Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0018293

Physical Location & Seq

Genomic Coordinates Reverse (-)

69566308 .. 69567241

Gene Structure 934 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG389200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 216 bp

ATGATAATTCCAGTGCGTTGCTTCACCTGCGGAAAGGTGATTGGAAACAAATGGGACACTTATCTTGACCTTCTGCAAGCAGATTACCCAGAAGGAGATGCACTTGATGCATTGGGGTTGGTTCGTTATTGCTGCAGGCGCATGCTTATGACTCATGTTGATCTCATTGAGAAGCTTCTCAACTACAATACTTTGGAGAAATCGGAAAACAATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000418 GO:0000419 GO:0000428 GO:0003674 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005666 GO:0005730 GO:0005736 GO:0008270 GO:0016591 GO:0030880 GO:0031974 GO:0031981 GO:0032991 GO:0043167 GO:0043169 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044464 GO:0046872 GO:0046914 GO:0055029 GO:0061695 GO:0070013 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05016 ko05169 map00230 map00240 map01100 map03020 map04623 map05016 map05169

Pfam Domains

Protein Families

RNA_pol_N

Protein Analysis

71

Amino Acids

8.21

Weight (kDa)

5.15

Isoelectric Point (pI)

28.37

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_N	PF01194	2 - 59	1e-31	RNA polymerases N / 8 kDa subunit

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0018293)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G61700
rosa_chinensis	RchiOBHm_Chr4g0441961
rosa_multiflora	Rmu_sc0002501.1_g000026 Rmu_sc0011990.1_g000005
rosa_roxburghii	Rroxscaffold_5G00382800
rosa_rugosa	Rorug04G0337300
rosa_samantha	Rh4AG389200 Rh4BG402700 Rh4CG417900
rosa_wichuraiana	Rw4G033610

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	35
Acc36I	ACCTGC	1 cut(s)	35
AciI	CCGC	1 cut(s)	30
AluBI	AGCT	1 cut(s)	175
AluI	AGCT	1 cut(s)	175
ApeKI	GCWGC	1 cut(s)	132
AspLEI	GCGC	1 cut(s)	141
AsuHPI	GGTGA	2 cut(s)	16, 49
BbvI	GCAGC	1 cut(s)	119
BfmI	CTRYAG	1 cut(s)	133
BfuAI	ACCTGC	1 cut(s)	35
BisI	GCNGC	1 cut(s)	133
BlsI	GCNGC	1 cut(s)	134
BmsI	GCATC	2 cut(s)	88, 97
Bse1I	ACTGG	1 cut(s)	11
BseNI	ACTGG	1 cut(s)	11
BseXI	GCAGC	1 cut(s)	119
BslFI	GGGAC	1 cut(s)	68
BsmFI	GGGAC	1 cut(s)	68
Bsp143I	GATC	1 cut(s)	160
BspACI	CCGC	1 cut(s)	30
BspMAI	CTGCAG	1 cut(s)	137
BspMI	ACCTGC	1 cut(s)	35
BsrI	ACTGG	1 cut(s)	11
BssMI	GATC	1 cut(s)	160
BstAPI	GCANNNNNTGC	1 cut(s)	107
BstC8I	GCNNGC	3 cut(s)	78, 137, 143
BstHHI	GCGC	1 cut(s)	141
BstKTI	GATC	1 cut(s)	163
BstMBI	GATC	1 cut(s)	160
BstMWI	GCNNNNNNNGC	3 cut(s)	27, 107, 138
BstNSI	RCATGY	1 cut(s)	145
BstSFI	CTRYAG	1 cut(s)	133
BstV1I	GCAGC	1 cut(s)	119
BtsIMutI	CAGTG	1 cut(s)	18
BveI	ACCTGC	1 cut(s)	35
Cac8I	GCNNGC	3 cut(s)	78, 137, 143
CfoI	GCGC	1 cut(s)	141
CviAII	CATG	2 cut(s)	142, 155
CviJI	RGCY	1 cut(s)	175
CviKI_1	RGCY	1 cut(s)	175
DpnI	GATC	1 cut(s)	162
DpnII	GATC	1 cut(s)	160
EcoT22I	ATGCAT	1 cut(s)	112
FaeI	CATG	2 cut(s)	145, 158
FaiI	YATR	3 cut(s)	143, 149, 156
FaqI	GGGAC	1 cut(s)	68
FatI	CATG	2 cut(s)	141, 154
Fnu4HI	GCNGC	1 cut(s)	133
Fsp4HI	GCNGC	1 cut(s)	133
GlaI	GCGC	1 cut(s)	140
GluI	GCNGC	1 cut(s)	133
HhaI	GCGC	1 cut(s)	141
Hin1II	CATG	2 cut(s)	145, 158
Hin6I	GCGC	1 cut(s)	139
HinP1I	GCGC	1 cut(s)	139
HindIII	AAGCTT	1 cut(s)	173
HinfI	GANTC	1 cut(s)	151
HphI	GGTGA	2 cut(s)	16, 49
Hpy188I	TCNGA	1 cut(s)	205
Hpy188III	TCNNGA	1 cut(s)	65
HpyAV	CCTTC	2 cut(s)	80, 86
HpyCH4V	TGCA	4 cut(s)	76, 101, 110, 135
HpyF10VI	GCNNNNNNNGC	3 cut(s)	27, 107, 138
Hsp92II	CATG	2 cut(s)	145, 158
HspAI	GCGC	1 cut(s)	139
Kzo9I	GATC	1 cut(s)	160
LpnPI	CCDG	4 cut(s)	24, 40, 102, 121
Lsp1109I	GCAGC	1 cut(s)	119
LweI	GCATC	2 cut(s)	88, 97
MalI	GATC	1 cut(s)	162
MboI	GATC	1 cut(s)	160
MfeI	CAATTG	1 cut(s)	211
MluCI	AATT	2 cut(s)	6, 211
MlyI	GAGTC	1 cut(s)	145
Mph1103I	ATGCAT	1 cut(s)	112
MslI	CAYNNNNRTG	1 cut(s)	146
MunI	CAATTG	1 cut(s)	211
MwoI	GCNNNNNNNGC	3 cut(s)	27, 107, 138
NdeII	GATC	1 cut(s)	160
NlaIII	CATG	2 cut(s)	145, 158
NsiI	ATGCAT	1 cut(s)	112
NspI	RCATGY	1 cut(s)	145
PaeI	GCATGC	1 cut(s)	145
PaqCI	CACCTGC	1 cut(s)	35
PkrI	GCNGC	1 cut(s)	134
PleI	GAGTC	1 cut(s)	145
PpsI	GAGTC	1 cut(s)	145
PstI	CTGCAG	1 cut(s)	137
RseI	CAYNNNNRTG	1 cut(s)	146
SatI	GCNGC	1 cut(s)	133
Sau3AI	GATC	1 cut(s)	160
SchI	GAGTC	1 cut(s)	145
SetI	ASST	4 cut(s)	29, 39, 72, 177
SfaNI	GCATC	2 cut(s)	88, 97
SfcI	CTRYAG	1 cut(s)	133
SgeI	CNNG	9 cut(s)	23, 39, 77, 89, 101, 116, 148, 154, 167
SmiMI	CAYNNNNRTG	1 cut(s)	146
SphI	GCATGC	1 cut(s)	145
Sse9I	AATT	2 cut(s)	6, 211
SsiI	CCGC	1 cut(s)	30
TasI	AATT	2 cut(s)	6, 211
TscAI	CASTG	1 cut(s)	18
TseI	GCWGC	1 cut(s)	132
TspRI	CASTG	1 cut(s)	18
XceI	RCATGY	1 cut(s)	145
Zsp2I	ATGCAT	1 cut(s)	112

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