Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr5

Orthogroup ID

OG0016960

Physical Location & Seq

Genomic Coordinates Reverse (-)

71827380 .. 71827992

Gene Structure 613 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw5G040660.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 240 bp

ATGGTTGTTGTCTTGTTGATTACTGATTTGCTTGTTAATATAACGAAGCATGTCTTGAAGCCAAAGCATCAGGTATTGACTGAACGAGCAAAACAAAATCTTCTGAGGAAGTATAACATAGAAGAAAAGCAGGCAATTAACCAAAAAAAAAGTGAGAGGCAAGGTAAACATGGAGCAGCAACATCATCACCATCAGGAACTAAAGCACAGCCTCGCAAGCAGAAAAATGACGAAACATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000418 GO:0000419 GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005666 GO:0005730 GO:0005736 GO:0016591 GO:0030880 GO:0031974 GO:0031981 GO:0032991 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: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_Rpb5_C RNA_pol_Rpb5_N

Protein Analysis

79

Amino Acids

8.96

Weight (kDa)

10.2

Isoelectric Point (pI)

52.86

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb5_C	PF01191	12 - 44	1.7e-09	RNA polymerase Rpb5, C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Orthologous Genes (Group: OG0016960)

Species	Orthologous Gene IDs
pyrus_communis	pycom07g07420
rosa_chinensis	RchiOBHm_Chr3g0485381
rosa_multiflora	Rmu_sc0000455.1_g000014 Rmu_sc0003863.1_g000006
rosa_roxburghii	Rroxscaffold_1G00046570 Rroxscaffold_2G00094580 Rroxscaffold_7G00158850 Rroxscaffold_7G00198560
rosa_rugosa	Rorug02G0195600 Rorug06G0009900 Rorug07G0338500
rosa_samantha	Rh6BG316300 Rh6BG316600
rosa_wichuraiana	Rw5G040660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AgsI	TTSAA	1 cut(s)	58
ApeKI	GCWGC	1 cut(s)	176
AsuHPI	GGTGA	1 cut(s)	180
BbvI	GCAGC	1 cut(s)	188
BccI	CCATC	1 cut(s)	199
BisI	GCNGC	1 cut(s)	177
BlsI	GCNGC	1 cut(s)	178
BmsI	GCATC	1 cut(s)	76
BseMII	CTCAG	1 cut(s)	95
BseXI	GCAGC	1 cut(s)	188
BspCNI	CTCAG	1 cut(s)	96
BstC8I	GCNNGC	2 cut(s)	132, 218
BstDEI	CTNAG	1 cut(s)	104
BstMWI	GCNNNNNNNGC	1 cut(s)	217
BstNSI	RCATGY	1 cut(s)	53
BstV1I	GCAGC	1 cut(s)	188
Cac8I	GCNNGC	2 cut(s)	132, 218
CviAII	CATG	2 cut(s)	50, 170
CviJI	RGCY	2 cut(s)	61, 211
CviKI_1	RGCY	2 cut(s)	61, 211
DdeI	CTNAG	1 cut(s)	104
FaeI	CATG	2 cut(s)	53, 173
FaiI	YATR	6 cut(s)	41, 51, 114, 119, 171, 238
FalI	AAGNNNNNCTT	2 cut(s)	38, 70
FatI	CATG	2 cut(s)	49, 169
Fnu4HI	GCNGC	1 cut(s)	177
Fsp4HI	GCNGC	1 cut(s)	177
GluI	GCNGC	1 cut(s)	177
Hin1II	CATG	2 cut(s)	53, 173
HphI	GGTGA	1 cut(s)	180
Hpy166II	GTNNAC	1 cut(s)	167
Hpy188I	TCNGA	1 cut(s)	105
Hpy188III	TCNNGA	2 cut(s)	55, 195
Hpy8I	GTNNAC	1 cut(s)	167
HpyF10VI	GCNNNNNNNGC	1 cut(s)	217
HpyF3I	CTNAG	1 cut(s)	104
Hsp92II	CATG	2 cut(s)	53, 173
LmnI	GCTCC	1 cut(s)	173
LpnPI	CCDG	3 cut(s)	56, 116, 180
Lsp1109I	GCAGC	1 cut(s)	188
LweI	GCATC	1 cut(s)	76
MboII	GAAGA	2 cut(s)	92, 134
MluCI	AATT	1 cut(s)	135
MnlI	CCTC	3 cut(s)	99, 150, 222
MseI	TTAA	2 cut(s)	36, 138
MwoI	GCNNNNNNNGC	1 cut(s)	217
NlaIII	CATG	2 cut(s)	53, 173
NspI	RCATGY	1 cut(s)	53
PkrI	GCNGC	1 cut(s)	178
SaqAI	TTAA	2 cut(s)	36, 138
SatI	GCNGC	1 cut(s)	177
SetI	ASST	2 cut(s)	75, 166
SfaNI	GCATC	1 cut(s)	76
Sse9I	AATT	1 cut(s)	135
TasI	AATT	1 cut(s)	135
Tru1I	TTAA	2 cut(s)	36, 138
Tru9I	TTAA	2 cut(s)	36, 138
TseI	GCWGC	1 cut(s)	176
XceI	RCATGY	1 cut(s)	53

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