Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0000701

Physical Location & Seq

Genomic Coordinates Forward (+)

37969025 .. 37972451

Gene Structure 3427 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ57199

Sequence Viewer

CDS Protein Promoter (2k)

Length: 774 bp

ATGATGGCCAATCCCATACGGCCCTTCTTTAATTCTCCATTGCCTCTCTTTCTTCTTCCGCCGCAACAGCATGAGCTGCTTTCTTCCCCCAGTCCCCCGCCGCTTTACACGGACCAGTCACACACACAGTCTACATTCTATGGGCTGTTTTCTTCCGCGGCAGCTGCTGTGACTTATGTGCCAGCAAAGACAGTGATGCAAATGCTGAAAGATTGGGACTACCTAATTGTTGATCATGATCTCAACATGACAATGTCGCAGTTTAAAAACAAACATGGAGAGAACATGAAAAGGGAGGACCTTACTATCAATAGAAGGAAGAGAGGTGACGAGTCTGATCAGATATTTGATTTGATTTATGTGTTTTTTCCCGACGAACCCAAAGTTGGGGTCAAGACAAAGGAGAGTTACATCACACGCATGAATCAGGAGAATGTGATTAGAGCAATCTTAGTTGCTCAACAAAATCTGACTCCTTTTGCAAGGACCTCCATTAGTGAGATGGGTTCAGAGTACCACTTGGAGATTTTCCAGGAGGCAGAATTGTTGGTGAATATTAAAGAGCATGTTCTAGTTCTTCCGCATCGGGTTCATGCAAATGAGGAATATAAGACTTTGCTGGAGAGGTACATTGTGAAAGAAACACAGCTTCCTCTTATTCAGGTGATTGATCCAATTGCAAGATATTACGGGCTTAATCGTGGACAAGTTGTGAAGATAATCCGGCCAAGTGAGACTGCAGGGAGATATGTCACCTACCGTTACGTTATCTAA

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

257

Amino Acids

29.85

Weight (kDa)

6.72

Isoelectric Point (pI)

45.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb5_N	PF03871	62 - 141	1.5e-18	RNA polymerase Rpb5, N-terminal domain
RNA_pol_Rpb5_C	PF01191	184 - 256	8.5e-29	RNA polymerase Rpb5, C-terminal domain

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

Tree File

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Publication-ready

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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)
AccI	GTMKAC	1 cut(s)	131
AccII	CGCG	1 cut(s)	158
AciI	CCGC	7 cut(s)	59, 62, 98, 101, 156, 158, 581
AclWI	GGATC	1 cut(s)	665
AcoI	YGGCCR	2 cut(s)	6, 725
AfaI	GTAC	2 cut(s)	515, 629
AfiI	CCNNNNNNNGG	2 cut(s)	386, 387
AjnI	CCWGG	1 cut(s)	531
AjuI	GAANNNNNNNTTGG	2 cut(s)	369, 401
AluBI	AGCT	3 cut(s)	76, 164, 649
AluI	AGCT	3 cut(s)	76, 164, 649
Alw26I	GTCTC	1 cut(s)	728
AlwI	GGATC	1 cut(s)	665
AlwNI	CAGNNNCTG	1 cut(s)	167
AoxI	GGCC	3 cut(s)	6, 20, 725
ApeKI	GCWGC	3 cut(s)	76, 161, 164
ArsI	GACNNNNNNTTYG	2 cut(s)	375, 407
AspS9I	GGNCC	4 cut(s)	21, 112, 298, 486
AsuHPI	GGTGA	4 cut(s)	338, 562, 676, 745
AvaII	GGWCC	3 cut(s)	112, 298, 486
BalI	TGGCCA	1 cut(s)	8
BbvI	GCAGC	3 cut(s)	63, 151, 173
BccI	CCATC	1 cut(s)	496
BceAI	ACGGC	1 cut(s)	35
BciT130I	CCWGG	1 cut(s)	533
BclI	TGATCA	2 cut(s)	232, 337
BcoDI	GTCTC	1 cut(s)	728
BfaI	CTAG	1 cut(s)	572
BfmI	CTRYAG	1 cut(s)	738
BisI	GCNGC	6 cut(s)	62, 77, 101, 159, 162, 165
BlsI	GCNGC	6 cut(s)	63, 78, 102, 160, 163, 166
Bme1390I	CCNGG	1 cut(s)	533
Bme18I	GGWCC	3 cut(s)	112, 298, 486
BmgT120I	GGNCC	4 cut(s)	21, 112, 298, 486
BmrFI	CCNGG	1 cut(s)	533
BmrI	ACTGGG	1 cut(s)	84
BmsI	GCATC	2 cut(s)	186, 592
BmuI	ACTGGG	1 cut(s)	84
BpmI	CTGGAG	1 cut(s)	641
BsaBI	GATNNNNATC	1 cut(s)	237
BsaJI	CCNNGG	1 cut(s)	156
Bsc4I	CCNNNNNNNGG	2 cut(s)	386, 387
Bse1I	ACTGG	2 cut(s)	90, 115
Bse3DI	GCAATG	1 cut(s)	38
Bse8I	GATNNNNATC	1 cut(s)	237
BseBI	CCWGG	1 cut(s)	533
BseDI	CCNNGG	1 cut(s)	156
BseJI	GATNNNNATC	1 cut(s)	237
BseLI	CCNNNNNNNGG	2 cut(s)	386, 387
BseMI	GCAATG	1 cut(s)	38
BseNI	ACTGG	2 cut(s)	90, 115
BseXI	GCAGC	3 cut(s)	63, 151, 173
Bsh1236I	CGCG	1 cut(s)	158
BshFI	GGCC	3 cut(s)	8, 22, 727
BsiSI	CCGG	1 cut(s)	724
BslFI	GGGAC	2 cut(s)	78, 230
BslI	CCNNNNNNNGG	2 cut(s)	386, 387
BsmAI	GTCTC	1 cut(s)	728
BsmFI	GGGAC	2 cut(s)	78, 230
BsnI	GGCC	3 cut(s)	8, 22, 727
Bsp143I	GATC	4 cut(s)	232, 238, 337, 670
BspACI	CCGC	7 cut(s)	59, 62, 98, 101, 156, 158, 581
BspANI	GGCC	3 cut(s)	8, 22, 727
BspFNI	CGCG	1 cut(s)	158
BspHI	TCATGA	1 cut(s)	235
BspMAI	CTGCAG	1 cut(s)	742
BspPI	GGATC	1 cut(s)	665
BsrDI	GCAATG	1 cut(s)	38
BsrI	ACTGG	2 cut(s)	90, 115
BssECI	CCNNGG	1 cut(s)	156
BssMI	GATC	4 cut(s)	232, 238, 337, 670
Bst2UI	CCWGG	1 cut(s)	533
Bst4CI	ACNGT	3 cut(s)	129, 193, 761
Bst6I	CTCTTC	1 cut(s)	314
BstAPI	GCANNNNNTGC	1 cut(s)	76
BstC8I	GCNNGC	1 cut(s)	183
BstDEI	CTNAG	1 cut(s)	451
BstDSI	CCRYGG	1 cut(s)	156
BstFNI	CGCG	1 cut(s)	158
BstKTI	GATC	4 cut(s)	235, 241, 340, 673
BstMAI	GTCTC	1 cut(s)	728
BstMBI	GATC	4 cut(s)	232, 238, 337, 670
BstMWI	GCNNNNNNNGC	3 cut(s)	67, 76, 164
BstNI	CCWGG	1 cut(s)	533
BstNSI	RCATGY	1 cut(s)	569
BstSCI	CCNGG	1 cut(s)	531
BstSFI	CTRYAG	1 cut(s)	738
BstUI	CGCG	1 cut(s)	158
BstV1I	GCAGC	3 cut(s)	63, 151, 173
BsuRI	GGCC	3 cut(s)	8, 22, 727
BtgI	CCRYGG	1 cut(s)	156
BtsIMutI	CAGTG	1 cut(s)	198
Cac8I	GCNNGC	1 cut(s)	183
CaiI	CAGNNNCTG	1 cut(s)	167
CciI	TCATGA	1 cut(s)	235
Cfr13I	GGNCC	4 cut(s)	21, 112, 298, 486
Cfr42I	CCGCGG	1 cut(s)	159
Csp6I	GTAC	2 cut(s)	514, 628
CviAII	CATG	8 cut(s)	71, 236, 247, 275, 286, 421, 566, 593
CviJI	RGCY	8 cut(s)	8, 22, 76, 145, 164, 649, 694, 727
CviKI_1	RGCY	8 cut(s)	8, 22, 76, 145, 164, 649, 694, 727
CviQI	GTAC	2 cut(s)	514, 628
DdeI	CTNAG	1 cut(s)	451
DpnI	GATC	4 cut(s)	234, 240, 339, 672
DpnII	GATC	4 cut(s)	232, 238, 337, 670
DraI	TTTAAA	1 cut(s)	265
EaeI	YGGCCR	2 cut(s)	6, 725
Eam1104I	CTCTTC	1 cut(s)	314
EarI	CTCTTC	1 cut(s)	314
EciI	GGCGGA	1 cut(s)	48
Eco47I	GGWCC	3 cut(s)	112, 298, 486
EcoO109I	RGGNCCY	2 cut(s)	298, 486
EcoRII	CCWGG	1 cut(s)	531
FaeI	CATG	8 cut(s)	74, 239, 250, 278, 289, 424, 569, 596
FaqI	GGGAC	2 cut(s)	78, 230
FatI	CATG	8 cut(s)	70, 235, 246, 274, 285, 420, 565, 592
FauI	CCCGC	1 cut(s)	105
FbaI	TGATCA	2 cut(s)	232, 337
FblI	GTMKAC	1 cut(s)	131
Fnu4HI	GCNGC	6 cut(s)	62, 77, 101, 159, 162, 165
Fsp4HI	GCNGC	6 cut(s)	62, 77, 101, 159, 162, 165
FspBI	CTAG	1 cut(s)	572
GluI	GCNGC	6 cut(s)	62, 77, 101, 159, 162, 165
GsuI	CTGGAG	1 cut(s)	641
HaeIII	GGCC	3 cut(s)	8, 22, 727
HapII	CCGG	1 cut(s)	724
Hin1II	CATG	8 cut(s)	74, 239, 250, 278, 289, 424, 569, 596
HinfI	GANTC	3 cut(s)	332, 424, 472
HpaII	CCGG	1 cut(s)	724
HphI	GGTGA	4 cut(s)	338, 562, 676, 745
Hpy166II	GTNNAC	2 cut(s)	132, 704
Hpy188I	TCNGA	4 cut(s)	337, 342, 471, 511
Hpy188III	TCNNGA	4 cut(s)	236, 371, 394, 428
Hpy8I	GTNNAC	2 cut(s)	132, 704
Hpy99I	CGWCG	1 cut(s)	377
HpyAV	CCTTC	2 cut(s)	34, 309
HpyCH4III	ACNGT	3 cut(s)	129, 193, 761
HpyCH4IV	ACGT	1 cut(s)	765
HpyCH4V	TGCA	5 cut(s)	199, 482, 596, 680, 740
HpyF10VI	GCNNNNNNNGC	3 cut(s)	67, 76, 164
HpyF3I	CTNAG	1 cut(s)	451
HpySE526I	ACGT	1 cut(s)	765
Hsp92II	CATG	8 cut(s)	74, 239, 250, 278, 289, 424, 569, 596
Ksp22I	TGATCA	2 cut(s)	232, 337
KspI	CCGCGG	1 cut(s)	159
Kzo9I	GATC	4 cut(s)	232, 238, 337, 670
Lsp1109I	GCAGC	3 cut(s)	63, 151, 173
LweI	GCATC	2 cut(s)	186, 592
MaeI	CTAG	1 cut(s)	572
MaeII	ACGT	1 cut(s)	765
MaeIII	GTNAC	6 cut(s)	117, 169, 326, 407, 751, 761
MalI	GATC	4 cut(s)	234, 240, 339, 672
MboI	GATC	4 cut(s)	232, 238, 337, 670
MboII	GAAGA	7 cut(s)	44, 47, 75, 144, 331, 569, 727
MfeI	CAATTG	1 cut(s)	675
MlsI	TGGCCA	1 cut(s)	8
MluCI	AATT	4 cut(s)	31, 225, 542, 675
MluNI	TGGCCA	1 cut(s)	8
MlyI	GAGTC	2 cut(s)	341, 466
MnlI	CCTC	8 cut(s)	54, 289, 317, 499, 529, 595, 618, 663
Mox20I	TGGCCA	1 cut(s)	8
MscI	TGGCCA	1 cut(s)	8
MseI	TTAA	4 cut(s)	30, 264, 558, 696
MslI	CAYNNNNRTG	3 cut(s)	251, 419, 597
Msp20I	TGGCCA	1 cut(s)	8
MspA1I	CMGCKG	2 cut(s)	158, 164
MspI	CCGG	1 cut(s)	724
MspR9I	CCNGG	1 cut(s)	533
MunI	CAATTG	1 cut(s)	675
MvaI	CCWGG	1 cut(s)	533
MvnI	CGCG	1 cut(s)	158
MwoI	GCNNNNNNNGC	3 cut(s)	67, 76, 164
NdeII	GATC	4 cut(s)	232, 238, 337, 670
NlaIII	CATG	8 cut(s)	74, 239, 250, 278, 289, 424, 569, 596
NmuCI	GTSAC	4 cut(s)	117, 169, 326, 751
NspI	RCATGY	1 cut(s)	569
PagI	TCATGA	1 cut(s)	235
PfeI	GAWTC	1 cut(s)	424
PflFI	GACNNNGTC	1 cut(s)	253
PfoI	TCCNGGA	1 cut(s)	531
PkrI	GCNGC	6 cut(s)	63, 78, 102, 160, 163, 166
PleI	GAGTC	2 cut(s)	340, 466
PpsI	GAGTC	2 cut(s)	340, 466
PpuMI	RGGWCCY	2 cut(s)	298, 486
Psp5II	RGGWCCY	2 cut(s)	298, 486
Psp6I	CCWGG	1 cut(s)	531
PspGI	CCWGG	1 cut(s)	531
PspPI	GGNCC	4 cut(s)	21, 112, 298, 486
PspPPI	RGGWCCY	2 cut(s)	298, 486
PstI	CTGCAG	1 cut(s)	742
PstNI	CAGNNNCTG	1 cut(s)	167
PsyI	GACNNNGTC	1 cut(s)	253
PvuII	CAGCTG	1 cut(s)	164
RsaI	GTAC	2 cut(s)	515, 629
RsaNI	GTAC	2 cut(s)	514, 628
RseI	CAYNNNNRTG	3 cut(s)	251, 419, 597
SacII	CCGCGG	1 cut(s)	159
SaqAI	TTAA	4 cut(s)	30, 264, 558, 696
SatI	GCNGC	6 cut(s)	62, 77, 101, 159, 162, 165
Sau3AI	GATC	4 cut(s)	232, 238, 337, 670
Sau96I	GGNCC	4 cut(s)	21, 112, 298, 486
SchI	GAGTC	2 cut(s)	341, 466
ScrFI	CCNGG	1 cut(s)	533
SfaNI	GCATC	2 cut(s)	186, 592
SfcI	CTRYAG	1 cut(s)	738
Sfr303I	CCGCGG	1 cut(s)	159
SgrBI	CCGCGG	1 cut(s)	159
SinI	GGWCC	3 cut(s)	112, 298, 486
SmiMI	CAYNNNNRTG	3 cut(s)	251, 419, 597
Sse9I	AATT	4 cut(s)	31, 225, 542, 675
SsiI	CCGC	7 cut(s)	59, 62, 98, 101, 156, 158, 581
SspI	AATATT	1 cut(s)	556
SspMI	CTAG	1 cut(s)	572
StyD4I	CCNGG	1 cut(s)	531
TaaI	ACNGT	3 cut(s)	129, 193, 761
TaiI	ACGT	1 cut(s)	768
TasI	AATT	4 cut(s)	31, 225, 542, 675
TauI	GCSGC	3 cut(s)	64, 103, 161
TfiI	GAWTC	1 cut(s)	424
Tru1I	TTAA	4 cut(s)	30, 264, 558, 696
Tru9I	TTAA	4 cut(s)	30, 264, 558, 696
TscAI	CASTG	1 cut(s)	198
TseFI	GTSAC	4 cut(s)	117, 169, 326, 751
TseI	GCWGC	3 cut(s)	76, 161, 164
Tsp45I	GTSAC	4 cut(s)	117, 169, 326, 751
TspDTI	ATGAA	3 cut(s)	302, 437, 581
TspGWI	ACGGA	1 cut(s)	125
TspRI	CASTG	1 cut(s)	198
Tth111I	GACNNNGTC	1 cut(s)	253
VpaK11BI	GGWCC	3 cut(s)	112, 298, 486
XceI	RCATGY	1 cut(s)	569
XcmI	CCANNNNNNNNNTGG	1 cut(s)	499
XmiI	GTMKAC	1 cut(s)	131
XspI	CTAG	1 cut(s)	572

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