Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0006489

Physical Location & Seq

Genomic Coordinates Forward (+)

43594414 .. 43595095

Gene Structure 682 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG207500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 504 bp

ATGGCACAAAGAATTGAAAACAGTCTCTTCCTCGTTCTGGTGACCATTTTCTTGGCAAGAGCAACAGCACAGTCAAGTTGCACAAATGTGATAATCAGCATGTCCCCATGCCTGAATTACATTACCGGGAACTCCTCAACCCCATCTTCAGGATGCTGCTCGCAGCTCGCTACCGTTGTCCGATCATCCCCACAGTGTTTGTGCCAGGTCATTAATGGCGGTGGATCATCACTGGGGGTCAATGTTAATCAAACTCAGGCTCGCGCTCTACCAGGTGCTTGCAATGTTCAGACTCCACCCCTCAGCCAGTGTAACGCTGCTACTCCAGCTGACTCTCCTGCAGGAACACCCGATGATTCATCAAACACAGTTCCTTCAGGAAGTGGATCTAACACCGTACCATCAACTGACGATGGCTCATCAGATGGAAACTCCATCAAGTTGTCTATGACTCAGCTCATTGTGCTCTTTGCTGCAGCATTTGCTACTTTCTCAATGCACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005623 GO:0005886 GO:0016020 GO:0031224 GO:0031225 GO:0031226 GO:0044425 GO:0044459 GO:0044464 GO:0046658 GO:0071944

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LTP_2

Protein Analysis

167

Amino Acids

16.95

Weight (kDa)

4.88

Isoelectric Point (pI)

55.67

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	18 - 104	3.6e-18	Probable lipid transfer
Tryp_alpha_amyl	PF00234	27 - 104	2.6e-13	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: OG0006489)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G22600 AT4G14815
fragaria_vesca	FvH4_4g16110 FvH4_4g16110
malus_domestica	MD03G1261700.v1.1 MD11G1282100.v1.1 MD11G1282400.v1.1 MD13G1196200.v1.1 MD16G1196700.v1.1
prunus_persica	Prupe.1G016900_v2.0.a1 Prupe.8G238000_v2.0.a1
pyrus_communis	pycom11g25010 pycom13g16830 pycom16g16550
rosa_laevigata	RLG00000008054
rosa_multiflora	Rmu_sc0001194.1_g000008 Rmu_sc0004599.1_g000012 Rmu_sc0023626.1_g000001
rosa_roxburghii	Rroxscaffold_5G00359460
rosa_rugosa	Rorug04G0136100 Rorug04G0136100
rosa_samantha	Rh4AG196700 Rh4BG195300 Rh4CG207500 Rh4DG194600
rosa_wichuraiana	Rw4G016730

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	264
AciI	CCGC	1 cut(s)	219
AclWI	GGATC	2 cut(s)	232, 394
AcuI	CTGAAG	2 cut(s)	132, 360
AfaI	GTAC	1 cut(s)	399
AfiI	CCNNNNNNNGG	2 cut(s)	37, 149
AgsI	TTSAA	1 cut(s)	17
AjnI	CCWGG	2 cut(s)	204, 271
AleI	CACNNNNGTG	1 cut(s)	86
AluBI	AGCT	3 cut(s)	166, 329, 457
AluI	AGCT	3 cut(s)	166, 329, 457
Alw21I	GWGCWC	1 cut(s)	468
Alw26I	GTCTC	1 cut(s)	29
AlwI	GGATC	2 cut(s)	232, 394
ApeKI	GCWGC	5 cut(s)	156, 163, 317, 473, 476
AseI	ATTAAT	1 cut(s)	213
AspLEI	GCGC	1 cut(s)	266
AsuC2I	CCSGG	1 cut(s)	127
AsuHPI	GGTGA	1 cut(s)	52
Bbv12I	GWGCWC	1 cut(s)	468
BbvCI	CCTCAGC	1 cut(s)	302
BbvI	GCAGC	5 cut(s)	143, 175, 304, 460, 488
BccI	CCATC	5 cut(s)	151, 407, 409, 419, 443
BciT130I	CCWGG	2 cut(s)	206, 273
BcnI	CCSGG	1 cut(s)	127
BcoDI	GTCTC	1 cut(s)	29
BfmI	CTRYAG	2 cut(s)	339, 474
BisI	GCNGC	5 cut(s)	157, 164, 318, 474, 477
BlsI	GCNGC	5 cut(s)	158, 165, 319, 475, 478
Bme1390I	CCNGG	3 cut(s)	127, 206, 273
BmrFI	CCNGG	3 cut(s)	127, 206, 273
BmrI	ACTGGG	1 cut(s)	242
BmsI	GCATC	1 cut(s)	143
BmuI	ACTGGG	1 cut(s)	242
BpmI	CTGGAG	1 cut(s)	309
Bpu10I	CCTNAGC	1 cut(s)	302
BpuMI	CCSGG	1 cut(s)	127
Bsc4I	CCNNNNNNNGG	2 cut(s)	37, 149
Bse1I	ACTGG	2 cut(s)	237, 307
Bse3DI	GCAATG	1 cut(s)	289
BseBI	CCWGG	2 cut(s)	206, 273
BseGI	GGATG	2 cut(s)	158, 185
BseLI	CCNNNNNNNGG	2 cut(s)	37, 149
BseMI	GCAATG	1 cut(s)	289
BseMII	CTCAG	3 cut(s)	269, 316, 467
BseNI	ACTGG	2 cut(s)	237, 307
BseRI	GAGGAG	1 cut(s)	124
BseXI	GCAGC	5 cut(s)	143, 175, 304, 460, 488
Bsh1236I	CGCG	1 cut(s)	264
BsiHKAI	GWGCWC	1 cut(s)	468
BsiSI	CCGG	1 cut(s)	126
BslFI	GGGAC	1 cut(s)	88
BslI	CCNNNNNNNGG	2 cut(s)	37, 149
BsmAI	GTCTC	1 cut(s)	29
BsmFI	GGGAC	1 cut(s)	88
Bsp1286I	GDGCHC	1 cut(s)	468
Bsp143I	GATC	3 cut(s)	182, 224, 386
BspACI	CCGC	1 cut(s)	219
BspCNI	CTCAG	3 cut(s)	268, 315, 466
BspFNI	CGCG	1 cut(s)	264
BspMAI	CTGCAG	2 cut(s)	343, 478
BspPI	GGATC	2 cut(s)	232, 394
BsrDI	GCAATG	1 cut(s)	289
BsrI	ACTGG	2 cut(s)	237, 307
BssMI	GATC	3 cut(s)	182, 224, 386
Bst2UI	CCWGG	2 cut(s)	206, 273
Bst4CI	ACNGT	6 cut(s)	23, 72, 175, 195, 370, 397
Bst6I	CTCTTC	1 cut(s)	32
BstAPI	GCANNNNNTGC	1 cut(s)	482
BstC8I	GCNNGC	4 cut(s)	161, 168, 262, 280
BstDEI	CTNAG	3 cut(s)	255, 302, 453
BstEII	GGTNACC	1 cut(s)	40
BstF5I	GGATG	2 cut(s)	158, 185
BstFNI	CGCG	1 cut(s)	264
BstHHI	GCGC	1 cut(s)	266
BstKTI	GATC	3 cut(s)	185, 227, 389
BstMAI	GTCTC	1 cut(s)	29
BstMBI	GATC	3 cut(s)	182, 224, 386
BstMWI	GCNNNNNNNGC	3 cut(s)	326, 463, 482
BstNI	CCWGG	2 cut(s)	206, 273
BstNSI	RCATGY	1 cut(s)	103
BstPI	GGTNACC	1 cut(s)	40
BstSCI	CCNGG	3 cut(s)	125, 204, 271
BstSFI	CTRYAG	2 cut(s)	339, 474
BstUI	CGCG	1 cut(s)	264
BstV1I	GCAGC	5 cut(s)	143, 175, 304, 460, 488
BstX2I	RGATCY	1 cut(s)	386
BstXI	CCANNNNNNTGG	1 cut(s)	52
BstYI	RGATCY	1 cut(s)	386
BtsCI	GGATG	2 cut(s)	158, 185
BtsIMutI	CAGTG	4 cut(s)	200, 230, 314, 499
Cac8I	GCNNGC	4 cut(s)	161, 168, 262, 280
CfoI	GCGC	1 cut(s)	266
CsiI	ACCWGGT	1 cut(s)	271
Csp6I	GTAC	1 cut(s)	398
CspCI	CAANNNNNGTGG	2 cut(s)	180, 215
CviAII	CATG	2 cut(s)	100, 108
CviJI	RGCY	6 cut(s)	166, 260, 306, 329, 417, 457
CviKI_1	RGCY	6 cut(s)	166, 260, 306, 329, 417, 457
CviQI	GTAC	1 cut(s)	398
DdeI	CTNAG	3 cut(s)	255, 302, 453
DpnI	GATC	3 cut(s)	184, 226, 388
DpnII	GATC	3 cut(s)	182, 224, 386
Eam1104I	CTCTTC	1 cut(s)	32
EarI	CTCTTC	1 cut(s)	32
Eco57I	CTGAAG	2 cut(s)	132, 360
Eco91I	GGTNACC	1 cut(s)	40
EcoO65I	GGTNACC	1 cut(s)	40
EcoRII	CCWGG	2 cut(s)	204, 271
FaeI	CATG	2 cut(s)	103, 111
FaiI	YATR	3 cut(s)	101, 109, 449
FaqI	GGGAC	1 cut(s)	88
FatI	CATG	2 cut(s)	99, 107
Fnu4HI	GCNGC	5 cut(s)	157, 164, 318, 474, 477
FokI	GGATG	2 cut(s)	165, 172
Fsp4HI	GCNGC	5 cut(s)	157, 164, 318, 474, 477
GlaI	GCGC	1 cut(s)	265
GluI	GCNGC	5 cut(s)	157, 164, 318, 474, 477
GsuI	CTGGAG	1 cut(s)	309
HapII	CCGG	1 cut(s)	126
HhaI	GCGC	1 cut(s)	266
Hin1II	CATG	2 cut(s)	103, 111
Hin6I	GCGC	1 cut(s)	264
HinP1I	GCGC	1 cut(s)	264
HinfI	GANTC	4 cut(s)	292, 332, 356, 451
HpaII	CCGG	1 cut(s)	126
HphI	GGTGA	1 cut(s)	52
Hpy188I	TCNGA	3 cut(s)	182, 291, 424
Hpy188III	TCNNGA	2 cut(s)	150, 378
HpyAV	CCTTC	1 cut(s)	384
HpyCH4III	ACNGT	6 cut(s)	23, 72, 175, 195, 370, 397
HpyCH4V	TGCA	5 cut(s)	81, 282, 341, 476, 499
HpyF10VI	GCNNNNNNNGC	3 cut(s)	326, 463, 482
HpyF3I	CTNAG	3 cut(s)	255, 302, 453
Hsp92II	CATG	2 cut(s)	103, 111
HspAI	GCGC	1 cut(s)	264
Kzo9I	GATC	3 cut(s)	182, 224, 386
Lsp1109I	GCAGC	5 cut(s)	143, 175, 304, 460, 488
LweI	GCATC	1 cut(s)	143
MabI	ACCWGGT	1 cut(s)	271
MaeIII	GTNAC	2 cut(s)	40, 311
MalI	GATC	3 cut(s)	184, 226, 388
MboI	GATC	3 cut(s)	182, 224, 386
MboII	GAAGA	2 cut(s)	19, 138
MflI	RGATCY	1 cut(s)	386
MhlI	GDGCHC	1 cut(s)	468
MluCI	AATT	2 cut(s)	12, 115
MlyI	GAGTC	3 cut(s)	286, 326, 445
MnlI	CCTC	3 cut(s)	41, 145, 311
MseI	TTAA	2 cut(s)	213, 246
MslI	CAYNNNNRTG	1 cut(s)	86
MspA1I	CMGCKG	1 cut(s)	329
MspI	CCGG	1 cut(s)	126
MspR9I	CCNGG	3 cut(s)	127, 206, 273
MvaI	CCWGG	2 cut(s)	206, 273
MvnI	CGCG	1 cut(s)	264
MwoI	GCNNNNNNNGC	3 cut(s)	326, 463, 482
NciI	CCSGG	1 cut(s)	127
NdeII	GATC	3 cut(s)	182, 224, 386
NlaIII	CATG	2 cut(s)	103, 111
NmuCI	GTSAC	1 cut(s)	40
NspI	RCATGY	1 cut(s)	103
OliI	CACNNNNGTG	1 cut(s)	86
PfeI	GAWTC	1 cut(s)	356
PkrI	GCNGC	5 cut(s)	158, 165, 319, 475, 478
PleI	GAGTC	3 cut(s)	286, 326, 445
PpsI	GAGTC	3 cut(s)	286, 326, 445
PshBI	ATTAAT	1 cut(s)	213
Psp6I	CCWGG	2 cut(s)	204, 271
PspEI	GGTNACC	1 cut(s)	40
PspGI	CCWGG	2 cut(s)	204, 271
PstI	CTGCAG	2 cut(s)	343, 478
PsuI	RGATCY	1 cut(s)	386
PvuII	CAGCTG	1 cut(s)	329
RsaI	GTAC	1 cut(s)	399
RsaNI	GTAC	1 cut(s)	398
RseI	CAYNNNNRTG	1 cut(s)	86
SaqAI	TTAA	2 cut(s)	213, 246
SatI	GCNGC	5 cut(s)	157, 164, 318, 474, 477
Sau3AI	GATC	3 cut(s)	182, 224, 386
SbfI	CCTGCAGG	1 cut(s)	343
SchI	GAGTC	3 cut(s)	286, 326, 445
ScrFI	CCNGG	3 cut(s)	127, 206, 273
SdaI	CCTGCAGG	1 cut(s)	343
SduI	GDGCHC	1 cut(s)	468
SetI	ASST	5 cut(s)	168, 210, 277, 331, 459
SexAI	ACCWGGT	1 cut(s)	271
SfaNI	GCATC	1 cut(s)	143
SfcI	CTRYAG	2 cut(s)	339, 474
SmiMI	CAYNNNNRTG	1 cut(s)	86
Sse8387I	CCTGCAGG	1 cut(s)	343
Sse9I	AATT	2 cut(s)	12, 115
SsiI	CCGC	1 cut(s)	219
StyD4I	CCNGG	3 cut(s)	125, 204, 271
TaaI	ACNGT	6 cut(s)	23, 72, 175, 195, 370, 397
TasI	AATT	2 cut(s)	12, 115
TfiI	GAWTC	1 cut(s)	356
Tru1I	TTAA	2 cut(s)	213, 246
Tru9I	TTAA	2 cut(s)	213, 246
TscAI	CASTG	3 cut(s)	200, 237, 314
TseFI	GTSAC	1 cut(s)	40
TseI	GCWGC	5 cut(s)	156, 163, 317, 473, 476
Tsp45I	GTSAC	1 cut(s)	40
TspDTI	ATGAA	1 cut(s)	348
TspRI	CASTG	3 cut(s)	200, 237, 314
VspI	ATTAAT	1 cut(s)	213
XceI	RCATGY	1 cut(s)	103
XcmI	CCANNNNNNNNNTGG	1 cut(s)	212

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