Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0003142

Physical Location & Seq

Genomic Coordinates Forward (+)

32082924 .. 32085715

Gene Structure 2792 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG194200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 435 bp

ATGGTTGATCATCTTTTCGAGGATATATTTCAGGTGTTGCTACTGAACCCAGATGGAAAAAAGTTTGATAAAGTTACCCGAGTTGAAGCAAAGAGTGAGGCTTGCGAGATGTTCATGCACCTTGATGTGAATTCAGAGGTGTACCCCATCAAAGAAGGCGAGAAGTTCTCCATGGCTCTGACTTCTACACTCAATTTGGATGGAACACCTGACACTGGCTATTTTACCCCGGGCAATCGCAAGACTTTGGCTGATGAATATGAATATGTCATGCAAGGGAAGCTTTACAAAATTTCAGAAGGCTCTAAACGTGATCCTAAAGCGGAGGTAAATGCTTCATTTGGTGGGCTTTTAATGATGCTGAAGGGGGAGTCCGCTCAATTCAAGAACTTTGAACTTGATCAGAGGTTGTTTCTCCTCATTAGGAAGCTGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0003674 GO:0003676 GO:0003677 GO:0003697 GO:0005488 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:0032993 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:0097159 GO:0097659 GO:1901360 GO:1901362 GO:1901363 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_Rpb8

Protein Analysis

144

Amino Acids

16.44

Weight (kDa)

5.26

Isoelectric Point (pI)

10.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb8	PF03870	7 - 143	1.6e-49	RNA polymerase Rpb8

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: OG0003142)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G54250 AT3G59600
fragaria_vesca	FvH4_7g05580 FvH4_7g05580 FvH4_7g05580 FvH4_7g05580 FvH4_7g05580 FvH4_7g05580 FvH4_7g05580
malus_domestica	MD03G1174900.v1.1 MD04G1053300.v1.1 MD05G1057600.v1.1 MD11G1193000.v1.1
prunus_persica	Prupe.4G249600_v2.0.a1 Prupe.4G249600_v2.0.a1
pyrus_communis	pycom03g13240 pycom11g16850
rosa_chinensis	RchiOBHm_Chr1g0332731 RchiOBHm_Chr5g0052071 RchiOBHm_Chr6g0273601
rosa_laevigata	RLG00000034845
rosa_multiflora	Rmu_sc0001587.1_g000001 Rmu_sc0032204.1_g000001 Rmu_ssc0000098.1_g000004
rosa_roxburghii	Rroxscaffold_1G00027860 Rroxscaffold_4G00318050
rosa_rugosa	Rorug01G0104600 Rorug05G0275000 Rorug05G0275100
rosa_samantha	Rh1AG127600 Rh1BG097000 Rh1CG121400 Rh5BG358000 Rh5CG383500 Rh5DG373400 Rh6CG194200
rosa_wichuraiana	Rw5G032800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccBSI	CCGCTC	1 cut(s)	377
AciI	CCGC	2 cut(s)	323, 375
AclWI	GGATC	1 cut(s)	308
AcsI	RAATTY	2 cut(s)	130, 291
AcuI	CTGAAG	1 cut(s)	383
AfaI	GTAC	1 cut(s)	143
AfiI	CCNNNNNNNGG	1 cut(s)	215
AgsI	TTSAA	3 cut(s)	86, 385, 395
AluBI	AGCT	2 cut(s)	283, 430
AluI	AGCT	2 cut(s)	283, 430
AlwI	GGATC	1 cut(s)	308
Ama87I	CYCGRG	2 cut(s)	78, 229
ApoI	RAATTY	2 cut(s)	130, 291
AsuC2I	CCSGG	2 cut(s)	230, 231
AvaI	CYCGRG	2 cut(s)	78, 229
BccI	CCATC	3 cut(s)	47, 155, 194
BclI	TGATCA	2 cut(s)	7, 400
BcnI	CCSGG	2 cut(s)	230, 231
Bme1390I	CCNGG	2 cut(s)	230, 231
BmeT110I	CYCGRG	2 cut(s)	78, 229
BmrFI	CCNGG	2 cut(s)	230, 231
BmsI	GCATC	1 cut(s)	348
BplI	GAGNNNNNCTC	2 cut(s)	152, 184
BpuMI	CCSGG	2 cut(s)	230, 231
BsaJI	CCNNGG	3 cut(s)	171, 228, 229
Bsc4I	CCNNNNNNNGG	1 cut(s)	215
Bse1I	ACTGG	1 cut(s)	220
BseDI	CCNNGG	3 cut(s)	171, 228, 229
BseGI	GGATG	1 cut(s)	205
BseLI	CCNNNNNNNGG	1 cut(s)	215
BseNI	ACTGG	1 cut(s)	220
BseRI	GAGGAG	1 cut(s)	407
BsiHKCI	CYCGRG	2 cut(s)	78, 229
BsiSI	CCGG	1 cut(s)	230
BslI	CCNNNNNNNGG	1 cut(s)	215
BsoBI	CYCGRG	2 cut(s)	78, 229
Bsp143I	GATC	3 cut(s)	7, 313, 400
Bsp19I	CCATGG	1 cut(s)	171
BspACI	CCGC	2 cut(s)	323, 375
BspPI	GGATC	1 cut(s)	308
BsrBI	CCGCTC	1 cut(s)	377
BsrI	ACTGG	1 cut(s)	220
BssECI	CCNNGG	3 cut(s)	171, 228, 229
BssMI	GATC	3 cut(s)	7, 313, 400
BssT1I	CCWWGG	1 cut(s)	171
BstC8I	GCNNGC	1 cut(s)	103
BstDSI	CCRYGG	1 cut(s)	171
BstF5I	GGATG	1 cut(s)	205
BstKTI	GATC	3 cut(s)	10, 316, 403
BstMBI	GATC	3 cut(s)	7, 313, 400
BstMWI	GCNNNNNNNGC	1 cut(s)	280
BstSCI	CCNGG	2 cut(s)	228, 229
BtgI	CCRYGG	1 cut(s)	171
BtsCI	GGATG	1 cut(s)	205
BtsIMutI	CAGTG	1 cut(s)	213
Cac8I	GCNNGC	1 cut(s)	103
Cfr9I	CCCGGG	1 cut(s)	229
Csp6I	GTAC	1 cut(s)	142
CviAII	CATG	3 cut(s)	115, 172, 271
CviJI	RGCY	8 cut(s)	101, 176, 219, 251, 283, 303, 349, 430
CviKI_1	RGCY	8 cut(s)	101, 176, 219, 251, 283, 303, 349, 430
CviQI	GTAC	1 cut(s)	142
DpnI	GATC	3 cut(s)	9, 315, 402
DpnII	GATC	3 cut(s)	7, 313, 400
Eco130I	CCWWGG	1 cut(s)	171
Eco57I	CTGAAG	1 cut(s)	383
Eco88I	CYCGRG	2 cut(s)	78, 229
EcoRI	GAATTC	1 cut(s)	130
EcoT14I	CCWWGG	1 cut(s)	171
ErhI	CCWWGG	1 cut(s)	171
FaeI	CATG	3 cut(s)	118, 175, 274
FaiI	YATR	6 cut(s)	26, 116, 173, 261, 267, 272
FalI	AAGNNNNNCTT	2 cut(s)	267, 299
FatI	CATG	3 cut(s)	114, 171, 270
FbaI	TGATCA	2 cut(s)	7, 400
FokI	GGATG	1 cut(s)	212
HapII	CCGG	1 cut(s)	230
Hin1II	CATG	3 cut(s)	118, 175, 274
HindIII	AAGCTT	1 cut(s)	281
HinfI	GANTC	1 cut(s)	371
HpaII	CCGG	1 cut(s)	230
Hpy166II	GTNNAC	1 cut(s)	142
Hpy188I	TCNGA	4 cut(s)	136, 180, 298, 405
Hpy188III	TCNNGA	1 cut(s)	385
Hpy8I	GTNNAC	1 cut(s)	142
HpyAV	CCTTC	3 cut(s)	149, 293, 358
HpyCH4IV	ACGT	1 cut(s)	310
HpyCH4V	TGCA	2 cut(s)	118, 274
HpyF10VI	GCNNNNNNNGC	1 cut(s)	280
HpySE526I	ACGT	1 cut(s)	310
Hsp92II	CATG	3 cut(s)	118, 175, 274
Ksp22I	TGATCA	2 cut(s)	7, 400
Kzo9I	GATC	3 cut(s)	7, 313, 400
LpnPI	CCDG	5 cut(s)	17, 63, 201, 222, 243
LweI	GCATC	1 cut(s)	348
MaeII	ACGT	1 cut(s)	310
MaeIII	GTNAC	1 cut(s)	73
MalI	GATC	3 cut(s)	9, 315, 402
MbiI	CCGCTC	1 cut(s)	377
MboI	GATC	3 cut(s)	7, 313, 400
MluCI	AATT	4 cut(s)	130, 193, 291, 380
MlyI	GAGTC	1 cut(s)	380
MnlI	CCTC	6 cut(s)	13, 91, 130, 319, 399, 428
MseI	TTAA	1 cut(s)	353
MslI	CAYNNNNRTG	1 cut(s)	123
MspI	CCGG	1 cut(s)	230
MspR9I	CCNGG	2 cut(s)	230, 231
MwoI	GCNNNNNNNGC	1 cut(s)	280
NciI	CCSGG	2 cut(s)	230, 231
NcoI	CCATGG	1 cut(s)	171
NdeII	GATC	3 cut(s)	7, 313, 400
NlaIII	CATG	3 cut(s)	118, 175, 274
PleI	GAGTC	1 cut(s)	379
PpsI	GAGTC	1 cut(s)	379
RsaI	GTAC	1 cut(s)	143
RsaNI	GTAC	1 cut(s)	142
RseI	CAYNNNNRTG	1 cut(s)	123
SaqAI	TTAA	1 cut(s)	353
Sau3AI	GATC	3 cut(s)	7, 313, 400
SchI	GAGTC	1 cut(s)	380
ScrFI	CCNGG	2 cut(s)	230, 231
SetI	ASST	9 cut(s)	36, 123, 141, 211, 285, 313, 330, 410, 432
SfaNI	GCATC	1 cut(s)	348
SmaI	CCCGGG	1 cut(s)	231
SmiMI	CAYNNNNRTG	1 cut(s)	123
Sse9I	AATT	4 cut(s)	130, 193, 291, 380
SsiI	CCGC	2 cut(s)	323, 375
StyD4I	CCNGG	2 cut(s)	228, 229
StyI	CCWWGG	1 cut(s)	171
TaiI	ACGT	1 cut(s)	313
TaqI	TCGA	1 cut(s)	18
TasI	AATT	4 cut(s)	130, 193, 291, 380
Tru1I	TTAA	1 cut(s)	353
Tru9I	TTAA	1 cut(s)	353
TscAI	CASTG	1 cut(s)	220
TspDTI	ATGAA	4 cut(s)	103, 270, 276, 327
TspMI	CCCGGG	1 cut(s)	229
TspRI	CASTG	1 cut(s)	220
XapI	RAATTY	2 cut(s)	130, 291
XmaI	CCCGGG	1 cut(s)	229

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