Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0012027

Physical Location & Seq

Genomic Coordinates Forward (+)

43395447 .. 43398053

Gene Structure 2607 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG362300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 453 bp

ATGGCATTCAGTACCAATCTCCTTGCCGCCGTCTTCACCGCCATGTTATTCATGCTGACATTCCACAGCTGCGGCGTGTCGGCACAGGCGCCGGGGCCAGCTCCTGAGGCGGCGACGGATTGCACCACGCAGCTGGTGACGTTGTCGGACTGCCTGACGTACGTGGAGGAAGGTAGCAACTTGACGAAGCCGGACAAGGCTTGCTGCCCGGAGCTGGCGACGCTGGTTAAAAGCACCCCCCAATGCTTGTGCTACTTGCTTCAGAAGAACAGTACCAGCAGCTACGGCATTGAAATCGACTTGAACAAAGCTCTTCATCTCCCTTCTGTTTGCAAAGTTGAGACCCCTCCTACCAGCGCCTGTGCACGTAAGTCCCAACAGGGCTCTCGATCTCCCTTGTTGTTGTTTTTTTTATTTTTTTATTTCATTCCTAAATTAATTATTTGTTTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005575 GO:0005623 GO:0005886 GO:0006810 GO:0006869 GO:0007275 GO:0008150 GO:0008289 GO:0010876 GO:0016020 GO:0031224 GO:0031225 GO:0031226 GO:0032501 GO:0032502 GO:0033036 GO:0042335 GO:0044425 GO:0044459 GO:0044464 GO:0046658 GO:0048856 GO:0051179 GO:0051234 GO:0071702 GO:0071944

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LTP_2

Protein Analysis

150

Amino Acids

16.22

Weight (kDa)

6.68

Isoelectric Point (pI)

54.74

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	26 - 121	3.8e-18	Probable lipid transfer
Tryp_alpha_amyl	PF00234	41 - 121	9.7e-12	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: OG0012027)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G27130 AT3G43720 AT3G43720
fragaria_vesca	FvH4_3g27100 FvH4_3g27100
malus_domestica	MD11G1179700.v1.1
prunus_persica	Prupe.6G152000_v2.0.a1
pyrus_communis	pycom03g11600 pycom11g15500
rosa_chinensis	RchiOBHm_Chr5g0049721
rosa_laevigata	RLG00000034634
rosa_multiflora	Rmu_sc0005835.1_g000001
rosa_roxburghii	Rroxscaffold_1G00031610
rosa_rugosa	Rorug05G0250500
rosa_samantha	Rh5AG326700 Rh5BG337700 Rh5CG362300 Rh5DG350000
rosa_wichuraiana	Rw5G030870

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	88
AciI	CCGC	4 cut(s)	27, 39, 72, 110
AcuI	CTGAAG	1 cut(s)	245
AcyI	GRCGYC	1 cut(s)	89
AfaI	GTAC	3 cut(s)	13, 161, 274
AfiI	CCNNNNNNNGG	1 cut(s)	214
AgsI	TTSAA	2 cut(s)	293, 304
AluBI	AGCT	6 cut(s)	69, 101, 133, 214, 282, 311
AluI	AGCT	6 cut(s)	69, 101, 133, 214, 282, 311
Alw21I	GWGCWC	1 cut(s)	367
Alw26I	GTCTC	1 cut(s)	335
Alw44I	GTGCAC	1 cut(s)	363
AlwNI	CAGNNNCTG	2 cut(s)	104, 360
AoxI	GGCC	1 cut(s)	95
ApaLI	GTGCAC	1 cut(s)	363
ApeKI	GCWGC	4 cut(s)	69, 130, 204, 279
AseI	ATTAAT	1 cut(s)	437
AspLEI	GCGC	2 cut(s)	91, 359
AspS9I	GGNCC	1 cut(s)	95
AsuC2I	CCSGG	2 cut(s)	93, 209
AsuHPI	GGTGA	2 cut(s)	28, 148
AxyI	CCTNAGG	1 cut(s)	105
BaeGI	GKGCMC	1 cut(s)	367
BanI	GGYRCC	1 cut(s)	88
BanII	GRGCYC	1 cut(s)	386
BbsI	GAAGAC	1 cut(s)	25
Bbv12I	GWGCWC	1 cut(s)	367
BbvI	GCAGC	4 cut(s)	56, 142, 191, 291
BceAI	ACGGC	2 cut(s)	14, 301
BcgI	CGANNNNNNTGC	2 cut(s)	277, 311
BcnI	CCSGG	2 cut(s)	93, 209
BcoDI	GTCTC	1 cut(s)	335
BfoI	RGCGCY	2 cut(s)	92, 360
BisI	GCNGC	7 cut(s)	27, 70, 73, 111, 131, 205, 280
BlsI	GCNGC	7 cut(s)	28, 71, 74, 112, 132, 206, 281
Bme1390I	CCNGG	2 cut(s)	93, 209
BmgT120I	GGNCC	1 cut(s)	95
BmiI	GGNNCC	2 cut(s)	90, 96
BmrFI	CCNGG	2 cut(s)	93, 209
BpiI	GAAGAC	1 cut(s)	25
BpuMI	CCSGG	2 cut(s)	93, 209
BsaAI	YACGTR	2 cut(s)	163, 368
BsaHI	GRCGYC	1 cut(s)	89
BsaI	GGTCTC	1 cut(s)	335
BsaJI	CCNNGG	1 cut(s)	92
Bsc4I	CCNNNNNNNGG	1 cut(s)	214
Bse21I	CCTNAGG	1 cut(s)	105
BseDI	CCNNGG	1 cut(s)	92
BseLI	CCNNNNNNNGG	1 cut(s)	214
BseMII	CTCAG	1 cut(s)	96
BseSI	GKGCMC	1 cut(s)	367
BseXI	GCAGC	4 cut(s)	56, 142, 191, 291
BshFI	GGCC	1 cut(s)	97
BshNI	GGYRCC	1 cut(s)	88
BsiHKAI	GWGCWC	1 cut(s)	367
BsiSI	CCGG	3 cut(s)	92, 191, 209
BsiWI	CGTACG	1 cut(s)	159
BslFI	GGGAC	1 cut(s)	358
BslI	CCNNNNNNNGG	1 cut(s)	214
BsmAI	GTCTC	1 cut(s)	335
BsmFI	GGGAC	1 cut(s)	358
BsmI	GAATGC	1 cut(s)	5
BsnI	GGCC	1 cut(s)	97
Bso31I	GGTCTC	1 cut(s)	335
Bsp1286I	GDGCHC	2 cut(s)	367, 386
Bsp143I	GATC	1 cut(s)	389
BspACI	CCGC	4 cut(s)	27, 39, 72, 110
BspANI	GGCC	1 cut(s)	97
BspCNI	CTCAG	1 cut(s)	97
BspLI	GGNNCC	2 cut(s)	90, 96
BspQI	GCTCTTC	1 cut(s)	318
BspT107I	GGYRCC	1 cut(s)	88
BspTNI	GGTCTC	1 cut(s)	335
BssECI	CCNNGG	1 cut(s)	92
BssMI	GATC	1 cut(s)	389
BssNI	GRCGYC	1 cut(s)	89
Bst4CI	ACNGT	1 cut(s)	272
Bst6I	CTCTTC	1 cut(s)	318
BstACI	GRCGYC	1 cut(s)	89
BstBAI	YACGTR	2 cut(s)	163, 368
BstC8I	GCNNGC	3 cut(s)	99, 202, 216
BstDEI	CTNAG	1 cut(s)	105
BstH2I	RGCGCY	2 cut(s)	92, 360
BstHHI	GCGC	2 cut(s)	91, 359
BstKTI	GATC	1 cut(s)	392
BstMAI	GTCTC	1 cut(s)	335
BstMBI	GATC	1 cut(s)	389
BstMWI	GCNNNNNNNGC	3 cut(s)	107, 220, 285
BstSCI	CCNGG	2 cut(s)	91, 207
BstSLI	GKGCMC	1 cut(s)	367
BstV1I	GCAGC	4 cut(s)	56, 142, 191, 291
BstV2I	GAAGAC	1 cut(s)	25
BstXI	CCANNNNNNTGG	1 cut(s)	133
Bsu36I	CCTNAGG	1 cut(s)	105
BsuRI	GGCC	1 cut(s)	97
Cac8I	GCNNGC	3 cut(s)	99, 202, 216
CaiI	CAGNNNCTG	2 cut(s)	104, 360
CfoI	GCGC	2 cut(s)	91, 359
Cfr13I	GGNCC	1 cut(s)	95
CseI	GACGC	1 cut(s)	229
Csp6I	GTAC	3 cut(s)	12, 160, 273
CviAII	CATG	2 cut(s)	43, 52
CviQI	GTAC	3 cut(s)	12, 160, 273
DdeI	CTNAG	1 cut(s)	105
DinI	GGCGCC	1 cut(s)	90
DpnI	GATC	1 cut(s)	391
DpnII	GATC	1 cut(s)	389
Eam1104I	CTCTTC	1 cut(s)	318
EarI	CTCTTC	1 cut(s)	318
Eco24I	GRGCYC	1 cut(s)	386
Eco31I	GGTCTC	1 cut(s)	335
Eco57I	CTGAAG	1 cut(s)	245
Eco81I	CCTNAGG	1 cut(s)	105
EcoT38I	GRGCYC	1 cut(s)	386
EgeI	GGCGCC	1 cut(s)	90
EheI	GGCGCC	1 cut(s)	90
FaeI	CATG	2 cut(s)	46, 55
FaiI	YATR	2 cut(s)	44, 53
FaqI	GGGAC	1 cut(s)	358
FatI	CATG	2 cut(s)	42, 51
Fnu4HI	GCNGC	7 cut(s)	27, 70, 73, 111, 131, 205, 280
FriOI	GRGCYC	1 cut(s)	386
Fsp4HI	GCNGC	7 cut(s)	27, 70, 73, 111, 131, 205, 280
GlaI	GCGC	2 cut(s)	90, 358
GluI	GCNGC	7 cut(s)	27, 70, 73, 111, 131, 205, 280
HaeII	RGCGCY	2 cut(s)	92, 360
HaeIII	GGCC	1 cut(s)	97
HapII	CCGG	3 cut(s)	92, 191, 209
HgaI	GACGC	1 cut(s)	229
HhaI	GCGC	2 cut(s)	91, 359
Hin1I	GRCGYC	1 cut(s)	89
Hin1II	CATG	2 cut(s)	46, 55
Hin6I	GCGC	2 cut(s)	89, 357
HinP1I	GCGC	2 cut(s)	89, 357
HpaII	CCGG	3 cut(s)	92, 191, 209
HphI	GGTGA	2 cut(s)	28, 148
Hpy166II	GTNNAC	1 cut(s)	365
Hpy188I	TCNGA	2 cut(s)	148, 264
Hpy188III	TCNNGA	2 cut(s)	104, 387
Hpy8I	GTNNAC	1 cut(s)	365
Hpy99I	CGWCG	2 cut(s)	118, 223
HpyAV	CCTTC	2 cut(s)	164, 333
HpyCH4III	ACNGT	1 cut(s)	272
HpyCH4IV	ACGT	4 cut(s)	140, 158, 162, 367
HpyCH4V	TGCA	3 cut(s)	123, 333, 365
HpyF10VI	GCNNNNNNNGC	3 cut(s)	107, 220, 285
HpyF3I	CTNAG	1 cut(s)	105
HpySE526I	ACGT	4 cut(s)	140, 158, 162, 367
Hsp92I	GRCGYC	1 cut(s)	89
Hsp92II	CATG	2 cut(s)	46, 55
HspAI	GCGC	2 cut(s)	89, 357
KasI	GGCGCC	1 cut(s)	88
Kzo9I	GATC	1 cut(s)	389
LguI	GCTCTTC	1 cut(s)	318
LmnI	GCTCC	2 cut(s)	106, 211
Lsp1109I	GCAGC	4 cut(s)	56, 142, 191, 291
MaeII	ACGT	4 cut(s)	140, 158, 162, 367
MaeIII	GTNAC	1 cut(s)	136
MalI	GATC	1 cut(s)	391
MboI	GATC	1 cut(s)	389
MboII	GAAGA	3 cut(s)	25, 277, 305
MhlI	GDGCHC	2 cut(s)	367, 386
MluCI	AATT	2 cut(s)	434, 438
Mly113I	GGCGCC	1 cut(s)	89
MmeI	TCCRAC	1 cut(s)	126
MnlI	CCTC	3 cut(s)	100, 160, 357
MseI	TTAA	2 cut(s)	228, 437
MslI	CAYNNNNRTG	1 cut(s)	41
MspA1I	CMGCKG	2 cut(s)	69, 133
MspI	CCGG	3 cut(s)	92, 191, 209
MspR9I	CCNGG	2 cut(s)	93, 209
Mva1269I	GAATGC	1 cut(s)	5
MwoI	GCNNNNNNNGC	3 cut(s)	107, 220, 285
NarI	GGCGCC	1 cut(s)	89
NciI	CCSGG	2 cut(s)	93, 209
NdeII	GATC	1 cut(s)	389
NlaIII	CATG	2 cut(s)	46, 55
NlaIV	GGNNCC	2 cut(s)	90, 96
NmuCI	GTSAC	1 cut(s)	136
PciSI	GCTCTTC	1 cut(s)	318
PctI	GAATGC	1 cut(s)	5
Pfl23II	CGTACG	1 cut(s)	159
PflFI	GACNNNGTC	1 cut(s)	142
PkrI	GCNGC	7 cut(s)	28, 71, 74, 112, 132, 206, 281
PluTI	GGCGCC	1 cut(s)	92
Ppu21I	YACGTR	2 cut(s)	163, 368
PshBI	ATTAAT	1 cut(s)	437
PspLI	CGTACG	1 cut(s)	159
PspN4I	GGNNCC	2 cut(s)	90, 96
PspPI	GGNCC	1 cut(s)	95
PstNI	CAGNNNCTG	2 cut(s)	104, 360
PsyI	GACNNNGTC	1 cut(s)	142
PvuII	CAGCTG	2 cut(s)	69, 133
RsaI	GTAC	3 cut(s)	13, 161, 274
RsaNI	GTAC	3 cut(s)	12, 160, 273
RseI	CAYNNNNRTG	1 cut(s)	41
SapI	GCTCTTC	1 cut(s)	318
SaqAI	TTAA	2 cut(s)	228, 437
SatI	GCNGC	7 cut(s)	27, 70, 73, 111, 131, 205, 280
Sau3AI	GATC	1 cut(s)	389
Sau96I	GGNCC	1 cut(s)	95
ScrFI	CCNGG	2 cut(s)	93, 209
SduI	GDGCHC	2 cut(s)	367, 386
SfoI	GGCGCC	1 cut(s)	90
SmiMI	CAYNNNNRTG	1 cut(s)	41
Sse9I	AATT	2 cut(s)	434, 438
SsiI	CCGC	4 cut(s)	27, 39, 72, 110
SspDI	GGCGCC	1 cut(s)	88
StyD4I	CCNGG	2 cut(s)	91, 207
TaaI	ACNGT	1 cut(s)	272
TaiI	ACGT	4 cut(s)	143, 161, 165, 370
TaqI	TCGA	2 cut(s)	297, 388
TasI	AATT	2 cut(s)	434, 438
TauI	GCSGC	3 cut(s)	29, 75, 113
Tru1I	TTAA	2 cut(s)	228, 437
Tru9I	TTAA	2 cut(s)	228, 437
TseFI	GTSAC	1 cut(s)	136
TseI	GCWGC	4 cut(s)	69, 130, 204, 279
Tsp45I	GTSAC	1 cut(s)	136
TspDTI	ATGAA	3 cut(s)	40, 305, 415
TspGWI	ACGGA	1 cut(s)	131
Tth111I	GACNNNGTC	1 cut(s)	142
VneI	GTGCAC	1 cut(s)	363
VspI	ATTAAT	1 cut(s)	437

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