Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0000701

Physical Location & Seq

Genomic Coordinates Forward (+)

38139059 .. 38140460

Gene Structure 1402 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

N/A

Sequence Viewer

CDS Protein Promoter (2k)

Length: 342 bp

ATGCCCACCTTTTGTGCCAAAGTTTTCAGCATCAGGACCATTCTCTGCTGCTGGCCCCTTAAATTTGCAGCACTGATCGAATTCTTCCAAAGTCTAATGGTGCCACTTTTCTTGCCCACAGCAACTCAGTCTTTCTCCCCCAGTCCCTCGCCACTTTACACGGACCAGTCACACAGGATGGATCTAACTGAAGGAGAAATTACTAGGCTCTATAGAGTTCGAAAGACACTGATGCAAATGGTGAAAGATTGGGACTATATAATTGTAGATCATGATCTCAACATGACAATGTCGCAGTTCAAAAACAAATATGGAGAGAACATGAAAAGAGATGATCTATGA

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

113

Amino Acids

13.33

Weight (kDa)

7.71

Isoelectric Point (pI)

54.95

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb5_N	PF03871	65 - 112	5.6e-14	RNA polymerase Rpb5, N-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AccB1I	GGYRCC	1 cut(s)	100
AclWI	GGATC	1 cut(s)	189
AcsI	RAATTY	2 cut(s)	62, 80
AcuI	CTGAAG	1 cut(s)	210
AgsI	TTSAA	1 cut(s)	301
AlwI	GGATC	1 cut(s)	189
AoxI	GGCC	1 cut(s)	53
ApeKI	GCWGC	2 cut(s)	48, 68
ApoI	RAATTY	2 cut(s)	62, 80
AspS9I	GGNCC	3 cut(s)	36, 54, 163
AsuHPI	GGTGA	1 cut(s)	253
AsuII	TTCGAA	1 cut(s)	220
AvaII	GGWCC	2 cut(s)	36, 163
BanI	GGYRCC	1 cut(s)	100
BbvI	GCAGC	2 cut(s)	35, 80
BccI	CCATC	1 cut(s)	172
BfaI	CTAG	1 cut(s)	204
BfmI	CTRYAG	1 cut(s)	211
BisI	GCNGC	2 cut(s)	49, 69
BlsI	GCNGC	2 cut(s)	50, 70
Bme18I	GGWCC	2 cut(s)	36, 163
BmgT120I	GGNCC	3 cut(s)	36, 54, 163
BmiI	GGNNCC	2 cut(s)	56, 102
BmrI	ACTGGG	1 cut(s)	135
BmsI	GCATC	2 cut(s)	39, 222
BmuI	ACTGGG	1 cut(s)	135
Bpu14I	TTCGAA	1 cut(s)	220
BsaBI	GATNNNNATC	1 cut(s)	273
Bse1I	ACTGG	2 cut(s)	141, 166
Bse8I	GATNNNNATC	1 cut(s)	273
BseGI	GGATG	1 cut(s)	183
BseJI	GATNNNNATC	1 cut(s)	273
BseMII	CTCAG	1 cut(s)	140
BseNI	ACTGG	2 cut(s)	141, 166
BseXI	GCAGC	2 cut(s)	35, 80
BshFI	GGCC	1 cut(s)	55
BshNI	GGYRCC	1 cut(s)	100
BslFI	GGGAC	2 cut(s)	129, 266
BsmFI	GGGAC	2 cut(s)	129, 266
BsnI	GGCC	1 cut(s)	55
Bsp119I	TTCGAA	1 cut(s)	220
Bsp143I	GATC	5 cut(s)	75, 181, 268, 274, 334
BspANI	GGCC	1 cut(s)	55
BspCNI	CTCAG	1 cut(s)	139
BspHI	TCATGA	1 cut(s)	271
BspLI	GGNNCC	2 cut(s)	56, 102
BspPI	GGATC	1 cut(s)	189
BspT104I	TTCGAA	1 cut(s)	220
BspT107I	GGYRCC	1 cut(s)	100
BsrI	ACTGG	2 cut(s)	141, 166
BssMI	GATC	5 cut(s)	75, 181, 268, 274, 334
BstBI	TTCGAA	1 cut(s)	220
BstC8I	GCNNGC	1 cut(s)	53
BstDEI	CTNAG	1 cut(s)	126
BstF5I	GGATG	1 cut(s)	183
BstKTI	GATC	5 cut(s)	78, 184, 271, 277, 337
BstMBI	GATC	5 cut(s)	75, 181, 268, 274, 334
BstSFI	CTRYAG	1 cut(s)	211
BstV1I	GCAGC	2 cut(s)	35, 80
BstX2I	RGATCY	1 cut(s)	181
BstYI	RGATCY	1 cut(s)	181
BsuRI	GGCC	1 cut(s)	55
BtsCI	GGATG	1 cut(s)	183
BtsIMutI	CAGTG	2 cut(s)	71, 227
Cac8I	GCNNGC	1 cut(s)	53
CciI	TCATGA	1 cut(s)	271
Cfr13I	GGNCC	3 cut(s)	36, 54, 163
CspCI	CAANNNNNGTGG	2 cut(s)	93, 128
CviAII	CATG	3 cut(s)	272, 283, 322
CviJI	RGCY	2 cut(s)	55, 208
CviKI_1	RGCY	2 cut(s)	55, 208
DdeI	CTNAG	1 cut(s)	126
DpnI	GATC	5 cut(s)	77, 183, 270, 276, 336
DpnII	GATC	5 cut(s)	75, 181, 268, 274, 334
Eco47I	GGWCC	2 cut(s)	36, 163
Eco57I	CTGAAG	1 cut(s)	210
EcoRI	GAATTC	1 cut(s)	80
FaeI	CATG	3 cut(s)	275, 286, 325
FaiI	YATR	8 cut(s)	213, 258, 260, 273, 284, 312, 323, 340
FaqI	GGGAC	2 cut(s)	129, 266
FatI	CATG	3 cut(s)	271, 282, 321
Fnu4HI	GCNGC	2 cut(s)	49, 69
FokI	GGATG	1 cut(s)	190
Fsp4HI	GCNGC	2 cut(s)	49, 69
FspBI	CTAG	1 cut(s)	204
GluI	GCNGC	2 cut(s)	49, 69
HaeIII	GGCC	1 cut(s)	55
Hin1II	CATG	3 cut(s)	275, 286, 325
HphI	GGTGA	1 cut(s)	253
Hpy188III	TCNNGA	2 cut(s)	34, 272
HpyAV	CCTTC	1 cut(s)	185
HpyCH4V	TGCA	2 cut(s)	68, 235
HpyF3I	CTNAG	1 cut(s)	126
Hsp92II	CATG	3 cut(s)	275, 286, 325
Kzo9I	GATC	5 cut(s)	75, 181, 268, 274, 334
LpnPI	CCDG	5 cut(s)	19, 37, 154, 160, 179
Lsp1109I	GCAGC	2 cut(s)	35, 80
LweI	GCATC	2 cut(s)	39, 222
MaeI	CTAG	1 cut(s)	204
MaeIII	GTNAC	1 cut(s)	168
MalI	GATC	5 cut(s)	77, 183, 270, 276, 336
MboI	GATC	5 cut(s)	75, 181, 268, 274, 334
MboII	GAAGA	1 cut(s)	76
MflI	RGATCY	1 cut(s)	181
MluCI	AATT	4 cut(s)	62, 80, 198, 261
MnlI	CCTC	1 cut(s)	157
MseI	TTAA	1 cut(s)	60
MslI	CAYNNNNRTG	1 cut(s)	287
NdeII	GATC	5 cut(s)	75, 181, 268, 274, 334
NlaIII	CATG	3 cut(s)	275, 286, 325
NlaIV	GGNNCC	2 cut(s)	56, 102
NmuCI	GTSAC	1 cut(s)	168
NspV	TTCGAA	1 cut(s)	220
PagI	TCATGA	1 cut(s)	271
PflFI	GACNNNGTC	1 cut(s)	289
PkrI	GCNGC	2 cut(s)	50, 70
PspN4I	GGNNCC	2 cut(s)	56, 102
PspPI	GGNCC	3 cut(s)	36, 54, 163
PsuI	RGATCY	1 cut(s)	181
PsyI	GACNNNGTC	1 cut(s)	289
RseI	CAYNNNNRTG	1 cut(s)	287
SaqAI	TTAA	1 cut(s)	60
SatI	GCNGC	2 cut(s)	49, 69
Sau3AI	GATC	5 cut(s)	75, 181, 268, 274, 334
Sau96I	GGNCC	3 cut(s)	36, 54, 163
SetI	ASST	1 cut(s)	11
SfaNI	GCATC	2 cut(s)	39, 222
SfcI	CTRYAG	1 cut(s)	211
SfuI	TTCGAA	1 cut(s)	220
SinI	GGWCC	2 cut(s)	36, 163
SmiMI	CAYNNNNRTG	1 cut(s)	287
Sse9I	AATT	4 cut(s)	62, 80, 198, 261
SspMI	CTAG	1 cut(s)	204
TaqI	TCGA	2 cut(s)	78, 220
TasI	AATT	4 cut(s)	62, 80, 198, 261
Tru1I	TTAA	1 cut(s)	60
Tru9I	TTAA	1 cut(s)	60
TscAI	CASTG	2 cut(s)	78, 234
TseFI	GTSAC	1 cut(s)	168
TseI	GCWGC	2 cut(s)	48, 68
Tsp45I	GTSAC	1 cut(s)	168
TspDTI	ATGAA	1 cut(s)	338
TspGWI	ACGGA	1 cut(s)	176
TspRI	CASTG	2 cut(s)	78, 234
Tth111I	GACNNNGTC	1 cut(s)	289
VpaK11BI	GGWCC	2 cut(s)	36, 163
XapI	RAATTY	2 cut(s)	62, 80
XspI	CTAG	1 cut(s)	204

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