Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0000701

Physical Location & Seq

Genomic Coordinates Reverse (-)

36486094 .. 36490628

Gene Structure 4535 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ57064

Sequence Viewer

CDS Protein Promoter (2k)

Length: 249 bp

ATGGTTTTGACAGAAGAAGAAATTATGAGGCTCTATAGGGTTCGAAAAACAGTGATGCAAATGCTGAAAGATCGGGACTATCTGATTGTTGATCATGATCTCAACATGACAATGTCGCAGTTTAAAAACAAACATGGAGAGAACATGAAAAGGGAGGACCTTCCTATCAATACAAGGAAGAGAGGTGACGAGTCTGATCAGGTATTTGATTTGGGCATGAATCAGGAGAATGTGATTAGAGCAATCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000418 GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005666 GO:0005730 GO:0005736 GO:0006139 GO:0006351 GO:0006366 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016591 GO:0018130 GO:0019438 GO:0030880 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044452 GO:0044464 GO:0046483 GO:0055029 GO:0061695 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:1901360 GO:1901362 GO:1901576 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_Rpb5_C RNA_pol_Rpb5_N

Protein Analysis

82

Amino Acids

9.87

Weight (kDa)

6.09

Isoelectric Point (pI)

34.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb5_N	PF03871	5 - 69	5.2e-20	RNA polymerase Rpb5, N-terminal domain

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: OG0000701)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G22320
fragaria_vesca	FvH4_5g21560 FvH4_7g09301 FvH4_7g09301
malus_domestica	MD02G1080800.v1.1 MD02G1093900.v1.1 MD15G1208600.v1.1
prunus_persica	Prupe.2G121300_v2.0.a1 Prupe.2G121300_v2.0.a1 Prupe.2G121400_v2.0.a1 Prupe.2G121400_v2.0.a1
pyrus_communis	pycom02g06410 pycom02g07430 pycom15g18470
rosa_chinensis	RchiOBHm_Chr1g0332791 RchiOBHm_Chr1g0344101 RchiOBHm_Chr1g0344151 RchiOBHm_Chr1g0344171 RchiOBHm_Chr1g0345361 RchiOBHm_Chr1g0345421 RchiOBHm_Chr1g0345561 RchiOBHm_Chr1g0345591 RchiOBHm_Chr1g0345671 RchiOBHm_Chr1g0345701 RchiOBHm_Chr1g0345711 RchiOBHm_Chr1g0345721 RchiOBHm_Chr1g0345801 RchiOBHm_Chr1g0345851 RchiOBHm_Chr1g0345901 RchiOBHm_Chr1g0345921 RchiOBHm_Chr1g0345931 RchiOBHm_Chr1g0345951 RchiOBHm_Chr1g0345961 RchiOBHm_Chr7g0208981
rosa_laevigata	RLG00000003175 RLG00000029644
rosa_multiflora	Rmu_co8382943.1_g000001 Rmu_sc0000532.1_g000035 Rmu_sc0001292.1_g000003 Rmu_sc0001349.1_g000004 Rmu_sc0001692.1_g000006 Rmu_sc0001692.1_g000027 Rmu_sc0002329.1_g000024 Rmu_sc0002329.1_g000032 Rmu_sc0004239.1_g000023 Rmu_sc0008115.1_g000011
rosa_roxburghii	Rroxscaffold_3G00238160 Rroxscaffold_3G00249920 Rroxscaffold_4G00310020 Rroxscaffold_4G00317980 Rroxscaffold_5G00344600
rosa_rugosa	Rorug01G0103700 Rorug01G0103800 Rorug01G0103900 Rorug01G0171800 Rorug07G0107800
rosa_samantha	Rh1BG097500 Rh1BG161500 Rh1CG122000 Rh1CG173900 Rh1CG180700 Rh1CG181100 Rh1DG133900 Rh1DG191900 Rh7AG242600 Rh7BG237400 Rh7DG249500
rosa_wichuraiana	Rw1G010510 Rw1G016120 Rw1G016200 Rw1G016220 Rw1G016430 Rw1G016490 Rw7G020550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AspS9I	GGNCC	1 cut(s)	157
AsuHPI	GGTGA	1 cut(s)	197
AsuII	TTCGAA	1 cut(s)	43
AvaII	GGWCC	1 cut(s)	157
BclI	TGATCA	2 cut(s)	91, 196
BfmI	CTRYAG	1 cut(s)	34
Bme18I	GGWCC	1 cut(s)	157
BmgT120I	GGNCC	1 cut(s)	157
BmsI	GCATC	1 cut(s)	45
Bpu14I	TTCGAA	1 cut(s)	43
BsaBI	GATNNNNATC	1 cut(s)	96
Bse8I	GATNNNNATC	1 cut(s)	96
BseJI	GATNNNNATC	1 cut(s)	96
BslFI	GGGAC	1 cut(s)	89
BsmFI	GGGAC	1 cut(s)	89
Bsp119I	TTCGAA	1 cut(s)	43
Bsp143I	GATC	4 cut(s)	70, 91, 97, 196
BspHI	TCATGA	1 cut(s)	94
BspT104I	TTCGAA	1 cut(s)	43
BssMI	GATC	4 cut(s)	70, 91, 97, 196
Bst4CI	ACNGT	1 cut(s)	52
Bst6I	CTCTTC	1 cut(s)	173
BstBI	TTCGAA	1 cut(s)	43
BstKTI	GATC	4 cut(s)	73, 94, 100, 199
BstMBI	GATC	4 cut(s)	70, 91, 97, 196
BstSFI	CTRYAG	1 cut(s)	34
BtsIMutI	CAGTG	1 cut(s)	57
CciI	TCATGA	1 cut(s)	94
Cfr13I	GGNCC	1 cut(s)	157
CviAII	CATG	5 cut(s)	95, 106, 134, 145, 217
CviJI	RGCY	1 cut(s)	31
CviKI_1	RGCY	1 cut(s)	31
DpnI	GATC	4 cut(s)	72, 93, 99, 198
DpnII	GATC	4 cut(s)	70, 91, 97, 196
DraI	TTTAAA	1 cut(s)	124
Eam1104I	CTCTTC	1 cut(s)	173
EarI	CTCTTC	1 cut(s)	173
Eco47I	GGWCC	1 cut(s)	157
EcoO109I	RGGNCCY	1 cut(s)	157
FaeI	CATG	5 cut(s)	98, 109, 137, 148, 220
FaiI	YATR	7 cut(s)	26, 36, 96, 107, 135, 146, 218
FaqI	GGGAC	1 cut(s)	89
FatI	CATG	5 cut(s)	94, 105, 133, 144, 216
FbaI	TGATCA	2 cut(s)	91, 196
Hin1II	CATG	5 cut(s)	98, 109, 137, 148, 220
HinfI	GANTC	2 cut(s)	191, 220
HphI	GGTGA	1 cut(s)	197
Hpy188I	TCNGA	2 cut(s)	84, 196
Hpy188III	TCNNGA	3 cut(s)	74, 95, 224
HpyAV	CCTTC	1 cut(s)	170
HpyCH4III	ACNGT	1 cut(s)	52
HpyCH4V	TGCA	1 cut(s)	58
Hsp92II	CATG	5 cut(s)	98, 109, 137, 148, 220
Ksp22I	TGATCA	2 cut(s)	91, 196
Kzo9I	GATC	4 cut(s)	70, 91, 97, 196
LpnPI	CCDG	2 cut(s)	185, 209
LweI	GCATC	1 cut(s)	45
MaeIII	GTNAC	1 cut(s)	185
MalI	GATC	4 cut(s)	72, 93, 99, 198
MboI	GATC	4 cut(s)	70, 91, 97, 196
MboII	GAAGA	3 cut(s)	26, 29, 190
MluCI	AATT	1 cut(s)	21
MlyI	GAGTC	1 cut(s)	200
MnlI	CCTC	3 cut(s)	21, 148, 176
MseI	TTAA	1 cut(s)	123
MslI	CAYNNNNRTG	1 cut(s)	110
NdeII	GATC	4 cut(s)	70, 91, 97, 196
NlaIII	CATG	5 cut(s)	98, 109, 137, 148, 220
NmuCI	GTSAC	1 cut(s)	185
NspV	TTCGAA	1 cut(s)	43
PagI	TCATGA	1 cut(s)	94
PfeI	GAWTC	1 cut(s)	220
PflFI	GACNNNGTC	1 cut(s)	112
PleI	GAGTC	1 cut(s)	199
PpsI	GAGTC	1 cut(s)	199
PpuMI	RGGWCCY	1 cut(s)	157
Psp5II	RGGWCCY	1 cut(s)	157
PspPI	GGNCC	1 cut(s)	157
PspPPI	RGGWCCY	1 cut(s)	157
PsyI	GACNNNGTC	1 cut(s)	112
RseI	CAYNNNNRTG	1 cut(s)	110
SaqAI	TTAA	1 cut(s)	123
Sau3AI	GATC	4 cut(s)	70, 91, 97, 196
Sau96I	GGNCC	1 cut(s)	157
SchI	GAGTC	1 cut(s)	200
SetI	ASST	3 cut(s)	162, 187, 204
SfaNI	GCATC	1 cut(s)	45
SfcI	CTRYAG	1 cut(s)	34
SfuI	TTCGAA	1 cut(s)	43
SinI	GGWCC	1 cut(s)	157
SmiMI	CAYNNNNRTG	1 cut(s)	110
Sse9I	AATT	1 cut(s)	21
TaaI	ACNGT	1 cut(s)	52
TaqI	TCGA	1 cut(s)	43
TasI	AATT	1 cut(s)	21
TfiI	GAWTC	1 cut(s)	220
Tru1I	TTAA	1 cut(s)	123
Tru9I	TTAA	1 cut(s)	123
TscAI	CASTG	1 cut(s)	57
TseFI	GTSAC	1 cut(s)	185
Tsp45I	GTSAC	1 cut(s)	185
TspDTI	ATGAA	2 cut(s)	161, 233
TspRI	CASTG	1 cut(s)	57
Tth111I	GACNNNGTC	1 cut(s)	112
VpaK11BI	GGWCC	1 cut(s)	157

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