Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7D

Orthogroup ID

OG0006885

Physical Location & Seq

Genomic Coordinates Forward (+)

65838335 .. 65838760

Gene Structure 426 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7DG462100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 426 bp

ATGGGAAGCAACGATGAGCTGAAGTCGGAGGTGCTAGAGCAGATGAAGCAGCTCACCACCGACGCCGGTAAAATCATTGTTAAGAAGATCGGTCTCGTTTATCAGATCAAAATCGCACCCAAGAAAATTGGGTTCAATGAGGTGGCTTACACCATTGATTTGAGGAAAGGAGAGGTCAAGAAAGGGGAATACGAAGGAAGAAATGTAGATGCGATATTTTCGTTCAAGGCCGAGGATTTCGTGAAGATTGCATTGGGGAAGATGAACCCCCAAATTGCTTTCAATCCTTTCATCGAGGGCTTAATTACTTGGCTCCAATCAATTTCTTCAAATACCAGTTACTTCAATTTTAGCTTGAATTTAAGTCTCATCTTGAATTCTAGCCTCGTTTTGTGTTGCTTATTTCTATCAAATATTCAAATGTGA

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

141

Amino Acids

15.82

Weight (kDa)

8.5

Isoelectric Point (pI)

25.97

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SCP2	PF02036	13 - 94	8.1e-09	SCP-2 sterol transfer family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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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)
AcsI	RAATTY	2 cut(s)	358, 376
AcuI	CTGAAG	1 cut(s)	41
AcyI	GRCGYC	1 cut(s)	63
AgsI	TTSAA	8 cut(s)	136, 226, 283, 330, 346, 358, 376, 419
AjuI	GAANNNNNNNTTGG	2 cut(s)	236, 268
AluBI	AGCT	3 cut(s)	19, 52, 354
AluI	AGCT	3 cut(s)	19, 52, 354
Alw26I	GTCTC	2 cut(s)	98, 371
AoxI	GGCC	1 cut(s)	228
ApeKI	GCWGC	1 cut(s)	49
ApoI	RAATTY	2 cut(s)	358, 376
AsuHPI	GGTGA	1 cut(s)	46
BbvI	GCAGC	1 cut(s)	61
BcoDI	GTCTC	2 cut(s)	98, 371
BfaI	CTAG	2 cut(s)	35, 381
BisI	GCNGC	1 cut(s)	50
BlsI	GCNGC	1 cut(s)	51
BmiI	GGNNCC	1 cut(s)	314
BmsI	GCATC	1 cut(s)	199
BsaBI	GATNNNNATC	1 cut(s)	110
BsaHI	GRCGYC	1 cut(s)	63
BsaI	GGTCTC	1 cut(s)	98
BsaJI	CCNNGG	1 cut(s)	231
Bse118I	RCCGGY	1 cut(s)	65
Bse1I	ACTGG	1 cut(s)	336
Bse8I	GATNNNNATC	1 cut(s)	110
BseDI	CCNNGG	1 cut(s)	231
BseJI	GATNNNNATC	1 cut(s)	110
BseNI	ACTGG	1 cut(s)	336
BseXI	GCAGC	1 cut(s)	61
BshFI	GGCC	1 cut(s)	230
BsiSI	CCGG	1 cut(s)	66
BsmAI	GTCTC	2 cut(s)	98, 371
BsnI	GGCC	1 cut(s)	230
Bso31I	GGTCTC	1 cut(s)	98
Bsp143I	GATC	2 cut(s)	87, 105
BspANI	GGCC	1 cut(s)	230
BspLI	GGNNCC	1 cut(s)	314
BspTNI	GGTCTC	1 cut(s)	98
BsrFI	RCCGGY	1 cut(s)	65
BsrI	ACTGG	1 cut(s)	336
BssAI	RCCGGY	1 cut(s)	65
BssECI	CCNNGG	1 cut(s)	231
BssMI	GATC	2 cut(s)	87, 105
BssNI	GRCGYC	1 cut(s)	63
BstACI	GRCGYC	1 cut(s)	63
BstKTI	GATC	2 cut(s)	90, 108
BstMAI	GTCTC	2 cut(s)	98, 371
BstMBI	GATC	2 cut(s)	87, 105
BstMWI	GCNNNNNNNGC	1 cut(s)	46
BstV1I	GCAGC	1 cut(s)	61
BsuRI	GGCC	1 cut(s)	230
Cfr10I	RCCGGY	1 cut(s)	65
CseI	GACGC	1 cut(s)	71
CviJI	RGCY	8 cut(s)	19, 52, 146, 230, 300, 313, 354, 384
CviKI_1	RGCY	8 cut(s)	19, 52, 146, 230, 300, 313, 354, 384
DpnI	GATC	2 cut(s)	89, 107
DpnII	GATC	2 cut(s)	87, 105
Eco31I	GGTCTC	1 cut(s)	98
Eco57I	CTGAAG	1 cut(s)	41
EcoRI	GAATTC	1 cut(s)	376
Fnu4HI	GCNGC	1 cut(s)	50
Fsp4HI	GCNGC	1 cut(s)	50
FspBI	CTAG	2 cut(s)	35, 381
GluI	GCNGC	1 cut(s)	50
HaeIII	GGCC	1 cut(s)	230
HapII	CCGG	1 cut(s)	66
HgaI	GACGC	1 cut(s)	71
Hin1I	GRCGYC	1 cut(s)	63
HpaII	CCGG	1 cut(s)	66
HphI	GGTGA	1 cut(s)	46
Hpy188I	TCNGA	2 cut(s)	28, 105
Hpy188III	TCNNGA	3 cut(s)	178, 241, 373
Hpy99I	CGWCG	1 cut(s)	65
HpyAV	CCTTC	1 cut(s)	188
HpyCH4V	TGCA	1 cut(s)	251
HpyF10VI	GCNNNNNNNGC	1 cut(s)	46
Hsp92I	GRCGYC	1 cut(s)	63
Kzo9I	GATC	2 cut(s)	87, 105
LmnI	GCTCC	1 cut(s)	318
LpnPI	CCDG	2 cut(s)	79, 349
Lsp1109I	GCAGC	1 cut(s)	61
LweI	GCATC	1 cut(s)	199
MaeI	CTAG	2 cut(s)	35, 381
MaeIII	GTNAC	1 cut(s)	338
MalI	GATC	2 cut(s)	89, 107
MboI	GATC	2 cut(s)	87, 105
MboII	GAAGA	5 cut(s)	97, 210, 256, 271, 318
MluCI	AATT	7 cut(s)	126, 273, 303, 321, 346, 358, 376
MmeI	TCCRAC	1 cut(s)	6
MnlI	CCTC	7 cut(s)	22, 133, 156, 166, 226, 289, 395
MseI	TTAA	3 cut(s)	81, 302, 362
MspI	CCGG	1 cut(s)	66
MwoI	GCNNNNNNNGC	1 cut(s)	46
NdeII	GATC	2 cut(s)	87, 105
NlaIV	GGNNCC	1 cut(s)	314
NmeAIII	GCCGAG	1 cut(s)	256
PkrI	GCNGC	1 cut(s)	51
PspN4I	GGNNCC	1 cut(s)	314
SaqAI	TTAA	3 cut(s)	81, 302, 362
SatI	GCNGC	1 cut(s)	50
Sau3AI	GATC	2 cut(s)	87, 105
SetI	ASST	6 cut(s)	21, 33, 54, 144, 177, 356
SfaNI	GCATC	1 cut(s)	199
Sse9I	AATT	7 cut(s)	126, 273, 303, 321, 346, 358, 376
SspI	AATATT	1 cut(s)	415
SspMI	CTAG	2 cut(s)	35, 381
TaqI	TCGA	1 cut(s)	294
TaqII	GACCGA	1 cut(s)	80
TasI	AATT	7 cut(s)	126, 273, 303, 321, 346, 358, 376
Tru1I	TTAA	3 cut(s)	81, 302, 362
Tru9I	TTAA	3 cut(s)	81, 302, 362
TseI	GCWGC	1 cut(s)	49
TspDTI	ATGAA	3 cut(s)	59, 278, 280
XapI	RAATTY	2 cut(s)	358, 376
XspI	CTAG	2 cut(s)	35, 381

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