Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0014798

Physical Location & Seq

Genomic Coordinates Forward (+)

70504564 .. 70504827

Gene Structure 264 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG506600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 264 bp

ATGCAAGCTGTTAGACCTTTAACTGTTCAAGAAGAGGGTGAATCTTGTGGAGACTATGTTGATGCAGGCATATCTGATATATCCTGTGCATCCTCTGTTGTGACTCAAGATACTGCAACGAATAAGAGTACTGGACCAGAGAGCATAGTGCCCGGTGAGTTCTTTAAGCAGAAAAAATCCTTCCCGGGAGATCTTTTGCCAACCAAGGAATGGATAGGTTGGTTCGAGAATCGTCTAAGCCCGCCTGCCACAGTTGAACTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005736 GO:0005911 GO:0006139 GO:0006351 GO:0006360 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009506 GO:0009987 GO:0010467 GO:0016070 GO:0018130 GO:0019438 GO:0030054 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:0044452 GO:0044464 GO:0046483 GO:0055029 GO:0055044 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 map00230 map00240 map01100 map03020

Pfam Domains

Protein Families

RNA_pol_Rpb1_1 RNA_pol_Rpb1_2 RNA_pol_Rpb1_3 RNA_pol_Rpb1_4 RNA_pol_Rpb1_5

Protein Analysis

87

Amino Acids

9.42

Weight (kDa)

4.39

Isoelectric Point (pI)

43.38

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

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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0014798)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_7g13150
prunus_persica	Prupe.2G154800_v2.0.a1
rosa_chinensis	RchiOBHm_Chr1g0352281
rosa_laevigata	RLG00000028344 RLG00000032851
rosa_multiflora	Rmu_sc0003774.1_g000002
rosa_roxburghii	Rroxscaffold_152G00434490 Rroxscaffold_3G00222460
rosa_rugosa	Rorug01G0211800 Rorug01G0226400
rosa_samantha	Rh1AG240900 Rh1BG211700 Rh1CG224700 Rh1DG238100 Rh5CG506400 Rh5CG506600
rosa_wichuraiana	Rw1G020860

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	210
AciI	CCGC	1 cut(s)	242
AfaI	GTAC	1 cut(s)	130
AfiI	CCNNNNNNNGG	1 cut(s)	210
AgsI	TTSAA	2 cut(s)	29, 257
AluBI	AGCT	1 cut(s)	8
AluI	AGCT	1 cut(s)	8
Alw26I	GTCTC	1 cut(s)	45
Ama87I	CYCGRG	1 cut(s)	184
AspS9I	GGNCC	1 cut(s)	134
AsuC2I	CCSGG	3 cut(s)	153, 185, 186
AsuHPI	GGTGA	2 cut(s)	50, 167
AvaI	CYCGRG	1 cut(s)	184
AvaII	GGWCC	1 cut(s)	134
BaeGI	GKGCMC	1 cut(s)	153
BcnI	CCSGG	3 cut(s)	153, 185, 186
BcoDI	GTCTC	1 cut(s)	45
BglII	AGATCT	1 cut(s)	190
BmcAI	AGTACT	1 cut(s)	130
Bme1390I	CCNGG	3 cut(s)	153, 185, 186
Bme18I	GGWCC	1 cut(s)	134
BmeT110I	CYCGRG	1 cut(s)	184
BmgT120I	GGNCC	1 cut(s)	134
BmrFI	CCNGG	3 cut(s)	153, 185, 186
BmsI	GCATC	2 cut(s)	52, 98
BpuEI	CTTGAG	1 cut(s)	90
BpuMI	CCSGG	3 cut(s)	153, 185, 186
BsaJI	CCNNGG	2 cut(s)	184, 204
BsaXI	ACNNNNNCTCC	2 cut(s)	42, 72
Bsc4I	CCNNNNNNNGG	1 cut(s)	210
Bse1I	ACTGG	1 cut(s)	136
BseDI	CCNNGG	2 cut(s)	184, 204
BseGI	GGATG	1 cut(s)	89
BseLI	CCNNNNNNNGG	1 cut(s)	210
BseNI	ACTGG	1 cut(s)	136
BseSI	GKGCMC	1 cut(s)	153
BsiHKCI	CYCGRG	1 cut(s)	184
BsiSI	CCGG	2 cut(s)	153, 185
BslI	CCNNNNNNNGG	1 cut(s)	210
BsmAI	GTCTC	1 cut(s)	45
BsoBI	CYCGRG	1 cut(s)	184
Bsp1286I	GDGCHC	1 cut(s)	153
Bsp143I	GATC	1 cut(s)	190
BspACI	CCGC	1 cut(s)	242
BsrI	ACTGG	1 cut(s)	136
BssECI	CCNNGG	2 cut(s)	184, 204
BssMI	GATC	1 cut(s)	190
BssT1I	CCWWGG	1 cut(s)	204
Bst4CI	ACNGT	2 cut(s)	25, 253
Bst6I	CTCTTC	1 cut(s)	27
BstC8I	GCNNGC	4 cut(s)	6, 67, 242, 246
BstDEI	CTNAG	1 cut(s)	236
BstF5I	GGATG	1 cut(s)	89
BstKTI	GATC	1 cut(s)	193
BstMAI	GTCTC	1 cut(s)	45
BstMBI	GATC	1 cut(s)	190
BstSCI	CCNGG	3 cut(s)	151, 183, 184
BstSLI	GKGCMC	1 cut(s)	153
BstX2I	RGATCY	1 cut(s)	190
BstYI	RGATCY	1 cut(s)	190
BtsCI	GGATG	1 cut(s)	89
Cac8I	GCNNGC	4 cut(s)	6, 67, 242, 246
Cfr13I	GGNCC	1 cut(s)	134
Cfr9I	CCCGGG	1 cut(s)	184
Csp6I	GTAC	1 cut(s)	129
CviJI	RGCY	2 cut(s)	8, 240
CviKI_1	RGCY	2 cut(s)	8, 240
CviQI	GTAC	1 cut(s)	129
DdeI	CTNAG	1 cut(s)	236
DpnI	GATC	1 cut(s)	192
DpnII	GATC	1 cut(s)	190
Eam1104I	CTCTTC	1 cut(s)	27
EarI	CTCTTC	1 cut(s)	27
Eco130I	CCWWGG	1 cut(s)	204
Eco47I	GGWCC	1 cut(s)	134
Eco88I	CYCGRG	1 cut(s)	184
EcoT14I	CCWWGG	1 cut(s)	204
ErhI	CCWWGG	1 cut(s)	204
FaiI	YATR	4 cut(s)	57, 71, 80, 146
FauI	CCCGC	1 cut(s)	249
FokI	GGATG	1 cut(s)	76
HapII	CCGG	2 cut(s)	153, 185
HinfI	GANTC	3 cut(s)	41, 103, 229
HpaII	CCGG	2 cut(s)	153, 185
HphI	GGTGA	2 cut(s)	50, 167
Hpy188I	TCNGA	1 cut(s)	76
Hpy188III	TCNNGA	3 cut(s)	29, 107, 226
HpyAV	CCTTC	1 cut(s)	190
HpyCH4III	ACNGT	2 cut(s)	25, 253
HpyCH4V	TGCA	4 cut(s)	4, 65, 89, 116
HpyF3I	CTNAG	1 cut(s)	236
Kzo9I	GATC	1 cut(s)	190
LpnPI	CCDG	7 cut(s)	51, 97, 117, 150, 166, 198, 258
LweI	GCATC	2 cut(s)	52, 98
MaeIII	GTNAC	1 cut(s)	100
MalI	GATC	1 cut(s)	192
MboI	GATC	1 cut(s)	190
MboII	GAAGA	1 cut(s)	44
MflI	RGATCY	1 cut(s)	190
MhlI	GDGCHC	1 cut(s)	153
MlyI	GAGTC	1 cut(s)	97
MnlI	CCTC	2 cut(s)	28, 103
MseI	TTAA	3 cut(s)	20, 165, 262
MspI	CCGG	2 cut(s)	153, 185
MspR9I	CCNGG	3 cut(s)	153, 185, 186
NciI	CCSGG	3 cut(s)	153, 185, 186
NdeII	GATC	1 cut(s)	190
NmuCI	GTSAC	1 cut(s)	100
PfeI	GAWTC	2 cut(s)	41, 229
PflMI	CCANNNNNTGG	1 cut(s)	210
PleI	GAGTC	1 cut(s)	97
PpsI	GAGTC	1 cut(s)	97
PspPI	GGNCC	1 cut(s)	134
PsuI	RGATCY	1 cut(s)	190
RsaI	GTAC	1 cut(s)	130
RsaNI	GTAC	1 cut(s)	129
SaqAI	TTAA	3 cut(s)	20, 165, 262
Sau3AI	GATC	1 cut(s)	190
Sau96I	GGNCC	1 cut(s)	134
ScaI	AGTACT	1 cut(s)	130
SchI	GAGTC	1 cut(s)	97
ScrFI	CCNGG	3 cut(s)	153, 185, 186
SduI	GDGCHC	1 cut(s)	153
SetI	ASST	3 cut(s)	10, 19, 220
SfaNI	GCATC	2 cut(s)	52, 98
SinI	GGWCC	1 cut(s)	134
SmaI	CCCGGG	1 cut(s)	186
SmlI	CTYRAG	1 cut(s)	105
SmoI	CTYRAG	1 cut(s)	105
SsiI	CCGC	1 cut(s)	242
StyD4I	CCNGG	3 cut(s)	151, 183, 184
StyI	CCWWGG	1 cut(s)	204
TaaI	ACNGT	2 cut(s)	25, 253
TaqI	TCGA	1 cut(s)	225
TatI	WGTACW	1 cut(s)	128
TfiI	GAWTC	2 cut(s)	41, 229
Tru1I	TTAA	3 cut(s)	20, 165, 262
Tru9I	TTAA	3 cut(s)	20, 165, 262
TseFI	GTSAC	1 cut(s)	100
Tsp45I	GTSAC	1 cut(s)	100
TspMI	CCCGGG	1 cut(s)	184
Van91I	CCANNNNNTGG	1 cut(s)	210
VpaK11BI	GGWCC	1 cut(s)	134
XcmI	CCANNNNNNNNNTGG	1 cut(s)	207
XmaI	CCCGGG	1 cut(s)	184
ZrmI	AGTACT	1 cut(s)	130

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