Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0000565

Physical Location & Seq

Genomic Coordinates Forward (+)

29332948 .. 29339028

Gene Structure 6081 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG279000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 258 bp

ATGTCACTCGCGGTGGATCTCGAGCGTCGAAGAGCTCTCGTCCCCACAATGTTTCTGAGTTCATTCTCGACGAGGGGTCTGGGTGAGGATGTTATCATAAGGAAGACCACTCTCATTGCTCCTAAGGAGGCTCAGCAGCAAGCTTCTTCGTGTTACTCACGACGTGACCATTGTATAAGCTTATGGCATAGTGAAACCGGGATTATGGACCAGGTAGCAGAAGAGCTTTACCAATCTGGTATAAACTGGATGTTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003824 GO:0003899 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005665 GO:0005737 GO:0005829 GO:0005911 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009506 GO:0009892 GO:0009987 GO:0010033 GO:0010467 GO:0010468 GO:0010605 GO:0010608 GO:0010629 GO:0014070 GO:0016070 GO:0016441 GO:0016458 GO:0016591 GO:0016740 GO:0016772 GO:0016779 GO:0018130 GO:0019222 GO:0019438 GO:0030054 GO:0030880 GO:0031047 GO:0031050 GO:0031974 GO:0031981 GO:0032774 GO:0032991 GO:0034062 GO:0034641 GO:0034654 GO:0035194 GO:0035195 GO:0035196 GO:0040029 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043331 GO:0044237 GO:0044238 GO:0044249 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044451 GO:0044464 GO:0046483 GO:0048519 GO:0050789 GO:0050896 GO:0051716 GO:0055029 GO:0055044 GO:0060255 GO:0061695 GO:0065007 GO:0070013 GO:0070887 GO:0070918 GO:0071310 GO:0071359 GO:0071407 GO:0071704 GO:0090304 GO:0097747 GO:0140098 GO:1901360 GO:1901362 GO:1901576 GO:1901698 GO:1901699 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko05016 ko05169 map00230 map00240 map01100 map03020 map05016 map05169

Pfam Domains

Protein Families

RNA_pol_Rpb2_1 RNA_pol_Rpb2_2 RNA_pol_Rpb2_3 RNA_pol_Rpb2_4 RNA_pol_Rpb2_5 RNA_pol_Rpb2_6 RNA_pol_Rpb2_7

Protein Analysis

85

Amino Acids

9.67

Weight (kDa)

6.05

Isoelectric Point (pI)

68.1

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000565)

Species	Orthologous Gene IDs
pyrus_communis	pycom10g08490
rosa_chinensis	RchiOBHm_Chr1g0329691 RchiOBHm_Chr1g0332621 RchiOBHm_Chr2g0113681 RchiOBHm_Chr3g0494941 RchiOBHm_Chr4g0405101 RchiOBHm_Chr4g0432031 RchiOBHm_Chr6g0256671 RchiOBHm_Chr6g0271971
rosa_laevigata	RLG00000000812 RLG00000014208 RLG00000019091 RLG00000023770 RLG00000024432 RLG00000030162
rosa_multiflora	Rmu_sc0000173.1_g000039 Rmu_sc0000213.1_g000001 Rmu_sc0000580.1_g000059 Rmu_sc0001084.1_g000007 Rmu_sc0004755.1_g000037 Rmu_sc0005523.1_g000016 Rmu_sc0006670.1_g000025 Rmu_sc0021593.1_g000003
rosa_roxburghii	Rroxscaffold_176G00431130 Rroxscaffold_1G00016960 Rroxscaffold_1G00025070 Rroxscaffold_1G00041460 Rroxscaffold_4G00294040 Rroxscaffold_6G00409240 Rroxscaffold_6G00423240 Rroxscaffold_6G00425100 Rroxscaffold_7G00185440 Rroxscaffold_7G00204100
rosa_rugosa	Rorug03G0304000 Rorug03G0304000 Rorug06G0059000 Rorug06G0112900
rosa_samantha	Rh1AG075200 Rh1AG157000 Rh1AG157100 Rh1AG161600 Rh1BG065800 Rh1BG094200 Rh2AG675300 Rh2BG242500 Rh2BG287600 Rh2BG319100 Rh2BG494800 Rh2BG686600 Rh2CG248000 Rh2CG288100 Rh2CG288200 Rh2CG649800 Rh2DG603100 Rh2DG700700 Rh3AG253500 Rh3BG236900 Rh3CG110600 Rh3CG318000 Rh3DG231400 Rh4CG141900 Rh5BG429900 Rh5CG251900 Rh5CG266000 Rh5CG350700 Rh5DG443300 Rh6AG032600 Rh6AG032700 Rh6BG408900 Rh6CG008400 Rh6DG009300 Rh7AG279000 Rh7BG261100 Rh7CG160900 Rh7CG298200 Rh7CG465100 Rh7CG502800 Rh7DG293900 Rh7DG471100 Rh7DG471300
rosa_wichuraiana	Rw0G009600 Rw1G010610 Rw3G018660

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	11
AciI	CCGC	1 cut(s)	11
AclWI	GGATC	1 cut(s)	24
AdeI	CACNNNGTG	1 cut(s)	164
AhdI	GACNNNNNGTC	1 cut(s)	75
AjiI	CACGTC	1 cut(s)	164
AjnI	CCWGG	1 cut(s)	210
AluBI	AGCT	4 cut(s)	35, 143, 180, 226
AluI	AGCT	4 cut(s)	35, 143, 180, 226
Alw21I	GWGCWC	1 cut(s)	37
AlwI	GGATC	1 cut(s)	24
Ama87I	CYCGRG	1 cut(s)	20
ApeKI	GCWGC	1 cut(s)	136
AspS9I	GGNCC	1 cut(s)	208
AsuC2I	CCSGG	1 cut(s)	199
AsuHPI	GGTGA	1 cut(s)	95
AvaI	CYCGRG	1 cut(s)	20
AvaII	GGWCC	1 cut(s)	208
AxyI	CCTNAGG	1 cut(s)	123
BanII	GRGCYC	1 cut(s)	37
BbsI	GAAGAC	1 cut(s)	110
Bbv12I	GWGCWC	1 cut(s)	37
BbvI	GCAGC	1 cut(s)	148
BciT130I	CCWGG	1 cut(s)	212
BcnI	CCSGG	1 cut(s)	199
BisI	GCNGC	1 cut(s)	137
BlpI	GCTNAGC	1 cut(s)	132
BlsI	GCNGC	1 cut(s)	138
Bme1390I	CCNGG	2 cut(s)	199, 212
Bme18I	GGWCC	1 cut(s)	208
BmeRI	GACNNNNNGTC	1 cut(s)	75
BmeT110I	CYCGRG	1 cut(s)	20
BmgBI	CACGTC	1 cut(s)	164
BmgT120I	GGNCC	1 cut(s)	208
BmrFI	CCNGG	2 cut(s)	199, 212
BpiI	GAAGAC	1 cut(s)	110
Bpu1102I	GCTNAGC	1 cut(s)	132
BpuMI	CCSGG	1 cut(s)	199
Bse1I	ACTGG	1 cut(s)	251
Bse21I	CCTNAGG	1 cut(s)	123
Bse3DI	GCAATG	1 cut(s)	114
BseBI	CCWGG	1 cut(s)	212
BseGI	GGATG	2 cut(s)	94, 255
BseMI	GCAATG	1 cut(s)	114
BseMII	CTCAG	2 cut(s)	47, 146
BseNI	ACTGG	1 cut(s)	251
BseXI	GCAGC	1 cut(s)	148
Bsh1236I	CGCG	1 cut(s)	11
BsiHKAI	GWGCWC	1 cut(s)	37
BsiHKCI	CYCGRG	1 cut(s)	20
BsiSI	CCGG	1 cut(s)	198
BslFI	GGGAC	1 cut(s)	26
BsmFI	GGGAC	1 cut(s)	26
BsoBI	CYCGRG	1 cut(s)	20
Bsp1286I	GDGCHC	1 cut(s)	37
Bsp143I	GATC	1 cut(s)	16
Bsp1720I	GCTNAGC	1 cut(s)	132
BspACI	CCGC	1 cut(s)	11
BspCNI	CTCAG	2 cut(s)	48, 145
BspFNI	CGCG	1 cut(s)	11
BspPI	GGATC	1 cut(s)	24
BspQI	GCTCTTC	2 cut(s)	25, 216
BsrDI	GCAATG	1 cut(s)	114
BsrI	ACTGG	1 cut(s)	251
BssMI	GATC	1 cut(s)	16
Bst2UI	CCWGG	1 cut(s)	212
Bst6I	CTCTTC	2 cut(s)	25, 216
BstC8I	GCNNGC	1 cut(s)	141
BstDEI	CTNAG	3 cut(s)	56, 123, 132
BstF5I	GGATG	2 cut(s)	94, 255
BstFNI	CGCG	1 cut(s)	11
BstKTI	GATC	1 cut(s)	19
BstMBI	GATC	1 cut(s)	16
BstNI	CCWGG	1 cut(s)	212
BstSCI	CCNGG	2 cut(s)	197, 210
BstUI	CGCG	1 cut(s)	11
BstV1I	GCAGC	1 cut(s)	148
BstV2I	GAAGAC	1 cut(s)	110
BstX2I	RGATCY	1 cut(s)	16
BstYI	RGATCY	1 cut(s)	16
Bsu36I	CCTNAGG	1 cut(s)	123
BtrI	CACGTC	1 cut(s)	164
BtsCI	GGATG	2 cut(s)	94, 255
Cac8I	GCNNGC	1 cut(s)	141
Cfr13I	GGNCC	1 cut(s)	208
CseI	GACGC	1 cut(s)	14
CsiI	ACCWGGT	1 cut(s)	210
CspCI	CAANNNNNGTGG	2 cut(s)	97, 132
CviJI	RGCY	5 cut(s)	35, 131, 143, 180, 226
CviKI_1	RGCY	5 cut(s)	35, 131, 143, 180, 226
DdeI	CTNAG	3 cut(s)	56, 123, 132
DpnI	GATC	1 cut(s)	18
DpnII	GATC	1 cut(s)	16
DraIII	CACNNNGTG	1 cut(s)	164
DriI	GACNNNNNGTC	1 cut(s)	75
Eam1104I	CTCTTC	2 cut(s)	25, 216
Eam1105I	GACNNNNNGTC	1 cut(s)	75
EarI	CTCTTC	2 cut(s)	25, 216
Ecl136II	GAGCTC	1 cut(s)	35
Eco24I	GRGCYC	1 cut(s)	37
Eco47I	GGWCC	1 cut(s)	208
Eco53kI	GAGCTC	1 cut(s)	35
Eco81I	CCTNAGG	1 cut(s)	123
Eco88I	CYCGRG	1 cut(s)	20
EcoICRI	GAGCTC	1 cut(s)	35
EcoRII	CCWGG	1 cut(s)	210
EcoT38I	GRGCYC	1 cut(s)	37
FaiI	YATR	6 cut(s)	98, 176, 184, 189, 206, 242
FaqI	GGGAC	1 cut(s)	26
Fnu4HI	GCNGC	1 cut(s)	137
FokI	GGATG	1 cut(s)	101
FriOI	GRGCYC	1 cut(s)	37
Fsp4HI	GCNGC	1 cut(s)	137
GluI	GCNGC	1 cut(s)	137
HapII	CCGG	1 cut(s)	198
HgaI	GACGC	1 cut(s)	14
HindIII	AAGCTT	2 cut(s)	141, 178
HpaII	CCGG	1 cut(s)	198
HphI	GGTGA	1 cut(s)	95
Hpy188I	TCNGA	1 cut(s)	57
Hpy188III	TCNNGA	3 cut(s)	20, 67, 159
Hpy99I	CGWCG	3 cut(s)	30, 73, 165
HpyCH4IV	ACGT	1 cut(s)	163
HpyF3I	CTNAG	3 cut(s)	56, 123, 132
HpySE526I	ACGT	1 cut(s)	163
Kzo9I	GATC	1 cut(s)	16
LguI	GCTCTTC	2 cut(s)	25, 216
LmnI	GCTCC	1 cut(s)	124
LpnPI	CCDG	6 cut(s)	65, 197, 211, 222, 224, 232
Lsp1109I	GCAGC	1 cut(s)	148
MabI	ACCWGGT	1 cut(s)	210
MaeII	ACGT	1 cut(s)	163
MaeIII	GTNAC	3 cut(s)	3, 152, 164
MalI	GATC	1 cut(s)	18
MboI	GATC	1 cut(s)	16
MboII	GAAGA	4 cut(s)	42, 115, 138, 233
MflI	RGATCY	1 cut(s)	16
MhlI	GDGCHC	1 cut(s)	37
MnlI	CCTC	3 cut(s)	66, 79, 121
MspI	CCGG	1 cut(s)	198
MspR9I	CCNGG	2 cut(s)	199, 212
MvaI	CCWGG	1 cut(s)	212
MvnI	CGCG	1 cut(s)	11
NciI	CCSGG	1 cut(s)	199
NdeII	GATC	1 cut(s)	16
NmuCI	GTSAC	2 cut(s)	3, 164
PaeR7I	CTCGAG	1 cut(s)	20
PciSI	GCTCTTC	2 cut(s)	25, 216
PkrI	GCNGC	1 cut(s)	138
Psp124BI	GAGCTC	1 cut(s)	37
Psp6I	CCWGG	1 cut(s)	210
PspGI	CCWGG	1 cut(s)	210
PspPI	GGNCC	1 cut(s)	208
PsuI	RGATCY	1 cut(s)	16
SacI	GAGCTC	1 cut(s)	37
SapI	GCTCTTC	2 cut(s)	25, 216
SatI	GCNGC	1 cut(s)	137
Sau3AI	GATC	1 cut(s)	16
Sau96I	GGNCC	1 cut(s)	208
ScrFI	CCNGG	2 cut(s)	199, 212
SduI	GDGCHC	1 cut(s)	37
SetI	ASST	6 cut(s)	37, 145, 166, 182, 216, 228
SexAI	ACCWGGT	1 cut(s)	210
Sfr274I	CTCGAG	1 cut(s)	20
SinI	GGWCC	1 cut(s)	208
SlaI	CTCGAG	1 cut(s)	20
SmlI	CTYRAG	1 cut(s)	20
SmoI	CTYRAG	1 cut(s)	20
SsiI	CCGC	1 cut(s)	11
SstI	GAGCTC	1 cut(s)	37
StyD4I	CCNGG	2 cut(s)	197, 210
TaiI	ACGT	1 cut(s)	166
TaqI	TCGA	3 cut(s)	21, 28, 68
TseFI	GTSAC	2 cut(s)	3, 164
TseI	GCWGC	1 cut(s)	136
Tsp45I	GTSAC	2 cut(s)	3, 164
TspDTI	ATGAA	1 cut(s)	51
VpaK11BI	GGWCC	1 cut(s)	208
XhoI	CTCGAG	1 cut(s)	20

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