Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0004622

Physical Location & Seq

Genomic Coordinates Reverse (-)

46856998 .. 46857393

Gene Structure 396 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ39086

Sequence Viewer

CDS Protein Promoter (2k)

Length: 345 bp

ATGTGTCAGGAGAAATTGGTAGAAGAAGCTGTGGATGCACTTCTTGATAAGGGAATCCATGTAATTGAAGGAAAAGAGGGAAGATTTTGTGAGACTCTGCTAGGCAAACGAGTCGATTATTCGAGGCGTTCTGTCATTGTTGTAGGTCCTTCACTTTCATTACATCGATGTGGATTGCCTCGCGAAATAGCAATAGAGCTTTTTCAGACATTTTTAATTCGTGGTTTAATTAGACAACATTTTGCCTCGAATATAGGAGTGGCTAAGAGTAAAATTCGGGAAAAAGAGCTGGTTGTATGGGAAATACACTTTAGGAAGTTATGCAAGGGCATCCCGTATTGCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009536 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 map00230 map00240 map01100 map03020

Pfam Domains

Protein Families

RNA_pol_Rpb1_1 RNA_pol_Rpb1_2 RNA_pol_Rpb1_3

Protein Analysis

114

Amino Acids

13.03

Weight (kDa)

9.1

Isoelectric Point (pI)

35.43

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb1_2	PF00623	35 - 83	9e-08	RNA polymerase Rpb1, domain 2

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: OG0004622)

Species	Orthologous Gene IDs
arabidopsis_thaliana	ATCG00170
malus_domestica	MD01G1014400.v1.1
pyrus_communis	pycom12397g00020 pycom12397g00340
rosa_chinensis	RchiOBHm_Chr4g0421201
rosa_laevigata	RLG00000000048 RLG00000000088 RLG00000000117 RLG00000000174 RLG00000000232 RLG00000000233 RLG00000000247 RLG00000000283 RLG00000000313 RLG00000000317 RLG00000000339
rosa_multiflora	Rmu_sc0001741.1_g000011
rosa_roxburghii	Rroxscaffold_2G00119090 Rroxscaffold_2G00119100
rosa_rugosa	RorugMtG0001800
rosa_samantha	Rh2AG294100 Rh2AG294200 Rh2DG057700 Rh2DG318000 Rh2DG318100 Rh4CG233400 Rh4CG244200 Rh7BG354800 Rh7CG382200
rosa_wichuraiana	Rw4G006960 Rw4G006970

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	183
AcsI	RAATTY	1 cut(s)	273
AgsI	TTSAA	1 cut(s)	68
AluBI	AGCT	3 cut(s)	29, 199, 289
AluI	AGCT	3 cut(s)	29, 199, 289
Alw26I	GTCTC	1 cut(s)	86
ApoI	RAATTY	1 cut(s)	273
AspS9I	GGNCC	1 cut(s)	146
AvaII	GGWCC	1 cut(s)	146
BcgI	CGANNNNNNTGC	2 cut(s)	94, 128
BcoDI	GTCTC	1 cut(s)	86
BfaI	CTAG	1 cut(s)	101
Bme18I	GGWCC	1 cut(s)	146
BmgT120I	GGNCC	1 cut(s)	146
BmsI	GCATC	2 cut(s)	25, 339
Bsa29I	ATCGAT	1 cut(s)	166
BseCI	ATCGAT	1 cut(s)	166
BseGI	GGATG	2 cut(s)	40, 330
Bsh1236I	CGCG	1 cut(s)	183
BshVI	ATCGAT	1 cut(s)	166
BsmAI	GTCTC	1 cut(s)	86
Bsp68I	TCGCGA	1 cut(s)	183
BspDI	ATCGAT	1 cut(s)	166
BspFNI	CGCG	1 cut(s)	183
BstDEI	CTNAG	1 cut(s)	264
BstF5I	GGATG	2 cut(s)	40, 330
BstFNI	CGCG	1 cut(s)	183
BstMAI	GTCTC	1 cut(s)	86
BstMWI	GCNNNNNNNGC	1 cut(s)	35
BstUI	CGCG	1 cut(s)	183
Bsu15I	ATCGAT	1 cut(s)	166
BsuTUI	ATCGAT	1 cut(s)	166
BtsCI	GGATG	2 cut(s)	40, 330
BtuMI	TCGCGA	1 cut(s)	183
Cfr13I	GGNCC	1 cut(s)	146
ClaI	ATCGAT	1 cut(s)	166
CviAII	CATG	1 cut(s)	59
CviJI	RGCY	4 cut(s)	29, 199, 263, 289
CviKI_1	RGCY	4 cut(s)	29, 199, 263, 289
DdeI	CTNAG	1 cut(s)	264
Eco47I	GGWCC	1 cut(s)	146
EcoO109I	RGGNCCY	1 cut(s)	146
FaeI	CATG	1 cut(s)	62
FaiI	YATR	4 cut(s)	60, 254, 298, 322
FatI	CATG	1 cut(s)	58
FokI	GGATG	2 cut(s)	47, 317
FspBI	CTAG	1 cut(s)	101
Hin1II	CATG	1 cut(s)	62
HinfI	GANTC	3 cut(s)	54, 94, 111
Hpy188I	TCNGA	1 cut(s)	207
Hpy188III	TCNNGA	4 cut(s)	8, 44, 182, 278
HpyAV	CCTTC	2 cut(s)	62, 159
HpyCH4V	TGCA	2 cut(s)	38, 324
HpyF10VI	GCNNNNNNNGC	1 cut(s)	35
HpyF3I	CTNAG	1 cut(s)	264
Hsp92II	CATG	1 cut(s)	62
LpnPI	CCDG	1 cut(s)	275
LweI	GCATC	2 cut(s)	25, 339
MaeI	CTAG	1 cut(s)	101
MboII	GAAGA	2 cut(s)	35, 93
MluCI	AATT	5 cut(s)	14, 63, 216, 228, 273
MlyI	GAGTC	2 cut(s)	88, 120
MnlI	CCTC	4 cut(s)	70, 117, 189, 256
MseI	TTAA	2 cut(s)	215, 227
MslI	CAYNNNNRTG	1 cut(s)	168
MvnI	CGCG	1 cut(s)	183
MwoI	GCNNNNNNNGC	1 cut(s)	35
NlaIII	CATG	1 cut(s)	62
NruI	TCGCGA	1 cut(s)	183
PfeI	GAWTC	1 cut(s)	54
PleI	GAGTC	2 cut(s)	88, 119
PpsI	GAGTC	2 cut(s)	88, 119
PpuMI	RGGWCCY	1 cut(s)	146
Psp5II	RGGWCCY	1 cut(s)	146
PspPI	GGNCC	1 cut(s)	146
PspPPI	RGGWCCY	1 cut(s)	146
RruI	TCGCGA	1 cut(s)	183
RseI	CAYNNNNRTG	1 cut(s)	168
SaqAI	TTAA	2 cut(s)	215, 227
Sau96I	GGNCC	1 cut(s)	146
SchI	GAGTC	2 cut(s)	88, 120
SetI	ASST	4 cut(s)	31, 148, 201, 291
SfaNI	GCATC	2 cut(s)	25, 339
SinI	GGWCC	1 cut(s)	146
SmiMI	CAYNNNNRTG	1 cut(s)	168
Sse9I	AATT	5 cut(s)	14, 63, 216, 228, 273
SspMI	CTAG	1 cut(s)	101
TaqI	TCGA	4 cut(s)	114, 122, 166, 248
TasI	AATT	5 cut(s)	14, 63, 216, 228, 273
TfiI	GAWTC	1 cut(s)	54
Tru1I	TTAA	2 cut(s)	215, 227
Tru9I	TTAA	2 cut(s)	215, 227
TspDTI	ATGAA	1 cut(s)	147
VpaK11BI	GGWCC	1 cut(s)	146
XapI	RAATTY	1 cut(s)	273
XspI	CTAG	1 cut(s)	101

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