Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr4

Orthogroup ID

OG0000749

Physical Location & Seq

Genomic Coordinates Reverse (-)

12978793 .. 12979382

Gene Structure 590 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw4G006320.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 228 bp

ATGGTCAACAACTTGGGTGTTTCAAGAGCACTGGTTGAAATTTCCAGGACCTTCCTACTGCCTACACATTTGCATGAGAGGTTAGGGTTACTCAAAAATGCAAGAGTTAGATTGGAAGAGAAACGAATAACTCCATCTATCGATAGGATTGCAGAAAGCCTGAATATGTCCAAAAAGAAAGTTAGGAAGTTACTCAGAGCTGAATTGAAAACATGTTGGAACTTCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000988 GO:0000990 GO:0003674 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006351 GO:0006352 GO:0006355 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009416 GO:0009507 GO:0009536 GO:0009628 GO:0009889 GO:0009987 GO:0010109 GO:0010467 GO:0010468 GO:0010556 GO:0016070 GO:0016987 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0031323 GO:0031326 GO:0032774 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043254 GO:0044087 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0050789 GO:0050794 GO:0050896 GO:0051128 GO:0051171 GO:0051252 GO:0051716 GO:0051775 GO:0060255 GO:0065007 GO:0071214 GO:0071461 GO:0071478 GO:0071482 GO:0071704 GO:0080005 GO:0080090 GO:0090304 GO:0097659 GO:0104004 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1903506 GO:2000112 GO:2000142 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Sigma70_r2 Sigma70_r3 Sigma70_r4

Protein Analysis

75

Amino Acids

8.75

Weight (kDa)

10.94

Isoelectric Point (pI)

41.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sigma70_r3	PF04539	26 - 68	1.6e-06	Sigma-70 region 3

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Publication-ready

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Orthologous Genes (Group: OG0000749)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G13930 AT1G13930 AT1G13930 AT2G03440
fragaria_vesca	FvH4_4g30460
malus_domestica	MD13G1065600.v1.1 MD13G1065700.v1.1 MD16G1064100.v1.1 MD16G1064200.v1.1
prunus_persica	Prupe.1G282500_v2.0.a1
pyrus_communis	pycom13g05780 pycom13g05790
rosa_chinensis	RchiOBHm_Chr1g0320671 RchiOBHm_Chr2g0084691 RchiOBHm_Chr4g0391511 RchiOBHm_Chr4g0397231 RchiOBHm_Chr5g0038511 RchiOBHm_Chr7g0218611 RchiOBHm_Chr7g0243091
rosa_laevigata	RLG00000001214 RLG00000003134 RLG00000005591 RLG00000006330 RLG00000008137 RLG00000020620 RLG00000024858 RLG00000027359
rosa_multiflora	Rmu_co8437595.1_g000001 Rmu_sc0001781.1_g000012 Rmu_sc0001796.1_g000001 Rmu_sc0002245.1_g000048 Rmu_sc0002312.1_g000067 Rmu_sc0006553.1_g000012 Rmu_sc0007391.1_g000013 Rmu_ssc0000436.1_g000004
rosa_roxburghii	Rroxscaffold_1G00072700 Rroxscaffold_3G00245360 Rroxscaffold_3G00267980 Rroxscaffold_4G00319730 Rroxscaffold_5G00374780 Rroxscaffold_7G00197900
rosa_rugosa	Rorug01G0161500.1 Rorug04G0313200 Rorug04G0313200 Rorug07G0153800
rosa_samantha	Rh1BG233900 Rh1DG068600 Rh1DG091400 Rh1DG261300 Rh2AG113800 Rh2AG464700 Rh4AG364000 Rh4BG288300 Rh4BG375300 Rh4CG180100 Rh4CG389400 Rh4DG224500 Rh4DG369700 Rh5AG078000 Rh5CG365500 Rh5DG489000 Rh5DG546500 Rh6BG092900 Rh7BG230100 Rh7BG332300 Rh7DG399200
rosa_wichuraiana	Rw0G007230 Rw0G016780 Rw2G045830 Rw4G006320 Rw5G027470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcsI	RAATTY	1 cut(s)	39
AflIII	ACRYGT	1 cut(s)	212
AgsI	TTSAA	3 cut(s)	24, 38, 208
AjnI	CCWGG	1 cut(s)	44
AluBI	AGCT	1 cut(s)	200
AluI	AGCT	1 cut(s)	200
Alw21I	GWGCWC	1 cut(s)	31
ApoI	RAATTY	1 cut(s)	39
AspS9I	GGNCC	1 cut(s)	48
AvaII	GGWCC	1 cut(s)	48
Bbv12I	GWGCWC	1 cut(s)	31
BccI	CCATC	1 cut(s)	142
BcgI	CGANNNNNNTGC	2 cut(s)	131, 165
BciT130I	CCWGG	1 cut(s)	46
Bme1390I	CCNGG	1 cut(s)	46
Bme18I	GGWCC	1 cut(s)	48
BmgT120I	GGNCC	1 cut(s)	48
BmrFI	CCNGG	1 cut(s)	46
Bsa29I	ATCGAT	1 cut(s)	141
Bse1I	ACTGG	1 cut(s)	36
BseBI	CCWGG	1 cut(s)	46
BseCI	ATCGAT	1 cut(s)	141
BseMII	CTCAG	1 cut(s)	208
BseNI	ACTGG	1 cut(s)	36
BshVI	ATCGAT	1 cut(s)	141
BsiHKAI	GWGCWC	1 cut(s)	31
Bsp1286I	GDGCHC	1 cut(s)	31
BspCNI	CTCAG	1 cut(s)	207
BspDI	ATCGAT	1 cut(s)	141
BsrI	ACTGG	1 cut(s)	36
Bst2UI	CCWGG	1 cut(s)	46
Bst6I	CTCTTC	1 cut(s)	111
BstDEI	CTNAG	1 cut(s)	194
BstNI	CCWGG	1 cut(s)	46
BstNSI	RCATGY	1 cut(s)	216
BstSCI	CCNGG	1 cut(s)	44
Bsu15I	ATCGAT	1 cut(s)	141
BsuTUI	ATCGAT	1 cut(s)	141
BtsIMutI	CAGTG	1 cut(s)	29
Cfr13I	GGNCC	1 cut(s)	48
ClaI	ATCGAT	1 cut(s)	141
CviAII	CATG	2 cut(s)	74, 213
CviJI	RGCY	2 cut(s)	159, 200
CviKI_1	RGCY	2 cut(s)	159, 200
DdeI	CTNAG	1 cut(s)	194
Eam1104I	CTCTTC	1 cut(s)	111
EarI	CTCTTC	1 cut(s)	111
Eco47I	GGWCC	1 cut(s)	48
EcoO109I	RGGNCCY	1 cut(s)	48
EcoRII	CCWGG	1 cut(s)	44
FaeI	CATG	2 cut(s)	77, 216
FaiI	YATR	3 cut(s)	75, 167, 214
FatI	CATG	2 cut(s)	73, 212
Hin1II	CATG	2 cut(s)	77, 216
HincII	GTYRAC	1 cut(s)	7
HindII	GTYRAC	1 cut(s)	7
Hpy166II	GTNNAC	1 cut(s)	7
Hpy188I	TCNGA	1 cut(s)	197
Hpy188III	TCNNGA	1 cut(s)	24
Hpy8I	GTNNAC	1 cut(s)	7
HpyAV	CCTTC	1 cut(s)	61
HpyCH4V	TGCA	3 cut(s)	73, 101, 152
HpyF3I	CTNAG	1 cut(s)	194
Hsp92II	CATG	2 cut(s)	77, 216
LpnPI	CCDG	4 cut(s)	17, 31, 58, 173
MaeIII	GTNAC	2 cut(s)	87, 189
MboII	GAAGA	1 cut(s)	128
MhlI	GDGCHC	1 cut(s)	31
MluCI	AATT	2 cut(s)	39, 203
MmeI	TCCRAC	1 cut(s)	197
MnlI	CCTC	1 cut(s)	72
MslI	CAYNNNNRTG	1 cut(s)	72
MspR9I	CCNGG	1 cut(s)	46
MvaI	CCWGG	1 cut(s)	46
NlaIII	CATG	2 cut(s)	77, 216
NspI	RCATGY	1 cut(s)	216
PciI	ACATGT	1 cut(s)	212
PfoI	TCCNGGA	1 cut(s)	44
PpuMI	RGGWCCY	1 cut(s)	48
PscI	ACATGT	1 cut(s)	212
Psp5II	RGGWCCY	1 cut(s)	48
Psp6I	CCWGG	1 cut(s)	44
PspGI	CCWGG	1 cut(s)	44
PspPI	GGNCC	1 cut(s)	48
PspPPI	RGGWCCY	1 cut(s)	48
RseI	CAYNNNNRTG	1 cut(s)	72
Sau96I	GGNCC	1 cut(s)	48
ScrFI	CCNGG	1 cut(s)	46
SduI	GDGCHC	1 cut(s)	31
SetI	ASST	3 cut(s)	53, 83, 202
SgeI	CNNG	8 cut(s)	25, 36, 44, 57, 58, 86, 114, 172
SinI	GGWCC	1 cut(s)	48
SmiMI	CAYNNNNRTG	1 cut(s)	72
Sse9I	AATT	2 cut(s)	39, 203
StyD4I	CCNGG	1 cut(s)	44
TaqI	TCGA	1 cut(s)	141
TasI	AATT	2 cut(s)	39, 203
TscAI	CASTG	1 cut(s)	36
TspRI	CASTG	1 cut(s)	36
VpaK11BI	GGWCC	1 cut(s)	48
XapI	RAATTY	1 cut(s)	39
XceI	RCATGY	1 cut(s)	216

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