Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0012027

Physical Location & Seq

Genomic Coordinates Forward (+)

48163984 .. 48166428

Gene Structure 2445 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG350000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 453 bp

ATGGCATTCAGTACCAATCTCCTTGCCGCCGTCTTCACCGCCATGTTATTCATGCTGACATTCCACAGCTGCGGCGTGTCGGCACAGGCGCCCGGGCCAGCTCCGGAGGCGTCGGTTGATTGCTCCACGCAGCTGCTGACGTTGTCGGACTGCCTGACGTACGTGGAGGAAGGTAGCAACTTGACGAAGCCGGACAAGGCTTGCTGCCCTGAGCTGGCGGCGCTGGTGAAAAGCACCCCCCAATGCTTGTGCTACTTGCTTCAGAAGAACAGTACCAGCAGCTACGGCATTCAAATCGACATGAACAAAGCTCTTGATCTCCCTTCTGTTTGCAAAGTTGAGACTCCTCCTACCAGCGCCTGTGCACGTAAGTCCCAACAGGGCTCTCGATCTCCCTTGTTGGTTTTTTTTAATTTTTTTTATTTCATTCCTAAAATAATTATTTGTTTGTAA

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

16.19

Weight (kDa)

6.52

Isoelectric Point (pI)

46.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	27 - 121	1.3e-18	Probable lipid transfer
Tryp_alpha_amyl	PF00234	41 - 121	2.9e-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

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: 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
AccIII	TCCGGA	1 cut(s)	103
AciI	CCGC	4 cut(s)	27, 39, 72, 218
AcuI	CTGAAG	1 cut(s)	245
AcyI	GRCGYC	2 cut(s)	89, 110
AfaI	GTAC	3 cut(s)	13, 161, 274
AfiI	CCNNNNNNNGG	1 cut(s)	214
AgsI	TTSAA	1 cut(s)	293
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)	136, 360
Ama87I	CYCGRG	1 cut(s)	92
Aor13HI	TCCGGA	1 cut(s)	103
AoxI	GGCC	1 cut(s)	95
ApaLI	GTGCAC	1 cut(s)	363
ApeKI	GCWGC	5 cut(s)	69, 130, 133, 204, 279
AspLEI	GCGC	3 cut(s)	91, 223, 359
AspS9I	GGNCC	1 cut(s)	95
AsuC2I	CCSGG	2 cut(s)	93, 94
AsuHPI	GGTGA	2 cut(s)	28, 238
AvaI	CYCGRG	1 cut(s)	92
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	5 cut(s)	56, 120, 142, 191, 291
BceAI	ACGGC	2 cut(s)	14, 301
BcgI	CGANNNNNNTGC	2 cut(s)	277, 311
BcnI	CCSGG	2 cut(s)	93, 94
BcoDI	GTCTC	1 cut(s)	335
BfoI	RGCGCY	3 cut(s)	92, 224, 360
BisI	GCNGC	8 cut(s)	27, 70, 73, 131, 134, 205, 219, 280
BlsI	GCNGC	8 cut(s)	28, 71, 74, 132, 135, 206, 220, 281
Bme1390I	CCNGG	2 cut(s)	93, 94
BmeT110I	CYCGRG	1 cut(s)	92
BmgT120I	GGNCC	1 cut(s)	95
BmiI	GGNNCC	1 cut(s)	90
BmrFI	CCNGG	2 cut(s)	93, 94
BpiI	GAAGAC	1 cut(s)	25
Bpu10I	CCTNAGC	1 cut(s)	210
BpuMI	CCSGG	2 cut(s)	93, 94
BsaAI	YACGTR	2 cut(s)	163, 368
BsaHI	GRCGYC	2 cut(s)	89, 110
BsaJI	CCNNGG	1 cut(s)	92
BsaWI	WCCGGW	1 cut(s)	103
Bsc4I	CCNNNNNNNGG	1 cut(s)	214
BseAI	TCCGGA	1 cut(s)	103
BseDI	CCNNGG	1 cut(s)	92
BseLI	CCNNNNNNNGG	1 cut(s)	214
BseMII	CTCAG	1 cut(s)	201
BseRI	GAGGAG	1 cut(s)	336
BseSI	GKGCMC	1 cut(s)	367
BseXI	GCAGC	5 cut(s)	56, 120, 142, 191, 291
BshFI	GGCC	1 cut(s)	97
BshNI	GGYRCC	1 cut(s)	88
BsiHKAI	GWGCWC	1 cut(s)	367
BsiHKCI	CYCGRG	1 cut(s)	92
BsiSI	CCGG	3 cut(s)	93, 104, 191
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	2 cut(s)	5, 288
BsnI	GGCC	1 cut(s)	97
BsoBI	CYCGRG	1 cut(s)	92
Bsp1286I	GDGCHC	2 cut(s)	367, 386
Bsp13I	TCCGGA	1 cut(s)	103
Bsp143I	GATC	2 cut(s)	316, 389
BspACI	CCGC	4 cut(s)	27, 39, 72, 218
BspANI	GGCC	1 cut(s)	97
BspCNI	CTCAG	1 cut(s)	202
BspEI	TCCGGA	1 cut(s)	103
BspLI	GGNNCC	1 cut(s)	90
BspT107I	GGYRCC	1 cut(s)	88
BssECI	CCNNGG	1 cut(s)	92
BssMI	GATC	2 cut(s)	316, 389
BssNI	GRCGYC	2 cut(s)	89, 110
Bst4CI	ACNGT	1 cut(s)	272
BstACI	GRCGYC	2 cut(s)	89, 110
BstBAI	YACGTR	2 cut(s)	163, 368
BstC8I	GCNNGC	3 cut(s)	99, 202, 216
BstDEI	CTNAG	1 cut(s)	210
BstH2I	RGCGCY	3 cut(s)	92, 224, 360
BstHHI	GCGC	3 cut(s)	91, 223, 359
BstKTI	GATC	2 cut(s)	319, 392
BstMAI	GTCTC	1 cut(s)	335
BstMBI	GATC	2 cut(s)	316, 389
BstMWI	GCNNNNNNNGC	3 cut(s)	107, 220, 285
BstSCI	CCNGG	2 cut(s)	91, 92
BstSLI	GKGCMC	1 cut(s)	367
BstV1I	GCAGC	5 cut(s)	56, 120, 142, 191, 291
BstV2I	GAAGAC	1 cut(s)	25
BsuRI	GGCC	1 cut(s)	97
Cac8I	GCNNGC	3 cut(s)	99, 202, 216
CaiI	CAGNNNCTG	2 cut(s)	136, 360
CfoI	GCGC	3 cut(s)	91, 223, 359
Cfr13I	GGNCC	1 cut(s)	95
Cfr9I	CCCGGG	1 cut(s)	92
CseI	GACGC	1 cut(s)	99
Csp6I	GTAC	3 cut(s)	12, 160, 273
CviAII	CATG	3 cut(s)	43, 52, 301
CviQI	GTAC	3 cut(s)	12, 160, 273
DdeI	CTNAG	1 cut(s)	210
DinI	GGCGCC	1 cut(s)	90
DpnI	GATC	2 cut(s)	318, 391
DpnII	GATC	2 cut(s)	316, 389
Eco24I	GRGCYC	1 cut(s)	386
Eco57I	CTGAAG	1 cut(s)	245
Eco88I	CYCGRG	1 cut(s)	92
EcoT38I	GRGCYC	1 cut(s)	386
EgeI	GGCGCC	1 cut(s)	90
EheI	GGCGCC	1 cut(s)	90
FaeI	CATG	3 cut(s)	46, 55, 304
FaiI	YATR	3 cut(s)	44, 53, 302
FaqI	GGGAC	1 cut(s)	358
FatI	CATG	3 cut(s)	42, 51, 300
Fnu4HI	GCNGC	8 cut(s)	27, 70, 73, 131, 134, 205, 219, 280
FriOI	GRGCYC	1 cut(s)	386
Fsp4HI	GCNGC	8 cut(s)	27, 70, 73, 131, 134, 205, 219, 280
GlaI	GCGC	3 cut(s)	90, 222, 358
GluI	GCNGC	8 cut(s)	27, 70, 73, 131, 134, 205, 219, 280
HaeII	RGCGCY	3 cut(s)	92, 224, 360
HaeIII	GGCC	1 cut(s)	97
HapII	CCGG	3 cut(s)	93, 104, 191
HgaI	GACGC	1 cut(s)	99
HhaI	GCGC	3 cut(s)	91, 223, 359
Hin1I	GRCGYC	2 cut(s)	89, 110
Hin1II	CATG	3 cut(s)	46, 55, 304
Hin6I	GCGC	3 cut(s)	89, 221, 357
HinP1I	GCGC	3 cut(s)	89, 221, 357
HinfI	GANTC	1 cut(s)	343
HpaII	CCGG	3 cut(s)	93, 104, 191
HphI	GGTGA	2 cut(s)	28, 238
Hpy166II	GTNNAC	1 cut(s)	365
Hpy188I	TCNGA	2 cut(s)	148, 264
Hpy188III	TCNNGA	3 cut(s)	104, 314, 387
Hpy8I	GTNNAC	1 cut(s)	365
Hpy99I	CGWCG	1 cut(s)	115
HpyAV	CCTTC	2 cut(s)	164, 333
HpyCH4III	ACNGT	1 cut(s)	272
HpyCH4IV	ACGT	4 cut(s)	140, 158, 162, 367
HpyCH4V	TGCA	2 cut(s)	333, 365
HpyF10VI	GCNNNNNNNGC	3 cut(s)	107, 220, 285
HpyF3I	CTNAG	1 cut(s)	210
HpySE526I	ACGT	4 cut(s)	140, 158, 162, 367
Hsp92I	GRCGYC	2 cut(s)	89, 110
Hsp92II	CATG	3 cut(s)	46, 55, 304
HspAI	GCGC	3 cut(s)	89, 221, 357
KasI	GGCGCC	1 cut(s)	88
Kpn2I	TCCGGA	1 cut(s)	103
Kzo9I	GATC	2 cut(s)	316, 389
LmnI	GCTCC	2 cut(s)	106, 128
Lsp1109I	GCAGC	5 cut(s)	56, 120, 142, 191, 291
MaeII	ACGT	4 cut(s)	140, 158, 162, 367
MalI	GATC	2 cut(s)	318, 391
MboI	GATC	2 cut(s)	316, 389
MboII	GAAGA	2 cut(s)	25, 277
MhlI	GDGCHC	2 cut(s)	367, 386
MluCI	AATT	2 cut(s)	412, 438
Mly113I	GGCGCC	1 cut(s)	89
MlyI	GAGTC	1 cut(s)	337
MmeI	TCCRAC	1 cut(s)	126
MnlI	CCTC	3 cut(s)	100, 160, 357
MroI	TCCGGA	1 cut(s)	103
MseI	TTAA	1 cut(s)	411
MslI	CAYNNNNRTG	1 cut(s)	41
MspA1I	CMGCKG	2 cut(s)	69, 133
MspI	CCGG	3 cut(s)	93, 104, 191
MspR9I	CCNGG	2 cut(s)	93, 94
Mva1269I	GAATGC	2 cut(s)	5, 288
MwoI	GCNNNNNNNGC	3 cut(s)	107, 220, 285
NarI	GGCGCC	1 cut(s)	89
NciI	CCSGG	2 cut(s)	93, 94
NdeII	GATC	2 cut(s)	316, 389
NlaIII	CATG	3 cut(s)	46, 55, 304
NlaIV	GGNNCC	1 cut(s)	90
PctI	GAATGC	2 cut(s)	5, 288
Pfl23II	CGTACG	1 cut(s)	159
PflFI	GACNNNGTC	1 cut(s)	142
PkrI	GCNGC	8 cut(s)	28, 71, 74, 132, 135, 206, 220, 281
PleI	GAGTC	1 cut(s)	337
PluTI	GGCGCC	1 cut(s)	92
PpsI	GAGTC	1 cut(s)	337
Ppu21I	YACGTR	2 cut(s)	163, 368
PspLI	CGTACG	1 cut(s)	159
PspN4I	GGNNCC	1 cut(s)	90
PspPI	GGNCC	1 cut(s)	95
PstNI	CAGNNNCTG	2 cut(s)	136, 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
SaqAI	TTAA	1 cut(s)	411
SatI	GCNGC	8 cut(s)	27, 70, 73, 131, 134, 205, 219, 280
Sau3AI	GATC	2 cut(s)	316, 389
Sau96I	GGNCC	1 cut(s)	95
SchI	GAGTC	1 cut(s)	337
ScrFI	CCNGG	2 cut(s)	93, 94
SduI	GDGCHC	2 cut(s)	367, 386
SfoI	GGCGCC	1 cut(s)	90
SmaI	CCCGGG	1 cut(s)	94
SmiMI	CAYNNNNRTG	1 cut(s)	41
SrfI	GCCCGGGC	1 cut(s)	94
Sse9I	AATT	2 cut(s)	412, 438
SsiI	CCGC	4 cut(s)	27, 39, 72, 218
SspDI	GGCGCC	1 cut(s)	88
StyD4I	CCNGG	2 cut(s)	91, 92
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)	412, 438
TauI	GCSGC	3 cut(s)	29, 75, 221
Tru1I	TTAA	1 cut(s)	411
Tru9I	TTAA	1 cut(s)	411
TseI	GCWGC	5 cut(s)	69, 130, 133, 204, 279
TspDTI	ATGAA	3 cut(s)	40, 317, 415
TspMI	CCCGGG	1 cut(s)	92
Tth111I	GACNNNGTC	1 cut(s)	142
VneI	GTGCAC	1 cut(s)	363
XmaI	CCCGGG	1 cut(s)	92

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