Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr1

Orthogroup ID

OG0000701

Physical Location & Seq

Genomic Coordinates Reverse (-)

36550448 .. 36552141

Gene Structure 1694 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw1G016430.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 696 bp

ATGGTTTTGACAGAAGAAGAAATTATGAGGCTCTATAGGGTTCGAAAGACAGTGATGCAAATGCTGAAAGATCGGGACTATCTAATTGTTGATCATGATCTCAACATGACAATGTCGCAGTTTAAAAACAGACATGGAGAGAACATGAAGAGGGAGGACCTTACTATCAATAGAAGGAAGAGAGATGACGAATTTTATTTGTTTTTCCCTTACAAACCAAAAGTTGGGGCCAAGACAATGAAGAGTTACATCACACGCATGAATCAGGAGAATCTAATTAGAGCAATCTTAGTTGTTCAACAAAATCTGACTCCTTTTGCAGAGACCTCCATTAGTGAGATGGGTTCAAAGTACCACTTGGAGATTTTCCAGGAGGCAGAATTGTTGGTGAATATTAAAGAGTATGTTCTAGTTCCTGAGCATCGGTTTCTTACAAATGAGGAAAAGAAGACTTGCTGGAGAGGTACACTTCTTCTTTTCCGTGTTATCAAACTGATTTGGATACCTAATTCATTTTCATATTGTGTGGATGGTGTTCAGCTTCCTCTTATTCAGCTGATTGATCCAATTGCAAGATATTACGGGCTTAAGCGTGGACAAGTTGTGAAGATAATCCGGCCAAGTGAGACTGCAGGGCGATATGTCACCTACCGTTACGTTATCCAAGTACAGCAGCAGAAACCTGGATTGCATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000418 GO:0000428 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: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:0097659 GO:1901360 GO:1901362 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_Rpb5_C RNA_pol_Rpb5_N

Protein Analysis

231

Amino Acids

27.59

Weight (kDa)

9.52

Isoelectric Point (pI)

30.34

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb5_N	PF03871	5 - 87	1.6e-23	RNA polymerase Rpb5, N-terminal domain
RNA_pol_Rpb5_C	PF01191	174 - 220	1.7e-18	RNA polymerase Rpb5, C-terminal domain

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: OG0000701)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G22320
fragaria_vesca	FvH4_5g21560 FvH4_7g09301 FvH4_7g09301
malus_domestica	MD02G1080800.v1.1 MD02G1093900.v1.1 MD15G1208600.v1.1
prunus_persica	Prupe.2G121300_v2.0.a1 Prupe.2G121300_v2.0.a1 Prupe.2G121400_v2.0.a1 Prupe.2G121400_v2.0.a1
pyrus_communis	pycom02g06410 pycom02g07430 pycom15g18470
rosa_chinensis	RchiOBHm_Chr1g0332791 RchiOBHm_Chr1g0344101 RchiOBHm_Chr1g0344151 RchiOBHm_Chr1g0344171 RchiOBHm_Chr1g0345361 RchiOBHm_Chr1g0345421 RchiOBHm_Chr1g0345561 RchiOBHm_Chr1g0345591 RchiOBHm_Chr1g0345671 RchiOBHm_Chr1g0345701 RchiOBHm_Chr1g0345711 RchiOBHm_Chr1g0345721 RchiOBHm_Chr1g0345801 RchiOBHm_Chr1g0345851 RchiOBHm_Chr1g0345901 RchiOBHm_Chr1g0345921 RchiOBHm_Chr1g0345931 RchiOBHm_Chr1g0345951 RchiOBHm_Chr1g0345961 RchiOBHm_Chr7g0208981
rosa_laevigata	RLG00000003175 RLG00000029644
rosa_multiflora	Rmu_co8382943.1_g000001 Rmu_sc0000532.1_g000035 Rmu_sc0001292.1_g000003 Rmu_sc0001349.1_g000004 Rmu_sc0001692.1_g000006 Rmu_sc0001692.1_g000027 Rmu_sc0002329.1_g000024 Rmu_sc0002329.1_g000032 Rmu_sc0004239.1_g000023 Rmu_sc0008115.1_g000011
rosa_roxburghii	Rroxscaffold_3G00238160 Rroxscaffold_3G00249920 Rroxscaffold_4G00310020 Rroxscaffold_4G00317980 Rroxscaffold_5G00344600
rosa_rugosa	Rorug01G0103700 Rorug01G0103800 Rorug01G0103900 Rorug01G0171800 Rorug07G0107800
rosa_samantha	Rh1BG097500 Rh1BG161500 Rh1CG122000 Rh1CG173900 Rh1CG180700 Rh1CG181100 Rh1DG133900 Rh1DG191900 Rh7AG242600 Rh7BG237400 Rh7DG249500
rosa_wichuraiana	Rw1G010510 Rw1G016120 Rw1G016200 Rw1G016220 Rw1G016430 Rw1G016490 Rw7G020550

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	224
AclWI	GGATC	1 cut(s)	557
AcoI	YGGCCR	1 cut(s)	617
AcsI	RAATTY	1 cut(s)	191
AfaI	GTAC	3 cut(s)	353, 466, 669
AfiI	CCNNNNNNNGG	1 cut(s)	224
AflII	CTTAAG	1 cut(s)	587
AgsI	TTSAA	2 cut(s)	299, 348
AjnI	CCWGG	2 cut(s)	369, 682
AluBI	AGCT	2 cut(s)	541, 556
AluI	AGCT	2 cut(s)	541, 556
Alw26I	GTCTC	2 cut(s)	317, 620
AlwI	GGATC	1 cut(s)	557
AoxI	GGCC	2 cut(s)	228, 617
ApeKI	GCWGC	1 cut(s)	673
ApoI	RAATTY	1 cut(s)	191
AspS9I	GGNCC	2 cut(s)	157, 228
AsuHPI	GGTGA	2 cut(s)	400, 637
AsuII	TTCGAA	1 cut(s)	43
AvaII	GGWCC	1 cut(s)	157
BbsI	GAAGAC	1 cut(s)	455
BbvI	GCAGC	1 cut(s)	685
BccI	CCATC	2 cut(s)	334, 524
BciT130I	CCWGG	2 cut(s)	371, 684
BciVI	GTATCC	1 cut(s)	495
BclI	TGATCA	1 cut(s)	91
BcoDI	GTCTC	2 cut(s)	317, 620
BfaI	CTAG	1 cut(s)	410
BfmI	CTRYAG	2 cut(s)	34, 630
BfrI	CTTAAG	1 cut(s)	587
BfuI	GTATCC	1 cut(s)	495
BisI	GCNGC	1 cut(s)	674
BlsI	GCNGC	1 cut(s)	675
Bme1390I	CCNGG	2 cut(s)	371, 684
Bme18I	GGWCC	1 cut(s)	157
BmgT120I	GGNCC	2 cut(s)	157, 228
BmiI	GGNNCC	1 cut(s)	229
BmrFI	CCNGG	2 cut(s)	371, 684
BmsI	GCATC	2 cut(s)	45, 430
BpiI	GAAGAC	1 cut(s)	455
BpmI	CTGGAG	1 cut(s)	478
Bpu10I	CCTNAGC	1 cut(s)	417
Bpu14I	TTCGAA	1 cut(s)	43
BsaBI	GATNNNNATC	1 cut(s)	96
BsaI	GGTCTC	1 cut(s)	317
Bsc4I	CCNNNNNNNGG	1 cut(s)	224
Bse8I	GATNNNNATC	1 cut(s)	96
BseBI	CCWGG	2 cut(s)	371, 684
BseGI	GGATG	1 cut(s)	535
BseJI	GATNNNNATC	1 cut(s)	96
BseLI	CCNNNNNNNGG	1 cut(s)	224
BseMII	CTCAG	1 cut(s)	408
BseXI	GCAGC	1 cut(s)	685
BshFI	GGCC	2 cut(s)	230, 619
BsiSI	CCGG	1 cut(s)	616
BslFI	GGGAC	1 cut(s)	89
BslI	CCNNNNNNNGG	1 cut(s)	224
BsmAI	GTCTC	2 cut(s)	317, 620
BsmFI	GGGAC	1 cut(s)	89
BsnI	GGCC	2 cut(s)	230, 619
Bso31I	GGTCTC	1 cut(s)	317
Bsp119I	TTCGAA	1 cut(s)	43
Bsp143I	GATC	4 cut(s)	70, 91, 97, 562
BspANI	GGCC	2 cut(s)	230, 619
BspCNI	CTCAG	1 cut(s)	409
BspHI	TCATGA	1 cut(s)	94
BspLI	GGNNCC	1 cut(s)	229
BspMAI	CTGCAG	1 cut(s)	634
BspPI	GGATC	1 cut(s)	557
BspT104I	TTCGAA	1 cut(s)	43
BspTI	CTTAAG	1 cut(s)	587
BspTNI	GGTCTC	1 cut(s)	317
BssMI	GATC	4 cut(s)	70, 91, 97, 562
Bst2UI	CCWGG	2 cut(s)	371, 684
Bst4CI	ACNGT	2 cut(s)	52, 653
Bst6I	CTCTTC	3 cut(s)	143, 173, 236
BstAFI	CTTAAG	1 cut(s)	587
BstBI	TTCGAA	1 cut(s)	43
BstDEI	CTNAG	2 cut(s)	289, 417
BstF5I	GGATG	1 cut(s)	535
BstKTI	GATC	4 cut(s)	73, 94, 100, 565
BstMAI	GTCTC	2 cut(s)	317, 620
BstMBI	GATC	4 cut(s)	70, 91, 97, 562
BstNI	CCWGG	2 cut(s)	371, 684
BstSCI	CCNGG	2 cut(s)	369, 682
BstSFI	CTRYAG	2 cut(s)	34, 630
BstV1I	GCAGC	1 cut(s)	685
BstV2I	GAAGAC	1 cut(s)	455
BsuI	GTATCC	1 cut(s)	495
BsuRI	GGCC	2 cut(s)	230, 619
BtsCI	GGATG	1 cut(s)	535
BtsIMutI	CAGTG	1 cut(s)	57
CciI	TCATGA	1 cut(s)	94
Cfr13I	GGNCC	2 cut(s)	157, 228
Csp6I	GTAC	3 cut(s)	352, 465, 668
CviAII	CATG	5 cut(s)	95, 106, 134, 145, 259
CviJI	RGCY	6 cut(s)	31, 230, 541, 556, 586, 619
CviKI_1	RGCY	6 cut(s)	31, 230, 541, 556, 586, 619
CviQI	GTAC	3 cut(s)	352, 465, 668
DdeI	CTNAG	2 cut(s)	289, 417
DpnI	GATC	4 cut(s)	72, 93, 99, 564
DpnII	GATC	4 cut(s)	70, 91, 97, 562
DraI	TTTAAA	1 cut(s)	124
EaeI	YGGCCR	1 cut(s)	617
Eam1104I	CTCTTC	3 cut(s)	143, 173, 236
EarI	CTCTTC	3 cut(s)	143, 173, 236
Eco31I	GGTCTC	1 cut(s)	317
Eco47I	GGWCC	1 cut(s)	157
EcoO109I	RGGNCCY	1 cut(s)	157
EcoRII	CCWGG	2 cut(s)	369, 682
FaeI	CATG	5 cut(s)	98, 109, 137, 148, 262
FalI	AAGNNNNNCTT	2 cut(s)	341, 373
FaqI	GGGAC	1 cut(s)	89
FatI	CATG	5 cut(s)	94, 105, 133, 144, 258
FbaI	TGATCA	1 cut(s)	91
Fnu4HI	GCNGC	1 cut(s)	674
FokI	GGATG	1 cut(s)	542
Fsp4HI	GCNGC	1 cut(s)	674
FspBI	CTAG	1 cut(s)	410
GluI	GCNGC	1 cut(s)	674
GsuI	CTGGAG	1 cut(s)	478
HaeIII	GGCC	2 cut(s)	230, 619
HapII	CCGG	1 cut(s)	616
Hin1II	CATG	5 cut(s)	98, 109, 137, 148, 262
HinfI	GANTC	3 cut(s)	262, 271, 310
HpaII	CCGG	1 cut(s)	616
HphI	GGTGA	2 cut(s)	400, 637
Hpy166II	GTNNAC	2 cut(s)	467, 596
Hpy188I	TCNGA	1 cut(s)	309
Hpy188III	TCNNGA	4 cut(s)	74, 95, 266, 416
Hpy8I	GTNNAC	2 cut(s)	467, 596
HpyAV	CCTTC	1 cut(s)	168
HpyCH4III	ACNGT	2 cut(s)	52, 653
HpyCH4IV	ACGT	1 cut(s)	657
HpyCH4V	TGCA	5 cut(s)	58, 320, 572, 632, 691
HpyF3I	CTNAG	2 cut(s)	289, 417
HpySE526I	ACGT	1 cut(s)	657
Hsp92II	CATG	5 cut(s)	98, 109, 137, 148, 262
Ksp22I	TGATCA	1 cut(s)	91
Kzo9I	GATC	4 cut(s)	70, 91, 97, 562
LpnPI	CCDG	8 cut(s)	251, 356, 383, 429, 442, 618, 629, 669
Lsp1109I	GCAGC	1 cut(s)	685
LweI	GCATC	2 cut(s)	45, 430
MaeI	CTAG	1 cut(s)	410
MaeII	ACGT	1 cut(s)	657
MaeIII	GTNAC	3 cut(s)	245, 643, 653
MalI	GATC	4 cut(s)	72, 93, 99, 564
MboI	GATC	4 cut(s)	70, 91, 97, 562
MboII	GAAGA	8 cut(s)	26, 29, 160, 190, 253, 460, 464, 619
MfeI	CAATTG	1 cut(s)	567
MluCI	AATT	7 cut(s)	21, 84, 191, 276, 380, 508, 567
MlyI	GAGTC	1 cut(s)	304
MnlI	CCTC	8 cut(s)	21, 144, 148, 337, 367, 433, 455, 555
MseI	TTAA	3 cut(s)	123, 396, 588
MslI	CAYNNNNRTG	2 cut(s)	110, 257
MspA1I	CMGCKG	1 cut(s)	556
MspCI	CTTAAG	1 cut(s)	587
MspI	CCGG	1 cut(s)	616
MspR9I	CCNGG	2 cut(s)	371, 684
MunI	CAATTG	1 cut(s)	567
MvaI	CCWGG	2 cut(s)	371, 684
NdeII	GATC	4 cut(s)	70, 91, 97, 562
NlaIII	CATG	5 cut(s)	98, 109, 137, 148, 262
NlaIV	GGNNCC	1 cut(s)	229
NmuCI	GTSAC	1 cut(s)	643
NspV	TTCGAA	1 cut(s)	43
PagI	TCATGA	1 cut(s)	94
PfeI	GAWTC	2 cut(s)	262, 271
PflFI	GACNNNGTC	1 cut(s)	112
PflMI	CCANNNNNTGG	1 cut(s)	224
PfoI	TCCNGGA	1 cut(s)	369
PkrI	GCNGC	1 cut(s)	675
PleI	GAGTC	1 cut(s)	304
PpsI	GAGTC	1 cut(s)	304
PpuMI	RGGWCCY	1 cut(s)	157
Psp5II	RGGWCCY	1 cut(s)	157
Psp6I	CCWGG	2 cut(s)	369, 682
PspGI	CCWGG	2 cut(s)	369, 682
PspN4I	GGNNCC	1 cut(s)	229
PspPI	GGNCC	2 cut(s)	157, 228
PspPPI	RGGWCCY	1 cut(s)	157
PstI	CTGCAG	1 cut(s)	634
PsyI	GACNNNGTC	1 cut(s)	112
PvuII	CAGCTG	1 cut(s)	556
RsaI	GTAC	3 cut(s)	353, 466, 669
RsaNI	GTAC	3 cut(s)	352, 465, 668
RseI	CAYNNNNRTG	2 cut(s)	110, 257
SaqAI	TTAA	3 cut(s)	123, 396, 588
SatI	GCNGC	1 cut(s)	674
Sau3AI	GATC	4 cut(s)	70, 91, 97, 562
Sau96I	GGNCC	2 cut(s)	157, 228
SchI	GAGTC	1 cut(s)	304
ScrFI	CCNGG	2 cut(s)	371, 684
SetI	ASST	9 cut(s)	162, 329, 466, 508, 543, 558, 650, 660, 685
SfaNI	GCATC	2 cut(s)	45, 430
SfcI	CTRYAG	2 cut(s)	34, 630
SfuI	TTCGAA	1 cut(s)	43
SinI	GGWCC	1 cut(s)	157
SmiMI	CAYNNNNRTG	2 cut(s)	110, 257
SmlI	CTYRAG	1 cut(s)	587
SmoI	CTYRAG	1 cut(s)	587
Sse9I	AATT	7 cut(s)	21, 84, 191, 276, 380, 508, 567
SspI	AATATT	1 cut(s)	394
SspMI	CTAG	1 cut(s)	410
StyD4I	CCNGG	2 cut(s)	369, 682
TaaI	ACNGT	2 cut(s)	52, 653
TaiI	ACGT	1 cut(s)	660
TaqI	TCGA	1 cut(s)	43
TasI	AATT	7 cut(s)	21, 84, 191, 276, 380, 508, 567
TatI	WGTACW	1 cut(s)	667
TfiI	GAWTC	2 cut(s)	262, 271
Tru1I	TTAA	3 cut(s)	123, 396, 588
Tru9I	TTAA	3 cut(s)	123, 396, 588
TscAI	CASTG	1 cut(s)	57
TseFI	GTSAC	1 cut(s)	643
TseI	GCWGC	1 cut(s)	673
Tsp45I	GTSAC	1 cut(s)	643
TspDTI	ATGAA	5 cut(s)	161, 254, 275, 501, 507
TspGWI	ACGGA	1 cut(s)	470
TspRI	CASTG	1 cut(s)	57
Tth111I	GACNNNGTC	1 cut(s)	112
Van91I	CCANNNNNTGG	1 cut(s)	224
Vha464I	CTTAAG	1 cut(s)	587
VpaK11BI	GGWCC	1 cut(s)	157
XapI	RAATTY	1 cut(s)	191
XcmI	CCANNNNNNNNNTGG	1 cut(s)	337
XspI	CTAG	1 cut(s)	410

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