Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0003104

Physical Location & Seq

Genomic Coordinates Forward (+)

9882951 .. 9884189

Gene Structure 1239 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

AT1G28270.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 333 bp

ATGGGTGTCAAAATGTTATTAATCTTTGGTCTCTTGATCTTAGCTATGGTAGCTAAATCCGTCAATGCAACCTACCCTTTAACCAAATCTTGCATCAACGGGCAAGGTTGCATCGGGGAAGACGATGAGCTCGAATCTCTAATGGATTCAGAGACAAACCGTCGTCAACTCGCAAGAGGACGTCGTTACATTGGCTACGATGCTCTCAAAAAGAACAATGTGCCTTGCAGTAGACGTGGCCGATCCTACTACGATTGCAAGAAGAGAAGAAGGAATAATCCTTACAGGCGTGGATGCAGTGCCATCACGCATTGCTATAGGTACGCTCGCTAA

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

110

Amino Acids

12.66

Weight (kDa)

9.89

Isoelectric Point (pI)

64.94

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RALF	PF05498	45 - 107	3.9e-25	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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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	1 cut(s)	184
AccI	GTMKAC	1 cut(s)	232
AclWI	GGATC	1 cut(s)	237
AcoI	YGGCCR	1 cut(s)	238
AcyI	GRCGYC	1 cut(s)	181
AfaI	GTAC	1 cut(s)	323
AhdI	GACNNNNNGTC	1 cut(s)	159
AjiI	CACGTC	1 cut(s)	236
AluBI	AGCT	3 cut(s)	44, 53, 130
AluI	AGCT	3 cut(s)	44, 53, 130
Alw21I	GWGCWC	1 cut(s)	132
Alw26I	GTCTC	2 cut(s)	35, 146
AlwI	GGATC	1 cut(s)	237
AoxI	GGCC	1 cut(s)	238
AseI	ATTAAT	1 cut(s)	20
BanII	GRGCYC	1 cut(s)	132
BbsI	GAAGAC	1 cut(s)	126
Bbv12I	GWGCWC	1 cut(s)	132
BccI	CCATC	1 cut(s)	311
BcoDI	GTCTC	2 cut(s)	35, 146
BfmI	CTRYAG	1 cut(s)	316
BmeRI	GACNNNNNGTC	1 cut(s)	159
BmgBI	CACGTC	1 cut(s)	236
BmsI	GCATC	4 cut(s)	102, 120, 190, 284
BpiI	GAAGAC	1 cut(s)	126
BsaHI	GRCGYC	1 cut(s)	181
BsaI	GGTCTC	1 cut(s)	35
Bse3DI	GCAATG	1 cut(s)	310
BseGI	GGATG	1 cut(s)	299
BseMI	GCAATG	1 cut(s)	310
BshFI	GGCC	1 cut(s)	240
BsiHKAI	GWGCWC	1 cut(s)	132
BsmAI	GTCTC	2 cut(s)	35, 146
BsnI	GGCC	1 cut(s)	240
Bso31I	GGTCTC	1 cut(s)	35
Bsp1286I	GDGCHC	1 cut(s)	132
Bsp143I	GATC	2 cut(s)	36, 242
BspANI	GGCC	1 cut(s)	240
BspPI	GGATC	1 cut(s)	237
BspTNI	GGTCTC	1 cut(s)	35
BsrDI	GCAATG	1 cut(s)	310
BssMI	GATC	2 cut(s)	36, 242
BssNI	GRCGYC	1 cut(s)	181
Bst4CI	ACNGT	1 cut(s)	161
Bst6I	CTCTTC	1 cut(s)	257
BstACI	GRCGYC	1 cut(s)	181
BstC8I	GCNNGC	1 cut(s)	328
BstDEI	CTNAG	1 cut(s)	40
BstF5I	GGATG	1 cut(s)	299
BstKTI	GATC	2 cut(s)	39, 245
BstMAI	GTCTC	2 cut(s)	35, 146
BstMBI	GATC	2 cut(s)	36, 242
BstMWI	GCNNNNNNNGC	1 cut(s)	50
BstSFI	CTRYAG	1 cut(s)	316
BstV2I	GAAGAC	1 cut(s)	126
BsuRI	GGCC	1 cut(s)	240
BtrI	CACGTC	1 cut(s)	236
BtsCI	GGATG	1 cut(s)	299
BtsI	GCAGTG	1 cut(s)	304
BtsIMutI	CAGTG	1 cut(s)	304
Cac8I	GCNNGC	1 cut(s)	328
Csp6I	GTAC	1 cut(s)	322
CviJI	RGCY	5 cut(s)	44, 53, 130, 195, 240
CviKI_1	RGCY	5 cut(s)	44, 53, 130, 195, 240
CviQI	GTAC	1 cut(s)	322
DdeI	CTNAG	1 cut(s)	40
DpnI	GATC	2 cut(s)	38, 244
DpnII	GATC	2 cut(s)	36, 242
DriI	GACNNNNNGTC	1 cut(s)	159
EaeI	YGGCCR	1 cut(s)	238
Eam1104I	CTCTTC	1 cut(s)	257
Eam1105I	GACNNNNNGTC	1 cut(s)	159
EarI	CTCTTC	1 cut(s)	257
Ecl136II	GAGCTC	1 cut(s)	130
Eco24I	GRGCYC	1 cut(s)	132
Eco31I	GGTCTC	1 cut(s)	35
Eco53kI	GAGCTC	1 cut(s)	130
EcoICRI	GAGCTC	1 cut(s)	130
EcoT38I	GRGCYC	1 cut(s)	132
FaiI	YATR	2 cut(s)	47, 318
FblI	GTMKAC	1 cut(s)	232
FokI	GGATG	1 cut(s)	306
FriOI	GRGCYC	1 cut(s)	132
HaeIII	GGCC	1 cut(s)	240
Hin1I	GRCGYC	1 cut(s)	181
HincII	GTYRAC	1 cut(s)	167
HindII	GTYRAC	1 cut(s)	167
HinfI	GANTC	2 cut(s)	134, 146
Hpy166II	GTNNAC	2 cut(s)	167, 233
Hpy188I	TCNGA	1 cut(s)	151
Hpy188III	TCNNGA	1 cut(s)	34
Hpy8I	GTNNAC	2 cut(s)	167, 233
Hpy99I	CGWCG	2 cut(s)	165, 186
HpyAV	CCTTC	1 cut(s)	264
HpyCH4III	ACNGT	1 cut(s)	161
HpyCH4IV	ACGT	2 cut(s)	181, 235
HpyCH4V	TGCA	6 cut(s)	68, 93, 111, 228, 258, 297
HpyF10VI	GCNNNNNNNGC	1 cut(s)	50
HpyF3I	CTNAG	1 cut(s)	40
HpySE526I	ACGT	2 cut(s)	181, 235
Hsp92I	GRCGYC	1 cut(s)	181
Kzo9I	GATC	2 cut(s)	36, 242
LpnPI	CCDG	1 cut(s)	271
LweI	GCATC	4 cut(s)	102, 120, 190, 284
MaeII	ACGT	2 cut(s)	181, 235
MaeIII	GTNAC	1 cut(s)	185
MalI	GATC	2 cut(s)	38, 244
MboI	GATC	2 cut(s)	36, 242
MboII	GAAGA	3 cut(s)	131, 274, 279
MhlI	GDGCHC	1 cut(s)	132
MnlI	CCTC	1 cut(s)	170
MseI	TTAA	2 cut(s)	20, 80
MwoI	GCNNNNNNNGC	1 cut(s)	50
NdeII	GATC	2 cut(s)	36, 242
PcsI	WCGNNNNNNNCGW	2 cut(s)	120, 129
PfeI	GAWTC	2 cut(s)	134, 146
PshBI	ATTAAT	1 cut(s)	20
Psp124BI	GAGCTC	1 cut(s)	132
RsaI	GTAC	1 cut(s)	323
RsaNI	GTAC	1 cut(s)	322
SacI	GAGCTC	1 cut(s)	132
SaqAI	TTAA	2 cut(s)	20, 80
Sau3AI	GATC	2 cut(s)	36, 242
SduI	GDGCHC	1 cut(s)	132
SetI	ASST	8 cut(s)	46, 55, 74, 109, 132, 184, 238, 323
SfaNI	GCATC	4 cut(s)	102, 120, 190, 284
SfcI	CTRYAG	1 cut(s)	316
SstI	GAGCTC	1 cut(s)	132
TaaI	ACNGT	1 cut(s)	161
TaiI	ACGT	2 cut(s)	184, 238
TaqI	TCGA	1 cut(s)	132
TfiI	GAWTC	2 cut(s)	134, 146
Tru1I	TTAA	2 cut(s)	20, 80
Tru9I	TTAA	2 cut(s)	20, 80
TscAI	CASTG	1 cut(s)	304
TspGWI	ACGGA	1 cut(s)	49
TspRI	CASTG	1 cut(s)	304
VspI	ATTAAT	1 cut(s)	20
XmiI	GTMKAC	1 cut(s)	232
ZraI	GACGTC	1 cut(s)	182

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