Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0003104

Physical Location & Seq

Genomic Coordinates Forward (+)

89184913 .. 89185269

Gene Structure 357 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00067910.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 357 bp

ATGGGCTTCAAGCTCTGCCTGGTCGCGCTCCTATTGTCCCTGGCCGTAGCAGTCGAGGCCTCCCAGCTCCATGATGCTGGCTGGGGCCTTGCCCGCTACAGCCACGACTCATCCCTCGTCGACGTCAGCGTGAGTGACGTCATTGGAGTGGACAACGAGATGATGCTTGACTCCGAATCAAGCCGCCGCACGCTGAGCGGTCGAGGCAGGTACATCAGCTACGGTGCTCTCAAGAAGAATGGCATTCCATGTCGCCGCCGTGGTGGGTCGTACTACAACTGCGGTGGACCCAGAAGGCAGGTTAACCCCTATCGTCGTGGTTGCACTTACATCACCAGATGCGCCAGGCAAGCCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001558 GO:0003674 GO:0005102 GO:0005179 GO:0005488 GO:0005515 GO:0005575 GO:0005576 GO:0005623 GO:0005911 GO:0007154 GO:0007165 GO:0007267 GO:0008150 GO:0009506 GO:0009966 GO:0009987 GO:0010469 GO:0010646 GO:0010769 GO:0019722 GO:0019932 GO:0022603 GO:0022604 GO:0023051 GO:0023052 GO:0030054 GO:0030545 GO:0035556 GO:0040008 GO:0042995 GO:0043900 GO:0044464 GO:0045595 GO:0048018 GO:0048046 GO:0048583 GO:0048638 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051128 GO:0051239 GO:0051510 GO:0051716 GO:0055044 GO:0060284 GO:0065007 GO:0065009 GO:0080092 GO:0090406 GO:0098772 GO:0120025 GO:2000241

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RALF

Protein Analysis

118

Amino Acids

12.98

Weight (kDa)

9.62

Isoelectric Point (pI)

41.75

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RALF	PF05498	53 - 116	5.1e-26	Rapid ALkalinization Factor (RALF)

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: OG0003104)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G28270 AT2G33775 AT3G05490
fragaria_vesca	FvH4_3g09010 FvH4_3g09020
malus_domestica	MD00G1116200.v1.1 MD10G1292800.v1.1 MD10G1292900.v1.1
prunus_persica	Prupe.4G049000_v2.0.a1
pyrus_communis	pycom05g28940 pycom10g24490
rosa_chinensis	RchiOBHm_Chr5g0008651 RchiOBHm_Chr5g0008661 RchiOBHm_Chr5g0008671
rosa_laevigata	RLG00000031590 RLG00000031591 RLG00000031592
rosa_multiflora	Rmu_sc0001665.1_g000030 Rmu_sc0001665.1_g000031 Rmu_sc0001665.1_g000040
rosa_roxburghii	Rroxscaffold_1G00067890 Rroxscaffold_1G00067900 Rroxscaffold_1G00067910
rosa_rugosa	Rorug04G0437700 Rorug04G0437700 Rorug04G0437700
rosa_samantha	Rh5AG066300 Rh5BG063600 Rh5BG063700 Rh5CG073800 Rh5CG073900 Rh5CG074100 Rh5DG062500 Rh5DG062600
rosa_wichuraiana	Rw5G006230 Rw5G006260 Rw5G006270

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	2 cut(s)	126, 141
Acc36I	ACCTGC	2 cut(s)	198, 289
AccBSI	CCGCTC	1 cut(s)	198
AccI	GTMKAC	1 cut(s)	120
AccII	CGCG	1 cut(s)	26
AciI	CCGC	6 cut(s)	94, 184, 187, 198, 256, 282
AcoI	YGGCCR	1 cut(s)	42
AcyI	GRCGYC	2 cut(s)	123, 138
AfaI	GTAC	2 cut(s)	212, 272
AgsI	TTSAA	1 cut(s)	10
AjnI	CCWGG	3 cut(s)	18, 39, 344
AluBI	AGCT	3 cut(s)	13, 67, 219
AluI	AGCT	3 cut(s)	13, 67, 219
Alw21I	GWGCWC	1 cut(s)	229
AoxI	GGCC	3 cut(s)	42, 57, 85
AspLEI	GCGC	2 cut(s)	28, 344
AspS9I	GGNCC	2 cut(s)	85, 287
AsuHPI	GGTGA	1 cut(s)	325
AvaII	GGWCC	1 cut(s)	287
Bbv12I	GWGCWC	1 cut(s)	229
BceAI	ACGGC	2 cut(s)	29, 243
BciT130I	CCWGG	3 cut(s)	20, 41, 346
BfmI	CTRYAG	1 cut(s)	97
BfuAI	ACCTGC	2 cut(s)	198, 289
BisI	GCNGC	3 cut(s)	184, 187, 256
BlpI	GCTNAGC	1 cut(s)	194
BlsI	GCNGC	3 cut(s)	185, 188, 257
Bme1390I	CCNGG	3 cut(s)	20, 41, 346
Bme18I	GGWCC	1 cut(s)	287
BmgT120I	GGNCC	2 cut(s)	85, 287
BmiI	GGNNCC	2 cut(s)	86, 289
BmrFI	CCNGG	3 cut(s)	20, 41, 346
BmsI	GCATC	3 cut(s)	64, 153, 329
Bpu1102I	GCTNAGC	1 cut(s)	194
BpuEI	CTTGAG	1 cut(s)	215
BsaHI	GRCGYC	2 cut(s)	123, 138
BsaJI	CCNNGG	2 cut(s)	39, 259
BseBI	CCWGG	3 cut(s)	20, 41, 346
BseDI	CCNNGG	2 cut(s)	39, 259
BseGI	GGATG	1 cut(s)	110
BseMII	CTCAG	1 cut(s)	185
BseYI	CCCAGC	2 cut(s)	63, 81
Bsh1236I	CGCG	1 cut(s)	26
Bsh1285I	CGRYCG	1 cut(s)	202
BshFI	GGCC	3 cut(s)	44, 59, 87
BsiEI	CGRYCG	1 cut(s)	202
BsiHKAI	GWGCWC	1 cut(s)	229
BslFI	GGGAC	1 cut(s)	22
BsmFI	GGGAC	1 cut(s)	22
BsmI	GAATGC	1 cut(s)	243
BsnI	GGCC	3 cut(s)	44, 59, 87
Bsp1286I	GDGCHC	1 cut(s)	229
Bsp1720I	GCTNAGC	1 cut(s)	194
BspACI	CCGC	6 cut(s)	94, 184, 187, 198, 256, 282
BspANI	GGCC	3 cut(s)	44, 59, 87
BspCNI	CTCAG	1 cut(s)	186
BspFNI	CGCG	1 cut(s)	26
BspLI	GGNNCC	2 cut(s)	86, 289
BspMI	ACCTGC	2 cut(s)	198, 289
BsrBI	CCGCTC	1 cut(s)	198
BssECI	CCNNGG	2 cut(s)	39, 259
BssNI	GRCGYC	2 cut(s)	123, 138
Bst2UI	CCWGG	3 cut(s)	20, 41, 346
Bst4CI	ACNGT	1 cut(s)	224
BstACI	GRCGYC	2 cut(s)	123, 138
BstC8I	GCNNGC	4 cut(s)	79, 94, 191, 351
BstDEI	CTNAG	1 cut(s)	194
BstDSI	CCRYGG	1 cut(s)	259
BstF5I	GGATG	1 cut(s)	110
BstFNI	CGCG	1 cut(s)	26
BstHHI	GCGC	2 cut(s)	28, 344
BstMCI	CGRYCG	1 cut(s)	202
BstMWI	GCNNNNNNNGC	5 cut(s)	56, 93, 195, 204, 350
BstNI	CCWGG	3 cut(s)	20, 41, 346
BstSCI	CCNGG	3 cut(s)	18, 39, 344
BstSFI	CTRYAG	1 cut(s)	97
BstUI	CGCG	1 cut(s)	26
BstXI	CCANNNNNNTGG	1 cut(s)	77
BsuRI	GGCC	3 cut(s)	44, 59, 87
BtgI	CCRYGG	1 cut(s)	259
BtsCI	GGATG	1 cut(s)	110
BveI	ACCTGC	2 cut(s)	198, 289
Cac8I	GCNNGC	4 cut(s)	79, 94, 191, 351
CfoI	GCGC	2 cut(s)	28, 344
Cfr13I	GGNCC	2 cut(s)	85, 287
Csp6I	GTAC	2 cut(s)	211, 271
CspCI	CAANNNNNGTGG	2 cut(s)	265, 300
CviAII	CATG	2 cut(s)	71, 249
CviQI	GTAC	2 cut(s)	211, 271
DdeI	CTNAG	1 cut(s)	194
EaeI	YGGCCR	1 cut(s)	42
Eco147I	AGGCCT	1 cut(s)	59
Eco47I	GGWCC	1 cut(s)	287
EcoO109I	RGGNCCY	1 cut(s)	85
EcoRII	CCWGG	3 cut(s)	18, 39, 344
FaeI	CATG	2 cut(s)	74, 252
FaiI	YATR	2 cut(s)	72, 250
FaqI	GGGAC	1 cut(s)	22
FatI	CATG	2 cut(s)	70, 248
FauI	CCCGC	1 cut(s)	101
FblI	GTMKAC	1 cut(s)	120
Fnu4HI	GCNGC	3 cut(s)	184, 187, 256
FokI	GGATG	1 cut(s)	97
Fsp4HI	GCNGC	3 cut(s)	184, 187, 256
GlaI	GCGC	2 cut(s)	27, 343
GluI	GCNGC	3 cut(s)	184, 187, 256
GsaI	CCCAGC	2 cut(s)	67, 85
HaeIII	GGCC	3 cut(s)	44, 59, 87
HhaI	GCGC	2 cut(s)	28, 344
Hin1I	GRCGYC	2 cut(s)	123, 138
Hin1II	CATG	2 cut(s)	74, 252
Hin6I	GCGC	2 cut(s)	26, 342
HinP1I	GCGC	2 cut(s)	26, 342
HincII	GTYRAC	2 cut(s)	121, 304
HindII	GTYRAC	2 cut(s)	121, 304
HinfI	GANTC	3 cut(s)	107, 170, 176
HpaI	GTTAAC	1 cut(s)	304
HphI	GGTGA	1 cut(s)	325
Hpy166II	GTNNAC	4 cut(s)	121, 151, 287, 304
Hpy188I	TCNGA	1 cut(s)	175
Hpy188III	TCNNGA	1 cut(s)	232
Hpy8I	GTNNAC	4 cut(s)	121, 151, 287, 304
Hpy99I	CGWCG	3 cut(s)	122, 125, 318
HpyAV	CCTTC	1 cut(s)	288
HpyCH4III	ACNGT	1 cut(s)	224
HpyCH4IV	ACGT	2 cut(s)	123, 138
HpyCH4V	TGCA	1 cut(s)	324
HpyF10VI	GCNNNNNNNGC	5 cut(s)	56, 93, 195, 204, 350
HpyF3I	CTNAG	1 cut(s)	194
HpySE526I	ACGT	2 cut(s)	123, 138
Hsp92I	GRCGYC	2 cut(s)	123, 138
Hsp92II	CATG	2 cut(s)	74, 252
HspAI	GCGC	2 cut(s)	26, 342
KspAI	GTTAAC	1 cut(s)	304
LmnI	GCTCC	2 cut(s)	33, 72
LweI	GCATC	3 cut(s)	64, 153, 329
MaeII	ACGT	2 cut(s)	123, 138
MaeIII	GTNAC	1 cut(s)	134
MbiI	CCGCTC	1 cut(s)	198
MboII	GAAGA	1 cut(s)	247
MhlI	GDGCHC	1 cut(s)	229
MlyI	GAGTC	2 cut(s)	101, 164
MnlI	CCTC	4 cut(s)	49, 70, 125, 197
MseI	TTAA	1 cut(s)	303
MslI	CAYNNNNRTG	1 cut(s)	146
MspR9I	CCNGG	3 cut(s)	20, 41, 346
Mva1269I	GAATGC	1 cut(s)	243
MvaI	CCWGG	3 cut(s)	20, 41, 346
MvnI	CGCG	1 cut(s)	26
MwoI	GCNNNNNNNGC	5 cut(s)	56, 93, 195, 204, 350
NlaIII	CATG	2 cut(s)	74, 252
NlaIV	GGNNCC	2 cut(s)	86, 289
NmuCI	GTSAC	1 cut(s)	134
PceI	AGGCCT	1 cut(s)	59
PcsI	WCGNNNNNNNCGW	1 cut(s)	126
PctI	GAATGC	1 cut(s)	243
PfeI	GAWTC	1 cut(s)	176
PkrI	GCNGC	3 cut(s)	185, 188, 257
PleI	GAGTC	2 cut(s)	101, 164
PpsI	GAGTC	2 cut(s)	101, 164
Psp6I	CCWGG	3 cut(s)	18, 39, 344
PspFI	CCCAGC	2 cut(s)	63, 81
PspGI	CCWGG	3 cut(s)	18, 39, 344
PspN4I	GGNNCC	2 cut(s)	86, 289
PspPI	GGNCC	2 cut(s)	85, 287
RsaI	GTAC	2 cut(s)	212, 272
RsaNI	GTAC	2 cut(s)	211, 271
RseI	CAYNNNNRTG	1 cut(s)	146
SalI	GTCGAC	1 cut(s)	119
SaqAI	TTAA	1 cut(s)	303
SatI	GCNGC	3 cut(s)	184, 187, 256
Sau96I	GGNCC	2 cut(s)	85, 287
SchI	GAGTC	2 cut(s)	101, 164
ScrFI	CCNGG	3 cut(s)	20, 41, 346
SduI	GDGCHC	1 cut(s)	229
SetI	ASST	7 cut(s)	15, 69, 126, 141, 212, 221, 303
SfaNI	GCATC	3 cut(s)	64, 153, 329
SfcI	CTRYAG	1 cut(s)	97
SgrDI	CGTCGACG	1 cut(s)	119
SinI	GGWCC	1 cut(s)	287
SmiMI	CAYNNNNRTG	1 cut(s)	146
SmlI	CTYRAG	1 cut(s)	230
SmoI	CTYRAG	1 cut(s)	230
SseBI	AGGCCT	1 cut(s)	59
SsiI	CCGC	6 cut(s)	94, 184, 187, 198, 256, 282
StuI	AGGCCT	1 cut(s)	59
StyD4I	CCNGG	3 cut(s)	18, 39, 344
TaaI	ACNGT	1 cut(s)	224
TaiI	ACGT	2 cut(s)	126, 141
TaqI	TCGA	3 cut(s)	54, 120, 202
TauI	GCSGC	3 cut(s)	186, 189, 258
TfiI	GAWTC	1 cut(s)	176
Tru1I	TTAA	1 cut(s)	303
Tru9I	TTAA	1 cut(s)	303
TseFI	GTSAC	1 cut(s)	134
Tsp45I	GTSAC	1 cut(s)	134
VpaK11BI	GGWCC	1 cut(s)	287
XmiI	GTMKAC	1 cut(s)	120
ZraI	GACGTC	2 cut(s)	124, 139

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