Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0000701

Physical Location & Seq

Genomic Coordinates Forward (+)

38141501 .. 38143181

Gene Structure 1681 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ57225

Sequence Viewer

CDS Protein Promoter (2k)

Length: 618 bp

ATGAGGCTCTATAGAGTTCGAAAGACAGTGATGCAAATGCTGAAAGATCGGGACTATCTAATTGTTGATCATGATCTCAACATGACAATGTTGCAGTTTAAAAACAAACATGGAGAGAACATGAAGAGGGAGGACCGTACTATCAATAGAAGGAAGAGAGATGACAAGTCTGATCAGATTTATGTGTTTTTCCCTGACGAACCAAAAGTTGGGGCCAAGACAATGAAGAGTTGCATCACACGCATGAATCAGGAGAATCTAATTAGAGCAATCTTAGCTGTTCAACAAAATCTGAGTCCTTTTGCAGAGACCTCCATTAGTGAGATGGGTTCAAAGTACCACTTGGAGATTTTCCAGGAGACAGAATTGTTGGTGAATATTAAAGAGCATGTTCTAGTTCCTGAGCATCGGTTTCTTACAAATGAGGAGAAGAAGACTTGCTGGAGAGTGTGGGCATATTTTCTACCTCTTATTCAGCTGATTGATCCAATTGCAAGATATTACGGGCTTAAGCGTGGACAAGTTGTGAAGATAATCCGGCCAAGTGAGACTGCAGGGCGATATGTCACCTACCGTTACGTTATCCAAGTACAGCAGCAGAAACCTGGATTGCATTAG

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

205

Amino Acids

24.52

Weight (kDa)

9.65

Isoelectric Point (pI)

31.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpb5_N	PF03871	2 - 82	3.4e-27	RNA polymerase Rpb5, N-terminal domain
RNA_pol_Rpb5_C	PF01191	125 - 194	4.4e-25	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

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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)
AccB7I	CCANNNNNTGG	1 cut(s)	209
AclWI	GGATC	1 cut(s)	479
AcoI	YGGCCR	1 cut(s)	539
AfaI	GTAC	3 cut(s)	139, 338, 591
AfiI	CCNNNNNNNGG	1 cut(s)	209
AflII	CTTAAG	1 cut(s)	509
AgsI	TTSAA	2 cut(s)	284, 333
AjnI	CCWGG	2 cut(s)	354, 604
AjuI	GAANNNNNNNTTGG	2 cut(s)	192, 224
AluBI	AGCT	2 cut(s)	278, 478
AluI	AGCT	2 cut(s)	278, 478
Alw26I	GTCTC	3 cut(s)	302, 353, 542
AlwI	GGATC	1 cut(s)	479
AoxI	GGCC	2 cut(s)	213, 539
ApeKI	GCWGC	1 cut(s)	595
ArsI	GACNNNNNNTTYG	2 cut(s)	280, 312
AspS9I	GGNCC	2 cut(s)	133, 213
AsuHPI	GGTGA	2 cut(s)	385, 559
AsuII	TTCGAA	1 cut(s)	19
AvaII	GGWCC	1 cut(s)	133
BbsI	GAAGAC	1 cut(s)	440
BbvI	GCAGC	1 cut(s)	607
BccI	CCATC	1 cut(s)	319
BciT130I	CCWGG	2 cut(s)	356, 606
BclI	TGATCA	2 cut(s)	67, 172
BcoDI	GTCTC	3 cut(s)	302, 353, 542
BfaI	CTAG	1 cut(s)	395
BfmI	CTRYAG	2 cut(s)	10, 552
BfrI	CTTAAG	1 cut(s)	509
BisI	GCNGC	1 cut(s)	596
BlsI	GCNGC	1 cut(s)	597
Bme1390I	CCNGG	2 cut(s)	356, 606
Bme18I	GGWCC	1 cut(s)	133
BmgT120I	GGNCC	2 cut(s)	133, 213
BmiI	GGNNCC	1 cut(s)	214
BmrFI	CCNGG	2 cut(s)	356, 606
BmsI	GCATC	3 cut(s)	21, 243, 415
BpiI	GAAGAC	1 cut(s)	440
BpmI	CTGGAG	1 cut(s)	463
Bpu10I	CCTNAGC	1 cut(s)	402
Bpu14I	TTCGAA	1 cut(s)	19
BsaBI	GATNNNNATC	1 cut(s)	72
BsaI	GGTCTC	1 cut(s)	302
Bsc4I	CCNNNNNNNGG	1 cut(s)	209
Bse8I	GATNNNNATC	1 cut(s)	72
BseBI	CCWGG	2 cut(s)	356, 606
BseJI	GATNNNNATC	1 cut(s)	72
BseLI	CCNNNNNNNGG	1 cut(s)	209
BseMII	CTCAG	2 cut(s)	284, 393
BseRI	GAGGAG	1 cut(s)	440
BseXI	GCAGC	1 cut(s)	607
BshFI	GGCC	2 cut(s)	215, 541
BsiSI	CCGG	1 cut(s)	538
BslFI	GGGAC	1 cut(s)	65
BslI	CCNNNNNNNGG	1 cut(s)	209
BsmAI	GTCTC	3 cut(s)	302, 353, 542
BsmFI	GGGAC	1 cut(s)	65
BsnI	GGCC	2 cut(s)	215, 541
Bso31I	GGTCTC	1 cut(s)	302
Bsp119I	TTCGAA	1 cut(s)	19
Bsp143I	GATC	5 cut(s)	46, 67, 73, 172, 484
BspANI	GGCC	2 cut(s)	215, 541
BspCNI	CTCAG	2 cut(s)	285, 394
BspHI	TCATGA	1 cut(s)	70
BspLI	GGNNCC	1 cut(s)	214
BspMAI	CTGCAG	1 cut(s)	556
BspPI	GGATC	1 cut(s)	479
BspT104I	TTCGAA	1 cut(s)	19
BspTI	CTTAAG	1 cut(s)	509
BspTNI	GGTCTC	1 cut(s)	302
BssMI	GATC	5 cut(s)	46, 67, 73, 172, 484
Bst2UI	CCWGG	2 cut(s)	356, 606
Bst4CI	ACNGT	3 cut(s)	28, 137, 575
Bst6I	CTCTTC	3 cut(s)	119, 149, 221
BstAFI	CTTAAG	1 cut(s)	509
BstBI	TTCGAA	1 cut(s)	19
BstDEI	CTNAG	3 cut(s)	274, 293, 402
BstKTI	GATC	5 cut(s)	49, 70, 76, 175, 487
BstMAI	GTCTC	3 cut(s)	302, 353, 542
BstMBI	GATC	5 cut(s)	46, 67, 73, 172, 484
BstMWI	GCNNNNNNNGC	2 cut(s)	240, 275
BstNI	CCWGG	2 cut(s)	356, 606
BstNSI	RCATGY	1 cut(s)	392
BstSCI	CCNGG	2 cut(s)	354, 604
BstSFI	CTRYAG	2 cut(s)	10, 552
BstV1I	GCAGC	1 cut(s)	607
BstV2I	GAAGAC	1 cut(s)	440
BsuRI	GGCC	2 cut(s)	215, 541
BtsIMutI	CAGTG	1 cut(s)	33
CciI	TCATGA	1 cut(s)	70
Cfr13I	GGNCC	2 cut(s)	133, 213
Csp6I	GTAC	3 cut(s)	138, 337, 590
CviAII	CATG	6 cut(s)	71, 82, 110, 121, 244, 389
CviJI	RGCY	6 cut(s)	7, 215, 278, 478, 508, 541
CviKI_1	RGCY	6 cut(s)	7, 215, 278, 478, 508, 541
CviQI	GTAC	3 cut(s)	138, 337, 590
DdeI	CTNAG	3 cut(s)	274, 293, 402
DpnI	GATC	5 cut(s)	48, 69, 75, 174, 486
DpnII	GATC	5 cut(s)	46, 67, 73, 172, 484
DraI	TTTAAA	1 cut(s)	100
EaeI	YGGCCR	1 cut(s)	539
Eam1104I	CTCTTC	3 cut(s)	119, 149, 221
EarI	CTCTTC	3 cut(s)	119, 149, 221
Eco31I	GGTCTC	1 cut(s)	302
Eco47I	GGWCC	1 cut(s)	133
EcoRII	CCWGG	2 cut(s)	354, 604
FaeI	CATG	6 cut(s)	74, 85, 113, 124, 247, 392
FalI	AAGNNNNNCTT	2 cut(s)	326, 358
FaqI	GGGAC	1 cut(s)	65
FatI	CATG	6 cut(s)	70, 81, 109, 120, 243, 388
FbaI	TGATCA	2 cut(s)	67, 172
Fnu4HI	GCNGC	1 cut(s)	596
Fsp4HI	GCNGC	1 cut(s)	596
FspBI	CTAG	1 cut(s)	395
GluI	GCNGC	1 cut(s)	596
GsuI	CTGGAG	1 cut(s)	463
HaeIII	GGCC	2 cut(s)	215, 541
HapII	CCGG	1 cut(s)	538
Hin1II	CATG	6 cut(s)	74, 85, 113, 124, 247, 392
HinfI	GANTC	3 cut(s)	247, 256, 295
HpaII	CCGG	1 cut(s)	538
HphI	GGTGA	2 cut(s)	385, 559
Hpy166II	GTNNAC	1 cut(s)	518
Hpy188I	TCNGA	3 cut(s)	172, 177, 294
Hpy188III	TCNNGA	4 cut(s)	50, 71, 251, 401
Hpy8I	GTNNAC	1 cut(s)	518
HpyAV	CCTTC	1 cut(s)	144
HpyCH4III	ACNGT	3 cut(s)	28, 137, 575
HpyCH4IV	ACGT	1 cut(s)	579
HpyCH4V	TGCA	7 cut(s)	34, 94, 234, 305, 494, 554, 613
HpyF10VI	GCNNNNNNNGC	2 cut(s)	240, 275
HpyF3I	CTNAG	3 cut(s)	274, 293, 402
HpySE526I	ACGT	1 cut(s)	579
Hsp92II	CATG	6 cut(s)	74, 85, 113, 124, 247, 392
Ksp22I	TGATCA	2 cut(s)	67, 172
Kzo9I	GATC	5 cut(s)	46, 67, 73, 172, 484
LpnPI	CCDG	9 cut(s)	207, 236, 341, 368, 414, 427, 540, 551, 591
Lsp1109I	GCAGC	1 cut(s)	607
LweI	GCATC	3 cut(s)	21, 243, 415
MaeI	CTAG	1 cut(s)	395
MaeII	ACGT	1 cut(s)	579
MaeIII	GTNAC	2 cut(s)	565, 575
MalI	GATC	5 cut(s)	48, 69, 75, 174, 486
MboI	GATC	5 cut(s)	46, 67, 73, 172, 484
MboII	GAAGA	6 cut(s)	136, 166, 238, 442, 445, 541
MfeI	CAATTG	1 cut(s)	489
MluCI	AATT	4 cut(s)	60, 261, 365, 489
MlyI	GAGTC	1 cut(s)	304
MnlI	CCTC	5 cut(s)	120, 124, 322, 418, 477
MseI	TTAA	3 cut(s)	99, 381, 510
MslI	CAYNNNNRTG	2 cut(s)	86, 242
MspA1I	CMGCKG	1 cut(s)	478
MspCI	CTTAAG	1 cut(s)	509
MspI	CCGG	1 cut(s)	538
MspR9I	CCNGG	2 cut(s)	356, 606
MunI	CAATTG	1 cut(s)	489
MvaI	CCWGG	2 cut(s)	356, 606
MwoI	GCNNNNNNNGC	2 cut(s)	240, 275
NdeII	GATC	5 cut(s)	46, 67, 73, 172, 484
NlaIII	CATG	6 cut(s)	74, 85, 113, 124, 247, 392
NlaIV	GGNNCC	1 cut(s)	214
NmuCI	GTSAC	1 cut(s)	565
NspI	RCATGY	1 cut(s)	392
NspV	TTCGAA	1 cut(s)	19
PagI	TCATGA	1 cut(s)	70
PfeI	GAWTC	2 cut(s)	247, 256
PflMI	CCANNNNNTGG	1 cut(s)	209
PfoI	TCCNGGA	1 cut(s)	354
PkrI	GCNGC	1 cut(s)	597
PleI	GAGTC	1 cut(s)	303
PpsI	GAGTC	1 cut(s)	303
Psp6I	CCWGG	2 cut(s)	354, 604
PspGI	CCWGG	2 cut(s)	354, 604
PspN4I	GGNNCC	1 cut(s)	214
PspPI	GGNCC	2 cut(s)	133, 213
PstI	CTGCAG	1 cut(s)	556
PvuII	CAGCTG	1 cut(s)	478
RsaI	GTAC	3 cut(s)	139, 338, 591
RsaNI	GTAC	3 cut(s)	138, 337, 590
RseI	CAYNNNNRTG	2 cut(s)	86, 242
SaqAI	TTAA	3 cut(s)	99, 381, 510
SatI	GCNGC	1 cut(s)	596
Sau3AI	GATC	5 cut(s)	46, 67, 73, 172, 484
Sau96I	GGNCC	2 cut(s)	133, 213
SchI	GAGTC	1 cut(s)	304
ScrFI	CCNGG	2 cut(s)	356, 606
SetI	ASST	7 cut(s)	280, 314, 469, 480, 572, 582, 607
SfaNI	GCATC	3 cut(s)	21, 243, 415
SfcI	CTRYAG	2 cut(s)	10, 552
SfuI	TTCGAA	1 cut(s)	19
SinI	GGWCC	1 cut(s)	133
SmiMI	CAYNNNNRTG	2 cut(s)	86, 242
SmlI	CTYRAG	1 cut(s)	509
SmoI	CTYRAG	1 cut(s)	509
Sse9I	AATT	4 cut(s)	60, 261, 365, 489
SspI	AATATT	1 cut(s)	379
SspMI	CTAG	1 cut(s)	395
StyD4I	CCNGG	2 cut(s)	354, 604
TaaI	ACNGT	3 cut(s)	28, 137, 575
TaiI	ACGT	1 cut(s)	582
TaqI	TCGA	1 cut(s)	19
TasI	AATT	4 cut(s)	60, 261, 365, 489
TatI	WGTACW	1 cut(s)	589
TfiI	GAWTC	2 cut(s)	247, 256
Tru1I	TTAA	3 cut(s)	99, 381, 510
Tru9I	TTAA	3 cut(s)	99, 381, 510
TscAI	CASTG	1 cut(s)	33
TseFI	GTSAC	1 cut(s)	565
TseI	GCWGC	1 cut(s)	595
Tsp45I	GTSAC	1 cut(s)	565
TspDTI	ATGAA	3 cut(s)	137, 239, 260
TspRI	CASTG	1 cut(s)	33
Van91I	CCANNNNNTGG	1 cut(s)	209
Vha464I	CTTAAG	1 cut(s)	509
VpaK11BI	GGWCC	1 cut(s)	133
XceI	RCATGY	1 cut(s)	392
XcmI	CCANNNNNNNNNTGG	1 cut(s)	322
XspI	CTAG	1 cut(s)	395

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