Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0003598

Physical Location & Seq

Genomic Coordinates Forward (+)

12982510 .. 12984989

Gene Structure 2480 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00228540.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 342 bp

ATGGATTTCTGGCTTCTTCTCCTCCTCCTCTTCCTTATTGTTGCGTTGGTTCAAGCTTTCTGGAAATATACATCCTTCTCATACCACAAAAATGCCTTCATCTATTGCATGGTAAAGCTTTATGACCATCGCATAATCCAAAGAGAAGCTGTCCAAACTTATGAGGCGCATGTGAATTCCCATACTCGTTTGCAGCTTGGAGTTGATCCATCTGAGCGATTTTTCATATCAGGTGGAGAGGACTGCAAGTTAAGACTTTGGAGTATAAAGTCAGGTGAACTGCTTTTTGAGGAGAAGCAGTCTGCAATCAACCACTTCGAAGGAGAGGAACTACTGGAGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000151 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005681 GO:0005682 GO:0006139 GO:0006396 GO:0006464 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016070 GO:0019538 GO:0030532 GO:0031461 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0036211 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043412 GO:0043687 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0071011 GO:0071013 GO:0071704 GO:0080008 GO:0090304 GO:0097159 GO:0097525 GO:0120114 GO:1901360 GO:1901363 GO:1901564 GO:1902494 GO:1990234 GO:1990904

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

WD40

Protein Analysis

113

Amino Acids

13.4

Weight (kDa)

5.7

Isoelectric Point (pI)

32.8

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Beta-prop_DCAF4	PF23761	36 - 95	1.2e-08	DDB1- and CUL4-associated factor 4 beta-propeller domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0003598)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G17370 AT5G17370
fragaria_vesca	FvH4_3g13240 FvH4_3g13240 FvH4_3g13240 FvH4_3g13240 FvH4_3g13240
malus_domestica	MD05G1243800.v1.1
prunus_persica	Prupe.4G119800_v2.0.a1 Prupe.4G119800_v2.0.a1 Prupe.4G119800_v2.0.a1 Prupe.4G119800_v2.0.a1
pyrus_communis	pycom05g22030 pycom10g18960
rosa_chinensis	RchiOBHm_Chr5g0021601 RchiOBHm_Chr5g0021611 RchiOBHm_Chr5g0021701
rosa_laevigata	RLG00000032617
rosa_multiflora	Rmu_sc0009984.1_g000013 Rmu_sc0016972.1_g000002
rosa_roxburghii	Rroxscaffold_1G00057050 Rroxscaffold_2G00125890 Rroxscaffold_3G00228540 Rroxscaffold_3G00229610 Rroxscaffold_4G00317430
rosa_rugosa	Rorug05G0067600 Rorug05G0067700 Rorug05G0067800
rosa_samantha	Rh5AG157000 Rh5BG156500 Rh5CG170800 Rh5DG156800
rosa_wichuraiana	Rw0G000530 Rw0G007040 Rw5G013950

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	200
AcsI	RAATTY	1 cut(s)	175
AgsI	TTSAA	1 cut(s)	53
AluBI	AGCT	4 cut(s)	56, 118, 149, 196
AluI	AGCT	4 cut(s)	56, 118, 149, 196
AlwI	GGATC	1 cut(s)	200
ApeKI	GCWGC	1 cut(s)	193
ApoI	RAATTY	1 cut(s)	175
AspLEI	GCGC	1 cut(s)	169
AsuHPI	GGTGA	1 cut(s)	287
AsuII	TTCGAA	1 cut(s)	318
BbvI	GCAGC	1 cut(s)	205
BccI	CCATC	2 cut(s)	135, 217
BisI	GCNGC	1 cut(s)	194
BlsI	GCNGC	1 cut(s)	195
Bpu14I	TTCGAA	1 cut(s)	318
BsaXI	ACNNNNNCTCC	2 cut(s)	284, 314
Bse1I	ACTGG	1 cut(s)	339
BseGI	GGATG	1 cut(s)	71
BseMII	CTCAG	1 cut(s)	204
BseNI	ACTGG	1 cut(s)	339
BseRI	GAGGAG	4 cut(s)	11, 14, 17, 305
BseXI	GCAGC	1 cut(s)	205
Bsp119I	TTCGAA	1 cut(s)	318
Bsp143I	GATC	1 cut(s)	205
BspCNI	CTCAG	1 cut(s)	205
BspPI	GGATC	1 cut(s)	200
BspT104I	TTCGAA	1 cut(s)	318
BsrI	ACTGG	1 cut(s)	339
BssMI	GATC	1 cut(s)	205
Bst6I	CTCTTC	1 cut(s)	35
BstBI	TTCGAA	1 cut(s)	318
BstDEI	CTNAG	1 cut(s)	213
BstF5I	GGATG	1 cut(s)	71
BstHHI	GCGC	1 cut(s)	169
BstKTI	GATC	1 cut(s)	208
BstMBI	GATC	1 cut(s)	205
BstNSI	RCATGY	1 cut(s)	173
BstV1I	GCAGC	1 cut(s)	205
BtgZI	GCGATG	1 cut(s)	113
BtsCI	GGATG	1 cut(s)	71
CfoI	GCGC	1 cut(s)	169
CviAII	CATG	2 cut(s)	109, 170
CviJI	RGCY	5 cut(s)	13, 56, 118, 149, 196
CviKI_1	RGCY	5 cut(s)	13, 56, 118, 149, 196
DdeI	CTNAG	1 cut(s)	213
DpnI	GATC	1 cut(s)	207
DpnII	GATC	1 cut(s)	205
Eam1104I	CTCTTC	1 cut(s)	35
EarI	CTCTTC	1 cut(s)	35
EcoRI	GAATTC	1 cut(s)	175
FaeI	CATG	2 cut(s)	112, 173
FatI	CATG	2 cut(s)	108, 169
Fnu4HI	GCNGC	1 cut(s)	194
FokI	GGATG	1 cut(s)	58
Fsp4HI	GCNGC	1 cut(s)	194
GlaI	GCGC	1 cut(s)	168
GluI	GCNGC	1 cut(s)	194
HhaI	GCGC	1 cut(s)	169
Hin1II	CATG	2 cut(s)	112, 173
Hin6I	GCGC	1 cut(s)	167
HinP1I	GCGC	1 cut(s)	167
HindIII	AAGCTT	2 cut(s)	54, 116
HphI	GGTGA	1 cut(s)	287
Hpy166II	GTNNAC	1 cut(s)	278
Hpy188I	TCNGA	1 cut(s)	214
Hpy188III	TCNNGA	1 cut(s)	61
Hpy8I	GTNNAC	1 cut(s)	278
HpyAV	CCTTC	3 cut(s)	85, 106, 314
HpyCH4V	TGCA	4 cut(s)	108, 193, 246, 305
HpyF3I	CTNAG	1 cut(s)	213
Hsp92II	CATG	2 cut(s)	112, 173
HspAI	GCGC	1 cut(s)	167
Kzo9I	GATC	1 cut(s)	205
LpnPI	CCDG	4 cut(s)	46, 216, 258, 320
Lsp1109I	GCAGC	1 cut(s)	205
MalI	GATC	1 cut(s)	207
MboI	GATC	1 cut(s)	205
MboII	GAAGA	2 cut(s)	8, 22
MluCI	AATT	1 cut(s)	175
MnlI	CCTC	7 cut(s)	32, 35, 38, 157, 232, 283, 319
MseI	TTAA	1 cut(s)	251
MslI	CAYNNNNRTG	1 cut(s)	90
NdeII	GATC	1 cut(s)	205
NlaIII	CATG	2 cut(s)	112, 173
NspI	RCATGY	1 cut(s)	173
NspV	TTCGAA	1 cut(s)	318
PkrI	GCNGC	1 cut(s)	195
RseI	CAYNNNNRTG	1 cut(s)	90
SaqAI	TTAA	1 cut(s)	251
SatI	GCNGC	1 cut(s)	194
Sau3AI	GATC	1 cut(s)	205
SetI	ASST	6 cut(s)	58, 120, 151, 198, 235, 277
SfuI	TTCGAA	1 cut(s)	318
SmiMI	CAYNNNNRTG	1 cut(s)	90
Sse9I	AATT	1 cut(s)	175
TaqI	TCGA	1 cut(s)	318
TasI	AATT	1 cut(s)	175
Tru1I	TTAA	1 cut(s)	251
Tru9I	TTAA	1 cut(s)	251
TseI	GCWGC	1 cut(s)	193
TspDTI	ATGAA	2 cut(s)	88, 214
XapI	RAATTY	1 cut(s)	175
XceI	RCATGY	1 cut(s)	173

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