Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0010389

Physical Location & Seq

Genomic Coordinates Reverse (-)

970272 .. 970688

Gene Structure 417 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG006000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 417 bp

ATGGCCGCGTTGGGGTTTGAGAACTACAACTCAGCCGTGAGATCAGAGAGGTCAGTAGTAGTAGTTGTACTGGTGTTAATGTTAACAACAACAACAACAGTTAAAGTAGTCGACGGAGGAGCGGTCGACGCATGTGCGCAGCAGCTAGCAGGGATGGCCACGTGTCTGCCTTACGTTGAGGGTGAAGCCATGGCTCCAACACCGGACTGTTGCAGTGGTCTGAAACAAGTCCTGAACACAAATAAAACGTGCCTCTGCGTTATCATTCAAGATCGCAACGACCCTGATTTGGGCCTAAAGATCAATGTCACTCTTGCTTTGGGCCTGCCTTCCGTCTGCCACGTCGCCGCCAATATCTCCAAGTGTCCCGGTAATGCCCATGCCCTGGCCTCCATCATGGATTTAGTGTGTGTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005623 GO:0005886 GO:0016020 GO:0031224 GO:0031225 GO:0044425 GO:0044464 GO:0071944

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LTP_2

Protein Analysis

138

Amino Acids

14.32

Weight (kDa)

5.13

Isoelectric Point (pI)

34.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	32 - 122	2.7e-16	Probable lipid transfer
Tryp_alpha_amyl	PF00234	45 - 119	2.2e-10	Protease inhibitor/seed storage/LTP family

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: OG0010389)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G44290 AT2G44300
fragaria_vesca	FvH4_7g00060 FvH4_7g00060
malus_domestica	MD02G1320100.v1.1 MD07G1000800.v1.1
prunus_persica	Prupe.2G001800_v2.0.a1 Prupe.2G001800_v2.0.a1
pyrus_communis	pycom07g00130
rosa_chinensis	RchiOBHm_Chr1g0313181
rosa_laevigata	RLG00000030818
rosa_multiflora	Rmu_co7999548.1_g000001 Rmu_sc0007670.1_g000006
rosa_roxburghii	Rroxscaffold_4G00332420
rosa_rugosa	RorugPtG0001100.1 RorugPtG0001200.1
rosa_samantha	Rh1AG001300 Rh1CG003400 Rh1CG006000 Rh1DG001200
rosa_wichuraiana	Rw1G000030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	138
AccB7I	CCANNNNNTGG	1 cut(s)	385
AccBSI	CCGCTC	1 cut(s)	122
AccI	GTMKAC	2 cut(s)	111, 126
AccII	CGCG	1 cut(s)	8
AciI	CCGC	3 cut(s)	6, 122, 348
AcoI	YGGCCR	2 cut(s)	3, 156
AcvI	CACGTG	1 cut(s)	162
AfaI	GTAC	1 cut(s)	69
AfiI	CCNNNNNNNGG	4 cut(s)	12, 289, 290, 385
AflIII	ACRYGT	1 cut(s)	161
AgsI	TTSAA	1 cut(s)	269
AjiI	CACGTC	1 cut(s)	343
AjnI	CCWGG	1 cut(s)	384
AluBI	AGCT	1 cut(s)	145
AluI	AGCT	1 cut(s)	145
AoxI	GGCC	5 cut(s)	3, 156, 292, 322, 387
ApeKI	GCWGC	2 cut(s)	139, 142
AspLEI	GCGC	1 cut(s)	139
AspS9I	GGNCC	2 cut(s)	292, 322
AsuC2I	CCSGG	1 cut(s)	369
AsuHPI	GGTGA	1 cut(s)	194
AsuNHI	GCTAGC	1 cut(s)	145
BalI	TGGCCA	1 cut(s)	158
BbrPI	CACGTG	1 cut(s)	162
BbvI	GCAGC	2 cut(s)	151, 154
BccI	CCATC	2 cut(s)	148, 401
BceAI	ACGGC	1 cut(s)	20
BcgI	CGANNNNNNTGC	2 cut(s)	116, 150
BciT130I	CCWGG	1 cut(s)	386
BcnI	CCSGG	1 cut(s)	369
BfaI	CTAG	1 cut(s)	146
BisI	GCNGC	4 cut(s)	6, 140, 143, 348
BlsI	GCNGC	4 cut(s)	7, 141, 144, 349
Bme1390I	CCNGG	2 cut(s)	369, 386
BmgBI	CACGTC	1 cut(s)	343
BmgT120I	GGNCC	2 cut(s)	292, 322
BmiI	GGNNCC	1 cut(s)	195
BmrFI	CCNGG	2 cut(s)	369, 386
BmtI	GCTAGC	1 cut(s)	149
BpuMI	CCSGG	1 cut(s)	369
BsaAI	YACGTR	1 cut(s)	162
BsaJI	CCNNGG	2 cut(s)	189, 384
BsaWI	WCCGGW	1 cut(s)	202
BsaXI	ACNNNNNCTCC	2 cut(s)	108, 138
Bsc4I	CCNNNNNNNGG	4 cut(s)	12, 289, 290, 385
Bse1I	ACTGG	1 cut(s)	75
BseBI	CCWGG	1 cut(s)	386
BseDI	CCNNGG	2 cut(s)	189, 384
BseGI	GGATG	1 cut(s)	159
BseLI	CCNNNNNNNGG	4 cut(s)	12, 289, 290, 385
BseMII	CTCAG	1 cut(s)	45
BseNI	ACTGG	1 cut(s)	75
BseRI	GAGGAG	1 cut(s)	132
BseXI	GCAGC	2 cut(s)	151, 154
Bsh1236I	CGCG	1 cut(s)	8
Bsh1285I	CGRYCG	1 cut(s)	126
BshFI	GGCC	5 cut(s)	5, 158, 294, 324, 389
BsiEI	CGRYCG	1 cut(s)	126
BsiSI	CCGG	2 cut(s)	203, 369
BslFI	GGGAC	1 cut(s)	351
BslI	CCNNNNNNNGG	4 cut(s)	12, 289, 290, 385
BsmFI	GGGAC	1 cut(s)	351
BsnI	GGCC	5 cut(s)	5, 158, 294, 324, 389
Bsp143I	GATC	3 cut(s)	41, 271, 300
Bsp19I	CCATGG	1 cut(s)	189
BspACI	CCGC	3 cut(s)	6, 122, 348
BspANI	GGCC	5 cut(s)	5, 158, 294, 324, 389
BspCNI	CTCAG	1 cut(s)	44
BspFNI	CGCG	1 cut(s)	8
BspLI	GGNNCC	1 cut(s)	195
BspOI	GCTAGC	1 cut(s)	149
BsrBI	CCGCTC	1 cut(s)	122
BsrI	ACTGG	1 cut(s)	75
BssECI	CCNNGG	2 cut(s)	189, 384
BssMI	GATC	3 cut(s)	41, 271, 300
BssT1I	CCWWGG	1 cut(s)	189
Bst2UI	CCWGG	1 cut(s)	386
Bst4CI	ACNGT	2 cut(s)	100, 209
BstBAI	YACGTR	1 cut(s)	162
BstC8I	GCNNGC	2 cut(s)	147, 326
BstDEI	CTNAG	1 cut(s)	31
BstDSI	CCRYGG	1 cut(s)	189
BstF5I	GGATG	1 cut(s)	159
BstFNI	CGCG	1 cut(s)	8
BstHHI	GCGC	1 cut(s)	139
BstKTI	GATC	3 cut(s)	44, 274, 303
BstMBI	GATC	3 cut(s)	41, 271, 300
BstMCI	CGRYCG	1 cut(s)	126
BstMWI	GCNNNNNNNGC	2 cut(s)	128, 155
BstNI	CCWGG	1 cut(s)	386
BstNSI	RCATGY	1 cut(s)	135
BstSCI	CCNGG	2 cut(s)	367, 384
BstUI	CGCG	1 cut(s)	8
BstV1I	GCAGC	2 cut(s)	151, 154
BsuRI	GGCC	5 cut(s)	5, 158, 294, 324, 389
BtgI	CCRYGG	1 cut(s)	189
BtrI	CACGTC	1 cut(s)	343
BtsCI	GGATG	1 cut(s)	159
BtsI	GCAGTG	1 cut(s)	220
BtsIMutI	CAGTG	1 cut(s)	220
Cac8I	GCNNGC	2 cut(s)	147, 326
CfoI	GCGC	1 cut(s)	139
Cfr13I	GGNCC	2 cut(s)	292, 322
CseI	GACGC	1 cut(s)	137
Csp6I	GTAC	1 cut(s)	68
CviAII	CATG	4 cut(s)	132, 190, 380, 397
CviJI	RGCY	9 cut(s)	5, 35, 145, 158, 188, 194, 294, 324, 389
CviKI_1	RGCY	9 cut(s)	5, 35, 145, 158, 188, 194, 294, 324, 389
CviQI	GTAC	1 cut(s)	68
DdeI	CTNAG	1 cut(s)	31
DpnI	GATC	3 cut(s)	43, 273, 302
DpnII	GATC	3 cut(s)	41, 271, 300
EaeI	YGGCCR	2 cut(s)	3, 156
Eco130I	CCWWGG	1 cut(s)	189
Eco72I	CACGTG	1 cut(s)	162
EcoRII	CCWGG	1 cut(s)	384
EcoT14I	CCWWGG	1 cut(s)	189
ErhI	CCWWGG	1 cut(s)	189
FaeI	CATG	4 cut(s)	135, 193, 383, 400
FaiI	YATR	4 cut(s)	133, 191, 381, 398
FaqI	GGGAC	1 cut(s)	351
FatI	CATG	4 cut(s)	131, 189, 379, 396
FblI	GTMKAC	2 cut(s)	111, 126
Fnu4HI	GCNGC	4 cut(s)	6, 140, 143, 348
FokI	GGATG	1 cut(s)	166
Fsp4HI	GCNGC	4 cut(s)	6, 140, 143, 348
FspBI	CTAG	1 cut(s)	146
FspI	TGCGCA	1 cut(s)	138
GlaI	GCGC	1 cut(s)	138
GluI	GCNGC	4 cut(s)	6, 140, 143, 348
HaeIII	GGCC	5 cut(s)	5, 158, 294, 324, 389
HapII	CCGG	2 cut(s)	203, 369
HgaI	GACGC	1 cut(s)	137
HhaI	GCGC	1 cut(s)	139
Hin1II	CATG	4 cut(s)	135, 193, 383, 400
Hin6I	GCGC	1 cut(s)	137
HinP1I	GCGC	1 cut(s)	137
HincII	GTYRAC	3 cut(s)	84, 112, 127
HindII	GTYRAC	3 cut(s)	84, 112, 127
HpaI	GTTAAC	1 cut(s)	84
HpaII	CCGG	2 cut(s)	203, 369
HphI	GGTGA	1 cut(s)	194
Hpy166II	GTNNAC	3 cut(s)	84, 112, 127
Hpy188I	TCNGA	3 cut(s)	46, 222, 416
Hpy188III	TCNNGA	2 cut(s)	232, 269
Hpy8I	GTNNAC	3 cut(s)	84, 112, 127
Hpy99I	CGWCG	3 cut(s)	116, 131, 347
HpyAV	CCTTC	1 cut(s)	339
HpyCH4III	ACNGT	2 cut(s)	100, 209
HpyCH4IV	ACGT	4 cut(s)	161, 174, 248, 342
HpyCH4V	TGCA	1 cut(s)	213
HpyF10VI	GCNNNNNNNGC	2 cut(s)	128, 155
HpyF3I	CTNAG	1 cut(s)	31
HpySE526I	ACGT	4 cut(s)	161, 174, 248, 342
Hsp92II	CATG	4 cut(s)	135, 193, 383, 400
HspAI	GCGC	1 cut(s)	137
KspAI	GTTAAC	1 cut(s)	84
Kzo9I	GATC	3 cut(s)	41, 271, 300
LmnI	GCTCC	2 cut(s)	119, 199
LpnPI	CCDG	9 cut(s)	56, 135, 216, 245, 297, 338, 371, 382, 398
Lsp1109I	GCAGC	2 cut(s)	151, 154
MaeI	CTAG	1 cut(s)	146
MaeII	ACGT	4 cut(s)	161, 174, 248, 342
MaeIII	GTNAC	1 cut(s)	307
MalI	GATC	3 cut(s)	43, 273, 302
MbiI	CCGCTC	1 cut(s)	122
MboI	GATC	3 cut(s)	41, 271, 300
MlsI	TGGCCA	1 cut(s)	158
MluNI	TGGCCA	1 cut(s)	158
MmeI	TCCRAC	1 cut(s)	221
MnlI	CCTC	5 cut(s)	42, 110, 172, 263, 400
Mox20I	TGGCCA	1 cut(s)	158
MscI	TGGCCA	1 cut(s)	158
MseI	TTAA	3 cut(s)	77, 83, 102
Msp20I	TGGCCA	1 cut(s)	158
MspI	CCGG	2 cut(s)	203, 369
MspR9I	CCNGG	2 cut(s)	369, 386
MvaI	CCWGG	1 cut(s)	386
MvnI	CGCG	1 cut(s)	8
MwoI	GCNNNNNNNGC	2 cut(s)	128, 155
NciI	CCSGG	1 cut(s)	369
NcoI	CCATGG	1 cut(s)	189
NdeII	GATC	3 cut(s)	41, 271, 300
NheI	GCTAGC	1 cut(s)	145
NlaIII	CATG	4 cut(s)	135, 193, 383, 400
NlaIV	GGNNCC	1 cut(s)	195
NmuCI	GTSAC	1 cut(s)	307
NsbI	TGCGCA	1 cut(s)	138
NspI	RCATGY	1 cut(s)	135
PflMI	CCANNNNNTGG	1 cut(s)	385
PkrI	GCNGC	4 cut(s)	7, 141, 144, 349
PmaCI	CACGTG	1 cut(s)	162
PmlI	CACGTG	1 cut(s)	162
Ppu21I	YACGTR	1 cut(s)	162
Psp6I	CCWGG	1 cut(s)	384
PspCI	CACGTG	1 cut(s)	162
PspGI	CCWGG	1 cut(s)	384
PspN4I	GGNNCC	1 cut(s)	195
PspPI	GGNCC	2 cut(s)	292, 322
RsaI	GTAC	1 cut(s)	69
RsaNI	GTAC	1 cut(s)	68
SalI	GTCGAC	2 cut(s)	110, 125
SaqAI	TTAA	3 cut(s)	77, 83, 102
SatI	GCNGC	4 cut(s)	6, 140, 143, 348
Sau3AI	GATC	3 cut(s)	41, 271, 300
Sau96I	GGNCC	2 cut(s)	292, 322
ScrFI	CCNGG	2 cut(s)	369, 386
SetI	ASST	6 cut(s)	53, 147, 164, 177, 251, 345
SsiI	CCGC	3 cut(s)	6, 122, 348
SspMI	CTAG	1 cut(s)	146
StyD4I	CCNGG	2 cut(s)	367, 384
StyI	CCWWGG	1 cut(s)	189
TaaI	ACNGT	2 cut(s)	100, 209
TaiI	ACGT	4 cut(s)	164, 177, 251, 345
TaqI	TCGA	2 cut(s)	111, 126
TatI	WGTACW	1 cut(s)	67
TauI	GCSGC	2 cut(s)	8, 350
Tru1I	TTAA	3 cut(s)	77, 83, 102
Tru9I	TTAA	3 cut(s)	77, 83, 102
TscAI	CASTG	1 cut(s)	220
TseFI	GTSAC	1 cut(s)	307
TseI	GCWGC	2 cut(s)	139, 142
Tsp45I	GTSAC	1 cut(s)	307
TspGWI	ACGGA	2 cut(s)	129, 322
TspRI	CASTG	1 cut(s)	220
Van91I	CCANNNNNTGG	1 cut(s)	385
XceI	RCATGY	1 cut(s)	135
XmiI	GTMKAC	2 cut(s)	111, 126
XspI	CTAG	1 cut(s)	146

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