Basic Information

Type: gene

Biological Identity

Species

arabidopsis_thaliana

Chromosome

Orthogroup ID

OG0003104

Physical Location & Seq

Genomic Coordinates Forward (+)

1591115 .. 1593047

Gene Structure 1933 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

AT3G05490.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 360 bp

ATGACGAACACTCGCGCGATCTACGCCGTCATCGCGATCCTGGCGATAGTAATCTCAGCCGTGGAATCAACCGGAGACTTCGGAGATTCGCTAGATTTCGTGAGAGCCGGATCTTCATCGCTCTTCTCTGGATGCACAGGATCGATCGCAGAGTGTATAGCGGAAGAAGAAGAGATGGAGTTCGATTCAGACATAAGCCGGCGTATATTAGCACAGAAGAAGTACATTAGCTACGGTGCTATGAGGAGGAACAGTGTGCCTTGTTCACGGCGTGGTGCGTCGTACTACAACTGCCAGCGTGGAGCTCAGGCGAATCCTTACAGCCGTGGATGCAGCACCATCACTAGGTGCAGGCGTTGA

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:0005618 GO:0005623 GO:0005911 GO:0007154 GO:0007165 GO:0007267 GO:0007275 GO:0008150 GO:0009505 GO:0009506 GO:0009719 GO:0009725 GO:0009741 GO:0009966 GO:0009987 GO:0010033 GO:0010469 GO:0010646 GO:0014070 GO:0019722 GO:0019932 GO:0022622 GO:0023051 GO:0023052 GO:0030054 GO:0030308 GO:0030312 GO:0030545 GO:0032501 GO:0032502 GO:0033993 GO:0035556 GO:0040008 GO:0042221 GO:0044464 GO:0045926 GO:0048018 GO:0048046 GO:0048364 GO:0048519 GO:0048523 GO:0048583 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051128 GO:0051716 GO:0055044 GO:0065007 GO:0065009 GO:0071944 GO:0098772 GO:0099402 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

RALF

Protein Analysis

119

Amino Acids

13.03

Weight (kDa)

8.6

Isoelectric Point (pI)

53.72

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RALF	PF05498	57 - 119	7.8e-30	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

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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)
AccII	CGCG	3 cut(s)	15, 17, 35
AciI	CCGC	1 cut(s)	161
AclWI	GGATC	3 cut(s)	31, 118, 148
AdeI	CACNNNGTG	2 cut(s)	272, 348
AfaI	GTAC	2 cut(s)	224, 284
AfiI	CCNNNNNNNGG	1 cut(s)	345
AjnI	CCWGG	1 cut(s)	39
AluBI	AGCT	2 cut(s)	231, 305
AluI	AGCT	2 cut(s)	231, 305
Alw21I	GWGCWC	1 cut(s)	307
Alw26I	GTCTC	1 cut(s)	69
AlwI	GGATC	3 cut(s)	31, 118, 148
ApeKI	GCWGC	1 cut(s)	333
AspLEI	GCGC	1 cut(s)	17
BanII	GRGCYC	1 cut(s)	307
Bbv12I	GWGCWC	1 cut(s)	307
BbvI	GCAGC	1 cut(s)	345
BccI	CCATC	2 cut(s)	169, 347
BceAI	ACGGC	4 cut(s)	11, 44, 284, 309
BciT130I	CCWGG	1 cut(s)	41
BcoDI	GTCTC	1 cut(s)	69
BfaI	CTAG	2 cut(s)	92, 345
BisI	GCNGC	1 cut(s)	334
BlsI	GCNGC	1 cut(s)	335
Bme1390I	CCNGG	1 cut(s)	41
BmrFI	CCNGG	1 cut(s)	41
BmsI	GCATC	2 cut(s)	122, 320
Bpu10I	CCTNAGC	1 cut(s)	306
Bsa29I	ATCGAT	1 cut(s)	143
BsaBI	GATNNNNATC	2 cut(s)	50, 115
BsaJI	CCNNGG	2 cut(s)	60, 325
BsaWI	WCCGGW	1 cut(s)	71
BsaXI	ACNNNNNCTCC	2 cut(s)	238, 268
Bsc4I	CCNNNNNNNGG	1 cut(s)	345
Bse118I	RCCGGY	1 cut(s)	198
Bse8I	GATNNNNATC	2 cut(s)	50, 115
BseBI	CCWGG	1 cut(s)	41
BseCI	ATCGAT	1 cut(s)	143
BseDI	CCNNGG	2 cut(s)	60, 325
BseGI	GGATG	2 cut(s)	137, 335
BseJI	GATNNNNATC	2 cut(s)	50, 115
BseLI	CCNNNNNNNGG	1 cut(s)	345
BseMII	CTCAG	2 cut(s)	69, 320
BseRI	GAGGAG	1 cut(s)	259
BseXI	GCAGC	1 cut(s)	345
Bsh1236I	CGCG	3 cut(s)	15, 17, 35
Bsh1285I	CGRYCG	1 cut(s)	147
BshVI	ATCGAT	1 cut(s)	143
BsiEI	CGRYCG	1 cut(s)	147
BsiHKAI	GWGCWC	1 cut(s)	307
BsiSI	CCGG	3 cut(s)	72, 108, 199
BslI	CCNNNNNNNGG	1 cut(s)	345
BsmAI	GTCTC	1 cut(s)	69
Bsp1286I	GDGCHC	1 cut(s)	307
Bsp143I	GATC	5 cut(s)	18, 36, 110, 140, 144
Bsp68I	TCGCGA	1 cut(s)	35
BspACI	CCGC	1 cut(s)	161
BspCNI	CTCAG	2 cut(s)	68, 319
BspDI	ATCGAT	1 cut(s)	143
BspFNI	CGCG	3 cut(s)	15, 17, 35
BspPI	GGATC	3 cut(s)	31, 118, 148
BspQI	GCTCTTC	1 cut(s)	128
BsrFI	RCCGGY	1 cut(s)	198
BssAI	RCCGGY	1 cut(s)	198
BssECI	CCNNGG	2 cut(s)	60, 325
BssMI	GATC	5 cut(s)	18, 36, 110, 140, 144
Bst2UI	CCWGG	1 cut(s)	41
Bst4CI	ACNGT	2 cut(s)	236, 254
Bst6I	CTCTTC	2 cut(s)	128, 165
BstC8I	GCNNGC	3 cut(s)	200, 296, 353
BstDEI	CTNAG	2 cut(s)	55, 306
BstDSI	CCRYGG	2 cut(s)	60, 325
BstF5I	GGATG	2 cut(s)	137, 335
BstFNI	CGCG	3 cut(s)	15, 17, 35
BstHHI	GCGC	1 cut(s)	17
BstKTI	GATC	5 cut(s)	21, 39, 113, 143, 147
BstMAI	GTCTC	1 cut(s)	69
BstMBI	GATC	5 cut(s)	18, 36, 110, 140, 144
BstMCI	CGRYCG	1 cut(s)	147
BstMWI	GCNNNNNNNGC	4 cut(s)	23, 32, 41, 330
BstNI	CCWGG	1 cut(s)	41
BstSCI	CCNGG	1 cut(s)	39
BstUI	CGCG	3 cut(s)	15, 17, 35
BstV1I	GCAGC	1 cut(s)	345
BstX2I	RGATCY	1 cut(s)	110
BstYI	RGATCY	1 cut(s)	110
Bsu15I	ATCGAT	1 cut(s)	143
BsuTUI	ATCGAT	1 cut(s)	143
BtgI	CCRYGG	2 cut(s)	60, 325
BtgZI	GCGATG	2 cut(s)	16, 102
BtsCI	GGATG	2 cut(s)	137, 335
BtsIMutI	CAGTG	1 cut(s)	259
BtuMI	TCGCGA	1 cut(s)	35
Cac8I	GCNNGC	3 cut(s)	200, 296, 353
CfoI	GCGC	1 cut(s)	17
Cfr10I	RCCGGY	1 cut(s)	198
ClaI	ATCGAT	1 cut(s)	143
CseI	GACGC	1 cut(s)	267
Csp6I	GTAC	2 cut(s)	223, 283
CviJI	RGCY	6 cut(s)	59, 107, 198, 231, 305, 324
CviKI_1	RGCY	6 cut(s)	59, 107, 198, 231, 305, 324
CviQI	GTAC	2 cut(s)	223, 283
DdeI	CTNAG	2 cut(s)	55, 306
DpnI	GATC	5 cut(s)	20, 38, 112, 142, 146
DpnII	GATC	5 cut(s)	18, 36, 110, 140, 144
DraIII	CACNNNGTG	2 cut(s)	272, 348
Eam1104I	CTCTTC	2 cut(s)	128, 165
EarI	CTCTTC	2 cut(s)	128, 165
Ecl136II	GAGCTC	1 cut(s)	305
Eco24I	GRGCYC	1 cut(s)	307
Eco53kI	GAGCTC	1 cut(s)	305
EcoICRI	GAGCTC	1 cut(s)	305
EcoRII	CCWGG	1 cut(s)	39
EcoT38I	GRGCYC	1 cut(s)	307
FaiI	YATR	4 cut(s)	158, 194, 206, 242
Fnu4HI	GCNGC	1 cut(s)	334
FokI	GGATG	2 cut(s)	144, 342
FriOI	GRGCYC	1 cut(s)	307
Fsp4HI	GCNGC	1 cut(s)	334
FspBI	CTAG	2 cut(s)	92, 345
GlaI	GCGC	1 cut(s)	16
GluI	GCNGC	1 cut(s)	334
HapII	CCGG	3 cut(s)	72, 108, 199
HgaI	GACGC	1 cut(s)	267
HhaI	GCGC	1 cut(s)	17
Hin6I	GCGC	1 cut(s)	15
HinP1I	GCGC	1 cut(s)	15
HinfI	GANTC	4 cut(s)	65, 86, 185, 313
HpaII	CCGG	3 cut(s)	72, 108, 199
Hpy166II	GTNNAC	1 cut(s)	266
Hpy188I	TCNGA	2 cut(s)	83, 190
Hpy188III	TCNNGA	3 cut(s)	34, 100, 129
Hpy8I	GTNNAC	1 cut(s)	266
Hpy99I	CGWCG	1 cut(s)	283
HpyCH4III	ACNGT	2 cut(s)	236, 254
HpyCH4V	TGCA	3 cut(s)	135, 333, 351
HpyF10VI	GCNNNNNNNGC	4 cut(s)	23, 32, 41, 330
HpyF3I	CTNAG	2 cut(s)	55, 306
HspAI	GCGC	1 cut(s)	15
KroI	GCCGGC	1 cut(s)	198
KroNI	GCCGGC	1 cut(s)	200
Kzo9I	GATC	5 cut(s)	18, 36, 110, 140, 144
LguI	GCTCTTC	1 cut(s)	128
LmnI	GCTCC	1 cut(s)	302
Lsp1109I	GCAGC	1 cut(s)	345
LweI	GCATC	2 cut(s)	122, 320
MaeI	CTAG	2 cut(s)	92, 345
MalI	GATC	5 cut(s)	20, 38, 112, 142, 146
MboI	GATC	5 cut(s)	18, 36, 110, 140, 144
MboII	GAAGA	6 cut(s)	105, 115, 176, 179, 182, 229
MflI	RGATCY	1 cut(s)	110
MhlI	GDGCHC	1 cut(s)	307
MnlI	CCTC	2 cut(s)	237, 240
MroNI	GCCGGC	1 cut(s)	198
MspI	CCGG	3 cut(s)	72, 108, 199
MspR9I	CCNGG	1 cut(s)	41
MvaI	CCWGG	1 cut(s)	41
MvnI	CGCG	3 cut(s)	15, 17, 35
MwoI	GCNNNNNNNGC	4 cut(s)	23, 32, 41, 330
NaeI	GCCGGC	1 cut(s)	200
NdeII	GATC	5 cut(s)	18, 36, 110, 140, 144
NgoMIV	GCCGGC	1 cut(s)	198
NruI	TCGCGA	1 cut(s)	35
PciSI	GCTCTTC	1 cut(s)	128
PdiI	GCCGGC	1 cut(s)	200
PfeI	GAWTC	4 cut(s)	65, 86, 185, 313
PkrI	GCNGC	1 cut(s)	335
Ple19I	CGATCG	1 cut(s)	147
Psp124BI	GAGCTC	1 cut(s)	307
Psp6I	CCWGG	1 cut(s)	39
PspGI	CCWGG	1 cut(s)	39
PsuI	RGATCY	1 cut(s)	110
PvuI	CGATCG	1 cut(s)	147
RruI	TCGCGA	1 cut(s)	35
RsaI	GTAC	2 cut(s)	224, 284
RsaNI	GTAC	2 cut(s)	223, 283
SacI	GAGCTC	1 cut(s)	307
SapI	GCTCTTC	1 cut(s)	128
SatI	GCNGC	1 cut(s)	334
Sau3AI	GATC	5 cut(s)	18, 36, 110, 140, 144
ScrFI	CCNGG	1 cut(s)	41
SduI	GDGCHC	1 cut(s)	307
SetI	ASST	3 cut(s)	233, 307, 350
SfaNI	GCATC	2 cut(s)	122, 320
SsiI	CCGC	1 cut(s)	161
SspMI	CTAG	2 cut(s)	92, 345
SstI	GAGCTC	1 cut(s)	307
StyD4I	CCNGG	1 cut(s)	39
TaaI	ACNGT	2 cut(s)	236, 254
TaqI	TCGA	2 cut(s)	143, 183
TatI	WGTACW	1 cut(s)	222
TfiI	GAWTC	4 cut(s)	65, 86, 185, 313
TscAI	CASTG	1 cut(s)	259
TseI	GCWGC	1 cut(s)	333
TspDTI	ATGAA	1 cut(s)	105
TspRI	CASTG	1 cut(s)	259
XspI	CTAG	2 cut(s)	92, 345

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