Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000005

Orthogroup ID

OG0004163

Physical Location & Seq

Genomic Coordinates Reverse (-)

5409556 .. 5410337

Gene Structure 782 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug05G0062200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 336 bp

ATGGATCTCAAATCCTGCCTTGTTGTTCTCCTCGTGGCCTTAGCCATGGTGGCCGCAGTAGAGTCCTCAAAGATCCACGATGCCGCCTGGGGTCTCAAACAGCGCCACAACAATGTGGGTGACATGATCGGAGAAGAAACTGAGATGTTACTGGACTCCGAGGCCGGCCGGCGTCAACTTATGCAAGGCCGTTTCATTAGCTACGAAGCCCTTAAGAAAGACAAAATACCGTGTGGCCAGCGCGGCAAATCCTACTATGACTGCAATAACAGAAATCAGGTCAATTCTTACCGCCGAGGTTGTAATTACATTACTCGATGCGCCCGCAGTGATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004812 GO:0004826 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006082 GO:0006139 GO:0006399 GO:0006412 GO:0006418 GO:0006432 GO:0006518 GO:0006520 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009987 GO:0010467 GO:0016020 GO:0016070 GO:0016874 GO:0016875 GO:0019538 GO:0019752 GO:0034641 GO:0034645 GO:0034660 GO:0043038 GO:0043039 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0043603 GO:0043604 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044281 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0071704 GO:0090304 GO:0140098 GO:0140101 GO:1901360 GO:1901564 GO:1901566 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00970 map00970

Pfam Domains

Protein Families

FDX-ACB tRNA-synt_2d

Protein Analysis

111

Amino Acids

12.58

Weight (kDa)

8.88

Isoelectric Point (pI)

39.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RALF	PF05498	48 - 109	7e-24	Rapid ALkalinization Factor (RALF)

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)

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Publication-ready

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Orthologous Genes (Group: OG0004163)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G58140
fragaria_vesca	FvH4_3g12680 FvH4_3g12680 FvH4_3g12680
malus_domestica	MD05G1248600.v1.1 MD10G1229100.v1.1
prunus_persica	Prupe.4G115500_v2.0.a1
pyrus_communis	pycom05g22530 pycom10g19270
rosa_chinensis	RchiOBHm_Chr3g0486261 RchiOBHm_Chr5g0020641
rosa_laevigata	RLG00000023089 RLG00000032549
rosa_multiflora	Rmu_sc0001857.1_g000018 Rmu_sc0005607.1_g000020 Rmu_sc0005842.1_g000003 Rmu_sc0007661.1_g000010
rosa_roxburghii	Rroxscaffold_1G00057630 Rroxscaffold_6G00395930
rosa_rugosa	Rorug03G0224300 Rorug03G0224400 Rorug03G0224500 Rorug05G0062200
rosa_samantha	Rh3AG274300 Rh3BG309600 Rh3CG308800 Rh5AG151900 Rh5BG151600 Rh5CG162900 Rh5DG150800
rosa_wichuraiana	Rw0G022550 Rw3G024320 Rw5G013460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	243
AciI	CCGC	5 cut(s)	54, 84, 243, 292, 325
AclWI	GGATC	2 cut(s)	12, 67
AcoI	YGGCCR	3 cut(s)	51, 166, 235
AcyI	GRCGYC	1 cut(s)	172
AflII	CTTAAG	1 cut(s)	212
AjnI	CCWGG	1 cut(s)	86
AluBI	AGCT	1 cut(s)	201
AluI	AGCT	1 cut(s)	201
Alw26I	GTCTC	1 cut(s)	98
AlwI	GGATC	2 cut(s)	12, 67
AoxI	GGCC	6 cut(s)	36, 51, 162, 166, 187, 235
AspLEI	GCGC	3 cut(s)	105, 243, 323
AsuHPI	GGTGA	1 cut(s)	131
BalI	TGGCCA	1 cut(s)	237
BauI	CACGAG	1 cut(s)	32
BceAI	ACGGC	1 cut(s)	174
BciT130I	CCWGG	1 cut(s)	88
BcoDI	GTCTC	1 cut(s)	98
BfoI	RGCGCY	1 cut(s)	106
BfrI	CTTAAG	1 cut(s)	212
BglI	GCCNNNNNGGC	2 cut(s)	50, 243
BisI	GCNGC	3 cut(s)	54, 84, 244
BlsI	GCNGC	3 cut(s)	55, 85, 245
Bme1390I	CCNGG	1 cut(s)	88
BmrFI	CCNGG	1 cut(s)	88
BmsI	GCATC	2 cut(s)	70, 308
Bpu10I	CCTNAGC	1 cut(s)	40
BsaHI	GRCGYC	1 cut(s)	172
BsaI	GGTCTC	1 cut(s)	98
BsaJI	CCNNGG	4 cut(s)	45, 87, 159, 295
Bse118I	RCCGGY	2 cut(s)	164, 168
Bse1I	ACTGG	1 cut(s)	156
BseBI	CCWGG	1 cut(s)	88
BseDI	CCNNGG	4 cut(s)	45, 87, 159, 295
BseMII	CTCAG	1 cut(s)	132
BseNI	ACTGG	1 cut(s)	156
BseRI	GAGGAG	1 cut(s)	20
BseX3I	CGGCCG	1 cut(s)	166
Bsh1236I	CGCG	1 cut(s)	243
Bsh1285I	CGRYCG	1 cut(s)	169
BshFI	GGCC	6 cut(s)	38, 53, 164, 168, 189, 237
BsiEI	CGRYCG	1 cut(s)	169
BsiSI	CCGG	2 cut(s)	165, 169
BsmAI	GTCTC	1 cut(s)	98
BsnI	GGCC	6 cut(s)	38, 53, 164, 168, 189, 237
Bso31I	GGTCTC	1 cut(s)	98
Bsp143I	GATC	3 cut(s)	4, 72, 126
Bsp19I	CCATGG	1 cut(s)	45
BspACI	CCGC	5 cut(s)	54, 84, 243, 292, 325
BspANI	GGCC	6 cut(s)	38, 53, 164, 168, 189, 237
BspCNI	CTCAG	1 cut(s)	133
BspFNI	CGCG	1 cut(s)	243
BspPI	GGATC	2 cut(s)	12, 67
BspTI	CTTAAG	1 cut(s)	212
BspTNI	GGTCTC	1 cut(s)	98
BsrFI	RCCGGY	2 cut(s)	164, 168
BsrI	ACTGG	1 cut(s)	156
BssAI	RCCGGY	2 cut(s)	164, 168
BssECI	CCNNGG	4 cut(s)	45, 87, 159, 295
BssMI	GATC	3 cut(s)	4, 72, 126
BssNI	GRCGYC	1 cut(s)	172
BssSI	CACGAG	1 cut(s)	32
BssT1I	CCWWGG	1 cut(s)	45
Bst2BI	CACGAG	1 cut(s)	32
Bst2UI	CCWGG	1 cut(s)	88
Bst4CI	ACNGT	1 cut(s)	231
BstACI	GRCGYC	1 cut(s)	172
BstAFI	CTTAAG	1 cut(s)	212
BstC8I	GCNNGC	4 cut(s)	166, 170, 239, 325
BstDEI	CTNAG	2 cut(s)	40, 141
BstDSI	CCRYGG	1 cut(s)	45
BstFNI	CGCG	1 cut(s)	243
BstH2I	RGCGCY	1 cut(s)	106
BstHHI	GCGC	3 cut(s)	105, 243, 323
BstKTI	GATC	3 cut(s)	7, 75, 129
BstMAI	GTCTC	1 cut(s)	98
BstMBI	GATC	3 cut(s)	4, 72, 126
BstMCI	CGRYCG	1 cut(s)	169
BstMWI	GCNNNNNNNGC	2 cut(s)	50, 243
BstNI	CCWGG	1 cut(s)	88
BstSCI	CCNGG	1 cut(s)	86
BstUI	CGCG	1 cut(s)	243
BstX2I	RGATCY	2 cut(s)	4, 72
BstYI	RGATCY	2 cut(s)	4, 72
BstZI	CGGCCG	1 cut(s)	166
BsuRI	GGCC	6 cut(s)	38, 53, 164, 168, 189, 237
BtgI	CCRYGG	1 cut(s)	45
BtsI	GCAGTG	1 cut(s)	334
BtsIMutI	CAGTG	1 cut(s)	334
Cac8I	GCNNGC	4 cut(s)	166, 170, 239, 325
CfoI	GCGC	3 cut(s)	105, 243, 323
Cfr10I	RCCGGY	2 cut(s)	164, 168
CseI	GACGC	1 cut(s)	161
CviAII	CATG	2 cut(s)	46, 124
CviJI	RGCY	9 cut(s)	38, 44, 53, 164, 168, 189, 201, 209, 237
CviKI_1	RGCY	9 cut(s)	38, 44, 53, 164, 168, 189, 201, 209, 237
DdeI	CTNAG	2 cut(s)	40, 141
DpnI	GATC	3 cut(s)	6, 74, 128
DpnII	GATC	3 cut(s)	4, 72, 126
EaeI	YGGCCR	3 cut(s)	51, 166, 235
EagI	CGGCCG	1 cut(s)	166
EclXI	CGGCCG	1 cut(s)	166
Eco130I	CCWWGG	1 cut(s)	45
Eco31I	GGTCTC	1 cut(s)	98
Eco52I	CGGCCG	1 cut(s)	166
EcoRII	CCWGG	1 cut(s)	86
EcoT14I	CCWWGG	1 cut(s)	45
ErhI	CCWWGG	1 cut(s)	45
FaeI	CATG	2 cut(s)	49, 127
FaiI	YATR	4 cut(s)	47, 125, 182, 258
FatI	CATG	2 cut(s)	45, 123
FauI	CCCGC	1 cut(s)	332
Fnu4HI	GCNGC	3 cut(s)	54, 84, 244
FseI	GGCCGGCC	1 cut(s)	168
Fsp4HI	GCNGC	3 cut(s)	54, 84, 244
GlaI	GCGC	3 cut(s)	104, 242, 322
GluI	GCNGC	3 cut(s)	54, 84, 244
HaeII	RGCGCY	1 cut(s)	106
HaeIII	GGCC	6 cut(s)	38, 53, 164, 168, 189, 237
HapII	CCGG	2 cut(s)	165, 169
HgaI	GACGC	1 cut(s)	161
HhaI	GCGC	3 cut(s)	105, 243, 323
Hin1I	GRCGYC	1 cut(s)	172
Hin1II	CATG	2 cut(s)	49, 127
Hin6I	GCGC	3 cut(s)	103, 241, 321
HinP1I	GCGC	3 cut(s)	103, 241, 321
HincII	GTYRAC	1 cut(s)	176
HindII	GTYRAC	1 cut(s)	176
HinfI	GANTC	2 cut(s)	62, 155
HpaII	CCGG	2 cut(s)	165, 169
HphI	GGTGA	1 cut(s)	131
Hpy166II	GTNNAC	1 cut(s)	176
Hpy188I	TCNGA	2 cut(s)	131, 160
Hpy8I	GTNNAC	1 cut(s)	176
HpyCH4III	ACNGT	1 cut(s)	231
HpyCH4V	TGCA	2 cut(s)	184, 264
HpyF10VI	GCNNNNNNNGC	2 cut(s)	50, 243
HpyF3I	CTNAG	2 cut(s)	40, 141
Hsp92I	GRCGYC	1 cut(s)	172
Hsp92II	CATG	2 cut(s)	49, 127
HspAI	GCGC	3 cut(s)	103, 241, 321
KroI	GCCGGC	2 cut(s)	164, 168
KroNI	GCCGGC	2 cut(s)	166, 170
Kzo9I	GATC	3 cut(s)	4, 72, 126
LpnPI	CCDG	8 cut(s)	28, 73, 100, 137, 178, 182, 251, 263
LweI	GCATC	2 cut(s)	70, 308
MaeIII	GTNAC	2 cut(s)	119, 147
MalI	GATC	3 cut(s)	6, 74, 128
MboI	GATC	3 cut(s)	4, 72, 126
MboII	GAAGA	1 cut(s)	146
MflI	RGATCY	2 cut(s)	4, 72
MlsI	TGGCCA	1 cut(s)	237
MluCI	AATT	2 cut(s)	283, 304
MluNI	TGGCCA	1 cut(s)	237
MlyI	GAGTC	2 cut(s)	71, 149
MnlI	CCTC	4 cut(s)	41, 76, 154, 290
Mox20I	TGGCCA	1 cut(s)	237
MroNI	GCCGGC	2 cut(s)	164, 168
MscI	TGGCCA	1 cut(s)	237
MseI	TTAA	1 cut(s)	213
MslI	CAYNNNNRTG	1 cut(s)	111
Msp20I	TGGCCA	1 cut(s)	237
MspCI	CTTAAG	1 cut(s)	212
MspI	CCGG	2 cut(s)	165, 169
MspR9I	CCNGG	1 cut(s)	88
MvaI	CCWGG	1 cut(s)	88
MvnI	CGCG	1 cut(s)	243
MwoI	GCNNNNNNNGC	2 cut(s)	50, 243
NaeI	GCCGGC	2 cut(s)	166, 170
NcoI	CCATGG	1 cut(s)	45
NdeII	GATC	3 cut(s)	4, 72, 126
NgoMIV	GCCGGC	2 cut(s)	164, 168
NlaIII	CATG	2 cut(s)	49, 127
NmeAIII	GCCGAG	1 cut(s)	320
NmuCI	GTSAC	1 cut(s)	119
PdiI	GCCGGC	2 cut(s)	166, 170
PkrI	GCNGC	3 cut(s)	55, 85, 245
PleI	GAGTC	2 cut(s)	70, 149
PpsI	GAGTC	2 cut(s)	70, 149
Psp6I	CCWGG	1 cut(s)	86
PspGI	CCWGG	1 cut(s)	86
PsuI	RGATCY	2 cut(s)	4, 72
RigI	GGCCGGCC	1 cut(s)	168
RseI	CAYNNNNRTG	1 cut(s)	111
SaqAI	TTAA	1 cut(s)	213
SatI	GCNGC	3 cut(s)	54, 84, 244
Sau3AI	GATC	3 cut(s)	4, 72, 126
SchI	GAGTC	2 cut(s)	71, 149
ScrFI	CCNGG	1 cut(s)	88
SetI	ASST	3 cut(s)	203, 282, 301
SfaNI	GCATC	2 cut(s)	70, 308
SmiMI	CAYNNNNRTG	1 cut(s)	111
SmlI	CTYRAG	1 cut(s)	212
SmoI	CTYRAG	1 cut(s)	212
Sse9I	AATT	2 cut(s)	283, 304
SsiI	CCGC	5 cut(s)	54, 84, 243, 292, 325
StyD4I	CCNGG	1 cut(s)	86
StyI	CCWWGG	1 cut(s)	45
TaaI	ACNGT	1 cut(s)	231
TaqI	TCGA	1 cut(s)	316
TasI	AATT	2 cut(s)	283, 304
TauI	GCSGC	3 cut(s)	56, 86, 246
Tru1I	TTAA	1 cut(s)	213
Tru9I	TTAA	1 cut(s)	213
TscAI	CASTG	1 cut(s)	334
TseFI	GTSAC	1 cut(s)	119
Tsp45I	GTSAC	1 cut(s)	119
TspDTI	ATGAA	1 cut(s)	184
TspRI	CASTG	1 cut(s)	334
Vha464I	CTTAAG	1 cut(s)	212

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