Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0006885

Physical Location & Seq

Genomic Coordinates Forward (+)

62554519 .. 62554953

Gene Structure 435 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00127110.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 435 bp

ATGAGTGAAGTCGAGAGATGCCGGAGCGAGATGAAACAACGACTCACCACCGACACCGGTAAAGTCATCGTCAAGAAGATTGGTCTCGTTTATCGGATCAAAATCGCACCCAAGAAAATTGGATTCAATGAGGTGGCTTACACCATTGATATGAGGAAAGGAGAGGTCACGAAAGGGGCATACGAAGGAAGAAACGCAGATGTGATATTTTCGTTCAAGGATGAGGATATCGTGAAGATTGCGCTAGGGAAGATGAATCCCCAAATTGCTTTCAATCCTTTCATCAAGGGCTTAATTACTTGGCTCCAATCAATTTCTTCAAATACCAGTTACTTCAATTTTAGCTTGAATTTTAGTCTCATCTTGAATTCTAGCCTCGTTTTGTGTTGCTTATTTCTATCAAAAGTGAATGGAATCGACTTTGTTGGGAGTTAG

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

144

Amino Acids

16.17

Weight (kDa)

9.43

Isoelectric Point (pI)

15.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SCP2	PF02036	18 - 91	4e-08	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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Align Labels (Cladogram)

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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)
AclWI	GGATC	1 cut(s)	104
AcsI	RAATTY	2 cut(s)	349, 367
AgeI	ACCGGT	1 cut(s)	56
AgsI	TTSAA	7 cut(s)	127, 217, 274, 321, 337, 349, 367
AluBI	AGCT	1 cut(s)	345
AluI	AGCT	1 cut(s)	345
Alw26I	GTCTC	2 cut(s)	89, 362
AlwI	GGATC	1 cut(s)	104
ApoI	RAATTY	2 cut(s)	349, 367
AsiGI	ACCGGT	1 cut(s)	56
AspLEI	GCGC	1 cut(s)	244
AsuHPI	GGTGA	1 cut(s)	37
BcoDI	GTCTC	2 cut(s)	89, 362
BfaI	CTAG	2 cut(s)	245, 372
BmiI	GGNNCC	1 cut(s)	305
BmsI	GCATC	1 cut(s)	8
BsaBI	GATNNNNATC	1 cut(s)	101
BsaI	GGTCTC	1 cut(s)	89
BsaWI	WCCGGW	1 cut(s)	56
Bse118I	RCCGGY	1 cut(s)	56
Bse1I	ACTGG	1 cut(s)	327
Bse8I	GATNNNNATC	1 cut(s)	101
BseGI	GGATG	1 cut(s)	226
BseJI	GATNNNNATC	1 cut(s)	101
BseNI	ACTGG	1 cut(s)	327
BshTI	ACCGGT	1 cut(s)	56
BsiSI	CCGG	2 cut(s)	22, 57
BsmAI	GTCTC	2 cut(s)	89, 362
Bso31I	GGTCTC	1 cut(s)	89
Bsp143I	GATC	1 cut(s)	96
BspLI	GGNNCC	1 cut(s)	305
BspPI	GGATC	1 cut(s)	104
BspTNI	GGTCTC	1 cut(s)	89
BsrFI	RCCGGY	1 cut(s)	56
BsrI	ACTGG	1 cut(s)	327
BssAI	RCCGGY	1 cut(s)	56
BssMI	GATC	1 cut(s)	96
BstF5I	GGATG	1 cut(s)	226
BstHHI	GCGC	1 cut(s)	244
BstKTI	GATC	1 cut(s)	99
BstMAI	GTCTC	2 cut(s)	89, 362
BstMBI	GATC	1 cut(s)	96
BtsCI	GGATG	1 cut(s)	226
CfoI	GCGC	1 cut(s)	244
Cfr10I	RCCGGY	1 cut(s)	56
CspAI	ACCGGT	1 cut(s)	56
CviJI	RGCY	5 cut(s)	137, 291, 304, 345, 375
CviKI_1	RGCY	5 cut(s)	137, 291, 304, 345, 375
DpnI	GATC	1 cut(s)	98
DpnII	GATC	1 cut(s)	96
Eco31I	GGTCTC	1 cut(s)	89
Eco32I	GATATC	1 cut(s)	229
EcoRI	GAATTC	1 cut(s)	367
EcoRV	GATATC	1 cut(s)	229
FaiI	YATR	2 cut(s)	152, 181
FokI	GGATG	1 cut(s)	233
FspBI	CTAG	2 cut(s)	245, 372
GlaI	GCGC	1 cut(s)	243
HapII	CCGG	2 cut(s)	22, 57
HhaI	GCGC	1 cut(s)	244
Hin6I	GCGC	1 cut(s)	242
HinP1I	GCGC	1 cut(s)	242
HinfI	GANTC	4 cut(s)	42, 123, 256, 414
HpaII	CCGG	2 cut(s)	22, 57
HphI	GGTGA	1 cut(s)	37
Hpy188I	TCNGA	1 cut(s)	96
Hpy188III	TCNNGA	5 cut(s)	13, 73, 169, 232, 364
HpyAV	CCTTC	1 cut(s)	179
HspAI	GCGC	1 cut(s)	242
Kzo9I	GATC	1 cut(s)	96
LmnI	GCTCC	2 cut(s)	24, 309
LpnPI	CCDG	3 cut(s)	35, 70, 340
LweI	GCATC	1 cut(s)	8
MaeI	CTAG	2 cut(s)	245, 372
MaeIII	GTNAC	2 cut(s)	166, 329
MalI	GATC	1 cut(s)	98
MboI	GATC	1 cut(s)	96
MboII	GAAGA	5 cut(s)	88, 201, 247, 262, 309
MluCI	AATT	7 cut(s)	117, 264, 294, 312, 337, 349, 367
MlyI	GAGTC	1 cut(s)	36
MnlI	CCTC	5 cut(s)	124, 147, 157, 217, 386
MseI	TTAA	1 cut(s)	293
MslI	CAYNNNNRTG	1 cut(s)	149
MspI	CCGG	2 cut(s)	22, 57
NdeII	GATC	1 cut(s)	96
NlaIV	GGNNCC	1 cut(s)	305
NmuCI	GTSAC	1 cut(s)	166
PfeI	GAWTC	3 cut(s)	123, 256, 414
PinAI	ACCGGT	1 cut(s)	56
PleI	GAGTC	1 cut(s)	36
PpsI	GAGTC	1 cut(s)	36
PspN4I	GGNNCC	1 cut(s)	305
RseI	CAYNNNNRTG	1 cut(s)	149
SaqAI	TTAA	1 cut(s)	293
Sau3AI	GATC	1 cut(s)	96
SchI	GAGTC	1 cut(s)	36
SetI	ASST	3 cut(s)	135, 168, 347
SfaNI	GCATC	1 cut(s)	8
SmiMI	CAYNNNNRTG	1 cut(s)	149
Sse9I	AATT	7 cut(s)	117, 264, 294, 312, 337, 349, 367
SspMI	CTAG	2 cut(s)	245, 372
TaqI	TCGA	2 cut(s)	12, 417
TasI	AATT	7 cut(s)	117, 264, 294, 312, 337, 349, 367
TfiI	GAWTC	3 cut(s)	123, 256, 414
Tru1I	TTAA	1 cut(s)	293
Tru9I	TTAA	1 cut(s)	293
TseFI	GTSAC	1 cut(s)	166
Tsp45I	GTSAC	1 cut(s)	166
TspDTI	ATGAA	3 cut(s)	47, 269, 271
XapI	RAATTY	2 cut(s)	349, 367
XspI	CTAG	2 cut(s)	245, 372

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