Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr10

Orthogroup ID

OG0003104

Physical Location & Seq

Genomic Coordinates Forward (+)

38116236 .. 38116601

Gene Structure 366 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD10G1292800.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 366 bp

ATGGGATTCAAGCTCTACCTGATCGCCTTCATGGTGGTATTGGCCATGGTGGCCAGGTCATCAGCCAAGGTCCACGATGCCTCGTGGGGCGTCAGCCACTTCGCGGCTCATGATGATGAGTCCTTGATCGACAGCGCCAACAGCAAAACAGGTGACGTCGGAGAGGAGAACGAGTTGTTGATGGATTCAGACAGCGGTCGTAGGACACTCAAAGGCAACGGCAGGTTTATTGGATATGGTGCCTTAAGGCGCAATGCTGTTCCATGCGGACGCCGCGGCCAGTCCTACTACAACTGCCAAAAAAGGGAGGGAGCTAACCCTTACAAGCGCGGTTGTGAGTACATCACCCGCTGCTCCAGACGCTAA

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

122

Amino Acids

13.47

Weight (kDa)

9.35

Isoelectric Point (pI)

42.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RALF	PF05498	58 - 120	6.3e-25	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	1 cut(s)	159
Acc36I	ACCTGC	1 cut(s)	213
AccB1I	GGYRCC	1 cut(s)	239
AccII	CGCG	3 cut(s)	104, 276, 330
AciI	CCGC	7 cut(s)	104, 195, 267, 274, 276, 330, 349
AcoI	YGGCCR	3 cut(s)	42, 51, 277
AcyI	GRCGYC	3 cut(s)	90, 156, 271
AfaI	GTAC	1 cut(s)	341
AfiI	CCNNNNNNNGG	2 cut(s)	103, 304
AflII	CTTAAG	1 cut(s)	244
AgsI	TTSAA	1 cut(s)	10
AjnI	CCWGG	1 cut(s)	53
AluBI	AGCT	2 cut(s)	13, 314
AluI	AGCT	2 cut(s)	13, 314
AoxI	GGCC	3 cut(s)	42, 51, 277
ApeKI	GCWGC	1 cut(s)	351
AspLEI	GCGC	3 cut(s)	137, 252, 330
AspS9I	GGNCC	1 cut(s)	70
AsuHPI	GGTGA	2 cut(s)	164, 337
AvaII	GGWCC	1 cut(s)	70
BalI	TGGCCA	2 cut(s)	44, 53
BanI	GGYRCC	1 cut(s)	239
BauI	CACGAG	1 cut(s)	82
BbvI	GCAGC	1 cut(s)	338
BccI	CCATC	1 cut(s)	175
BceAI	ACGGC	1 cut(s)	235
BciT130I	CCWGG	1 cut(s)	55
BfoI	RGCGCY	1 cut(s)	138
BfrI	CTTAAG	1 cut(s)	244
BfuAI	ACCTGC	1 cut(s)	213
BglI	GCCNNNNNGGC	1 cut(s)	50
BisI	GCNGC	4 cut(s)	105, 274, 277, 352
BlsI	GCNGC	4 cut(s)	106, 275, 278, 353
Bme1390I	CCNGG	1 cut(s)	55
Bme18I	GGWCC	1 cut(s)	70
BmgT120I	GGNCC	1 cut(s)	70
BmiI	GGNNCC	1 cut(s)	241
BmrFI	CCNGG	1 cut(s)	55
BmsI	GCATC	1 cut(s)	67
BoxI	GACNNNNGTC	1 cut(s)	195
BpmI	CTGGAG	1 cut(s)	340
BsaHI	GRCGYC	3 cut(s)	90, 156, 271
BsaJI	CCNNGG	3 cut(s)	45, 66, 274
BsaXI	ACNNNNNCTCC	2 cut(s)	158, 188
Bsc4I	CCNNNNNNNGG	2 cut(s)	103, 304
Bse1I	ACTGG	1 cut(s)	280
Bse3DI	GCAATG	1 cut(s)	259
BseBI	CCWGG	1 cut(s)	55
BseDI	CCNNGG	3 cut(s)	45, 66, 274
BseLI	CCNNNNNNNGG	2 cut(s)	103, 304
BseMI	GCAATG	1 cut(s)	259
BseNI	ACTGG	1 cut(s)	280
BseRI	GAGGAG	1 cut(s)	179
BseXI	GCAGC	1 cut(s)	338
Bsh1236I	CGCG	3 cut(s)	104, 276, 330
Bsh1285I	CGRYCG	1 cut(s)	199
BshFI	GGCC	3 cut(s)	44, 53, 279
BshNI	GGYRCC	1 cut(s)	239
BsiEI	CGRYCG	1 cut(s)	199
BslI	CCNNNNNNNGG	2 cut(s)	103, 304
BsnI	GGCC	3 cut(s)	44, 53, 279
Bsp143I	GATC	2 cut(s)	21, 126
Bsp19I	CCATGG	1 cut(s)	45
BspACI	CCGC	7 cut(s)	104, 195, 267, 274, 276, 330, 349
BspANI	GGCC	3 cut(s)	44, 53, 279
BspFNI	CGCG	3 cut(s)	104, 276, 330
BspHI	TCATGA	1 cut(s)	109
BspLI	GGNNCC	1 cut(s)	241
BspMI	ACCTGC	1 cut(s)	213
BspT107I	GGYRCC	1 cut(s)	239
BspTI	CTTAAG	1 cut(s)	244
BsrDI	GCAATG	1 cut(s)	259
BsrI	ACTGG	1 cut(s)	280
BssECI	CCNNGG	3 cut(s)	45, 66, 274
BssMI	GATC	2 cut(s)	21, 126
BssNI	GRCGYC	3 cut(s)	90, 156, 271
BssSI	CACGAG	1 cut(s)	82
BssT1I	CCWWGG	2 cut(s)	45, 66
Bst2BI	CACGAG	1 cut(s)	82
Bst2UI	CCWGG	1 cut(s)	55
BstACI	GRCGYC	3 cut(s)	90, 156, 271
BstAFI	CTTAAG	1 cut(s)	244
BstDSI	CCRYGG	2 cut(s)	45, 274
BstFNI	CGCG	3 cut(s)	104, 276, 330
BstH2I	RGCGCY	1 cut(s)	138
BstHHI	GCGC	3 cut(s)	137, 252, 330
BstKTI	GATC	2 cut(s)	24, 129
BstMBI	GATC	2 cut(s)	21, 126
BstMCI	CGRYCG	1 cut(s)	199
BstMWI	GCNNNNNNNGC	4 cut(s)	50, 141, 273, 360
BstNI	CCWGG	1 cut(s)	55
BstPAI	GACNNNNGTC	1 cut(s)	195
BstSCI	CCNGG	1 cut(s)	53
BstUI	CGCG	3 cut(s)	104, 276, 330
BstV1I	GCAGC	1 cut(s)	338
BsuRI	GGCC	3 cut(s)	44, 53, 279
BtgI	CCRYGG	2 cut(s)	45, 274
BveI	ACCTGC	1 cut(s)	213
CciI	TCATGA	1 cut(s)	109
CfoI	GCGC	3 cut(s)	137, 252, 330
Cfr13I	GGNCC	1 cut(s)	70
Cfr42I	CCGCGG	1 cut(s)	277
CseI	GACGC	2 cut(s)	79, 279
Csp6I	GTAC	1 cut(s)	340
CviAII	CATG	4 cut(s)	31, 46, 110, 264
CviJI	RGCY	8 cut(s)	13, 44, 53, 65, 96, 107, 279, 314
CviKI_1	RGCY	8 cut(s)	13, 44, 53, 65, 96, 107, 279, 314
CviQI	GTAC	1 cut(s)	340
DpnI	GATC	2 cut(s)	23, 128
DpnII	GATC	2 cut(s)	21, 126
EaeI	YGGCCR	3 cut(s)	42, 51, 277
Eco130I	CCWWGG	2 cut(s)	45, 66
Eco47I	GGWCC	1 cut(s)	70
EcoRII	CCWGG	1 cut(s)	53
EcoT14I	CCWWGG	2 cut(s)	45, 66
ErhI	CCWWGG	2 cut(s)	45, 66
FaeI	CATG	4 cut(s)	34, 49, 113, 267
FaiI	YATR	5 cut(s)	32, 47, 111, 237, 265
FatI	CATG	4 cut(s)	30, 45, 109, 263
FauI	CCCGC	1 cut(s)	356
Fnu4HI	GCNGC	4 cut(s)	105, 274, 277, 352
Fsp4HI	GCNGC	4 cut(s)	105, 274, 277, 352
GlaI	GCGC	3 cut(s)	136, 251, 329
GluI	GCNGC	4 cut(s)	105, 274, 277, 352
GsuI	CTGGAG	1 cut(s)	340
HaeII	RGCGCY	1 cut(s)	138
HaeIII	GGCC	3 cut(s)	44, 53, 279
HgaI	GACGC	2 cut(s)	79, 279
HhaI	GCGC	3 cut(s)	137, 252, 330
Hin1I	GRCGYC	3 cut(s)	90, 156, 271
Hin1II	CATG	4 cut(s)	34, 49, 113, 267
Hin6I	GCGC	3 cut(s)	135, 250, 328
HinP1I	GCGC	3 cut(s)	135, 250, 328
HinfI	GANTC	3 cut(s)	6, 119, 185
HphI	GGTGA	2 cut(s)	164, 337
Hpy166II	GTNNAC	1 cut(s)	73
Hpy188I	TCNGA	2 cut(s)	161, 190
Hpy188III	TCNNGA	2 cut(s)	110, 357
Hpy8I	GTNNAC	1 cut(s)	73
Hpy99I	CGWCG	1 cut(s)	161
HpyAV	CCTTC	1 cut(s)	37
HpyCH4IV	ACGT	1 cut(s)	156
HpyF10VI	GCNNNNNNNGC	4 cut(s)	50, 141, 273, 360
HpySE526I	ACGT	1 cut(s)	156
Hsp92I	GRCGYC	3 cut(s)	90, 156, 271
Hsp92II	CATG	4 cut(s)	34, 49, 113, 267
HspAI	GCGC	3 cut(s)	135, 250, 328
KspI	CCGCGG	1 cut(s)	277
Kzo9I	GATC	2 cut(s)	21, 126
LmnI	GCTCC	2 cut(s)	311, 359
LpnPI	CCDG	6 cut(s)	32, 40, 67, 135, 208, 293
Lsp1109I	GCAGC	1 cut(s)	338
LweI	GCATC	1 cut(s)	67
MaeII	ACGT	1 cut(s)	156
MaeIII	GTNAC	1 cut(s)	152
MalI	GATC	2 cut(s)	23, 128
MboI	GATC	2 cut(s)	21, 126
MlsI	TGGCCA	2 cut(s)	44, 53
MluNI	TGGCCA	2 cut(s)	44, 53
MlyI	GAGTC	1 cut(s)	128
MmeI	TCCRAC	1 cut(s)	139
MnlI	CCTC	3 cut(s)	91, 157, 301
Mox20I	TGGCCA	2 cut(s)	44, 53
MscI	TGGCCA	2 cut(s)	44, 53
MseI	TTAA	1 cut(s)	245
MslI	CAYNNNNRTG	1 cut(s)	114
Msp20I	TGGCCA	2 cut(s)	44, 53
MspA1I	CMGCKG	3 cut(s)	195, 276, 351
MspCI	CTTAAG	1 cut(s)	244
MspR9I	CCNGG	1 cut(s)	55
MvaI	CCWGG	1 cut(s)	55
MvnI	CGCG	3 cut(s)	104, 276, 330
MwoI	GCNNNNNNNGC	4 cut(s)	50, 141, 273, 360
NcoI	CCATGG	1 cut(s)	45
NdeII	GATC	2 cut(s)	21, 126
NlaIII	CATG	4 cut(s)	34, 49, 113, 267
NlaIV	GGNNCC	1 cut(s)	241
NmuCI	GTSAC	1 cut(s)	152
PagI	TCATGA	1 cut(s)	109
PfeI	GAWTC	2 cut(s)	6, 185
PkrI	GCNGC	4 cut(s)	106, 275, 278, 353
PleI	GAGTC	1 cut(s)	127
PpsI	GAGTC	1 cut(s)	127
PshAI	GACNNNNGTC	1 cut(s)	195
Psp6I	CCWGG	1 cut(s)	53
PspGI	CCWGG	1 cut(s)	53
PspN4I	GGNNCC	1 cut(s)	241
PspPI	GGNCC	1 cut(s)	70
RsaI	GTAC	1 cut(s)	341
RsaNI	GTAC	1 cut(s)	340
RseI	CAYNNNNRTG	1 cut(s)	114
SacII	CCGCGG	1 cut(s)	277
SaqAI	TTAA	1 cut(s)	245
SatI	GCNGC	4 cut(s)	105, 274, 277, 352
Sau3AI	GATC	2 cut(s)	21, 126
Sau96I	GGNCC	1 cut(s)	70
SchI	GAGTC	1 cut(s)	128
ScrFI	CCNGG	1 cut(s)	55
SetI	ASST	8 cut(s)	15, 21, 59, 72, 154, 159, 227, 316
SfaNI	GCATC	1 cut(s)	67
SfiI	GGCCNNNNNGGCC	1 cut(s)	50
Sfr303I	CCGCGG	1 cut(s)	277
SgrBI	CCGCGG	1 cut(s)	277
SinI	GGWCC	1 cut(s)	70
SmiMI	CAYNNNNRTG	1 cut(s)	114
SmlI	CTYRAG	1 cut(s)	244
SmoI	CTYRAG	1 cut(s)	244
SsiI	CCGC	7 cut(s)	104, 195, 267, 274, 276, 330, 349
StyD4I	CCNGG	1 cut(s)	53
StyI	CCWWGG	2 cut(s)	45, 66
TaiI	ACGT	1 cut(s)	159
TaqI	TCGA	1 cut(s)	129
TatI	WGTACW	1 cut(s)	339
TauI	GCSGC	3 cut(s)	107, 276, 279
TfiI	GAWTC	2 cut(s)	6, 185
Tru1I	TTAA	1 cut(s)	245
Tru9I	TTAA	1 cut(s)	245
TseFI	GTSAC	1 cut(s)	152
TseI	GCWGC	1 cut(s)	351
Tsp45I	GTSAC	1 cut(s)	152
TspDTI	ATGAA	1 cut(s)	19
Vha464I	CTTAAG	1 cut(s)	244
VpaK11BI	GGWCC	1 cut(s)	70
ZraI	GACGTC	1 cut(s)	157

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