30
BstBAI	YACGTR	1 cut(s)	22
BstC8I	GCNNGC	1 cut(s)	194
BstDSI	CCRYGG	1 cut(s)	157
BstF5I	GGATG	1 cut(s)	138
BstFNI	CGCG	2 cut(s)	159, 192
BstH2I	RGCGCY	2 cut(s)	94, 199
BstHHI	GCGC	4 cut(s)	93, 138, 192, 198
BstKTI	GATC	5 cut(s)	71, 108, 246, 271, 284
BstMAI	GTCTC	1 cut(s)	254
BstMBI	GATC	5 cut(s)	68, 105, 243, 268, 281
BstMWI	GCNNNNNNNGC	2 cut(s)	156, 198
BstNI	CCWGG	1 cut(s)	63
BstSCI	CCNGG	1 cut(s)	61
BstSLI	GKGCMC	1 cut(s)	152
BstSNI	TACGTA	1 cut(s)	22
BstUI	CGCG	2 cut(s)	159, 192
BstV2I	GAAGAC	1 cut(s)	239
BstX2I	RGATCY	2 cut(s)	68, 281
BstYI	RGATCY	2 cut(s)	68, 281
BsuRI	GGCC	1 cut(s)	150
BtgI	CCRYGG	1 cut(s)	157
BtsCI	GGATG	1 cut(s)	138
Cac8I	GCNNGC	1 cut(s)	194
CciI	TCATGA	1 cut(s)	129
CfoI	GCGC	4 cut(s)	93, 138, 192, 198
Cfr13I	GGNCC	3 cut(s)	59, 148, 149
Cfr42I	CCGCGG	1 cut(s)	160
Csp6I	GTAC	1 cut(s)	23
CviAII	CATG	3 cut(s)	130, 202, 229
CviJI	RGCY	2 cut(s)	150, 175
CviKI_1	RGCY	2 cut(s)	150, 175
CviQI	GTAC	1 cut(s)	23
DpnI	GATC	5 cut(s)	70, 107, 245, 270, 283
DpnII	GATC	5 cut(s)	68, 105, 243, 268, 281
EciI	GGCGGA	1 cut(s)	214
Eco105I	TACGTA	1 cut(s)	22
Eco24I	GRGCYC	1 cut(s)	152
Eco31I	GGTCTC	1 cut(s)	254
Eco47I	GGWCC	1 cut(s)	59
EcoO109I	RGGNCCY	3 cut(s)	59, 148, 149
EcoRII	CCWGG	1 cut(s)	61
EcoT38I	GRGCYC	1 cut(s)	152
FaeI	CATG	3 cut(s)	133, 205, 232
FaiI	YATR	4 cut(s)	19, 131, 203, 230
FaqI	GGGAC	1 cut(s)	197
FatI	CATG	3 cut(s)	129, 201, 228
FblI	GTMKAC	1 cut(s)	252
Fnu4HI	GCNGC	2 cut(s)	160, 199
FokI	GGATG	1 cut(s)	125
FriOI	GRGCYC	1 cut(s)	152
Fsp4HI	GCNGC	2 cut(s)	160, 199
GlaI	GCGC	4 cut(s)	92, 137, 191, 197
GluI	GCNGC	2 cut(s)	160, 199
GsuI	CTGGAG	1 cut(s)	84
HaeII	RGCGCY	2 cut(s)	94, 199
HaeIII	GGCC	1 cut(s)	150
HapII	CCGG	1 cut(s)	111
HhaI	GCGC	4 cut(s)	93, 138, 192, 198
Hin1I	GRCGYC	1 cut(s)	30
Hin1II	CATG	3 cut(s)	133, 205, 232
Hin6I	GCGC	4 cut(s)	91, 136, 190, 196
HinP1I	GCGC	4 cut(s)	91, 136, 190, 196
HincII	GTYRAC	1 cut(s)	253
HindII	GTYRAC	1 cut(s)	253
HinfI	GANTC	3 cut(s)	38, 114, 221
HpaII	CCGG	1 cut(s)	111
Hpy166II	GTNNAC	2 cut(s)	25, 253
Hpy188I	TCNGA	1 cut(s)	290
Hpy188III	TCNNGA	4 cut(s)	118, 130, 142, 272
Hpy8I	GTNNAC	2 cut(s)	25, 253
Hpy99I	CGWCG	6 cut(s)	32, 88, 221, 242, 254, 269
HpyAV	CCTTC	3 cut(s)	50, 139, 269
HpyCH4III	ACNGT	1 cut(s)	265
HpyCH4IV	ACGT	2 cut(s)	21, 30
HpyCH4V	TGCA	2 cut(s)	74, 99
HpyF10VI	GCNNNNNNNGC	2 cut(s)	156, 198
HpySE526I	ACGT	2 cut(s)	21, 30
Hsp92I	GRCGYC	1 cut(s)	30
Hsp92II	CATG	3 cut(s)	133, 205, 232
HspAI	GCGC	4 cut(s)	91, 136, 190, 196
KspI	CCGCGG	1 cut(s)	160
Kzo9I	GATC	5 cut(s)	68, 105, 243, 268, 281
LmnI	GCTCC	2 cut(s)	180, 187
LpnPI	CCDG	4 cut(s)	48, 75, 124, 155
LweI	GCATC	2 cut(s)	147, 171
MaeII	ACGT	2 cut(s)	21, 30
MalI	GATC	5 cut(s)	70, 107, 245, 270, 283
MboI	GATC	5 cut(s)	68, 105, 243, 268, 281
MboII	GAAGA	1 cut(s)	244
MflI	RGATCY	2 cut(s)	68, 281
MhlI	GDGCHC	1 cut(s)	152
MlyI	GAGTC	2 cut(s)	32, 230
MnlI	CCTC	5 cut(s)	59, 104, 175, 178, 179
MspA1I	CMGCKG	1 cut(s)	159
MspI	CCGG	1 cut(s)	111
MspR9I	CCNGG	1 cut(s)	63
MvaI	CCWGG	1 cut(s)	63
MvnI	CGCG	2 cut(s)	159, 192
MwoI	GCNNNNNNNGC	2 cut(s)	156, 198
NdeII	GATC	5 cut(s)	68, 105, 243, 268, 281
NlaIII	CATG	3 cut(s)	133, 205, 232
NlaIV	GGNNCC	3 cut(s)	150, 151, 283
PagI	TCATGA	1 cut(s)	129
PcsI	WCGNNNNNNNCGW	2 cut(s)	27, 246
PfeI	GAWTC	1 cut(s)	114
PflFI	GACNNNGTC	1 cut(s)	209
PfoI	TCCNGGA	1 cut(s)	61
PkrI	GCNGC	2 cut(s)	161, 200
PleI	GAGTC	2 cut(s)	32, 229
PpsI	GAGTC	2 cut(s)	32, 229
Ppu21I	YACGTR	1 cut(s)	22
PpuMI	RGGWCCY	1 cut(s)	59
Psp5II	RGGWCCY	1 cut(s)	59
Psp6I	CCWGG	1 cut(s)	61
PspGI	CCWGG	1 cut(s)	61
PspN4I	GGNNCC	3 cut(s)	150, 151, 283
PspOMI	GGGCCC	1 cut(s)	148
PspPI	GGNCC	3 cut(s)	59, 148, 149
PspPPI	RGGWCCY	1 cut(s)	59
PsuI	RGATCY	2 cut(s)	68, 281
PsyI	GACNNNGTC	1 cut(s)	209
RsaI	GTAC	1 cut(s)	24
RsaNI	GTAC	1 cut(s)	23
SacII	CCGCGG	1 cut(s)	160
SalI	GTCGAC	1 cut(s)	251
SatI	GCNGC	2 cut(s)	160, 199
Sau3AI	GATC	5 cut(s)	68, 105, 243, 268, 281
Sau96I	GGNCC	3 cut(s)	59, 148, 149
SchI	GAGTC	2 cut(s)	32, 230
ScrFI	CCNGG	1 cut(s)	63
SduI	GDGCHC	1 cut(s)	152
SetI	ASST	5 cut(s)	24, 33, 61, 177, 280
SfaNI	GCATC	2 cut(s)	147, 171
Sfr303I	CCGCGG	1 cut(s)	160
SgrBI	CCGCGG	1 cut(s)	160
SinI	GGWCC	1 cut(s)	59
SmlI	CTYRAG	1 cut(s)	170
SmoI	CTYRAG	1 cut(s)	170
SnaBI	TACGTA	1 cut(s)	22
SsiI	CCGC	4 cut(s)	157, 159, 199, 225
StyD4I	CCNGG	1 cut(s)	61
TaaI	ACNGT	1 cut(s)	265
TaiI	ACGT	2 cut(s)	24, 33
TaqI	TCGA	4 cut(s)	86, 119, 252, 267
TaqII	GACCGA	1 cut(s)	251
TauI	GCSGC	2 cut(s)	162, 201
TfiI	GAWTC	1 cut(s)	114
TspDTI	ATGAA	3 cut(s)	17, 146, 245
Tth111I	GACNNNGTC	1 cut(s)	209
VpaK11BI	GGWCC	1 cut(s)	59
XmiI	GTMKAC	1 cut(s)	252
ZraI	GACGTC	1 cut(s)	31

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