Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0010389

Physical Location & Seq

Genomic Coordinates Reverse (-)

291514 .. 292839

Gene Structure 1326 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG001300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 522 bp

ATGGCCGCGTTGGGGTTTGAGAACTACAAAGCCGTGAGATCACAGAGGTCAGTAGTAGTAGTTGTACTGGTGTTAATGTTAACAACAACAACAACAGTTAAAGTAGTCGACGGAGGAGCGGTCGACGAATGTGCGCAGCAGCTAGCAGGGATGGCCACTTGTCTGCCTTACGTTCAGGGTGAAGCCATGGCTCCAACACCGGACTGTTGCAGTGGTCTGAAACAAGTCCTGAGCACAAATAAAACGTGCCTCTGCGTTATCATTCAAGATCGCAACGACCCTGATTTGGGCCTGCAGATCAATGTCACTCTTGCTTTGGGCCTGCCTTCCGTCTGCCACGTCGCCGCCAATATCTCCAAGTGTCCCGATCGGTGCATATGCAGAACTTCTACACTTGGATCCCAAATCACCAGAAGCTCAAGTGTTCTATCAGTTACAGAACAACTCTACGCAAACCGCCGCCAATGGTCCTGCTCCAGGTACAGCAGCAGCTGGAGGTCCCGTGAGTGGCATAAGTTCTAA

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

173

Amino Acids

18.85

Weight (kDa)

8.68

Isoelectric Point (pI)

56.8

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	30 - 121	3.5e-16	Probable lipid transfer
Tryp_alpha_amyl	PF00234	44 - 118	1.6e-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)
Acc16I	TGCGCA	1 cut(s)	135
AccBSI	CCGCTC	1 cut(s)	119
AccI	GTMKAC	2 cut(s)	108, 123
AccII	CGCG	1 cut(s)	8
AciI	CCGC	5 cut(s)	6, 119, 345, 457, 460
AclWI	GGATC	2 cut(s)	393, 406
AcoI	YGGCCR	2 cut(s)	3, 153
AfaI	GTAC	2 cut(s)	66, 482
AfiI	CCNNNNNNNGG	5 cut(s)	12, 286, 287, 477, 507
AgsI	TTSAA	1 cut(s)	266
AjiI	CACGTC	1 cut(s)	340
AjnI	CCWGG	1 cut(s)	476
AluBI	AGCT	3 cut(s)	142, 417, 492
AluI	AGCT	3 cut(s)	142, 417, 492
Alw21I	GWGCWC	1 cut(s)	236
AlwI	GGATC	2 cut(s)	393, 406
AlwNI	CAGNNNCTG	1 cut(s)	492
AoxI	GGCC	4 cut(s)	3, 153, 289, 319
ApeKI	GCWGC	4 cut(s)	136, 139, 486, 489
AspLEI	GCGC	1 cut(s)	136
AspS9I	GGNCC	4 cut(s)	289, 319, 468, 498
AsuHPI	GGTGA	2 cut(s)	191, 400
AsuNHI	GCTAGC	1 cut(s)	142
AvaII	GGWCC	2 cut(s)	468, 498
BalI	TGGCCA	1 cut(s)	155
BamHI	GGATCC	1 cut(s)	398
Bbv12I	GWGCWC	1 cut(s)	236
BbvI	GCAGC	4 cut(s)	148, 151, 498, 501
BccI	CCATC	1 cut(s)	145
BceAI	ACGGC	1 cut(s)	17
BcgI	CGANNNNNNTGC	2 cut(s)	113, 147
BciT130I	CCWGG	1 cut(s)	478
BfaI	CTAG	1 cut(s)	143
BfmI	CTRYAG	1 cut(s)	293
BisI	GCNGC	7 cut(s)	6, 137, 140, 345, 460, 487, 490
BlsI	GCNGC	7 cut(s)	7, 138, 141, 346, 461, 488, 491
Bme1390I	CCNGG	1 cut(s)	478
Bme18I	GGWCC	2 cut(s)	468, 498
BmgBI	CACGTC	1 cut(s)	340
BmgT120I	GGNCC	4 cut(s)	289, 319, 468, 498
BmiI	GGNNCC	3 cut(s)	192, 400, 500
BmrFI	CCNGG	1 cut(s)	478
BmtI	GCTAGC	1 cut(s)	146
BpmI	CTGGAG	2 cut(s)	460, 514
Bpu10I	CCTNAGC	1 cut(s)	230
BpuEI	CTTGAG	1 cut(s)	403
BsaJI	CCNNGG	1 cut(s)	186
BsaWI	WCCGGW	1 cut(s)	199
BsaXI	ACNNNNNCTCC	4 cut(s)	105, 135, 487, 517
Bsc4I	CCNNNNNNNGG	5 cut(s)	12, 286, 287, 477, 507
Bse1I	ACTGG	1 cut(s)	72
BseBI	CCWGG	1 cut(s)	478
BseDI	CCNNGG	1 cut(s)	186
BseGI	GGATG	1 cut(s)	156
BseLI	CCNNNNNNNGG	5 cut(s)	12, 286, 287, 477, 507
BseMII	CTCAG	1 cut(s)	221
BseNI	ACTGG	1 cut(s)	72
BseRI	GAGGAG	1 cut(s)	129
BseXI	GCAGC	4 cut(s)	148, 151, 498, 501
Bsh1236I	CGCG	1 cut(s)	8
Bsh1285I	CGRYCG	2 cut(s)	123, 370
BshFI	GGCC	4 cut(s)	5, 155, 291, 321
BsiEI	CGRYCG	2 cut(s)	123, 370
BsiHKAI	GWGCWC	1 cut(s)	236
BsiSI	CCGG	1 cut(s)	200
BslFI	GGGAC	2 cut(s)	348, 484
BslI	CCNNNNNNNGG	5 cut(s)	12, 286, 287, 477, 507
BsmFI	GGGAC	2 cut(s)	348, 484
BsnI	GGCC	4 cut(s)	5, 155, 291, 321
Bsp1286I	GDGCHC	1 cut(s)	236
Bsp143I	GATC	5 cut(s)	38, 268, 297, 367, 398
Bsp19I	CCATGG	1 cut(s)	186
BspACI	CCGC	5 cut(s)	6, 119, 345, 457, 460
BspANI	GGCC	4 cut(s)	5, 155, 291, 321
BspCNI	CTCAG	1 cut(s)	222
BspFNI	CGCG	1 cut(s)	8
BspLI	GGNNCC	3 cut(s)	192, 400, 500
BspMAI	CTGCAG	1 cut(s)	297
BspOI	GCTAGC	1 cut(s)	146
BspPI	GGATC	2 cut(s)	393, 406
BsrBI	CCGCTC	1 cut(s)	119
BsrI	ACTGG	1 cut(s)	72
BssECI	CCNNGG	1 cut(s)	186
BssMI	GATC	5 cut(s)	38, 268, 297, 367, 398
BssT1I	CCWWGG	1 cut(s)	186
Bst2UI	CCWGG	1 cut(s)	478
Bst4CI	ACNGT	2 cut(s)	97, 206
BstC8I	GCNNGC	3 cut(s)	144, 293, 323
BstDEI	CTNAG	1 cut(s)	230
BstDSI	CCRYGG	1 cut(s)	186
BstENI	CCTNNNNNAGG	1 cut(s)	475
BstF5I	GGATG	1 cut(s)	156
BstFNI	CGCG	1 cut(s)	8
BstHHI	GCGC	1 cut(s)	136
BstKTI	GATC	5 cut(s)	41, 271, 300, 370, 401
BstMBI	GATC	5 cut(s)	38, 268, 297, 367, 398
BstMCI	CGRYCG	2 cut(s)	123, 370
BstMWI	GCNNNNNNNGC	1 cut(s)	152
BstNI	CCWGG	1 cut(s)	478
BstSCI	CCNGG	1 cut(s)	476
BstSFI	CTRYAG	1 cut(s)	293
BstUI	CGCG	1 cut(s)	8
BstV1I	GCAGC	4 cut(s)	148, 151, 498, 501
BstX2I	RGATCY	1 cut(s)	398
BstYI	RGATCY	1 cut(s)	398
BsuRI	GGCC	4 cut(s)	5, 155, 291, 321
BtgI	CCRYGG	1 cut(s)	186
BtrI	CACGTC	1 cut(s)	340
BtsCI	GGATG	1 cut(s)	156
BtsI	GCAGTG	1 cut(s)	217
BtsIMutI	CAGTG	1 cut(s)	217
Cac8I	GCNNGC	3 cut(s)	144, 293, 323
CaiI	CAGNNNCTG	1 cut(s)	492
CfoI	GCGC	1 cut(s)	136
Cfr13I	GGNCC	4 cut(s)	289, 319, 468, 498
Csp6I	GTAC	2 cut(s)	65, 481
CviAII	CATG	1 cut(s)	187
CviQI	GTAC	2 cut(s)	65, 481
DdeI	CTNAG	1 cut(s)	230
DpnI	GATC	5 cut(s)	40, 270, 299, 369, 400
DpnII	GATC	5 cut(s)	38, 268, 297, 367, 398
EaeI	YGGCCR	2 cut(s)	3, 153
Eco130I	CCWWGG	1 cut(s)	186
Eco47I	GGWCC	2 cut(s)	468, 498
EcoNI	CCTNNNNNAGG	1 cut(s)	475
EcoO109I	RGGNCCY	1 cut(s)	498
EcoRII	CCWGG	1 cut(s)	476
EcoT14I	CCWWGG	1 cut(s)	186
ErhI	CCWWGG	1 cut(s)	186
FaeI	CATG	1 cut(s)	190
FaiI	YATR	4 cut(s)	188, 377, 379, 513
FaqI	GGGAC	2 cut(s)	348, 484
FatI	CATG	1 cut(s)	186
FauNDI	CATATG	1 cut(s)	377
FblI	GTMKAC	2 cut(s)	108, 123
Fnu4HI	GCNGC	7 cut(s)	6, 137, 140, 345, 460, 487, 490
FokI	GGATG	1 cut(s)	163
Fsp4HI	GCNGC	7 cut(s)	6, 137, 140, 345, 460, 487, 490
FspBI	CTAG	1 cut(s)	143
FspI	TGCGCA	1 cut(s)	135
GlaI	GCGC	1 cut(s)	135
GluI	GCNGC	7 cut(s)	6, 137, 140, 345, 460, 487, 490
GsuI	CTGGAG	2 cut(s)	460, 514
HaeIII	GGCC	4 cut(s)	5, 155, 291, 321
HapII	CCGG	1 cut(s)	200
HhaI	GCGC	1 cut(s)	136
Hin1II	CATG	1 cut(s)	190
Hin6I	GCGC	1 cut(s)	134
HinP1I	GCGC	1 cut(s)	134
HincII	GTYRAC	3 cut(s)	81, 109, 124
HindII	GTYRAC	3 cut(s)	81, 109, 124
HpaI	GTTAAC	1 cut(s)	81
HpaII	CCGG	1 cut(s)	200
HphI	GGTGA	2 cut(s)	191, 400
Hpy166II	GTNNAC	3 cut(s)	81, 109, 124
Hpy188I	TCNGA	1 cut(s)	219
Hpy188III	TCNNGA	3 cut(s)	229, 266, 365
Hpy8I	GTNNAC	3 cut(s)	81, 109, 124
Hpy99I	CGWCG	3 cut(s)	113, 128, 344
HpyAV	CCTTC	1 cut(s)	336
HpyCH4III	ACNGT	2 cut(s)	97, 206
HpyCH4IV	ACGT	3 cut(s)	171, 245, 339
HpyCH4V	TGCA	4 cut(s)	210, 295, 375, 381
HpyF10VI	GCNNNNNNNGC	1 cut(s)	152
HpyF3I	CTNAG	1 cut(s)	230
HpySE526I	ACGT	3 cut(s)	171, 245, 339
Hsp92II	CATG	1 cut(s)	190
HspAI	GCGC	1 cut(s)	134
KspAI	GTTAAC	1 cut(s)	81
Kzo9I	GATC	5 cut(s)	38, 268, 297, 367, 398
LmnI	GCTCC	3 cut(s)	116, 196, 479
Lsp1109I	GCAGC	4 cut(s)	148, 151, 498, 501
MaeI	CTAG	1 cut(s)	143
MaeII	ACGT	3 cut(s)	171, 245, 339
MaeIII	GTNAC	2 cut(s)	304, 433
MalI	GATC	5 cut(s)	40, 270, 299, 369, 400
MbiI	CCGCTC	1 cut(s)	119
MboI	GATC	5 cut(s)	38, 268, 297, 367, 398
MflI	RGATCY	1 cut(s)	398
MhlI	GDGCHC	1 cut(s)	236
MlsI	TGGCCA	1 cut(s)	155
MluNI	TGGCCA	1 cut(s)	155
MmeI	TCCRAC	1 cut(s)	218
MnlI	CCTC	4 cut(s)	39, 107, 260, 489
Mox20I	TGGCCA	1 cut(s)	155
MscI	TGGCCA	1 cut(s)	155
MseI	TTAA	3 cut(s)	74, 80, 99
Msp20I	TGGCCA	1 cut(s)	155
MspA1I	CMGCKG	1 cut(s)	492
MspI	CCGG	1 cut(s)	200
MspR9I	CCNGG	1 cut(s)	478
MvaI	CCWGG	1 cut(s)	478
MvnI	CGCG	1 cut(s)	8
MwoI	GCNNNNNNNGC	1 cut(s)	152
NcoI	CCATGG	1 cut(s)	186
NdeI	CATATG	1 cut(s)	377
NdeII	GATC	5 cut(s)	38, 268, 297, 367, 398
NheI	GCTAGC	1 cut(s)	142
NlaIII	CATG	1 cut(s)	190
NlaIV	GGNNCC	3 cut(s)	192, 400, 500
NmuCI	GTSAC	1 cut(s)	304
NsbI	TGCGCA	1 cut(s)	135
PkrI	GCNGC	7 cut(s)	7, 138, 141, 346, 461, 488, 491
Ple19I	CGATCG	1 cut(s)	370
PpuMI	RGGWCCY	1 cut(s)	498
Psp5II	RGGWCCY	1 cut(s)	498
Psp6I	CCWGG	1 cut(s)	476
PspGI	CCWGG	1 cut(s)	476
PspN4I	GGNNCC	3 cut(s)	192, 400, 500
PspPI	GGNCC	4 cut(s)	289, 319, 468, 498
PspPPI	RGGWCCY	1 cut(s)	498
PstI	CTGCAG	1 cut(s)	297
PstNI	CAGNNNCTG	1 cut(s)	492
PsuI	RGATCY	1 cut(s)	398
PvuI	CGATCG	1 cut(s)	370
PvuII	CAGCTG	1 cut(s)	492
RsaI	GTAC	2 cut(s)	66, 482
RsaNI	GTAC	2 cut(s)	65, 481
SalI	GTCGAC	2 cut(s)	107, 122
SaqAI	TTAA	3 cut(s)	74, 80, 99
SatI	GCNGC	7 cut(s)	6, 137, 140, 345, 460, 487, 490
Sau3AI	GATC	5 cut(s)	38, 268, 297, 367, 398
Sau96I	GGNCC	4 cut(s)	289, 319, 468, 498
ScrFI	CCNGG	1 cut(s)	478
SduI	GDGCHC	1 cut(s)	236
SetI	ASST	9 cut(s)	50, 144, 174, 248, 342, 419, 482, 494, 500
SfcI	CTRYAG	1 cut(s)	293
SinI	GGWCC	2 cut(s)	468, 498
SmlI	CTYRAG	1 cut(s)	418
SmoI	CTYRAG	1 cut(s)	418
SsiI	CCGC	5 cut(s)	6, 119, 345, 457, 460
SspMI	CTAG	1 cut(s)	143
StyD4I	CCNGG	1 cut(s)	476
StyI	CCWWGG	1 cut(s)	186
TaaI	ACNGT	2 cut(s)	97, 206
TaiI	ACGT	3 cut(s)	174, 248, 342
TaqI	TCGA	2 cut(s)	108, 123
TatI	WGTACW	1 cut(s)	64
TauI	GCSGC	3 cut(s)	8, 347, 462
Tru1I	TTAA	3 cut(s)	74, 80, 99
Tru9I	TTAA	3 cut(s)	74, 80, 99
TscAI	CASTG	1 cut(s)	217
TseFI	GTSAC	1 cut(s)	304
TseI	GCWGC	4 cut(s)	136, 139, 486, 489
Tsp45I	GTSAC	1 cut(s)	304
TspGWI	ACGGA	2 cut(s)	126, 319
TspRI	CASTG	1 cut(s)	217
VpaK11BI	GGWCC	2 cut(s)	468, 498
XagI	CCTNNNNNAGG	1 cut(s)	475
XmiI	GTMKAC	2 cut(s)	108, 123
XspI	CTAG	1 cut(s)	143

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