Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6D

Orthogroup ID

OG0006885

Physical Location & Seq

Genomic Coordinates Reverse (-)

63948594 .. 63950078

Gene Structure 1485 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6DG473300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 375 bp

ATGGGGAGCAACGACGAGCTCATGTCGGAGGCTTTGCTGGAGCTGATGAAGCAGCACCTCAACACCGACGCCGGAAAAGCCATCGTCGAGAAGATCGGTTTCGTTTATCAGATCCACATCGCACCCAAGAAAATTGGGTTCGATGAGGTGATTTATACCATTGATTTTAAGAAAGGGGAGGTCAAGAAAGGGGCGTATGAAGGAGGAAAGGCGGATGCGATATTTTCGTTCAAGGACGAGGATTTCGTGAAGATTGCGCTGGGGAAGATGAATCCGCAGATTGCTTTCATGAGGGGCTCCATGAAGATTAAGGGCAGCTTGAGCGCGGCCACCAAATTCACACCTGACATATTCCCCAAGCCTTCCAAGATGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005777 GO:0006082 GO:0006629 GO:0006631 GO:0007154 GO:0007165 GO:0008150 GO:0008152 GO:0009987 GO:0019752 GO:0019932 GO:0019933 GO:0019935 GO:0023052 GO:0030587 GO:0032502 GO:0032787 GO:0035556 GO:0042579 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044238 GO:0044255 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051703 GO:0051704 GO:0051716 GO:0065007 GO:0071704 GO:0090702 GO:0099120

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

SCP2

Protein Analysis

124

Amino Acids

13.72

Weight (kDa)

9.02

Isoelectric Point (pI)

16.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SCP2	PF02036	16 - 114	1.5e-18	SCP-2 sterol transfer 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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Orthologous Genes (Group: OG0006885)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G42890
fragaria_vesca	FvH4_2g34440 FvH4_2g34441
malus_domestica	MD00G1215600.v1.1 MD08G1101600.v1.1 MD15G1083000.v1.1
prunus_persica	Prupe.1G435500_v2.0.a1
pyrus_communis	pycom08g08210
rosa_chinensis	RchiOBHm_Chr5g0032801 RchiOBHm_Chr6g0307931
rosa_laevigata	RLG00000010686 RLG00000033429
rosa_multiflora	Rmu_sc0003252.1_g000020
rosa_roxburghii	Rroxscaffold_2G00127110 Rroxscaffold_7G00160760
rosa_rugosa	Rorug06G0361700 Rorug06G0361800 Rorug06G0361900
rosa_samantha	Rh5CG255500 Rh6AG470800 Rh6BG481800 Rh6CG487200 Rh6DG473300 Rh7DG462100
rosa_wichuraiana	Rw5G020780 Rw6G041110

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	326
AciI	CCGC	3 cut(s)	212, 275, 326
AclWI	GGATC	1 cut(s)	106
AcoI	YGGCCR	1 cut(s)	327
AcsI	RAATTY	1 cut(s)	335
AcyI	GRCGYC	1 cut(s)	69
AgsI	TTSAA	1 cut(s)	232
AluBI	AGCT	3 cut(s)	19, 43, 318
AluI	AGCT	3 cut(s)	19, 43, 318
Alw21I	GWGCWC	1 cut(s)	21
AlwI	GGATC	1 cut(s)	106
AoxI	GGCC	1 cut(s)	327
ApeKI	GCWGC	2 cut(s)	52, 315
ApoI	RAATTY	1 cut(s)	335
ArsI	GACNNNNNNTTYG	2 cut(s)	227, 259
AspLEI	GCGC	2 cut(s)	259, 326
AsuHPI	GGTGA	1 cut(s)	160
BanII	GRGCYC	2 cut(s)	21, 299
Bbv12I	GWGCWC	1 cut(s)	21
BbvI	GCAGC	2 cut(s)	64, 327
BccI	CCATC	1 cut(s)	89
BisI	GCNGC	3 cut(s)	53, 316, 327
BlsI	GCNGC	3 cut(s)	54, 317, 328
BmiI	GGNNCC	1 cut(s)	298
BmsI	GCATC	1 cut(s)	205
BpmI	CTGGAG	1 cut(s)	59
BpuEI	CTTGAG	1 cut(s)	340
BsaBI	GATNNNNATC	1 cut(s)	116
BsaHI	GRCGYC	1 cut(s)	69
Bse8I	GATNNNNATC	1 cut(s)	116
BseGI	GGATG	1 cut(s)	220
BseJI	GATNNNNATC	1 cut(s)	116
BseXI	GCAGC	2 cut(s)	64, 327
BseYI	CCCAGC	1 cut(s)	259
Bsh1236I	CGCG	1 cut(s)	326
BshFI	GGCC	1 cut(s)	329
BsiHKAI	GWGCWC	1 cut(s)	21
BsiSI	CCGG	1 cut(s)	72
BsnI	GGCC	1 cut(s)	329
Bsp1286I	GDGCHC	2 cut(s)	21, 299
Bsp143I	GATC	2 cut(s)	93, 111
BspACI	CCGC	3 cut(s)	212, 275, 326
BspANI	GGCC	1 cut(s)	329
BspFNI	CGCG	1 cut(s)	326
BspHI	TCATGA	1 cut(s)	288
BspLI	GGNNCC	1 cut(s)	298
BspPI	GGATC	1 cut(s)	106
BssMI	GATC	2 cut(s)	93, 111
BssNI	GRCGYC	1 cut(s)	69
BstACI	GRCGYC	1 cut(s)	69
BstF5I	GGATG	1 cut(s)	220
BstFNI	CGCG	1 cut(s)	326
BstHHI	GCGC	2 cut(s)	259, 326
BstKTI	GATC	2 cut(s)	96, 114
BstMBI	GATC	2 cut(s)	93, 111
BstMWI	GCNNNNNNNGC	3 cut(s)	49, 77, 321
BstUI	CGCG	1 cut(s)	326
BstV1I	GCAGC	2 cut(s)	64, 327
BstX2I	RGATCY	1 cut(s)	111
BstYI	RGATCY	1 cut(s)	111
BsuRI	GGCC	1 cut(s)	329
BtgZI	GCGATG	1 cut(s)	103
BtsCI	GGATG	1 cut(s)	220
CciI	TCATGA	1 cut(s)	288
CfoI	GCGC	2 cut(s)	259, 326
CseI	GACGC	1 cut(s)	77
CviAII	CATG	3 cut(s)	22, 289, 301
CviJI	RGCY	8 cut(s)	19, 32, 43, 80, 297, 318, 329, 361
CviKI_1	RGCY	8 cut(s)	19, 32, 43, 80, 297, 318, 329, 361
DpnI	GATC	2 cut(s)	95, 113
DpnII	GATC	2 cut(s)	93, 111
EaeI	YGGCCR	1 cut(s)	327
EciI	GGCGGA	1 cut(s)	227
Ecl136II	GAGCTC	1 cut(s)	19
Eco24I	GRGCYC	2 cut(s)	21, 299
Eco53kI	GAGCTC	1 cut(s)	19
EcoICRI	GAGCTC	1 cut(s)	19
EcoT38I	GRGCYC	2 cut(s)	21, 299
FaeI	CATG	3 cut(s)	25, 292, 304
FaiI	YATR	6 cut(s)	23, 156, 198, 290, 302, 350
FalI	AAGNNNNNCTT	2 cut(s)	302, 334
FatI	CATG	3 cut(s)	21, 288, 300
Fnu4HI	GCNGC	3 cut(s)	53, 316, 327
FokI	GGATG	1 cut(s)	227
FriOI	GRGCYC	2 cut(s)	21, 299
Fsp4HI	GCNGC	3 cut(s)	53, 316, 327
GlaI	GCGC	2 cut(s)	258, 325
GluI	GCNGC	3 cut(s)	53, 316, 327
GsaI	CCCAGC	1 cut(s)	263
GsuI	CTGGAG	1 cut(s)	59
HaeIII	GGCC	1 cut(s)	329
HapII	CCGG	1 cut(s)	72
HgaI	GACGC	1 cut(s)	77
HhaI	GCGC	2 cut(s)	259, 326
Hin1I	GRCGYC	1 cut(s)	69
Hin1II	CATG	3 cut(s)	25, 292, 304
Hin6I	GCGC	2 cut(s)	257, 324
HinP1I	GCGC	2 cut(s)	257, 324
HinfI	GANTC	1 cut(s)	271
HpaII	CCGG	1 cut(s)	72
HphI	GGTGA	1 cut(s)	160
Hpy188I	TCNGA	2 cut(s)	28, 111
Hpy188III	TCNNGA	4 cut(s)	88, 184, 247, 289
Hpy99I	CGWCG	3 cut(s)	17, 71, 89
HpyAV	CCTTC	2 cut(s)	194, 372
HpyF10VI	GCNNNNNNNGC	3 cut(s)	49, 77, 321
Hsp92I	GRCGYC	1 cut(s)	69
Hsp92II	CATG	3 cut(s)	25, 292, 304
HspAI	GCGC	2 cut(s)	257, 324
Kzo9I	GATC	2 cut(s)	93, 111
LmnI	GCTCC	3 cut(s)	6, 40, 302
LpnPI	CCDG	4 cut(s)	23, 85, 245, 357
Lsp1109I	GCAGC	2 cut(s)	64, 327
LweI	GCATC	1 cut(s)	205
MalI	GATC	2 cut(s)	95, 113
MboI	GATC	2 cut(s)	93, 111
MboII	GAAGA	4 cut(s)	103, 262, 277, 316
MflI	RGATCY	1 cut(s)	111
MhlI	GDGCHC	2 cut(s)	21, 299
MluCI	AATT	2 cut(s)	132, 335
MmeI	TCCRAC	1 cut(s)	6
MnlI	CCTC	7 cut(s)	22, 68, 139, 172, 197, 232, 285
MseI	TTAA	2 cut(s)	168, 309
MspI	CCGG	1 cut(s)	72
MvnI	CGCG	1 cut(s)	326
MwoI	GCNNNNNNNGC	3 cut(s)	49, 77, 321
NdeII	GATC	2 cut(s)	93, 111
NlaIII	CATG	3 cut(s)	25, 292, 304
NlaIV	GGNNCC	1 cut(s)	298
PagI	TCATGA	1 cut(s)	288
PcsI	WCGNNNNNNNCGW	1 cut(s)	243
PfeI	GAWTC	1 cut(s)	271
PkrI	GCNGC	3 cut(s)	54, 317, 328
Psp124BI	GAGCTC	1 cut(s)	21
PspFI	CCCAGC	1 cut(s)	259
PspN4I	GGNNCC	1 cut(s)	298
PsuI	RGATCY	1 cut(s)	111
SacI	GAGCTC	1 cut(s)	21
SaqAI	TTAA	2 cut(s)	168, 309
SatI	GCNGC	3 cut(s)	53, 316, 327
Sau3AI	GATC	2 cut(s)	93, 111
SduI	GDGCHC	2 cut(s)	21, 299
SetI	ASST	7 cut(s)	21, 45, 60, 150, 183, 320, 346
SfaNI	GCATC	1 cut(s)	205
SmlI	CTYRAG	1 cut(s)	319
SmoI	CTYRAG	1 cut(s)	319
Sse9I	AATT	2 cut(s)	132, 335
SsiI	CCGC	3 cut(s)	212, 275, 326
SstI	GAGCTC	1 cut(s)	21
TaqI	TCGA	2 cut(s)	87, 141
TasI	AATT	2 cut(s)	132, 335
TauI	GCSGC	1 cut(s)	329
TfiI	GAWTC	1 cut(s)	271
Tru1I	TTAA	2 cut(s)	168, 309
Tru9I	TTAA	2 cut(s)	168, 309
TseI	GCWGC	2 cut(s)	52, 315
TspDTI	ATGAA	5 cut(s)	62, 213, 277, 284, 317
XapI	RAATTY	1 cut(s)	335

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