Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0016633

Physical Location & Seq

Genomic Coordinates Forward (+)

62507376 .. 62508256

Gene Structure 881 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG405900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 318 bp

ATGGCAGCCTTCAAGTCTATGATCAGCTCCCAAGCTGCAGCACTACTGCTTGTGGCTTTGATGGGCCTCGTGCTGGTGCATATCCAGATGGCCGAGGCTCAGGGCAGCTCGTGCCCGGCCGTCCTGACCAATCTGAATGTGTGTGCACCCTTTGTGGTTCCGGGGAGTAACGACAAACCAAGCTCCGACTGCTGCAATGCGGTCCAAGCTGTGGAAACGAGCTGTATTTGCAACACTCTCAGGATGGCTGCTCAACTTCCCTCTCAGTGCAATCTCCCTCCCCTCTCTTGTGGTGATTACTTTTCTGGTACAAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005215 GO:0005319 GO:0005548 GO:0006649 GO:0006810 GO:0006811 GO:0006820 GO:0006869 GO:0008150 GO:0009987 GO:0010876 GO:0015711 GO:0015748 GO:0015914 GO:0016043 GO:0033036 GO:0051179 GO:0051234 GO:0061024 GO:0071702 GO:0071840

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

LTP_2 Tryp_alpha_amyl

Protein Analysis

105

Amino Acids

10.82

Weight (kDa)

4.83

Isoelectric Point (pI)

48.12

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	25 - 84	1e-06	Probable lipid transfer
Tryp_alpha_amyl	PF00234	38 - 96	2.4e-09	Protease inhibitor/seed storage/LTP family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0016633)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G07230 AT5G52160 AT5G62080
fragaria_vesca	FvH4_7g29091
malus_domestica	MD01G1197500.v1.1
prunus_persica	Prupe.2G290900_v2.0.a1
rosa_chinensis	RchiOBHm_Chr1g0376811
rosa_laevigata	RLG00000026568
rosa_roxburghii	Rroxscaffold_4G00281700
rosa_samantha	Rh1AG415900 Rh1BG375300 Rh1CG389100 Rh1DG405900
rosa_wichuraiana	Rw1G036480

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	211
AciI	CCGC	1 cut(s)	200
AcoI	YGGCCR	2 cut(s)	90, 117
AfaI	GTAC	1 cut(s)	310
AfiI	CCNNNNNNNGG	2 cut(s)	73, 211
AgsI	TTSAA	1 cut(s)	13
AluBI	AGCT	6 cut(s)	27, 35, 108, 183, 209, 222
AluI	AGCT	6 cut(s)	27, 35, 108, 183, 209, 222
Alw21I	GWGCWC	1 cut(s)	148
Alw44I	GTGCAC	1 cut(s)	144
AoxI	GGCC	3 cut(s)	64, 90, 117
ApaLI	GTGCAC	1 cut(s)	144
ApeKI	GCWGC	6 cut(s)	5, 35, 38, 105, 192, 248
AspS9I	GGNCC	2 cut(s)	64, 202
AsuC2I	CCSGG	2 cut(s)	116, 162
AsuHPI	GGTGA	1 cut(s)	305
AvaII	GGWCC	1 cut(s)	202
BaeGI	GKGCMC	2 cut(s)	116, 148
BauI	CACGAG	2 cut(s)	68, 109
Bbv12I	GWGCWC	1 cut(s)	148
BbvI	GCAGC	6 cut(s)	17, 22, 50, 117, 179, 235
BccI	CCATC	3 cut(s)	55, 82, 238
BceAI	ACGGC	1 cut(s)	104
BclI	TGATCA	1 cut(s)	21
BcnI	CCSGG	2 cut(s)	116, 162
BfmI	CTRYAG	1 cut(s)	36
BisI	GCNGC	6 cut(s)	6, 36, 39, 106, 193, 249
BlsI	GCNGC	6 cut(s)	7, 37, 40, 107, 194, 250
Bme1390I	CCNGG	2 cut(s)	116, 162
Bme18I	GGWCC	1 cut(s)	202
BmgT120I	GGNCC	2 cut(s)	64, 202
BmiI	GGNNCC	1 cut(s)	159
BmrFI	CCNGG	2 cut(s)	116, 162
Bpu10I	CCTNAGC	1 cut(s)	99
BpuMI	CCSGG	2 cut(s)	116, 162
BsaJI	CCNNGG	2 cut(s)	93, 161
Bsc4I	CCNNNNNNNGG	2 cut(s)	73, 211
Bse3DI	GCAATG	1 cut(s)	202
BseDI	CCNNGG	2 cut(s)	93, 161
BseGI	GGATG	1 cut(s)	249
BseLI	CCNNNNNNNGG	2 cut(s)	73, 211
BseMI	GCAATG	1 cut(s)	202
BseMII	CTCAG	3 cut(s)	113, 253, 278
BseSI	GKGCMC	2 cut(s)	116, 148
BseX3I	CGGCCG	1 cut(s)	117
BseXI	GCAGC	6 cut(s)	17, 22, 50, 117, 179, 235
Bsh1285I	CGRYCG	1 cut(s)	120
BshFI	GGCC	3 cut(s)	66, 92, 119
BsiEI	CGRYCG	1 cut(s)	120
BsiHKAI	GWGCWC	1 cut(s)	148
BsiSI	CCGG	2 cut(s)	116, 161
BslI	CCNNNNNNNGG	2 cut(s)	73, 211
BsnI	GGCC	3 cut(s)	66, 92, 119
Bsp1286I	GDGCHC	2 cut(s)	116, 148
Bsp143I	GATC	1 cut(s)	21
BspACI	CCGC	1 cut(s)	200
BspANI	GGCC	3 cut(s)	66, 92, 119
BspCNI	CTCAG	3 cut(s)	112, 252, 277
BspLI	GGNNCC	1 cut(s)	159
BspMAI	CTGCAG	1 cut(s)	40
BsrDI	GCAATG	1 cut(s)	202
BssECI	CCNNGG	2 cut(s)	93, 161
BssMI	GATC	1 cut(s)	21
BssSI	CACGAG	2 cut(s)	68, 109
Bst2BI	CACGAG	2 cut(s)	68, 109
BstAPI	GCANNNNNTGC	1 cut(s)	111
BstDEI	CTNAG	3 cut(s)	99, 239, 264
BstF5I	GGATG	1 cut(s)	249
BstKTI	GATC	1 cut(s)	24
BstMBI	GATC	1 cut(s)	21
BstMCI	CGRYCG	1 cut(s)	120
BstMWI	GCNNNNNNNGC	4 cut(s)	111, 189, 206, 228
BstSCI	CCNGG	2 cut(s)	114, 160
BstSFI	CTRYAG	1 cut(s)	36
BstSLI	GKGCMC	2 cut(s)	116, 148
BstV1I	GCAGC	6 cut(s)	17, 22, 50, 117, 179, 235
BstZI	CGGCCG	1 cut(s)	117
BsuRI	GGCC	3 cut(s)	66, 92, 119
BtsCI	GGATG	1 cut(s)	249
BtsIMutI	CAGTG	1 cut(s)	272
Cfr13I	GGNCC	2 cut(s)	64, 202
Csp6I	GTAC	1 cut(s)	309
CviQI	GTAC	1 cut(s)	309
DdeI	CTNAG	3 cut(s)	99, 239, 264
DpnI	GATC	1 cut(s)	23
DpnII	GATC	1 cut(s)	21
EaeI	YGGCCR	2 cut(s)	90, 117
EagI	CGGCCG	1 cut(s)	117
EclXI	CGGCCG	1 cut(s)	117
Eco47I	GGWCC	1 cut(s)	202
Eco52I	CGGCCG	1 cut(s)	117
FaiI	YATR	2 cut(s)	20, 81
FbaI	TGATCA	1 cut(s)	21
Fnu4HI	GCNGC	6 cut(s)	6, 36, 39, 106, 193, 249
FokI	GGATG	1 cut(s)	256
Fsp4HI	GCNGC	6 cut(s)	6, 36, 39, 106, 193, 249
GluI	GCNGC	6 cut(s)	6, 36, 39, 106, 193, 249
HaeIII	GGCC	3 cut(s)	66, 92, 119
HapII	CCGG	2 cut(s)	116, 161
HpaII	CCGG	2 cut(s)	116, 161
HphI	GGTGA	1 cut(s)	305
Hpy166II	GTNNAC	1 cut(s)	146
Hpy188I	TCNGA	2 cut(s)	135, 187
Hpy188III	TCNNGA	3 cut(s)	85, 124, 241
Hpy8I	GTNNAC	1 cut(s)	146
HpyAV	CCTTC	1 cut(s)	19
HpyCH4V	TGCA	6 cut(s)	38, 79, 146, 195, 231, 270
HpyF10VI	GCNNNNNNNGC	4 cut(s)	111, 189, 206, 228
HpyF3I	CTNAG	3 cut(s)	99, 239, 264
Ksp22I	TGATCA	1 cut(s)	21
Kzo9I	GATC	1 cut(s)	21
LmnI	GCTCC	2 cut(s)	32, 188
LpnPI	CCDG	8 cut(s)	59, 86, 98, 129, 137, 174, 226, 291
Lsp1109I	GCAGC	6 cut(s)	17, 22, 50, 117, 179, 235
MaeIII	GTNAC	1 cut(s)	167
MalI	GATC	1 cut(s)	23
MboI	GATC	1 cut(s)	21
MhlI	GDGCHC	2 cut(s)	116, 148
MmeI	TCCRAC	1 cut(s)	210
MnlI	CCTC	5 cut(s)	77, 88, 271, 288, 293
MspI	CCGG	2 cut(s)	116, 161
MspR9I	CCNGG	2 cut(s)	116, 162
MwoI	GCNNNNNNNGC	4 cut(s)	111, 189, 206, 228
NciI	CCSGG	2 cut(s)	116, 162
NdeII	GATC	1 cut(s)	21
NlaIV	GGNNCC	1 cut(s)	159
NmeAIII	GCCGAG	1 cut(s)	118
PflMI	CCANNNNNTGG	1 cut(s)	211
PkrI	GCNGC	6 cut(s)	7, 37, 40, 107, 194, 250
PspN4I	GGNNCC	1 cut(s)	159
PspPI	GGNCC	2 cut(s)	64, 202
PstI	CTGCAG	1 cut(s)	40
RsaI	GTAC	1 cut(s)	310
RsaNI	GTAC	1 cut(s)	309
SatI	GCNGC	6 cut(s)	6, 36, 39, 106, 193, 249
Sau3AI	GATC	1 cut(s)	21
Sau96I	GGNCC	2 cut(s)	64, 202
ScrFI	CCNGG	2 cut(s)	116, 162
SduI	GDGCHC	2 cut(s)	116, 148
SetI	ASST	6 cut(s)	29, 37, 110, 185, 211, 224
SfcI	CTRYAG	1 cut(s)	36
SinI	GGWCC	1 cut(s)	202
SsiI	CCGC	1 cut(s)	200
StyD4I	CCNGG	2 cut(s)	114, 160
TscAI	CASTG	1 cut(s)	272
TseI	GCWGC	6 cut(s)	5, 35, 38, 105, 192, 248
TspRI	CASTG	1 cut(s)	272
Van91I	CCANNNNNTGG	1 cut(s)	211
VneI	GTGCAC	1 cut(s)	144
VpaK11BI	GGWCC	1 cut(s)	202

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