Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0016633

Physical Location & Seq

Genomic Coordinates Forward (+)

64820431 .. 64820822

Gene Structure 392 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG415900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 303 bp

ATGGCAGCCTTCAAGTCTATGATCAGCTCCCAAGCTGCAGCACTACTGCTTGTGGCTATGATGGGCCTCGCGCTGGTGCATATCCAGATGGCCGAGGCTCAGGGCAGCTCGTGTGCGGCCGTCCTGACCAATCTGAATGTGTGTGCACCCTTTGTGGTTCCTGGGAGTAACGACAAACCAAGCTCCGACTGCTGCAATGCGGTCCAAGCTGTGGAAACGAGCTGTATTTGCAACACTCTCAGGATGGCTGCTCAACTTCCCTCTCAGTGCAATCTCCCTCCCCTCTCTTGTGGTACAAACTGA

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

100

Amino Acids

10.22

Weight (kDa)

5.46

Isoelectric Point (pI)

45.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LTP_2	PF14368	23 - 84	4.5e-07	Probable lipid transfer
Tryp_alpha_amyl	PF00234	38 - 96	4.4e-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
AccII	CGCG	1 cut(s)	71
AciI	CCGC	2 cut(s)	116, 200
AcoI	YGGCCR	2 cut(s)	90, 117
AfaI	GTAC	1 cut(s)	295
AfiI	CCNNNNNNNGG	2 cut(s)	73, 211
AgsI	TTSAA	1 cut(s)	13
AjnI	CCWGG	1 cut(s)	160
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
AspLEI	GCGC	1 cut(s)	73
AspS9I	GGNCC	2 cut(s)	64, 202
AvaII	GGWCC	1 cut(s)	202
BaeGI	GKGCMC	1 cut(s)	148
BauI	CACGAG	1 cut(s)	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
BciT130I	CCWGG	1 cut(s)	162
BclI	TGATCA	1 cut(s)	21
BfmI	CTRYAG	1 cut(s)	36
BisI	GCNGC	7 cut(s)	6, 36, 39, 106, 117, 193, 249
BlsI	GCNGC	7 cut(s)	7, 37, 40, 107, 118, 194, 250
Bme1390I	CCNGG	1 cut(s)	162
Bme18I	GGWCC	1 cut(s)	202
BmgT120I	GGNCC	2 cut(s)	64, 202
BmiI	GGNNCC	1 cut(s)	159
BmrFI	CCNGG	1 cut(s)	162
Bpu10I	CCTNAGC	1 cut(s)	99
BsaJI	CCNNGG	2 cut(s)	93, 161
Bsc4I	CCNNNNNNNGG	2 cut(s)	73, 211
Bse3DI	GCAATG	1 cut(s)	202
BseBI	CCWGG	1 cut(s)	162
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	1 cut(s)	148
BseX3I	CGGCCG	1 cut(s)	117
BseXI	GCAGC	6 cut(s)	17, 22, 50, 117, 179, 235
Bsh1236I	CGCG	1 cut(s)	71
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
BslI	CCNNNNNNNGG	2 cut(s)	73, 211
BsnI	GGCC	3 cut(s)	66, 92, 119
Bsp1286I	GDGCHC	1 cut(s)	148
Bsp143I	GATC	1 cut(s)	21
BspACI	CCGC	2 cut(s)	116, 200
BspANI	GGCC	3 cut(s)	66, 92, 119
BspCNI	CTCAG	3 cut(s)	112, 252, 277
BspFNI	CGCG	1 cut(s)	71
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	1 cut(s)	109
Bst2BI	CACGAG	1 cut(s)	109
Bst2UI	CCWGG	1 cut(s)	162
BstDEI	CTNAG	3 cut(s)	99, 239, 264
BstF5I	GGATG	1 cut(s)	249
BstFNI	CGCG	1 cut(s)	71
BstHHI	GCGC	1 cut(s)	73
BstKTI	GATC	1 cut(s)	24
BstMBI	GATC	1 cut(s)	21
BstMCI	CGRYCG	1 cut(s)	120
BstMWI	GCNNNNNNNGC	3 cut(s)	189, 206, 228
BstNI	CCWGG	1 cut(s)	162
BstSCI	CCNGG	1 cut(s)	160
BstSFI	CTRYAG	1 cut(s)	36
BstSLI	GKGCMC	1 cut(s)	148
BstUI	CGCG	1 cut(s)	71
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
CfoI	GCGC	1 cut(s)	73
Cfr13I	GGNCC	2 cut(s)	64, 202
Csp6I	GTAC	1 cut(s)	294
CviQI	GTAC	1 cut(s)	294
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
EcoRII	CCWGG	1 cut(s)	160
FaiI	YATR	3 cut(s)	20, 59, 81
FbaI	TGATCA	1 cut(s)	21
Fnu4HI	GCNGC	7 cut(s)	6, 36, 39, 106, 117, 193, 249
FokI	GGATG	1 cut(s)	256
Fsp4HI	GCNGC	7 cut(s)	6, 36, 39, 106, 117, 193, 249
GlaI	GCGC	1 cut(s)	72
GluI	GCNGC	7 cut(s)	6, 36, 39, 106, 117, 193, 249
HaeIII	GGCC	3 cut(s)	66, 92, 119
HhaI	GCGC	1 cut(s)	73
Hin6I	GCGC	1 cut(s)	71
HinP1I	GCGC	1 cut(s)	71
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	3 cut(s)	189, 206, 228
HpyF3I	CTNAG	3 cut(s)	99, 239, 264
HspAI	GCGC	1 cut(s)	71
Ksp22I	TGATCA	1 cut(s)	21
Kzo9I	GATC	1 cut(s)	21
LmnI	GCTCC	2 cut(s)	32, 188
LpnPI	CCDG	7 cut(s)	59, 86, 98, 137, 147, 174, 226
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	1 cut(s)	148
MmeI	TCCRAC	1 cut(s)	210
MnlI	CCTC	5 cut(s)	77, 88, 271, 288, 293
MspR9I	CCNGG	1 cut(s)	162
MvaI	CCWGG	1 cut(s)	162
MvnI	CGCG	1 cut(s)	71
MwoI	GCNNNNNNNGC	3 cut(s)	189, 206, 228
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	7 cut(s)	7, 37, 40, 107, 118, 194, 250
Psp6I	CCWGG	1 cut(s)	160
PspGI	CCWGG	1 cut(s)	160
PspN4I	GGNNCC	1 cut(s)	159
PspPI	GGNCC	2 cut(s)	64, 202
PstI	CTGCAG	1 cut(s)	40
RsaI	GTAC	1 cut(s)	295
RsaNI	GTAC	1 cut(s)	294
SatI	GCNGC	7 cut(s)	6, 36, 39, 106, 117, 193, 249
Sau3AI	GATC	1 cut(s)	21
Sau96I	GGNCC	2 cut(s)	64, 202
ScrFI	CCNGG	1 cut(s)	162
SduI	GDGCHC	1 cut(s)	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	2 cut(s)	116, 200
StyD4I	CCNGG	1 cut(s)	160
TauI	GCSGC	1 cut(s)	119
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.