Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0010389

Physical Location & Seq

Genomic Coordinates Reverse (-)

399533 .. 400385

Gene Structure 853 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG003400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 630 bp

ATGGCCGCGTTGGGGTTTGAGAACTACAACTCAGCCGTGAGATCACAGAGGTCAGTAGTAGTAGTTGTACTGGTGTTAATGTTAACAACAACAACAACAACAACAGTTAAAGTCGTCGACGGAGGAGCGGTCGACGAATGTGCGCCGCAGCTAGCAGGGATGGCCACGTGTCTGCCTTACGTTGGGGGTGAAGCCATGGCTCCAACACCGGACTGTTGCAGTGGTCTGAAACAAGTCCTGAACAAAAATAAAAGGTGCCTCTGCGTTATCATTCAAAATCGCAACGACCCTGGTTTGGGCCTGCAGATCAATGTCACTCTTGCTTTGGGCCTGCCTTCCGTCTGCCACGTCGCCGCCAATATCTCCAAGTGTCCCGAGCTTCTACACTTGGATCCCAAATCACCAGAAGCTCAAGTGTTCTATCAGTTACAGAACAACTCTACGCAAACCGCCGCCAATAGTCCTGCTCCGACTCCAAGTAGTACAGCAGCAGCTGGAGGTCCCGTGAGTGGCATAAGTTCTAACAGCGGGGCAGCTCGACAGAATGGCGGCTTGGTTTTGGTTGGATACTCCTGGGGCTTCACCTTCATGTTATATACAGTTTTTGCTCATGTTCATCTAGATGCTTGA

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

209

Amino Acids

21.71

Weight (kDa)

6.87

Isoelectric Point (pI)

46.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	38 - 124	6.7e-15	Probable lipid transfer
Tryp_alpha_amyl	PF00234	47 - 121	5.4e-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

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)
AccB1I	GGYRCC	1 cut(s)	255
AccBSI	CCGCTC	1 cut(s)	128
AccI	GTMKAC	2 cut(s)	117, 132
AccII	CGCG	1 cut(s)	8
AciI	CCGC	8 cut(s)	6, 128, 146, 354, 450, 453, 528, 549
AclWI	GGATC	2 cut(s)	386, 399
AcoI	YGGCCR	2 cut(s)	3, 162
AcvI	CACGTG	1 cut(s)	168
AfaI	GTAC	2 cut(s)	69, 484
AfiI	CCNNNNNNNGG	5 cut(s)	12, 182, 295, 296, 509
AflIII	ACRYGT	1 cut(s)	167
AgsI	TTSAA	1 cut(s)	275
AjiI	CACGTC	1 cut(s)	349
AjnI	CCWGG	2 cut(s)	289, 572
AjuI	GAANNNNNNNTTGG	2 cut(s)	536, 568
AluBI	AGCT	5 cut(s)	151, 379, 410, 494, 536
AluI	AGCT	5 cut(s)	151, 379, 410, 494, 536
AlwI	GGATC	2 cut(s)	386, 399
AlwNI	CAGNNNCTG	1 cut(s)	494
Ama87I	CYCGRG	1 cut(s)	374
AoxI	GGCC	4 cut(s)	3, 162, 298, 328
ApeKI	GCWGC	4 cut(s)	148, 488, 491, 533
AspLEI	GCGC	1 cut(s)	145
AspS9I	GGNCC	3 cut(s)	298, 328, 500
AsuHPI	GGTGA	3 cut(s)	200, 393, 574
AsuNHI	GCTAGC	1 cut(s)	151
AvaI	CYCGRG	1 cut(s)	374
AvaII	GGWCC	1 cut(s)	500
BalI	TGGCCA	1 cut(s)	164
BamHI	GGATCC	1 cut(s)	391
BanI	GGYRCC	1 cut(s)	255
BbrPI	CACGTG	1 cut(s)	168
BbvI	GCAGC	4 cut(s)	160, 500, 503, 545
BccI	CCATC	1 cut(s)	154
BceAI	ACGGC	1 cut(s)	20
BcgI	CGANNNNNNTGC	2 cut(s)	122, 156
BciT130I	CCWGG	2 cut(s)	291, 574
BciVI	GTATCC	1 cut(s)	560
BfaI	CTAG	2 cut(s)	152, 620
BfmI	CTRYAG	1 cut(s)	302
BfuI	GTATCC	1 cut(s)	560
BisI	GCNGC	9 cut(s)	6, 146, 149, 354, 453, 489, 492, 534, 550
BlsI	GCNGC	9 cut(s)	7, 147, 150, 355, 454, 490, 493, 535, 551
Bme1390I	CCNGG	2 cut(s)	291, 574
Bme18I	GGWCC	1 cut(s)	500
BmeT110I	CYCGRG	1 cut(s)	374
BmgBI	CACGTC	1 cut(s)	349
BmgT120I	GGNCC	3 cut(s)	298, 328, 500
BmiI	GGNNCC	4 cut(s)	201, 257, 393, 502
BmrFI	CCNGG	2 cut(s)	291, 574
BmsI	GCATC	1 cut(s)	613
BmtI	GCTAGC	1 cut(s)	155
BpmI	CTGGAG	1 cut(s)	516
BpuEI	CTTGAG	1 cut(s)	396
BsaAI	YACGTR	1 cut(s)	168
BsaJI	CCNNGG	3 cut(s)	195, 289, 573
BsaWI	WCCGGW	1 cut(s)	208
BsaXI	ACNNNNNCTCC	4 cut(s)	114, 144, 489, 519
Bsc4I	CCNNNNNNNGG	5 cut(s)	12, 182, 295, 296, 509
Bse1I	ACTGG	1 cut(s)	75
BseBI	CCWGG	2 cut(s)	291, 574
BseDI	CCNNGG	3 cut(s)	195, 289, 573
BseGI	GGATG	1 cut(s)	165
BseLI	CCNNNNNNNGG	5 cut(s)	12, 182, 295, 296, 509
BseMII	CTCAG	1 cut(s)	45
BseNI	ACTGG	1 cut(s)	75
BseRI	GAGGAG	1 cut(s)	138
BseXI	GCAGC	4 cut(s)	160, 500, 503, 545
Bsh1236I	CGCG	1 cut(s)	8
Bsh1285I	CGRYCG	1 cut(s)	132
BshFI	GGCC	4 cut(s)	5, 164, 300, 330
BshNI	GGYRCC	1 cut(s)	255
BsiEI	CGRYCG	1 cut(s)	132
BsiHKCI	CYCGRG	1 cut(s)	374
BsiSI	CCGG	1 cut(s)	209
BslFI	GGGAC	2 cut(s)	357, 486
BslI	CCNNNNNNNGG	5 cut(s)	12, 182, 295, 296, 509
BsmFI	GGGAC	2 cut(s)	357, 486
BsnI	GGCC	4 cut(s)	5, 164, 300, 330
BsoBI	CYCGRG	1 cut(s)	374
Bsp143I	GATC	3 cut(s)	41, 306, 391
Bsp19I	CCATGG	1 cut(s)	195
BspACI	CCGC	8 cut(s)	6, 128, 146, 354, 450, 453, 528, 549
BspANI	GGCC	4 cut(s)	5, 164, 300, 330
BspCNI	CTCAG	1 cut(s)	44
BspFNI	CGCG	1 cut(s)	8
BspLI	GGNNCC	4 cut(s)	201, 257, 393, 502
BspMAI	CTGCAG	1 cut(s)	306
BspOI	GCTAGC	1 cut(s)	155
BspPI	GGATC	2 cut(s)	386, 399
BspT107I	GGYRCC	1 cut(s)	255
BsrBI	CCGCTC	1 cut(s)	128
BsrI	ACTGG	1 cut(s)	75
BssECI	CCNNGG	3 cut(s)	195, 289, 573
BssMI	GATC	3 cut(s)	41, 306, 391
BssT1I	CCWWGG	1 cut(s)	195
Bst2UI	CCWGG	2 cut(s)	291, 574
Bst4CI	ACNGT	3 cut(s)	106, 215, 601
BstBAI	YACGTR	1 cut(s)	168
BstC8I	GCNNGC	3 cut(s)	153, 302, 332
BstDEI	CTNAG	1 cut(s)	31
BstDSI	CCRYGG	1 cut(s)	195
BstF5I	GGATG	1 cut(s)	165
BstFNI	CGCG	1 cut(s)	8
BstHHI	GCGC	1 cut(s)	145
BstKTI	GATC	3 cut(s)	44, 309, 394
BstMBI	GATC	3 cut(s)	41, 306, 391
BstMCI	CGRYCG	1 cut(s)	132
BstMWI	GCNNNNNNNGC	1 cut(s)	161
BstNI	CCWGG	2 cut(s)	291, 574
BstSCI	CCNGG	2 cut(s)	289, 572
BstSFI	CTRYAG	1 cut(s)	302
BstUI	CGCG	1 cut(s)	8
BstV1I	GCAGC	4 cut(s)	160, 500, 503, 545
BstX2I	RGATCY	1 cut(s)	391
BstYI	RGATCY	1 cut(s)	391
BsuI	GTATCC	1 cut(s)	560
BsuRI	GGCC	4 cut(s)	5, 164, 300, 330
BtgI	CCRYGG	1 cut(s)	195
BtrI	CACGTC	1 cut(s)	349
BtsCI	GGATG	1 cut(s)	165
BtsI	GCAGTG	1 cut(s)	226
BtsIMutI	CAGTG	1 cut(s)	226
Cac8I	GCNNGC	3 cut(s)	153, 302, 332
CaiI	CAGNNNCTG	1 cut(s)	494
CfoI	GCGC	1 cut(s)	145
Cfr13I	GGNCC	3 cut(s)	298, 328, 500
Csp6I	GTAC	2 cut(s)	68, 483
CviAII	CATG	3 cut(s)	196, 589, 611
CviQI	GTAC	2 cut(s)	68, 483
DdeI	CTNAG	1 cut(s)	31
DpnI	GATC	3 cut(s)	43, 308, 393
DpnII	GATC	3 cut(s)	41, 306, 391
EaeI	YGGCCR	2 cut(s)	3, 162
Eco130I	CCWWGG	1 cut(s)	195
Eco47I	GGWCC	1 cut(s)	500
Eco72I	CACGTG	1 cut(s)	168
Eco88I	CYCGRG	1 cut(s)	374
EcoO109I	RGGNCCY	1 cut(s)	500
EcoRII	CCWGG	2 cut(s)	289, 572
EcoT14I	CCWWGG	1 cut(s)	195
ErhI	CCWWGG	1 cut(s)	195
FaeI	CATG	3 cut(s)	199, 592, 614
FaiI	YATR	6 cut(s)	197, 515, 590, 595, 597, 612
FaqI	GGGAC	2 cut(s)	357, 486
FatI	CATG	3 cut(s)	195, 588, 610
FauI	CCCGC	1 cut(s)	521
FblI	GTMKAC	2 cut(s)	117, 132
Fnu4HI	GCNGC	9 cut(s)	6, 146, 149, 354, 453, 489, 492, 534, 550
FokI	GGATG	1 cut(s)	172
Fsp4HI	GCNGC	9 cut(s)	6, 146, 149, 354, 453, 489, 492, 534, 550
FspBI	CTAG	2 cut(s)	152, 620
GlaI	GCGC	1 cut(s)	144
GluI	GCNGC	9 cut(s)	6, 146, 149, 354, 453, 489, 492, 534, 550
GsuI	CTGGAG	1 cut(s)	516
HaeIII	GGCC	4 cut(s)	5, 164, 300, 330
HapII	CCGG	1 cut(s)	209
HhaI	GCGC	1 cut(s)	145
Hin1II	CATG	3 cut(s)	199, 592, 614
Hin6I	GCGC	1 cut(s)	143
HinP1I	GCGC	1 cut(s)	143
HincII	GTYRAC	3 cut(s)	84, 118, 133
HindII	GTYRAC	3 cut(s)	84, 118, 133
HinfI	GANTC	1 cut(s)	472
HpaI	GTTAAC	1 cut(s)	84
HpaII	CCGG	1 cut(s)	209
HphI	GGTGA	3 cut(s)	200, 393, 574
Hpy166II	GTNNAC	3 cut(s)	84, 118, 133
Hpy188I	TCNGA	2 cut(s)	228, 471
Hpy188III	TCNNGA	3 cut(s)	238, 374, 620
Hpy8I	GTNNAC	3 cut(s)	84, 118, 133
Hpy99I	CGWCG	4 cut(s)	119, 122, 137, 353
HpyAV	CCTTC	2 cut(s)	345, 595
HpyCH4III	ACNGT	3 cut(s)	106, 215, 601
HpyCH4IV	ACGT	3 cut(s)	167, 180, 348
HpyCH4V	TGCA	2 cut(s)	219, 304
HpyF10VI	GCNNNNNNNGC	1 cut(s)	161
HpyF3I	CTNAG	1 cut(s)	31
HpySE526I	ACGT	3 cut(s)	167, 180, 348
Hsp92II	CATG	3 cut(s)	199, 592, 614
HspAI	GCGC	1 cut(s)	143
KspAI	GTTAAC	1 cut(s)	84
Kzo9I	GATC	3 cut(s)	41, 306, 391
LmnI	GCTCC	3 cut(s)	125, 205, 472
Lsp1109I	GCAGC	4 cut(s)	160, 500, 503, 545
LweI	GCATC	1 cut(s)	613
MaeI	CTAG	2 cut(s)	152, 620
MaeII	ACGT	3 cut(s)	167, 180, 348
MaeIII	GTNAC	2 cut(s)	313, 426
MalI	GATC	3 cut(s)	43, 308, 393
MbiI	CCGCTC	1 cut(s)	128
MboI	GATC	3 cut(s)	41, 306, 391
MflI	RGATCY	1 cut(s)	391
MlsI	TGGCCA	1 cut(s)	164
MluNI	TGGCCA	1 cut(s)	164
MlyI	GAGTC	1 cut(s)	466
MmeI	TCCRAC	3 cut(s)	227, 494, 544
MnlI	CCTC	4 cut(s)	42, 116, 269, 491
Mox20I	TGGCCA	1 cut(s)	164
MscI	TGGCCA	1 cut(s)	164
MseI	TTAA	3 cut(s)	77, 83, 108
MslI	CAYNNNNRTG	2 cut(s)	587, 621
Msp20I	TGGCCA	1 cut(s)	164
MspA1I	CMGCKG	2 cut(s)	494, 528
MspI	CCGG	1 cut(s)	209
MspR9I	CCNGG	2 cut(s)	291, 574
MvaI	CCWGG	2 cut(s)	291, 574
MvnI	CGCG	1 cut(s)	8
MwoI	GCNNNNNNNGC	1 cut(s)	161
NcoI	CCATGG	1 cut(s)	195
NdeII	GATC	3 cut(s)	41, 306, 391
NheI	GCTAGC	1 cut(s)	151
NlaIII	CATG	3 cut(s)	199, 592, 614
NlaIV	GGNNCC	4 cut(s)	201, 257, 393, 502
NmuCI	GTSAC	1 cut(s)	313
PkrI	GCNGC	9 cut(s)	7, 147, 150, 355, 454, 490, 493, 535, 551
PleI	GAGTC	1 cut(s)	466
PmaCI	CACGTG	1 cut(s)	168
PmlI	CACGTG	1 cut(s)	168
PpsI	GAGTC	1 cut(s)	466
Ppu21I	YACGTR	1 cut(s)	168
PpuMI	RGGWCCY	1 cut(s)	500
Psp5II	RGGWCCY	1 cut(s)	500
Psp6I	CCWGG	2 cut(s)	289, 572
PspCI	CACGTG	1 cut(s)	168
PspGI	CCWGG	2 cut(s)	289, 572
PspN4I	GGNNCC	4 cut(s)	201, 257, 393, 502
PspPI	GGNCC	3 cut(s)	298, 328, 500
PspPPI	RGGWCCY	1 cut(s)	500
PstI	CTGCAG	1 cut(s)	306
PstNI	CAGNNNCTG	1 cut(s)	494
PsuI	RGATCY	1 cut(s)	391
PvuII	CAGCTG	1 cut(s)	494
RsaI	GTAC	2 cut(s)	69, 484
RsaNI	GTAC	2 cut(s)	68, 483
RseI	CAYNNNNRTG	2 cut(s)	587, 621
SalI	GTCGAC	2 cut(s)	116, 131
SaqAI	TTAA	3 cut(s)	77, 83, 108
SatI	GCNGC	9 cut(s)	6, 146, 149, 354, 453, 489, 492, 534, 550
Sau3AI	GATC	3 cut(s)	41, 306, 391
Sau96I	GGNCC	3 cut(s)	298, 328, 500
SchI	GAGTC	1 cut(s)	466
ScrFI	CCNGG	2 cut(s)	291, 574
SfaNI	GCATC	1 cut(s)	613
SfcI	CTRYAG	1 cut(s)	302
SgrDI	CGTCGACG	1 cut(s)	116
SinI	GGWCC	1 cut(s)	500
SmiMI	CAYNNNNRTG	2 cut(s)	587, 621
SmlI	CTYRAG	1 cut(s)	411
SmoI	CTYRAG	1 cut(s)	411
SsiI	CCGC	8 cut(s)	6, 128, 146, 354, 450, 453, 528, 549
SspMI	CTAG	2 cut(s)	152, 620
StyD4I	CCNGG	2 cut(s)	289, 572
StyI	CCWWGG	1 cut(s)	195
TaaI	ACNGT	3 cut(s)	106, 215, 601
TaiI	ACGT	3 cut(s)	170, 183, 351
TaqI	TCGA	3 cut(s)	117, 132, 538
TatI	WGTACW	2 cut(s)	67, 482
TauI	GCSGC	5 cut(s)	8, 148, 356, 455, 552
Tru1I	TTAA	3 cut(s)	77, 83, 108
Tru9I	TTAA	3 cut(s)	77, 83, 108
TscAI	CASTG	1 cut(s)	226
TseFI	GTSAC	1 cut(s)	313
TseI	GCWGC	4 cut(s)	148, 488, 491, 533
Tsp45I	GTSAC	1 cut(s)	313
TspDTI	ATGAA	2 cut(s)	577, 605
TspGWI	ACGGA	2 cut(s)	135, 328
TspRI	CASTG	1 cut(s)	226
VpaK11BI	GGWCC	1 cut(s)	500
XbaI	TCTAGA	1 cut(s)	619
XmiI	GTMKAC	2 cut(s)	117, 132
XspI	CTAG	2 cut(s)	152, 620

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