Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0010389

Physical Location & Seq

Genomic Coordinates Reverse (-)

287335 .. 288662

Gene Structure 1328 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG001200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 555 bp

ATGGCCGCGTTGGGGTTTGAGAACTACAACTCAGCCGTGAGATCAGAGAGGTCAGTAGTAGTAGTTGTACTGGTGTTAATGTTAACAACAACAACAACAGTTAAAGTAGTCGACGGAGGAGCGGTCGACGCATGTGCGCAGCAGCTAGCAGGGATGGCCACGTGTCTGCCTTACGTTGAGGGTGAAGCCATGGCTCCAACACCGGACTGTTGCAGTGGTCTGAAACAAGTCCTGAACACAAATAAAACGTGCCTCTGCGTTATCATTCAAGATCGCAACGACCCTGATTTGGGCCTAAAGATCAATGTCACTCTTGCTTTGGGCCTGCCTTCCGTCTGCCACGTCGCCGCCAATATCTCCAAGTGTCCCGAACTTCTACACTTGGATCCCAAATCACCAGAAGCTCAAGTGTTCTATCAGTTACAGAACAACTCTACGCAAACCGCCGCCAATGGTCCTGCTCCAGGTCCAAGTAGTATGTACAATAAATATGTCATTGAGATTGCAGATAATTTGGGGCTGTGCCCAAGGTTGAAAGTGATCGTTATTCGTTAA

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

184

Amino Acids

19.53

Weight (kDa)

5.62

Isoelectric Point (pI)

44.54

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	32 - 122	6.1e-16	Probable lipid transfer
Tryp_alpha_amyl	PF00234	45 - 119	4.5e-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

Font Size (px)

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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
AccBSI	CCGCTC	1 cut(s)	122
AccI	GTMKAC	2 cut(s)	111, 126
AccII	CGCG	1 cut(s)	8
AciI	CCGC	5 cut(s)	6, 122, 348, 444, 447
AclWI	GGATC	2 cut(s)	380, 393
AcoI	YGGCCR	2 cut(s)	3, 156
AcvI	CACGTG	1 cut(s)	162
AfaI	GTAC	2 cut(s)	69, 482
AfiI	CCNNNNNNNGG	4 cut(s)	12, 289, 290, 464
AflIII	ACRYGT	1 cut(s)	161
AgsI	TTSAA	2 cut(s)	269, 535
AjiI	CACGTC	1 cut(s)	343
AjnI	CCWGG	1 cut(s)	463
AluBI	AGCT	2 cut(s)	145, 404
AluI	AGCT	2 cut(s)	145, 404
AlwI	GGATC	2 cut(s)	380, 393
AoxI	GGCC	4 cut(s)	3, 156, 292, 322
ApeKI	GCWGC	2 cut(s)	139, 142
AspLEI	GCGC	1 cut(s)	139
AspS9I	GGNCC	4 cut(s)	292, 322, 455, 467
AsuHPI	GGTGA	2 cut(s)	194, 387
AsuNHI	GCTAGC	1 cut(s)	145
AvaII	GGWCC	2 cut(s)	455, 467
BaeGI	GKGCMC	1 cut(s)	527
BalI	TGGCCA	1 cut(s)	158
BamHI	GGATCC	1 cut(s)	385
BbrPI	CACGTG	1 cut(s)	162
BbvI	GCAGC	2 cut(s)	151, 154
BccI	CCATC	1 cut(s)	148
BceAI	ACGGC	1 cut(s)	20
BcgI	CGANNNNNNTGC	2 cut(s)	116, 150
BciT130I	CCWGG	1 cut(s)	465
BfaI	CTAG	1 cut(s)	146
BisI	GCNGC	5 cut(s)	6, 140, 143, 348, 447
BlsI	GCNGC	5 cut(s)	7, 141, 144, 349, 448
Bme1390I	CCNGG	1 cut(s)	465
Bme18I	GGWCC	2 cut(s)	455, 467
BmgBI	CACGTC	1 cut(s)	343
BmgT120I	GGNCC	4 cut(s)	292, 322, 455, 467
BmiI	GGNNCC	2 cut(s)	195, 387
BmrFI	CCNGG	1 cut(s)	465
BmtI	GCTAGC	1 cut(s)	149
BpmI	CTGGAG	1 cut(s)	447
BpuEI	CTTGAG	1 cut(s)	390
BsaAI	YACGTR	1 cut(s)	162
BsaJI	CCNNGG	2 cut(s)	189, 527
BsaWI	WCCGGW	1 cut(s)	202
BsaXI	ACNNNNNCTCC	2 cut(s)	108, 138
Bsc4I	CCNNNNNNNGG	4 cut(s)	12, 289, 290, 464
Bse1I	ACTGG	1 cut(s)	75
BseBI	CCWGG	1 cut(s)	465
BseDI	CCNNGG	2 cut(s)	189, 527
BseGI	GGATG	1 cut(s)	159
BseLI	CCNNNNNNNGG	4 cut(s)	12, 289, 290, 464
BseMII	CTCAG	1 cut(s)	45
BseNI	ACTGG	1 cut(s)	75
BseRI	GAGGAG	1 cut(s)	132
BseSI	GKGCMC	1 cut(s)	527
BseXI	GCAGC	2 cut(s)	151, 154
Bsh1236I	CGCG	1 cut(s)	8
Bsh1285I	CGRYCG	1 cut(s)	126
BshFI	GGCC	4 cut(s)	5, 158, 294, 324
BsiEI	CGRYCG	1 cut(s)	126
BsiSI	CCGG	1 cut(s)	203
BslFI	GGGAC	1 cut(s)	351
BslI	CCNNNNNNNGG	4 cut(s)	12, 289, 290, 464
BsmFI	GGGAC	1 cut(s)	351
BsnI	GGCC	4 cut(s)	5, 158, 294, 324
Bsp1286I	GDGCHC	1 cut(s)	527
Bsp1407I	TGTACA	1 cut(s)	480
Bsp143I	GATC	5 cut(s)	41, 271, 300, 385, 540
Bsp19I	CCATGG	1 cut(s)	189
BspACI	CCGC	5 cut(s)	6, 122, 348, 444, 447
BspANI	GGCC	4 cut(s)	5, 158, 294, 324
BspCNI	CTCAG	1 cut(s)	44
BspFNI	CGCG	1 cut(s)	8
BspLI	GGNNCC	2 cut(s)	195, 387
BspOI	GCTAGC	1 cut(s)	149
BspPI	GGATC	2 cut(s)	380, 393
BsrBI	CCGCTC	1 cut(s)	122
BsrGI	TGTACA	1 cut(s)	480
BsrI	ACTGG	1 cut(s)	75
BssECI	CCNNGG	2 cut(s)	189, 527
BssMI	GATC	5 cut(s)	41, 271, 300, 385, 540
BssT1I	CCWWGG	2 cut(s)	189, 527
Bst2UI	CCWGG	1 cut(s)	465
Bst4CI	ACNGT	2 cut(s)	100, 209
BstAUI	TGTACA	1 cut(s)	480
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
BstENI	CCTNNNNNAGG	1 cut(s)	462
BstF5I	GGATG	1 cut(s)	159
BstFNI	CGCG	1 cut(s)	8
BstHHI	GCGC	1 cut(s)	139
BstKTI	GATC	5 cut(s)	44, 274, 303, 388, 543
BstMBI	GATC	5 cut(s)	41, 271, 300, 385, 540
BstMCI	CGRYCG	1 cut(s)	126
BstMWI	GCNNNNNNNGC	2 cut(s)	128, 155
BstNI	CCWGG	1 cut(s)	465
BstNSI	RCATGY	1 cut(s)	135
BstSCI	CCNGG	1 cut(s)	463
BstSLI	GKGCMC	1 cut(s)	527
BstUI	CGCG	1 cut(s)	8
BstV1I	GCAGC	2 cut(s)	151, 154
BstX2I	RGATCY	1 cut(s)	385
BstYI	RGATCY	1 cut(s)	385
BsuRI	GGCC	4 cut(s)	5, 158, 294, 324
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	4 cut(s)	292, 322, 455, 467
CseI	GACGC	1 cut(s)	137
Csp6I	GTAC	2 cut(s)	68, 481
CviAII	CATG	2 cut(s)	132, 190
CviQI	GTAC	2 cut(s)	68, 481
DdeI	CTNAG	1 cut(s)	31
DpnI	GATC	5 cut(s)	43, 273, 302, 387, 542
DpnII	GATC	5 cut(s)	41, 271, 300, 385, 540
EaeI	YGGCCR	2 cut(s)	3, 156
Eco130I	CCWWGG	2 cut(s)	189, 527
Eco47I	GGWCC	2 cut(s)	455, 467
Eco72I	CACGTG	1 cut(s)	162
EcoNI	CCTNNNNNAGG	1 cut(s)	462
EcoRII	CCWGG	1 cut(s)	463
EcoT14I	CCWWGG	2 cut(s)	189, 527
ErhI	CCWWGG	2 cut(s)	189, 527
FaeI	CATG	2 cut(s)	135, 193
FaiI	YATR	4 cut(s)	133, 191, 479, 492
FaqI	GGGAC	1 cut(s)	351
FatI	CATG	2 cut(s)	131, 189
FblI	GTMKAC	2 cut(s)	111, 126
Fnu4HI	GCNGC	5 cut(s)	6, 140, 143, 348, 447
FokI	GGATG	1 cut(s)	166
Fsp4HI	GCNGC	5 cut(s)	6, 140, 143, 348, 447
FspBI	CTAG	1 cut(s)	146
FspI	TGCGCA	1 cut(s)	138
GlaI	GCGC	1 cut(s)	138
GluI	GCNGC	5 cut(s)	6, 140, 143, 348, 447
GsuI	CTGGAG	1 cut(s)	447
HaeIII	GGCC	4 cut(s)	5, 158, 294, 324
HapII	CCGG	1 cut(s)	203
HgaI	GACGC	1 cut(s)	137
HhaI	GCGC	1 cut(s)	139
Hin1II	CATG	2 cut(s)	135, 193
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	1 cut(s)	203
HphI	GGTGA	2 cut(s)	194, 387
Hpy166II	GTNNAC	3 cut(s)	84, 112, 127
Hpy188I	TCNGA	2 cut(s)	46, 222
Hpy188III	TCNNGA	3 cut(s)	232, 269, 368
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	2 cut(s)	213, 506
HpyF10VI	GCNNNNNNNGC	2 cut(s)	128, 155
HpyF3I	CTNAG	1 cut(s)	31
HpySE526I	ACGT	4 cut(s)	161, 174, 248, 342
Hsp92II	CATG	2 cut(s)	135, 193
HspAI	GCGC	1 cut(s)	137
KspAI	GTTAAC	1 cut(s)	84
Kzo9I	GATC	5 cut(s)	41, 271, 300, 385, 540
LmnI	GCTCC	3 cut(s)	119, 199, 466
Lsp1109I	GCAGC	2 cut(s)	151, 154
MaeI	CTAG	1 cut(s)	146
MaeII	ACGT	4 cut(s)	161, 174, 248, 342
MaeIII	GTNAC	2 cut(s)	307, 420
MalI	GATC	5 cut(s)	43, 273, 302, 387, 542
MbiI	CCGCTC	1 cut(s)	122
MboI	GATC	5 cut(s)	41, 271, 300, 385, 540
MflI	RGATCY	1 cut(s)	385
MhlI	GDGCHC	1 cut(s)	527
MlsI	TGGCCA	1 cut(s)	158
MluCI	AATT	1 cut(s)	511
MluNI	TGGCCA	1 cut(s)	158
MmeI	TCCRAC	1 cut(s)	221
MnlI	CCTC	4 cut(s)	42, 110, 172, 263
Mox20I	TGGCCA	1 cut(s)	158
MscI	TGGCCA	1 cut(s)	158
MseI	TTAA	4 cut(s)	77, 83, 102, 553
Msp20I	TGGCCA	1 cut(s)	158
MspI	CCGG	1 cut(s)	203
MspR9I	CCNGG	1 cut(s)	465
MvaI	CCWGG	1 cut(s)	465
MvnI	CGCG	1 cut(s)	8
MwoI	GCNNNNNNNGC	2 cut(s)	128, 155
NcoI	CCATGG	1 cut(s)	189
NdeII	GATC	5 cut(s)	41, 271, 300, 385, 540
NheI	GCTAGC	1 cut(s)	145
NlaIII	CATG	2 cut(s)	135, 193
NlaIV	GGNNCC	2 cut(s)	195, 387
NmuCI	GTSAC	1 cut(s)	307
NsbI	TGCGCA	1 cut(s)	138
NspI	RCATGY	1 cut(s)	135
PkrI	GCNGC	5 cut(s)	7, 141, 144, 349, 448
PmaCI	CACGTG	1 cut(s)	162
PmlI	CACGTG	1 cut(s)	162
Ppu21I	YACGTR	1 cut(s)	162
Psp6I	CCWGG	1 cut(s)	463
PspCI	CACGTG	1 cut(s)	162
PspGI	CCWGG	1 cut(s)	463
PspN4I	GGNNCC	2 cut(s)	195, 387
PspPI	GGNCC	4 cut(s)	292, 322, 455, 467
PsuI	RGATCY	1 cut(s)	385
RsaI	GTAC	2 cut(s)	69, 482
RsaNI	GTAC	2 cut(s)	68, 481
SalI	GTCGAC	2 cut(s)	110, 125
SaqAI	TTAA	4 cut(s)	77, 83, 102, 553
SatI	GCNGC	5 cut(s)	6, 140, 143, 348, 447
Sau3AI	GATC	5 cut(s)	41, 271, 300, 385, 540
Sau96I	GGNCC	4 cut(s)	292, 322, 455, 467
ScrFI	CCNGG	1 cut(s)	465
SduI	GDGCHC	1 cut(s)	527
SetI	ASST	9 cut(s)	53, 147, 164, 177, 251, 345, 406, 469, 533
SinI	GGWCC	2 cut(s)	455, 467
SmlI	CTYRAG	1 cut(s)	405
SmoI	CTYRAG	1 cut(s)	405
Sse9I	AATT	1 cut(s)	511
SsiI	CCGC	5 cut(s)	6, 122, 348, 444, 447
SspMI	CTAG	1 cut(s)	146
StyD4I	CCNGG	1 cut(s)	463
StyI	CCWWGG	2 cut(s)	189, 527
TaaI	ACNGT	2 cut(s)	100, 209
TaiI	ACGT	4 cut(s)	164, 177, 251, 345
TaqI	TCGA	2 cut(s)	111, 126
TasI	AATT	1 cut(s)	511
TatI	WGTACW	2 cut(s)	67, 480
TauI	GCSGC	3 cut(s)	8, 350, 449
Tru1I	TTAA	4 cut(s)	77, 83, 102, 553
Tru9I	TTAA	4 cut(s)	77, 83, 102, 553
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
VpaK11BI	GGWCC	2 cut(s)	455, 467
XagI	CCTNNNNNAGG	1 cut(s)	462
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.