Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0002280

Physical Location & Seq

Genomic Coordinates Reverse (-)

16376076 .. 16377721

Gene Structure 1646 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG160000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 348 bp

ATGAAGTACCTCATCGTCATCATGCTAGCAATGCTAGTAACTGTAGGCAATCTTTGGGGATTTGATGTGGGGGTTGATGGGGCTGGGGAGTGTGGAAGCAACCCGGAGGTTGTGGTATACAAGCTTGCTTCATGTGGACCAGCAGCACAAGATGGGAGCATCACGGTTTCTCCCAAGTGTTGCTCGTTGGTGAAACGCGTCGACAAGCGTTGCCTTTGTGCCATTGTGCTCTCTAAAGAACTTCAGAGTCGTGGCCTCAACCCAGCAATCGCAGTCACCATACCTAAACGTTGTAAGGATCCCAGACGTCCCAAGGGTTACAAGTGCGGAGCTTATACAGTGCCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LTP_2

Protein Analysis

115

Amino Acids

12.26

Weight (kDa)

9.22

Isoelectric Point (pI)

39.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	31 - 104	7.9e-09	Probable lipid transfer
Tryp_alpha_amyl	PF00234	38 - 109	2.7e-08	Protease inhibitor/seed storage/LTP family

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: OG0002280)

Species	Orthologous Gene IDs
prunus_persica	Prupe.2G242600_v2.0.a1 Prupe.2G242700_v2.0.a1
rosa_chinensis	RchiOBHm_Chr5g0022311 RchiOBHm_Chr5g0022411 RchiOBHm_Chr5g0069381 RchiOBHm_Chr6g0273821 RchiOBHm_Chr6g0273841
rosa_laevigata	RLG00000032572 RLG00000032658 RLG00000033466
rosa_multiflora	Rmu_sc0000178.1_g000009 Rmu_sc0002658.1_g000011 Rmu_sc0005639.1_g000007 Rmu_sc0021631.1_g000001
rosa_roxburghii	Rroxscaffold_1G00056610 Rroxscaffold_1G00056650 Rroxscaffold_1G00056670 Rroxscaffold_3G00231410 Rroxscaffold_7G00192730
rosa_rugosa	Rorug04G0081100 Rorug04G0081200 Rorug05G0073400 Rorug05G0073400 Rorug06G0097900
rosa_samantha	Rh4DG183900 Rh5AG160400 Rh5BG159600 Rh5BG473000 Rh5CG173700 Rh5CG173900 Rh5CG259600 Rh5CG495600 Rh5DG160000 Rh5DG160200 Rh6AG192400 Rh6AG192500 Rh6BG196800 Rh6CG195700 Rh6CG195800 Rh6DG187800 Rh6DG188000
rosa_wichuraiana	Rw0G002530 Rw5G042380

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	310
AccI	GTMKAC	2 cut(s)	117, 201
AccII	CGCG	1 cut(s)	198
AciI	CCGC	1 cut(s)	327
AclI	AACGTT	1 cut(s)	289
AclWI	GGATC	2 cut(s)	293, 306
AcuI	CTGAAG	1 cut(s)	227
AcyI	GRCGYC	1 cut(s)	307
AfaI	GTAC	1 cut(s)	8
AflIII	ACRYGT	1 cut(s)	196
AluBI	AGCT	2 cut(s)	124, 332
AluI	AGCT	2 cut(s)	124, 332
Alw21I	GWGCWC	1 cut(s)	231
AlwI	GGATC	2 cut(s)	293, 306
AoxI	GGCC	1 cut(s)	253
ApeKI	GCWGC	1 cut(s)	143
AspS9I	GGNCC	1 cut(s)	137
AsuC2I	CCSGG	1 cut(s)	104
AsuHPI	GGTGA	2 cut(s)	202, 268
AsuNHI	GCTAGC	1 cut(s)	25
AvaII	GGWCC	1 cut(s)	137
BamHI	GGATCC	1 cut(s)	298
Bbv12I	GWGCWC	1 cut(s)	231
BbvI	GCAGC	1 cut(s)	155
BccI	CCATC	2 cut(s)	71, 146
BcnI	CCSGG	1 cut(s)	104
BfaI	CTAG	2 cut(s)	26, 35
BfmI	CTRYAG	1 cut(s)	42
BisI	GCNGC	1 cut(s)	144
BlsI	GCNGC	1 cut(s)	145
Bme1390I	CCNGG	1 cut(s)	104
Bme18I	GGWCC	1 cut(s)	137
BmgT120I	GGNCC	1 cut(s)	137
BmiI	GGNNCC	1 cut(s)	300
BmrFI	CCNGG	1 cut(s)	104
BmsI	GCATC	1 cut(s)	168
BmtI	GCTAGC	1 cut(s)	29
BpuMI	CCSGG	1 cut(s)	104
BsaHI	GRCGYC	1 cut(s)	307
BsaJI	CCNNGG	1 cut(s)	312
BsaXI	ACNNNNNCTCC	2 cut(s)	154, 184
Bse3DI	GCAATG	1 cut(s)	36
BseDI	CCNNGG	1 cut(s)	312
BseMI	GCAATG	1 cut(s)	36
BseXI	GCAGC	1 cut(s)	155
BseYI	CCCAGC	2 cut(s)	83, 262
Bsh1236I	CGCG	1 cut(s)	198
BshFI	GGCC	1 cut(s)	255
BsiHKAI	GWGCWC	1 cut(s)	231
BsiSI	CCGG	1 cut(s)	104
BslFI	GGGAC	1 cut(s)	294
BsmFI	GGGAC	1 cut(s)	294
BsnI	GGCC	1 cut(s)	255
Bsp1286I	GDGCHC	1 cut(s)	231
Bsp143I	GATC	1 cut(s)	298
BspACI	CCGC	1 cut(s)	327
BspANI	GGCC	1 cut(s)	255
BspFNI	CGCG	1 cut(s)	198
BspLI	GGNNCC	1 cut(s)	300
BspOI	GCTAGC	1 cut(s)	29
BspPI	GGATC	2 cut(s)	293, 306
BsrDI	GCAATG	1 cut(s)	36
BssECI	CCNNGG	1 cut(s)	312
BssMI	GATC	1 cut(s)	298
BssNAI	GTATAC	1 cut(s)	118
BssNI	GRCGYC	1 cut(s)	307
BssT1I	CCWWGG	1 cut(s)	312
Bst1107I	GTATAC	1 cut(s)	118
Bst4CI	ACNGT	3 cut(s)	43, 166, 340
BstACI	GRCGYC	1 cut(s)	307
BstC8I	GCNNGC	2 cut(s)	27, 126
BstFNI	CGCG	1 cut(s)	198
BstKTI	GATC	1 cut(s)	301
BstMBI	GATC	1 cut(s)	298
BstMWI	GCNNNNNNNGC	1 cut(s)	31
BstSCI	CCNGG	1 cut(s)	102
BstSFI	CTRYAG	1 cut(s)	42
BstUI	CGCG	1 cut(s)	198
BstV1I	GCAGC	1 cut(s)	155
BstX2I	RGATCY	1 cut(s)	298
BstYI	RGATCY	1 cut(s)	298
BstZ17I	GTATAC	1 cut(s)	118
BsuRI	GGCC	1 cut(s)	255
BtsIMutI	CAGTG	1 cut(s)	345
Cac8I	GCNNGC	2 cut(s)	27, 126
Cfr13I	GGNCC	1 cut(s)	137
CseI	GACGC	1 cut(s)	187
Csp6I	GTAC	1 cut(s)	7
CviAII	CATG	2 cut(s)	22, 132
CviJI	RGCY	4 cut(s)	83, 124, 255, 332
CviKI_1	RGCY	4 cut(s)	83, 124, 255, 332
CviQI	GTAC	1 cut(s)	7
DpnI	GATC	1 cut(s)	300
DpnII	GATC	1 cut(s)	298
Eco130I	CCWWGG	1 cut(s)	312
Eco47I	GGWCC	1 cut(s)	137
Eco57I	CTGAAG	1 cut(s)	227
EcoT14I	CCWWGG	1 cut(s)	312
ErhI	CCWWGG	1 cut(s)	312
FaeI	CATG	2 cut(s)	25, 135
FaiI	YATR	5 cut(s)	23, 118, 133, 281, 336
FaqI	GGGAC	1 cut(s)	294
FatI	CATG	2 cut(s)	21, 131
FblI	GTMKAC	2 cut(s)	117, 201
Fnu4HI	GCNGC	1 cut(s)	144
Fsp4HI	GCNGC	1 cut(s)	144
FspBI	CTAG	2 cut(s)	26, 35
GluI	GCNGC	1 cut(s)	144
GsaI	CCCAGC	2 cut(s)	87, 266
HaeIII	GGCC	1 cut(s)	255
HapII	CCGG	1 cut(s)	104
HgaI	GACGC	1 cut(s)	187
Hin1I	GRCGYC	1 cut(s)	307
Hin1II	CATG	2 cut(s)	25, 135
HincII	GTYRAC	1 cut(s)	202
HindII	GTYRAC	1 cut(s)	202
HindIII	AAGCTT	1 cut(s)	122
HinfI	GANTC	1 cut(s)	247
HpaII	CCGG	1 cut(s)	104
HphI	GGTGA	2 cut(s)	202, 268
Hpy166II	GTNNAC	3 cut(s)	118, 137, 202
Hpy188I	TCNGA	1 cut(s)	246
Hpy8I	GTNNAC	3 cut(s)	118, 137, 202
Hpy99I	CGWCG	1 cut(s)	203
HpyCH4III	ACNGT	3 cut(s)	43, 166, 340
HpyCH4IV	ACGT	2 cut(s)	289, 307
HpyF10VI	GCNNNNNNNGC	1 cut(s)	31
HpySE526I	ACGT	2 cut(s)	289, 307
Hsp92I	GRCGYC	1 cut(s)	307
Hsp92II	CATG	2 cut(s)	25, 135
Kzo9I	GATC	1 cut(s)	298
LmnI	GCTCC	2 cut(s)	156, 329
LpnPI	CCDG	5 cut(s)	69, 117, 153, 276, 316
Lsp1109I	GCAGC	1 cut(s)	155
LweI	GCATC	1 cut(s)	168
MaeI	CTAG	2 cut(s)	26, 35
MaeII	ACGT	2 cut(s)	289, 307
MaeIII	GTNAC	3 cut(s)	37, 274, 317
MalI	GATC	1 cut(s)	300
MboI	GATC	1 cut(s)	298
MflI	RGATCY	1 cut(s)	298
MhlI	GDGCHC	1 cut(s)	231
MluI	ACGCGT	1 cut(s)	196
MlyI	GAGTC	1 cut(s)	256
MnlI	CCTC	3 cut(s)	20, 100, 266
MspI	CCGG	1 cut(s)	104
MspR9I	CCNGG	1 cut(s)	104
MvnI	CGCG	1 cut(s)	198
MwoI	GCNNNNNNNGC	1 cut(s)	31
NciI	CCSGG	1 cut(s)	104
NdeII	GATC	1 cut(s)	298
NheI	GCTAGC	1 cut(s)	25
NlaIII	CATG	2 cut(s)	25, 135
NlaIV	GGNNCC	1 cut(s)	300
NmuCI	GTSAC	1 cut(s)	274
PkrI	GCNGC	1 cut(s)	145
PleI	GAGTC	1 cut(s)	255
PpsI	GAGTC	1 cut(s)	255
Psp1406I	AACGTT	1 cut(s)	289
PspFI	CCCAGC	2 cut(s)	83, 262
PspN4I	GGNNCC	1 cut(s)	300
PspPI	GGNCC	1 cut(s)	137
PsuI	RGATCY	1 cut(s)	298
RsaI	GTAC	1 cut(s)	8
RsaNI	GTAC	1 cut(s)	7
SalI	GTCGAC	1 cut(s)	200
SatI	GCNGC	1 cut(s)	144
Sau3AI	GATC	1 cut(s)	298
Sau96I	GGNCC	1 cut(s)	137
SchI	GAGTC	1 cut(s)	256
ScrFI	CCNGG	1 cut(s)	104
SduI	GDGCHC	1 cut(s)	231
SetI	ASST	7 cut(s)	12, 111, 126, 286, 292, 310, 334
SfaNI	GCATC	1 cut(s)	168
SfcI	CTRYAG	1 cut(s)	42
SinI	GGWCC	1 cut(s)	137
SsiI	CCGC	1 cut(s)	327
SspMI	CTAG	2 cut(s)	26, 35
StyD4I	CCNGG	1 cut(s)	102
StyI	CCWWGG	1 cut(s)	312
TaaI	ACNGT	3 cut(s)	43, 166, 340
TaiI	ACGT	2 cut(s)	292, 310
TaqI	TCGA	1 cut(s)	201
TscAI	CASTG	1 cut(s)	345
TseFI	GTSAC	1 cut(s)	274
TseI	GCWGC	1 cut(s)	143
Tsp45I	GTSAC	1 cut(s)	274
TspDTI	ATGAA	2 cut(s)	17, 120
TspRI	CASTG	1 cut(s)	345
VpaK11BI	GGWCC	1 cut(s)	137
XmiI	GTMKAC	2 cut(s)	117, 201
XspI	CTAG	2 cut(s)	26, 35
ZraI	GACGTC	1 cut(s)	308

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