Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0004612

Physical Location & Seq

Genomic Coordinates Forward (+)

45572995 .. 45573342

Gene Structure 348 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00364330.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 348 bp

ATGGCAAGCTCCTCCTCCTCACTGCTACTCTTCGGCTTCATCTTCCTCTGTTCAATCCTGGCCGCCCATTCCACTCTCGCCGCCGCTTCCTCTTCCACCGTCGATTTCAGCTGGGGCTCCGCCGGCGGAGGGCTAATAGGTGATTTGGATGAGGAGCTGGAGCTGCAGATGGACTCGGAGATCAACCGGCGCATCTTAGCCACCTCCGGGTACATTAGCTACGGTGCGCTGAAGAGGAACACTGTCCCCTGCTCGCGACGCGGCGCCTCGTACTACAATTGCCGGCCCGGAGCTCAGGCCAACCCCTACTCTCGCGGCTGTAGCCGCATCACTCGCTGCAGGCACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005102 GO:0005179 GO:0005488 GO:0005515 GO:0005575 GO:0005576 GO:0005911 GO:0007154 GO:0007165 GO:0007267 GO:0008150 GO:0009506 GO:0009966 GO:0009987 GO:0010469 GO:0010646 GO:0019722 GO:0019932 GO:0023051 GO:0023052 GO:0030054 GO:0030545 GO:0035556 GO:0048018 GO:0048046 GO:0048583 GO:0050789 GO:0050794 GO:0050896 GO:0051716 GO:0055044 GO:0065007 GO:0065009 GO:0098772

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RALF

Protein Analysis

115

Amino Acids

12.32

Weight (kDa)

8.72

Isoelectric Point (pI)

50.81

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RALF	PF05498	54 - 114	5.3e-29	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

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

Orthologous Genes (Group: OG0004612)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G15800
fragaria_vesca	FvH4_4g18001 FvH4_6g06520
malus_domestica	MD03G1171400.v1.1 MD04G1201100.v1.1 MD12G1213600.v1.1 MD13G1168800.v1.1 MD16G1169200.v1.1
prunus_persica	Prupe.1G137000_v2.0.a1 Prupe.6G321200_v2.0.a1
pyrus_communis	pycom12g19950 pycom13g14440 pycom16g14230 pycom16g14250
rosa_chinensis	RchiOBHm_Chr3g0455671 RchiOBHm_Chr4g0422211
rosa_multiflora	Rmu_sc0002883.1_g000009 Rmu_sc0014362.1_g000002 Rmu_sc0026117.1_g000002
rosa_roxburghii	Rroxscaffold_5G00364330 Rroxscaffold_6G00423610 Rroxscaffold_6G00424110
rosa_rugosa	Rorug03G0009000 Rorug04G0178800
rosa_samantha	Rh3AG068700 Rh3BG071200 Rh3CG069500 Rh3DG071100 Rh4CG252800
rosa_wichuraiana	Rw3G005510 Rw4G020570

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	263
AccII	CGCG	3 cut(s)	256, 261, 315
AciI	CCGC	8 cut(s)	63, 81, 84, 120, 126, 261, 315, 325
AcoI	YGGCCR	1 cut(s)	60
AcuI	CTGAAG	1 cut(s)	251
AcyI	GRCGYC	1 cut(s)	264
AfaI	GTAC	2 cut(s)	212, 272
AfiI	CCNNNNNNNGG	2 cut(s)	129, 207
AgsI	TTSAA	1 cut(s)	54
AjnI	CCWGG	1 cut(s)	57
AluBI	AGCT	6 cut(s)	9, 111, 157, 163, 219, 293
AluI	AGCT	6 cut(s)	9, 111, 157, 163, 219, 293
Alw21I	GWGCWC	1 cut(s)	295
AoxI	GGCC	3 cut(s)	60, 284, 297
ApeKI	GCWGC	2 cut(s)	163, 336
AspLEI	GCGC	3 cut(s)	192, 229, 266
AspS9I	GGNCC	1 cut(s)	285
AsuC2I	CCSGG	2 cut(s)	208, 288
AsuHPI	GGTGA	1 cut(s)	152
BanI	GGYRCC	1 cut(s)	263
BanII	GRGCYC	2 cut(s)	119, 295
Bbv12I	GWGCWC	1 cut(s)	295
BbvI	GCAGC	2 cut(s)	150, 323
BccI	CCATC	1 cut(s)	163
BciT130I	CCWGG	1 cut(s)	59
BcnI	CCSGG	2 cut(s)	208, 288
BfmI	CTRYAG	3 cut(s)	164, 319, 337
BfoI	RGCGCY	1 cut(s)	267
BisI	GCNGC	8 cut(s)	63, 81, 84, 164, 262, 316, 325, 337
BlsI	GCNGC	8 cut(s)	64, 82, 85, 165, 263, 317, 326, 338
Bme1390I	CCNGG	3 cut(s)	59, 208, 288
BmgT120I	GGNCC	1 cut(s)	285
BmiI	GGNNCC	2 cut(s)	118, 265
BmrFI	CCNGG	3 cut(s)	59, 208, 288
BmsI	GCATC	2 cut(s)	201, 336
BpmI	CTGGAG	1 cut(s)	179
Bpu10I	CCTNAGC	1 cut(s)	294
BpuMI	CCSGG	2 cut(s)	208, 288
BsaHI	GRCGYC	1 cut(s)	264
Bsc4I	CCNNNNNNNGG	2 cut(s)	129, 207
Bse118I	RCCGGY	3 cut(s)	122, 186, 282
BseBI	CCWGG	1 cut(s)	59
BseGI	GGATG	1 cut(s)	154
BseLI	CCNNNNNNNGG	2 cut(s)	129, 207
BseMII	CTCAG	1 cut(s)	308
BseRI	GAGGAG	3 cut(s)	4, 7, 167
BseXI	GCAGC	2 cut(s)	150, 323
BseYI	CCCAGC	1 cut(s)	111
Bsh1236I	CGCG	3 cut(s)	256, 261, 315
BshFI	GGCC	3 cut(s)	62, 286, 299
BshNI	GGYRCC	1 cut(s)	263
BsiHKAI	GWGCWC	1 cut(s)	295
BsiSI	CCGG	5 cut(s)	123, 187, 207, 283, 288
BslFI	GGGAC	1 cut(s)	230
BslI	CCNNNNNNNGG	2 cut(s)	129, 207
BsmFI	GGGAC	1 cut(s)	230
BsnI	GGCC	3 cut(s)	62, 286, 299
Bsp1286I	GDGCHC	2 cut(s)	119, 295
Bsp143I	GATC	1 cut(s)	180
Bsp68I	TCGCGA	1 cut(s)	256
BspACI	CCGC	8 cut(s)	63, 81, 84, 120, 126, 261, 315, 325
BspANI	GGCC	3 cut(s)	62, 286, 299
BspCNI	CTCAG	1 cut(s)	307
BspFNI	CGCG	3 cut(s)	256, 261, 315
BspLI	GGNNCC	2 cut(s)	118, 265
BspMAI	CTGCAG	2 cut(s)	168, 341
BspT107I	GGYRCC	1 cut(s)	263
BsrFI	RCCGGY	3 cut(s)	122, 186, 282
BssAI	RCCGGY	3 cut(s)	122, 186, 282
BssMI	GATC	1 cut(s)	180
BssNI	GRCGYC	1 cut(s)	264
Bst2UI	CCWGG	1 cut(s)	59
Bst4CI	ACNGT	3 cut(s)	100, 224, 244
Bst6I	CTCTTC	3 cut(s)	35, 97, 227
BstACI	GRCGYC	1 cut(s)	264
BstC8I	GCNNGC	5 cut(s)	7, 124, 254, 284, 341
BstDEI	CTNAG	2 cut(s)	196, 294
BstF5I	GGATG	1 cut(s)	154
BstFNI	CGCG	3 cut(s)	256, 261, 315
BstH2I	RGCGCY	1 cut(s)	267
BstHHI	GCGC	3 cut(s)	192, 229, 266
BstKTI	GATC	1 cut(s)	183
BstMBI	GATC	1 cut(s)	180
BstMWI	GCNNNNNNNGC	6 cut(s)	123, 163, 258, 321, 324, 333
BstNI	CCWGG	1 cut(s)	59
BstSCI	CCNGG	3 cut(s)	57, 206, 286
BstSFI	CTRYAG	3 cut(s)	164, 319, 337
BstUI	CGCG	3 cut(s)	256, 261, 315
BstV1I	GCAGC	2 cut(s)	150, 323
BsuRI	GGCC	3 cut(s)	62, 286, 299
BtsCI	GGATG	1 cut(s)	154
BtsI	GCAGTG	1 cut(s)	20
BtsIMutI	CAGTG	2 cut(s)	20, 240
BtuMI	TCGCGA	1 cut(s)	256
Cac8I	GCNNGC	5 cut(s)	7, 124, 254, 284, 341
CfoI	GCGC	3 cut(s)	192, 229, 266
Cfr10I	RCCGGY	3 cut(s)	122, 186, 282
Cfr13I	GGNCC	1 cut(s)	285
CseI	GACGC	1 cut(s)	267
Csp6I	GTAC	2 cut(s)	211, 271
CviQI	GTAC	2 cut(s)	211, 271
DdeI	CTNAG	2 cut(s)	196, 294
DinI	GGCGCC	1 cut(s)	265
DpnI	GATC	1 cut(s)	182
DpnII	GATC	1 cut(s)	180
EaeI	YGGCCR	1 cut(s)	60
Eam1104I	CTCTTC	3 cut(s)	35, 97, 227
EarI	CTCTTC	3 cut(s)	35, 97, 227
EciI	GGCGGA	2 cut(s)	109, 141
Ecl136II	GAGCTC	1 cut(s)	293
Eco24I	GRGCYC	2 cut(s)	119, 295
Eco53kI	GAGCTC	1 cut(s)	293
Eco57I	CTGAAG	1 cut(s)	251
EcoICRI	GAGCTC	1 cut(s)	293
EcoRII	CCWGG	1 cut(s)	57
EcoT38I	GRGCYC	2 cut(s)	119, 295
EgeI	GGCGCC	1 cut(s)	265
EheI	GGCGCC	1 cut(s)	265
FaqI	GGGAC	1 cut(s)	230
Fnu4HI	GCNGC	8 cut(s)	63, 81, 84, 164, 262, 316, 325, 337
FokI	GGATG	1 cut(s)	161
FriOI	GRGCYC	2 cut(s)	119, 295
Fsp4HI	GCNGC	8 cut(s)	63, 81, 84, 164, 262, 316, 325, 337
GlaI	GCGC	3 cut(s)	191, 228, 265
GluI	GCNGC	8 cut(s)	63, 81, 84, 164, 262, 316, 325, 337
GsaI	CCCAGC	1 cut(s)	115
GsuI	CTGGAG	1 cut(s)	179
HaeII	RGCGCY	1 cut(s)	267
HaeIII	GGCC	3 cut(s)	62, 286, 299
HapII	CCGG	5 cut(s)	123, 187, 207, 283, 288
HgaI	GACGC	1 cut(s)	267
HhaI	GCGC	3 cut(s)	192, 229, 266
Hin1I	GRCGYC	1 cut(s)	264
Hin6I	GCGC	3 cut(s)	190, 227, 264
HinP1I	GCGC	3 cut(s)	190, 227, 264
HinfI	GANTC	1 cut(s)	173
HpaII	CCGG	5 cut(s)	123, 187, 207, 283, 288
HphI	GGTGA	1 cut(s)	152
Hpy188I	TCNGA	1 cut(s)	178
Hpy188III	TCNNGA	1 cut(s)	255
Hpy99I	CGWCG	2 cut(s)	104, 261
HpyCH4III	ACNGT	3 cut(s)	100, 224, 244
HpyCH4V	TGCA	2 cut(s)	166, 339
HpyF10VI	GCNNNNNNNGC	6 cut(s)	123, 163, 258, 321, 324, 333
HpyF3I	CTNAG	2 cut(s)	196, 294
Hsp92I	GRCGYC	1 cut(s)	264
HspAI	GCGC	3 cut(s)	190, 227, 264
KasI	GGCGCC	1 cut(s)	263
KroI	GCCGGC	2 cut(s)	122, 282
KroNI	GCCGGC	2 cut(s)	124, 284
Kzo9I	GATC	1 cut(s)	180
LmnI	GCTCC	5 cut(s)	14, 122, 154, 160, 290
Lsp1109I	GCAGC	2 cut(s)	150, 323
LweI	GCATC	2 cut(s)	201, 336
MalI	GATC	1 cut(s)	182
MboI	GATC	1 cut(s)	180
MboII	GAAGA	4 cut(s)	22, 34, 84, 244
MfeI	CAATTG	1 cut(s)	277
MhlI	GDGCHC	2 cut(s)	119, 295
MluCI	AATT	1 cut(s)	277
Mly113I	GGCGCC	1 cut(s)	264
MlyI	GAGTC	1 cut(s)	167
MreI	CGCCGGCG	1 cut(s)	122
MroNI	GCCGGC	2 cut(s)	122, 282
MspA1I	CMGCKG	1 cut(s)	111
MspI	CCGG	5 cut(s)	123, 187, 207, 283, 288
MspR9I	CCNGG	3 cut(s)	59, 208, 288
MunI	CAATTG	1 cut(s)	277
MvaI	CCWGG	1 cut(s)	59
MvnI	CGCG	3 cut(s)	256, 261, 315
MwoI	GCNNNNNNNGC	6 cut(s)	123, 163, 258, 321, 324, 333
NaeI	GCCGGC	2 cut(s)	124, 284
NarI	GGCGCC	1 cut(s)	264
NciI	CCSGG	2 cut(s)	208, 288
NdeII	GATC	1 cut(s)	180
NgoMIV	GCCGGC	2 cut(s)	122, 282
NlaIV	GGNNCC	2 cut(s)	118, 265
NruI	TCGCGA	1 cut(s)	256
PdiI	GCCGGC	2 cut(s)	124, 284
PkrI	GCNGC	8 cut(s)	64, 82, 85, 165, 263, 317, 326, 338
PleI	GAGTC	1 cut(s)	167
PluTI	GGCGCC	1 cut(s)	267
PpsI	GAGTC	1 cut(s)	167
Psp124BI	GAGCTC	1 cut(s)	295
Psp6I	CCWGG	1 cut(s)	57
PspFI	CCCAGC	1 cut(s)	111
PspGI	CCWGG	1 cut(s)	57
PspN4I	GGNNCC	2 cut(s)	118, 265
PspPI	GGNCC	1 cut(s)	285
PstI	CTGCAG	2 cut(s)	168, 341
PvuII	CAGCTG	1 cut(s)	111
RruI	TCGCGA	1 cut(s)	256
RsaI	GTAC	2 cut(s)	212, 272
RsaNI	GTAC	2 cut(s)	211, 271
SacI	GAGCTC	1 cut(s)	295
SatI	GCNGC	8 cut(s)	63, 81, 84, 164, 262, 316, 325, 337
Sau3AI	GATC	1 cut(s)	180
Sau96I	GGNCC	1 cut(s)	285
SchI	GAGTC	1 cut(s)	167
ScrFI	CCNGG	3 cut(s)	59, 208, 288
SduI	GDGCHC	2 cut(s)	119, 295
SetI	ASST	8 cut(s)	11, 113, 142, 159, 165, 206, 221, 295
SfaNI	GCATC	2 cut(s)	201, 336
SfcI	CTRYAG	3 cut(s)	164, 319, 337
SfoI	GGCGCC	1 cut(s)	265
SgrAI	CRCCGGYG	1 cut(s)	122
Sse9I	AATT	1 cut(s)	277
SsiI	CCGC	8 cut(s)	63, 81, 84, 120, 126, 261, 315, 325
SspDI	GGCGCC	1 cut(s)	263
SstI	GAGCTC	1 cut(s)	295
StyD4I	CCNGG	3 cut(s)	57, 206, 286
TaaI	ACNGT	3 cut(s)	100, 224, 244
TaqI	TCGA	1 cut(s)	102
TasI	AATT	1 cut(s)	277
TauI	GCSGC	6 cut(s)	65, 83, 86, 264, 318, 327
TscAI	CASTG	2 cut(s)	27, 247
TseI	GCWGC	2 cut(s)	163, 336
TspDTI	ATGAA	1 cut(s)	28
TspRI	CASTG	2 cut(s)	27, 247

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