Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0004105

Physical Location & Seq

Genomic Coordinates Forward (+)

1125488 .. 1127481

Gene Structure 1994 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG013400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 492 bp

ATGGCTTCAAAGTGTCTGTTTCTGATGGTGTTAGGTTTAGTGGGCCTTGTGGGCTCTGCGGCCGAGTTTTCGGGAGGCGGACTAGCAGGGCTGGTCCATGGTGGCGGTGATGGTGATCCAAGTGATTCAATGCCATGCGTGAAGAAACTGATTCCGTGCCAACCCTATTTGCACGCACCGGAGAAGGTGCCGGTATCGTGCTGCTTGCCGTTGAAGCAGATGGTTTCCGACGACACGAAATGCCTGTGTGGACTGTTTAACAGTGTTGATATGTTGAAGAAGCTTAACGTTACTCAGGATGAGGCCTTGAAGCTTCCCAAGGCTTGTGGAGCCAATGCTGACATTTCTATCTGCAAAAAAGATTCAACATCACCACCCAAATCACCAGAAACTCCATCAGCTTCGAACTCTAGTAAGTTCTTTGCAGATCAGCTAAGCTGTGTGTTTTGGATTAATCATAGTATTTGCAGTATTCAACTTTTAAATATTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LTP_2

Protein Analysis

163

Amino Acids

17.13

Weight (kDa)

6.78

Isoelectric Point (pI)

41.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	44 - 118	4.2e-14	Probable lipid transfer
Tryp_alpha_amyl	PF00234	47 - 114	3.2e-06	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: OG0004105)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G18280 AT1G73550 AT1G73550 AT1G73560
fragaria_vesca	FvH4_3g18850 FvH4_5g17510 FvH4_7g32070
malus_domestica	MD06G1228500.v1.1 MD14G1237700.v1.1
prunus_persica	Prupe.5G235000_v2.0.a1
pyrus_communis	pycom06g20480 pycom14g19890
rosa_chinensis	RchiOBHm_Chr5g0031711 RchiOBHm_Chr7g0178151
rosa_laevigata	RLG00000005467 RLG00000033334
rosa_multiflora	Rmu_sc0002999.1_g000029
rosa_roxburghii	Rroxscaffold_1G00048540 Rroxscaffold_3G00275130
rosa_rugosa	Rorug05G0127500 Rorug06G0413800
rosa_samantha	Rh5AG221600 Rh5BG221500 Rh5CG244400 Rh5CG244700 Rh5DG226100 Rh5DG226200 Rh7AG013300 Rh7BG013200 Rh7CG013100 Rh7DG013400
rosa_wichuraiana	Rw5G020180 Rw7G001050

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	187
AciI	CCGC	3 cut(s)	59, 78, 105
AclI	AACGTT	1 cut(s)	288
AclWI	GGATC	1 cut(s)	110
AcoI	YGGCCR	1 cut(s)	60
AgsI	TTSAA	7 cut(s)	9, 129, 214, 277, 310, 366, 476
AluBI	AGCT	5 cut(s)	283, 313, 401, 433, 438
AluI	AGCT	5 cut(s)	283, 313, 401, 433, 438
AlwI	GGATC	1 cut(s)	110
AoxI	GGCC	3 cut(s)	43, 60, 303
ApeKI	GCWGC	1 cut(s)	201
AseI	ATTAAT	1 cut(s)	453
AspS9I	GGNCC	2 cut(s)	43, 94
AsuHPI	GGTGA	4 cut(s)	119, 125, 363, 375
AsuII	TTCGAA	1 cut(s)	404
AvaII	GGWCC	1 cut(s)	94
BanI	GGYRCC	1 cut(s)	187
BanII	GRGCYC	1 cut(s)	56
BbvI	GCAGC	1 cut(s)	188
BccI	CCATC	4 cut(s)	19, 104, 214, 403
BceAI	ACGGC	1 cut(s)	193
BfaI	CTAG	2 cut(s)	83, 411
BglI	GCCNNNNNGGC	1 cut(s)	51
BisI	GCNGC	2 cut(s)	60, 202
BlpI	GCTNAGC	1 cut(s)	434
BlsI	GCNGC	2 cut(s)	61, 203
Bme18I	GGWCC	1 cut(s)	94
BmgT120I	GGNCC	2 cut(s)	43, 94
BmiI	GGNNCC	2 cut(s)	189, 331
Bpu1102I	GCTNAGC	1 cut(s)	434
Bpu14I	TTCGAA	1 cut(s)	404
BsaBI	GATNNNNATC	1 cut(s)	114
BsaJI	CCNNGG	2 cut(s)	97, 318
BsaWI	WCCGGW	1 cut(s)	178
Bse118I	RCCGGY	1 cut(s)	190
Bse8I	GATNNNNATC	1 cut(s)	114
BseDI	CCNNGG	2 cut(s)	97, 318
BseGI	GGATG	1 cut(s)	304
BseJI	GATNNNNATC	1 cut(s)	114
BseMII	CTCAG	1 cut(s)	308
BseX3I	CGGCCG	1 cut(s)	60
BseXI	GCAGC	1 cut(s)	188
Bsh1285I	CGRYCG	1 cut(s)	63
BshFI	GGCC	3 cut(s)	45, 62, 305
BshNI	GGYRCC	1 cut(s)	187
BsiEI	CGRYCG	1 cut(s)	63
BsiSI	CCGG	2 cut(s)	179, 191
BsnI	GGCC	3 cut(s)	45, 62, 305
Bsp119I	TTCGAA	1 cut(s)	404
Bsp1286I	GDGCHC	1 cut(s)	56
Bsp143I	GATC	2 cut(s)	115, 427
Bsp1720I	GCTNAGC	1 cut(s)	434
Bsp19I	CCATGG	1 cut(s)	97
BspACI	CCGC	3 cut(s)	59, 78, 105
BspANI	GGCC	3 cut(s)	45, 62, 305
BspCNI	CTCAG	1 cut(s)	307
BspLI	GGNNCC	2 cut(s)	189, 331
BspPI	GGATC	1 cut(s)	110
BspT104I	TTCGAA	1 cut(s)	404
BspT107I	GGYRCC	1 cut(s)	187
BsrFI	RCCGGY	1 cut(s)	190
BssAI	RCCGGY	1 cut(s)	190
BssECI	CCNNGG	2 cut(s)	97, 318
BssMI	GATC	2 cut(s)	115, 427
BssT1I	CCWWGG	2 cut(s)	97, 318
Bst4CI	ACNGT	2 cut(s)	255, 263
BstBI	TTCGAA	1 cut(s)	404
BstC8I	GCNNGC	2 cut(s)	174, 206
BstDEI	CTNAG	2 cut(s)	294, 434
BstDSI	CCRYGG	1 cut(s)	97
BstF5I	GGATG	1 cut(s)	304
BstKTI	GATC	2 cut(s)	118, 430
BstMBI	GATC	2 cut(s)	115, 427
BstMCI	CGRYCG	1 cut(s)	63
BstMWI	GCNNNNNNNGC	3 cut(s)	51, 214, 329
BstV1I	GCAGC	1 cut(s)	188
BstZI	CGGCCG	1 cut(s)	60
BsuRI	GGCC	3 cut(s)	45, 62, 305
BtgI	CCRYGG	1 cut(s)	97
BtsCI	GGATG	1 cut(s)	304
BtsIMutI	CAGTG	1 cut(s)	268
Cac8I	GCNNGC	2 cut(s)	174, 206
Cfr10I	RCCGGY	1 cut(s)	190
Cfr13I	GGNCC	2 cut(s)	43, 94
CspCI	CAANNNNNGTGG	2 cut(s)	307, 342
CviAII	CATG	2 cut(s)	98, 135
DdeI	CTNAG	2 cut(s)	294, 434
DpnI	GATC	2 cut(s)	117, 429
DpnII	GATC	2 cut(s)	115, 427
DraI	TTTAAA	1 cut(s)	483
EaeI	YGGCCR	1 cut(s)	60
EagI	CGGCCG	1 cut(s)	60
EciI	GGCGGA	1 cut(s)	93
EclXI	CGGCCG	1 cut(s)	60
Eco130I	CCWWGG	2 cut(s)	97, 318
Eco147I	AGGCCT	1 cut(s)	305
Eco24I	GRGCYC	1 cut(s)	56
Eco47I	GGWCC	1 cut(s)	94
Eco52I	CGGCCG	1 cut(s)	60
EcoT14I	CCWWGG	2 cut(s)	97, 318
EcoT38I	GRGCYC	1 cut(s)	56
ErhI	CCWWGG	2 cut(s)	97, 318
FaeI	CATG	2 cut(s)	101, 138
FaiI	YATR	4 cut(s)	99, 136, 272, 459
FatI	CATG	2 cut(s)	97, 134
Fnu4HI	GCNGC	2 cut(s)	60, 202
FokI	GGATG	1 cut(s)	311
FriOI	GRGCYC	1 cut(s)	56
Fsp4HI	GCNGC	2 cut(s)	60, 202
FspBI	CTAG	2 cut(s)	83, 411
GluI	GCNGC	2 cut(s)	60, 202
HaeIII	GGCC	3 cut(s)	45, 62, 305
HapII	CCGG	2 cut(s)	179, 191
Hin1II	CATG	2 cut(s)	101, 138
HindIII	AAGCTT	2 cut(s)	281, 311
HinfI	GANTC	3 cut(s)	125, 151, 362
HpaII	CCGG	2 cut(s)	179, 191
HphI	GGTGA	4 cut(s)	119, 125, 363, 375
Hpy166II	GTNNAC	1 cut(s)	251
Hpy188I	TCNGA	2 cut(s)	24, 229
Hpy188III	TCNNGA	2 cut(s)	72, 296
Hpy8I	GTNNAC	1 cut(s)	251
Hpy99I	CGWCG	1 cut(s)	233
HpyAV	CCTTC	1 cut(s)	178
HpyCH4III	ACNGT	2 cut(s)	255, 263
HpyCH4IV	ACGT	1 cut(s)	288
HpyCH4V	TGCA	4 cut(s)	172, 354, 425, 468
HpyF10VI	GCNNNNNNNGC	3 cut(s)	51, 214, 329
HpyF3I	CTNAG	2 cut(s)	294, 434
HpySE526I	ACGT	1 cut(s)	288
Hsp92II	CATG	2 cut(s)	101, 138
Kzo9I	GATC	2 cut(s)	115, 427
LmnI	GCTCC	1 cut(s)	329
LpnPI	CCDG	7 cut(s)	72, 77, 192, 204, 257, 281, 399
Lsp1109I	GCAGC	1 cut(s)	188
MaeI	CTAG	2 cut(s)	83, 411
MaeII	ACGT	1 cut(s)	288
MaeIII	GTNAC	1 cut(s)	289
MalI	GATC	2 cut(s)	117, 429
MboI	GATC	2 cut(s)	115, 427
MboII	GAAGA	2 cut(s)	154, 289
MhlI	GDGCHC	1 cut(s)	56
MmeI	TCCRAC	1 cut(s)	252
MnlI	CCTC	2 cut(s)	68, 295
MseI	TTAA	4 cut(s)	258, 285, 453, 482
MspI	CCGG	2 cut(s)	179, 191
MwoI	GCNNNNNNNGC	3 cut(s)	51, 214, 329
NcoI	CCATGG	1 cut(s)	97
NdeII	GATC	2 cut(s)	115, 427
NlaIII	CATG	2 cut(s)	101, 138
NlaIV	GGNNCC	2 cut(s)	189, 331
NmeAIII	GCCGAG	1 cut(s)	88
NspV	TTCGAA	1 cut(s)	404
PceI	AGGCCT	1 cut(s)	305
PfeI	GAWTC	3 cut(s)	125, 151, 362
PkrI	GCNGC	2 cut(s)	61, 203
PshBI	ATTAAT	1 cut(s)	453
Psp1406I	AACGTT	1 cut(s)	288
PspN4I	GGNNCC	2 cut(s)	189, 331
PspPI	GGNCC	2 cut(s)	43, 94
SaqAI	TTAA	4 cut(s)	258, 285, 453, 482
SatI	GCNGC	2 cut(s)	60, 202
Sau3AI	GATC	2 cut(s)	115, 427
Sau96I	GGNCC	2 cut(s)	43, 94
SduI	GDGCHC	1 cut(s)	56
SetI	ASST	8 cut(s)	37, 189, 285, 291, 315, 403, 435, 440
SfuI	TTCGAA	1 cut(s)	404
SinI	GGWCC	1 cut(s)	94
SseBI	AGGCCT	1 cut(s)	305
SsiI	CCGC	3 cut(s)	59, 78, 105
SspI	AATATT	1 cut(s)	487
SspMI	CTAG	2 cut(s)	83, 411
StuI	AGGCCT	1 cut(s)	305
StyI	CCWWGG	2 cut(s)	97, 318
TaaI	ACNGT	2 cut(s)	255, 263
TaiI	ACGT	1 cut(s)	291
TaqI	TCGA	1 cut(s)	404
TauI	GCSGC	1 cut(s)	62
TfiI	GAWTC	3 cut(s)	125, 151, 362
Tru1I	TTAA	4 cut(s)	258, 285, 453, 482
Tru9I	TTAA	4 cut(s)	258, 285, 453, 482
TscAI	CASTG	1 cut(s)	268
TseI	GCWGC	1 cut(s)	201
TspGWI	ACGGA	1 cut(s)	144
TspRI	CASTG	1 cut(s)	268
VpaK11BI	GGWCC	1 cut(s)	94
VspI	ATTAAT	1 cut(s)	453
XspI	CTAG	2 cut(s)	83, 411

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