Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0004612

Physical Location & Seq

Genomic Coordinates Forward (+)

50286028 .. 50287263

Gene Structure 1236 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG252800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 342 bp

ATGGCAAGCTCCTCACTGCTACTCTTCGGCTTCATCTTCCTCTGTTCAATCCTGGCCGCCCATTCCACTCTCGCCGCCGCTTCCACTTCCGCCGTCGATTTCAGCTGGGGCTCCGCCGGCGGAGGGCTGATAGGTGATTTGGATGAGGAGCTGGAGCTGCAGATGGACTCGGAGATCAACCGGCGCATCTTAGCCACCACCAGGTACATTAGCTACGGTGCGCTGAGGAGGAACACTGTCCCCTGCTCGCGACGCGGCGCCTCCTACTACAATTGCCGTCCCGGAGCTCAGGCCAACCCCTACTCGCGCGGCTGTAGCCGCATCACTCGCTGCAGGCACTAA

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

113

Amino Acids

12.27

Weight (kDa)

9.01

Isoelectric Point (pI)

49.44

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RALF	PF05498	52 - 112	1.6e-29	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)

Image

Tree File

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Publication-ready

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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)	257
AccII	CGCG	4 cut(s)	250, 255, 307, 309
AciI	CCGC	9 cut(s)	57, 75, 78, 90, 114, 120, 255, 309, 319
AcoI	YGGCCR	1 cut(s)	54
AcyI	GRCGYC	1 cut(s)	258
AfaI	GTAC	1 cut(s)	206
AfiI	CCNNNNNNNGG	2 cut(s)	123, 201
AgsI	TTSAA	1 cut(s)	48
AjnI	CCWGG	2 cut(s)	51, 200
AluBI	AGCT	6 cut(s)	9, 105, 151, 157, 213, 287
AluI	AGCT	6 cut(s)	9, 105, 151, 157, 213, 287
Alw21I	GWGCWC	1 cut(s)	289
AoxI	GGCC	2 cut(s)	54, 291
ApeKI	GCWGC	2 cut(s)	157, 330
AspLEI	GCGC	4 cut(s)	186, 223, 260, 309
AsuC2I	CCSGG	1 cut(s)	282
AsuHPI	GGTGA	1 cut(s)	146
BanI	GGYRCC	1 cut(s)	257
BanII	GRGCYC	2 cut(s)	113, 289
Bbv12I	GWGCWC	1 cut(s)	289
BbvCI	CCTCAGC	1 cut(s)	224
BbvI	GCAGC	2 cut(s)	144, 317
BccI	CCATC	1 cut(s)	157
BceAI	ACGGC	2 cut(s)	77, 261
BciT130I	CCWGG	2 cut(s)	53, 202
BcnI	CCSGG	1 cut(s)	282
BfmI	CTRYAG	3 cut(s)	158, 313, 331
BfoI	RGCGCY	1 cut(s)	261
BisI	GCNGC	8 cut(s)	57, 75, 78, 158, 256, 310, 319, 331
BlsI	GCNGC	8 cut(s)	58, 76, 79, 159, 257, 311, 320, 332
Bme1390I	CCNGG	3 cut(s)	53, 202, 282
BmiI	GGNNCC	2 cut(s)	112, 259
BmrFI	CCNGG	3 cut(s)	53, 202, 282
BmsI	GCATC	2 cut(s)	195, 330
BpmI	CTGGAG	1 cut(s)	173
Bpu10I	CCTNAGC	2 cut(s)	224, 288
BpuMI	CCSGG	1 cut(s)	282
BsaHI	GRCGYC	1 cut(s)	258
Bsc4I	CCNNNNNNNGG	2 cut(s)	123, 201
Bse118I	RCCGGY	2 cut(s)	116, 180
BseBI	CCWGG	2 cut(s)	53, 202
BseGI	GGATG	1 cut(s)	148
BseLI	CCNNNNNNNGG	2 cut(s)	123, 201
BseMII	CTCAG	2 cut(s)	215, 302
BseRI	GAGGAG	2 cut(s)	161, 241
BseXI	GCAGC	2 cut(s)	144, 317
BseYI	CCCAGC	1 cut(s)	105
Bsh1236I	CGCG	4 cut(s)	250, 255, 307, 309
BshFI	GGCC	2 cut(s)	56, 293
BshNI	GGYRCC	1 cut(s)	257
BsiHKAI	GWGCWC	1 cut(s)	289
BsiSI	CCGG	3 cut(s)	117, 181, 282
BslFI	GGGAC	2 cut(s)	224, 264
BslI	CCNNNNNNNGG	2 cut(s)	123, 201
BsmFI	GGGAC	2 cut(s)	224, 264
BsnI	GGCC	2 cut(s)	56, 293
Bsp1286I	GDGCHC	2 cut(s)	113, 289
Bsp143I	GATC	1 cut(s)	174
Bsp68I	TCGCGA	1 cut(s)	250
BspACI	CCGC	9 cut(s)	57, 75, 78, 90, 114, 120, 255, 309, 319
BspANI	GGCC	2 cut(s)	56, 293
BspCNI	CTCAG	2 cut(s)	216, 301
BspFNI	CGCG	4 cut(s)	250, 255, 307, 309
BspLI	GGNNCC	2 cut(s)	112, 259
BspMAI	CTGCAG	2 cut(s)	162, 335
BspT107I	GGYRCC	1 cut(s)	257
BsrFI	RCCGGY	2 cut(s)	116, 180
BssAI	RCCGGY	2 cut(s)	116, 180
BssMI	GATC	1 cut(s)	174
BssNI	GRCGYC	1 cut(s)	258
Bst2UI	CCWGG	2 cut(s)	53, 202
Bst4CI	ACNGT	2 cut(s)	218, 238
Bst6I	CTCTTC	1 cut(s)	29
BstACI	GRCGYC	1 cut(s)	258
BstC8I	GCNNGC	4 cut(s)	7, 118, 248, 335
BstDEI	CTNAG	3 cut(s)	190, 224, 288
BstF5I	GGATG	1 cut(s)	148
BstFNI	CGCG	4 cut(s)	250, 255, 307, 309
BstH2I	RGCGCY	1 cut(s)	261
BstHHI	GCGC	4 cut(s)	186, 223, 260, 309
BstKTI	GATC	1 cut(s)	177
BstMBI	GATC	1 cut(s)	174
BstMWI	GCNNNNNNNGC	6 cut(s)	117, 157, 252, 315, 318, 327
BstNI	CCWGG	2 cut(s)	53, 202
BstSCI	CCNGG	3 cut(s)	51, 200, 280
BstSFI	CTRYAG	3 cut(s)	158, 313, 331
BstUI	CGCG	4 cut(s)	250, 255, 307, 309
BstV1I	GCAGC	2 cut(s)	144, 317
BsuRI	GGCC	2 cut(s)	56, 293
BtsCI	GGATG	1 cut(s)	148
BtsI	GCAGTG	1 cut(s)	14
BtsIMutI	CAGTG	2 cut(s)	14, 234
BtuMI	TCGCGA	1 cut(s)	250
Cac8I	GCNNGC	4 cut(s)	7, 118, 248, 335
CfoI	GCGC	4 cut(s)	186, 223, 260, 309
Cfr10I	RCCGGY	2 cut(s)	116, 180
CseI	GACGC	1 cut(s)	261
CsiI	ACCWGGT	1 cut(s)	200
Csp6I	GTAC	1 cut(s)	205
CviQI	GTAC	1 cut(s)	205
DdeI	CTNAG	3 cut(s)	190, 224, 288
DinI	GGCGCC	1 cut(s)	259
DpnI	GATC	1 cut(s)	176
DpnII	GATC	1 cut(s)	174
EaeI	YGGCCR	1 cut(s)	54
Eam1104I	CTCTTC	1 cut(s)	29
EarI	CTCTTC	1 cut(s)	29
EciI	GGCGGA	3 cut(s)	79, 103, 135
Ecl136II	GAGCTC	1 cut(s)	287
Eco24I	GRGCYC	2 cut(s)	113, 289
Eco53kI	GAGCTC	1 cut(s)	287
EcoICRI	GAGCTC	1 cut(s)	287
EcoRII	CCWGG	2 cut(s)	51, 200
EcoT38I	GRGCYC	2 cut(s)	113, 289
EgeI	GGCGCC	1 cut(s)	259
EheI	GGCGCC	1 cut(s)	259
FaqI	GGGAC	2 cut(s)	224, 264
Fnu4HI	GCNGC	8 cut(s)	57, 75, 78, 158, 256, 310, 319, 331
FokI	GGATG	1 cut(s)	155
FriOI	GRGCYC	2 cut(s)	113, 289
Fsp4HI	GCNGC	8 cut(s)	57, 75, 78, 158, 256, 310, 319, 331
GlaI	GCGC	4 cut(s)	185, 222, 259, 308
GluI	GCNGC	8 cut(s)	57, 75, 78, 158, 256, 310, 319, 331
GsaI	CCCAGC	1 cut(s)	109
GsuI	CTGGAG	1 cut(s)	173
HaeII	RGCGCY	1 cut(s)	261
HaeIII	GGCC	2 cut(s)	56, 293
HapII	CCGG	3 cut(s)	117, 181, 282
HgaI	GACGC	1 cut(s)	261
HhaI	GCGC	4 cut(s)	186, 223, 260, 309
Hin1I	GRCGYC	1 cut(s)	258
Hin6I	GCGC	4 cut(s)	184, 221, 258, 307
HinP1I	GCGC	4 cut(s)	184, 221, 258, 307
HinfI	GANTC	1 cut(s)	167
HpaII	CCGG	3 cut(s)	117, 181, 282
HphI	GGTGA	1 cut(s)	146
Hpy188I	TCNGA	1 cut(s)	172
Hpy188III	TCNNGA	1 cut(s)	249
Hpy99I	CGWCG	2 cut(s)	98, 255
HpyCH4III	ACNGT	2 cut(s)	218, 238
HpyCH4V	TGCA	2 cut(s)	160, 333
HpyF10VI	GCNNNNNNNGC	6 cut(s)	117, 157, 252, 315, 318, 327
HpyF3I	CTNAG	3 cut(s)	190, 224, 288
Hsp92I	GRCGYC	1 cut(s)	258
HspAI	GCGC	4 cut(s)	184, 221, 258, 307
KasI	GGCGCC	1 cut(s)	257
KroI	GCCGGC	1 cut(s)	116
KroNI	GCCGGC	1 cut(s)	118
Kzo9I	GATC	1 cut(s)	174
LmnI	GCTCC	5 cut(s)	14, 116, 148, 154, 284
Lsp1109I	GCAGC	2 cut(s)	144, 317
LweI	GCATC	2 cut(s)	195, 330
MabI	ACCWGGT	1 cut(s)	200
MalI	GATC	1 cut(s)	176
MboI	GATC	1 cut(s)	174
MboII	GAAGA	2 cut(s)	16, 28
MfeI	CAATTG	1 cut(s)	271
MhlI	GDGCHC	2 cut(s)	113, 289
MluCI	AATT	1 cut(s)	271
Mly113I	GGCGCC	1 cut(s)	258
MlyI	GAGTC	1 cut(s)	161
MnlI	CCTC	7 cut(s)	22, 50, 116, 139, 219, 222, 271
MreI	CGCCGGCG	1 cut(s)	116
MroNI	GCCGGC	1 cut(s)	116
MspA1I	CMGCKG	1 cut(s)	105
MspI	CCGG	3 cut(s)	117, 181, 282
MspR9I	CCNGG	3 cut(s)	53, 202, 282
MunI	CAATTG	1 cut(s)	271
MvaI	CCWGG	2 cut(s)	53, 202
MvnI	CGCG	4 cut(s)	250, 255, 307, 309
MwoI	GCNNNNNNNGC	6 cut(s)	117, 157, 252, 315, 318, 327
NaeI	GCCGGC	1 cut(s)	118
NarI	GGCGCC	1 cut(s)	258
NciI	CCSGG	1 cut(s)	282
NdeII	GATC	1 cut(s)	174
NgoMIV	GCCGGC	1 cut(s)	116
NlaIV	GGNNCC	2 cut(s)	112, 259
NruI	TCGCGA	1 cut(s)	250
PdiI	GCCGGC	1 cut(s)	118
PfoI	TCCNGGA	1 cut(s)	280
PkrI	GCNGC	8 cut(s)	58, 76, 79, 159, 257, 311, 320, 332
PleI	GAGTC	1 cut(s)	161
PluTI	GGCGCC	1 cut(s)	261
PpsI	GAGTC	1 cut(s)	161
Psp124BI	GAGCTC	1 cut(s)	289
Psp6I	CCWGG	2 cut(s)	51, 200
PspFI	CCCAGC	1 cut(s)	105
PspGI	CCWGG	2 cut(s)	51, 200
PspN4I	GGNNCC	2 cut(s)	112, 259
PstI	CTGCAG	2 cut(s)	162, 335
PvuII	CAGCTG	1 cut(s)	105
RruI	TCGCGA	1 cut(s)	250
RsaI	GTAC	1 cut(s)	206
RsaNI	GTAC	1 cut(s)	205
SacI	GAGCTC	1 cut(s)	289
SatI	GCNGC	8 cut(s)	57, 75, 78, 158, 256, 310, 319, 331
Sau3AI	GATC	1 cut(s)	174
SchI	GAGTC	1 cut(s)	161
ScrFI	CCNGG	3 cut(s)	53, 202, 282
SduI	GDGCHC	2 cut(s)	113, 289
SetI	ASST	8 cut(s)	11, 107, 136, 153, 159, 206, 215, 289
SexAI	ACCWGGT	1 cut(s)	200
SfaNI	GCATC	2 cut(s)	195, 330
SfcI	CTRYAG	3 cut(s)	158, 313, 331
SfoI	GGCGCC	1 cut(s)	259
SgrAI	CRCCGGYG	1 cut(s)	116
Sse9I	AATT	1 cut(s)	271
SsiI	CCGC	9 cut(s)	57, 75, 78, 90, 114, 120, 255, 309, 319
SspDI	GGCGCC	1 cut(s)	257
SstI	GAGCTC	1 cut(s)	289
StyD4I	CCNGG	3 cut(s)	51, 200, 280
TaaI	ACNGT	2 cut(s)	218, 238
TaqI	TCGA	1 cut(s)	96
TasI	AATT	1 cut(s)	271
TauI	GCSGC	6 cut(s)	59, 77, 80, 258, 312, 321
TscAI	CASTG	2 cut(s)	21, 241
TseI	GCWGC	2 cut(s)	157, 330
TspDTI	ATGAA	1 cut(s)	22
TspRI	CASTG	2 cut(s)	21, 241

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