Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0001795

Physical Location & Seq

Genomic Coordinates Forward (+)

53410181 .. 53410799

Gene Structure 619 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00120980.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 357 bp

ATGGAGTTGATGGAGCACGACGATCGGAACCAGCGGGTTAATTTTGTGGGATGTTTGACCAATTTGTTCAAGGACATTATGTTGGCAATTGAAGAGAATGATGAGATTTTGAGGGCGCTGCGTGGGGAAGATGGGATTGAGTGGAAGTTTAGCAAAGTGGTTCGGGACATTACTGGGTTTTATGTCATATTAGAGGGTTTCTTTATGGTTGAGAATGTGAGGAAGGCTATAAGGATTGATGAGCATGTGCACGATAGTCTTACCACTTCTATGGTGGATGATGTTTTCTATGTTCTGCAGAGTTGCATCCACTTTGACTATCGACTCGGTGATTGCTGTGTTGAGTGGTGCCATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000301 GO:0003674 GO:0003676 GO:0003723 GO:0003824 GO:0004518 GO:0004519 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005794 GO:0006139 GO:0006725 GO:0006807 GO:0006810 GO:0006890 GO:0006891 GO:0006996 GO:0007030 GO:0008150 GO:0008152 GO:0009451 GO:0009987 GO:0010256 GO:0012505 GO:0016043 GO:0016070 GO:0016192 GO:0016787 GO:0016788 GO:0017119 GO:0022607 GO:0032991 GO:0034622 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044431 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0048193 GO:0048213 GO:0051179 GO:0051234 GO:0065003 GO:0071704 GO:0071840 GO:0090304 GO:0090305 GO:0097159 GO:0099023 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

COG4 PPR PPR_2 RINT1_TIP1

Protein Analysis

118

Amino Acids

13.95

Weight (kDa)

4.7

Isoelectric Point (pI)

36.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
COG4_m	PF08318	49 - 103	1.5e-15	COG4 transport protein, middle alpha-helical bundle

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0001795)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G01395
fragaria_vesca	FvH4_4g00571 FvH4_5g29942 FvH4_5g30911 FvH4_7g17670
malus_domestica	MD07G1159700.v1.1 MD07G1159800.v1.1 MD07G1159900.v1.1
prunus_persica	Prupe.2G092100_v2.0.a1 Prupe.2G197800_v2.0.a1 Prupe.2G197800_v2.0.a1
pyrus_communis	pycom01g11300 pycom07g15620
rosa_chinensis	RchiOBHm_Chr1g0334501 RchiOBHm_Chr1g0334511
rosa_laevigata	RLG00000014722 RLG00000018723 RLG00000027257 RLG00000029448
rosa_multiflora	Rmu_co8086664.1_g000001 Rmu_sc0000066.1_g000041 Rmu_sc0003541.1_g000019 Rmu_sc0005302.1_g000007 Rmu_sc0005482.1_g000008 Rmu_sc0007236.1_g000001 Rmu_sc0012136.1_g000029 Rmu_sc0012270.1_g000004 Rmu_sc0033476.1_g000001 Rmu_sc0034305.1_g000001 Rmu_ssc0000404.1_g000010
rosa_roxburghii	Rroxscaffold_2G00120980 Rroxscaffold_4G00294850 Rroxscaffold_4G00316790 Rroxscaffold_5G00373360
rosa_rugosa	Rorug01G0114400 Rorug01G0114500 Rorug02G0242900 Rorug02G0243000
rosa_samantha	Rh1AG139600 Rh1AG176800 Rh1BG105900 Rh1CG131500 Rh1DG143500 Rh6BG398800 Rh7BG198900
rosa_wichuraiana	Rw1G011510 Rw2G023980

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	348
AciI	CCGC	1 cut(s)	34
AgsI	TTSAA	2 cut(s)	70, 92
Alw21I	GWGCWC	2 cut(s)	18, 252
Alw44I	GTGCAC	1 cut(s)	248
ApaLI	GTGCAC	1 cut(s)	248
ApeKI	GCWGC	1 cut(s)	118
AspLEI	GCGC	1 cut(s)	118
AsuHPI	GGTGA	1 cut(s)	341
BaeGI	GKGCMC	1 cut(s)	252
BanI	GGYRCC	1 cut(s)	348
Bbv12I	GWGCWC	2 cut(s)	18, 252
BbvI	GCAGC	1 cut(s)	105
BccI	CCATC	2 cut(s)	4, 125
BcgI	CGANNNNNNTGC	2 cut(s)	5, 39
BfmI	CTRYAG	1 cut(s)	296
BfoI	RGCGCY	1 cut(s)	119
BisI	GCNGC	1 cut(s)	119
BlsI	GCNGC	1 cut(s)	120
BmiI	GGNNCC	2 cut(s)	29, 350
BmrI	ACTGGG	1 cut(s)	183
BmsI	GCATC	1 cut(s)	315
BmuI	ACTGGG	1 cut(s)	183
Bse1I	ACTGG	1 cut(s)	178
BseGI	GGATG	3 cut(s)	56, 283, 306
BseNI	ACTGG	1 cut(s)	178
BseSI	GKGCMC	1 cut(s)	252
BseXI	GCAGC	1 cut(s)	105
Bsh1285I	CGRYCG	1 cut(s)	25
BshNI	GGYRCC	1 cut(s)	348
BsiEI	CGRYCG	1 cut(s)	25
BsiHKAI	GWGCWC	2 cut(s)	18, 252
BslFI	GGGAC	1 cut(s)	179
BsmFI	GGGAC	1 cut(s)	179
Bsp1286I	GDGCHC	2 cut(s)	18, 252
Bsp143I	GATC	1 cut(s)	22
BspACI	CCGC	1 cut(s)	34
BspLI	GGNNCC	2 cut(s)	29, 350
BspMAI	CTGCAG	1 cut(s)	300
BspT107I	GGYRCC	1 cut(s)	348
BsrI	ACTGG	1 cut(s)	178
BssMI	GATC	1 cut(s)	22
Bst6I	CTCTTC	1 cut(s)	87
BstF5I	GGATG	3 cut(s)	56, 283, 306
BstH2I	RGCGCY	1 cut(s)	119
BstHHI	GCGC	1 cut(s)	118
BstKTI	GATC	1 cut(s)	25
BstMBI	GATC	1 cut(s)	22
BstMCI	CGRYCG	1 cut(s)	25
BstNSI	RCATGY	1 cut(s)	248
BstSFI	CTRYAG	1 cut(s)	296
BstSLI	GKGCMC	1 cut(s)	252
BstV1I	GCAGC	1 cut(s)	105
BstXI	CCANNNNNNTGG	1 cut(s)	271
BtsCI	GGATG	3 cut(s)	56, 283, 306
CfoI	GCGC	1 cut(s)	118
CviAII	CATG	1 cut(s)	245
CviJI	RGCY	1 cut(s)	227
CviKI_1	RGCY	1 cut(s)	227
DpnI	GATC	1 cut(s)	24
DpnII	GATC	1 cut(s)	22
Eam1104I	CTCTTC	1 cut(s)	87
EarI	CTCTTC	1 cut(s)	87
FaeI	CATG	1 cut(s)	248
FaiI	YATR	8 cut(s)	80, 183, 188, 206, 230, 246, 272, 291
FaqI	GGGAC	1 cut(s)	179
FatI	CATG	1 cut(s)	244
FauI	CCCGC	1 cut(s)	27
Fnu4HI	GCNGC	1 cut(s)	119
FokI	GGATG	3 cut(s)	63, 290, 293
Fsp4HI	GCNGC	1 cut(s)	119
GlaI	GCGC	1 cut(s)	117
GluI	GCNGC	1 cut(s)	119
HaeII	RGCGCY	1 cut(s)	119
HhaI	GCGC	1 cut(s)	118
Hin1II	CATG	1 cut(s)	248
Hin6I	GCGC	1 cut(s)	116
HinP1I	GCGC	1 cut(s)	116
HinfI	GANTC	1 cut(s)	324
HphI	GGTGA	1 cut(s)	341
Hpy166II	GTNNAC	1 cut(s)	250
Hpy188I	TCNGA	1 cut(s)	27
Hpy188III	TCNNGA	1 cut(s)	164
Hpy8I	GTNNAC	1 cut(s)	250
Hpy99I	CGWCG	1 cut(s)	23
HpyAV	CCTTC	1 cut(s)	217
HpyCH4V	TGCA	3 cut(s)	250, 298, 306
Hsp92II	CATG	1 cut(s)	248
HspAI	GCGC	1 cut(s)	116
Kzo9I	GATC	1 cut(s)	22
LmnI	GCTCC	1 cut(s)	13
LpnPI	CCDG	2 cut(s)	44, 159
Lsp1109I	GCAGC	1 cut(s)	105
LweI	GCATC	1 cut(s)	315
MalI	GATC	1 cut(s)	24
MboI	GATC	1 cut(s)	22
MboII	GAAGA	2 cut(s)	104, 140
MfeI	CAATTG	1 cut(s)	87
MhlI	GDGCHC	2 cut(s)	18, 252
MluCI	AATT	3 cut(s)	40, 61, 87
MlyI	GAGTC	1 cut(s)	318
MnlI	CCTC	3 cut(s)	105, 187, 213
MseI	TTAA	1 cut(s)	39
MslI	CAYNNNNRTG	1 cut(s)	269
MspA1I	CMGCKG	1 cut(s)	34
MunI	CAATTG	1 cut(s)	87
NdeII	GATC	1 cut(s)	22
NlaIII	CATG	1 cut(s)	248
NlaIV	GGNNCC	2 cut(s)	29, 350
NspI	RCATGY	1 cut(s)	248
PkrI	GCNGC	1 cut(s)	120
Ple19I	CGATCG	1 cut(s)	25
PleI	GAGTC	1 cut(s)	318
PpsI	GAGTC	1 cut(s)	318
PspN4I	GGNNCC	2 cut(s)	29, 350
PstI	CTGCAG	1 cut(s)	300
PvuI	CGATCG	1 cut(s)	25
RseI	CAYNNNNRTG	1 cut(s)	269
SaqAI	TTAA	1 cut(s)	39
SatI	GCNGC	1 cut(s)	119
Sau3AI	GATC	1 cut(s)	22
SchI	GAGTC	1 cut(s)	318
SduI	GDGCHC	2 cut(s)	18, 252
SfaNI	GCATC	1 cut(s)	315
SfcI	CTRYAG	1 cut(s)	296
SmiMI	CAYNNNNRTG	1 cut(s)	269
Sse9I	AATT	3 cut(s)	40, 61, 87
SsiI	CCGC	1 cut(s)	34
TaqI	TCGA	1 cut(s)	322
TasI	AATT	3 cut(s)	40, 61, 87
Tru1I	TTAA	1 cut(s)	39
Tru9I	TTAA	1 cut(s)	39
TseI	GCWGC	1 cut(s)	118
VneI	GTGCAC	1 cut(s)	248
XceI	RCATGY	1 cut(s)	248
XcmI	CCANNNNNNNNNTGG	1 cut(s)	271

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