Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0003823

Physical Location & Seq

Genomic Coordinates Reverse (-)

32837676 .. 32842277

Gene Structure 4602 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00108750.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 675 bp

ATGAGCAGATCACAAGGGCCTTCAGCCCTTAAACGGAAGCGCTTGGATTCGCAATCTGGATCTTTGACAGAGCATGAAAGCAAACTCTATGATGCCATCCGCAGCAAGACAGATATGGGCATGTCTGTACAAGACTTGAGGCGAGAAACAGGACTCCAGAACAATTTATTTACCAAGGCCATCAAAACACTTCAAGCCAAACAACTGATAAAAGAGGTTAAAAATTTTGAAAACAAGACGAGGAAACATTACATGGCTACAGAGTTTGAGCCCTCGAAGGAGATAACTGGTGGTGCTTGGTATGATAATGGACAGTTTGATACCGAGTTTATAAAGGTTGTAAAAAGAGAGTTGGTGAAGGTCATTCATGATCAGGAGATTGCTACCTTGGAGGAAATTGAGAAATCAATTAGAATGAAGAACTTTCTAACTGTTGCCTTATCCAAACAGGAATTGAACCAGATTCTGAATGCTTTGGTTTTGGACAATGAGGTCCTGAAGGTGGTGAGCACTGGGAAAGATTGTTATAAGTGCTGCAAGAGAAGAGGGGAACCAAACTTAGCGTCCATGGCTTCCATTCCATGCGGAGTCTGTCCGCGTATTAATCAATGTACCCCAGATGGCATTATTTCCCCAACCACGTGTGAATACTTTAAAAAATGGTTGGAGTTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000428 GO:0001817 GO:0001819 GO:0002682 GO:0002684 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005666 GO:0008150 GO:0030880 GO:0031347 GO:0031349 GO:0031974 GO:0031981 GO:0032479 GO:0032481 GO:0032648 GO:0032728 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045088 GO:0045089 GO:0048518 GO:0048583 GO:0048584 GO:0050776 GO:0050778 GO:0050789 GO:0051239 GO:0051240 GO:0055029 GO:0061695 GO:0065007 GO:0070013 GO:0080134 GO:0097159 GO:1901363 GO:1902494 GO:1990234

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 ko04623 ko05169 map00230 map00240 map01100 map03020 map04623 map05169

Pfam Domains

Protein Families

RNA_pol_Rpc34

Protein Analysis

224

Amino Acids

25.56

Weight (kDa)

8.99

Isoelectric Point (pI)

58.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpc34	PF05158	18 - 125	1.9e-29	RNA polymerase Rpc34 subunit
RNA_pol_Rpc34	PF05158	126 - 223	9.7e-12	RNA polymerase Rpc34 subunit

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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Orthologous Genes (Group: OG0003823)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G23710
fragaria_vesca	FvH4_6g29950 FvH4_6g29950 FvH4_6g41460
malus_domestica	MD08G1239800.v1.1 MD15G1431400.v1.1
prunus_persica	Prupe.1G576300_v2.0.a1 Prupe.5G067300_v2.0.a1
pyrus_communis	pycom08g20810 pycom15g38120
rosa_chinensis	RchiOBHm_Chr2g0135951 RchiOBHm_Chr6g0271261 RchiOBHm_Chr6g0271271
rosa_laevigata	RLG00000019491 RLG00000020962
rosa_multiflora	Rmu_sc0004866.1_g000010 Rmu_ssc0000343.1_g000019
rosa_roxburghii	Rroxscaffold_2G00108750 Rroxscaffold_7G00200610
rosa_rugosa	Rorug02G0327000 Rorug02G0457600 Rorug06G0035800 Rorug06G0036000
rosa_samantha	Rh2BG385300 Rh2CG364400 Rh2DG401600 Rh6AG179300 Rh6BG182300 Rh6CG179200 Rh6DG170900
rosa_wichuraiana	Rw2G030860 Rw2G031070 Rw2G043270 Rw6G015420

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	2 cut(s)	332, 528
AasI	GACNNNNNNGTC	1 cut(s)	491
AccII	CGCG	1 cut(s)	598
AciI	CCGC	3 cut(s)	100, 585, 596
AclWI	GGATC	1 cut(s)	67
AcsI	RAATTY	1 cut(s)	223
AcuI	CTGAAG	2 cut(s)	6, 518
AcvI	CACGTG	1 cut(s)	642
AfaI	GTAC	2 cut(s)	129, 613
AfeI	AGCGCT	1 cut(s)	41
AfiI	CCNNNNNNNGG	2 cut(s)	33, 502
AflIII	ACRYGT	1 cut(s)	641
AgsI	TTSAA	3 cut(s)	194, 230, 457
Alw21I	GWGCWC	1 cut(s)	512
AlwI	GGATC	1 cut(s)	67
AlwNI	CAGNNNCTG	1 cut(s)	466
Aor51HI	AGCGCT	1 cut(s)	41
AoxI	GGCC	2 cut(s)	17, 177
ApeKI	GCWGC	2 cut(s)	102, 534
ApoI	RAATTY	1 cut(s)	223
ArsI	GACNNNNNNTTYG	2 cut(s)	548, 580
AseI	ATTAAT	1 cut(s)	603
AspLEI	GCGC	1 cut(s)	42
AspS9I	GGNCC	2 cut(s)	17, 493
AsuHPI	GGTGA	2 cut(s)	367, 517
AvaII	GGWCC	1 cut(s)	493
BanII	GRGCYC	1 cut(s)	273
BbrPI	CACGTG	1 cut(s)	642
Bbv12I	GWGCWC	1 cut(s)	512
BbvI	GCAGC	2 cut(s)	114, 521
BccI	CCATC	3 cut(s)	104, 188, 614
BclI	TGATCA	1 cut(s)	370
BfmI	CTRYAG	1 cut(s)	258
BfoI	RGCGCY	1 cut(s)	43
BisI	GCNGC	2 cut(s)	103, 535
BlsI	GCNGC	2 cut(s)	104, 536
Bme18I	GGWCC	1 cut(s)	493
BmgT120I	GGNCC	2 cut(s)	17, 493
BmiI	GGNNCC	1 cut(s)	552
BmrI	ACTGGG	1 cut(s)	522
BmsI	GCATC	1 cut(s)	82
BmuI	ACTGGG	1 cut(s)	522
BpmI	CTGGAG	1 cut(s)	140
BpuEI	CTTGAG	1 cut(s)	157
BsaAI	YACGTR	1 cut(s)	642
BsaJI	CCNNGG	3 cut(s)	174, 387, 567
Bsc4I	CCNNNNNNNGG	2 cut(s)	33, 502
Bse1I	ACTGG	2 cut(s)	292, 517
BseDI	CCNNGG	3 cut(s)	174, 387, 567
BseGI	GGATG	1 cut(s)	96
BseLI	CCNNNNNNNGG	2 cut(s)	33, 502
BseNI	ACTGG	2 cut(s)	292, 517
BseXI	GCAGC	2 cut(s)	114, 521
Bsh1236I	CGCG	1 cut(s)	598
BshFI	GGCC	2 cut(s)	19, 179
BsiHKAI	GWGCWC	1 cut(s)	512
BslI	CCNNNNNNNGG	2 cut(s)	33, 502
BsmI	GAATGC	1 cut(s)	475
BsnI	GGCC	2 cut(s)	19, 179
Bsp1286I	GDGCHC	2 cut(s)	273, 512
Bsp1407I	TGTACA	1 cut(s)	127
Bsp143I	GATC	3 cut(s)	8, 59, 370
Bsp19I	CCATGG	1 cut(s)	567
BspACI	CCGC	3 cut(s)	100, 585, 596
BspANI	GGCC	2 cut(s)	19, 179
BspFNI	CGCG	1 cut(s)	598
BspHI	TCATGA	1 cut(s)	367
BspLI	GGNNCC	1 cut(s)	552
BspPI	GGATC	1 cut(s)	67
BsrGI	TGTACA	1 cut(s)	127
BsrI	ACTGG	2 cut(s)	292, 517
BssECI	CCNNGG	3 cut(s)	174, 387, 567
BssMI	GATC	3 cut(s)	8, 59, 370
BssT1I	CCWWGG	3 cut(s)	174, 387, 567
Bst4CI	ACNGT	2 cut(s)	315, 433
Bst6I	CTCTTC	1 cut(s)	538
BstAUI	TGTACA	1 cut(s)	127
BstBAI	YACGTR	1 cut(s)	642
BstDEI	CTNAG	1 cut(s)	559
BstDSI	CCRYGG	1 cut(s)	567
BstF5I	GGATG	1 cut(s)	96
BstFNI	CGCG	1 cut(s)	598
BstH2I	RGCGCY	1 cut(s)	43
BstHHI	GCGC	1 cut(s)	42
BstKTI	GATC	3 cut(s)	11, 62, 373
BstMBI	GATC	3 cut(s)	8, 59, 370
BstMWI	GCNNNNNNNGC	1 cut(s)	569
BstNSI	RCATGY	1 cut(s)	124
BstSFI	CTRYAG	1 cut(s)	258
BstUI	CGCG	1 cut(s)	598
BstV1I	GCAGC	2 cut(s)	114, 521
BstX2I	RGATCY	1 cut(s)	59
BstYI	RGATCY	1 cut(s)	59
BsuRI	GGCC	2 cut(s)	19, 179
BtgI	CCRYGG	1 cut(s)	567
BtsCI	GGATG	1 cut(s)	96
BtsIMutI	CAGTG	1 cut(s)	510
CaiI	CAGNNNCTG	1 cut(s)	466
CciI	TCATGA	1 cut(s)	367
CfoI	GCGC	1 cut(s)	42
Cfr13I	GGNCC	2 cut(s)	17, 493
CseI	GACGC	1 cut(s)	552
Csp6I	GTAC	2 cut(s)	128, 612
CviAII	CATG	6 cut(s)	74, 121, 253, 368, 568, 582
CviJI	RGCY	7 cut(s)	19, 26, 179, 197, 257, 271, 572
CviKI_1	RGCY	7 cut(s)	19, 26, 179, 197, 257, 271, 572
CviQI	GTAC	2 cut(s)	128, 612
DdeI	CTNAG	1 cut(s)	559
DpnI	GATC	3 cut(s)	10, 61, 372
DpnII	GATC	3 cut(s)	8, 59, 370
DraI	TTTAAA	1 cut(s)	655
DrdI	GACNNNNNNGTC	1 cut(s)	491
DseDI	GACNNNNNNGTC	1 cut(s)	491
Eam1104I	CTCTTC	1 cut(s)	538
EarI	CTCTTC	1 cut(s)	538
Eco130I	CCWWGG	3 cut(s)	174, 387, 567
Eco24I	GRGCYC	1 cut(s)	273
Eco47I	GGWCC	1 cut(s)	493
Eco47III	AGCGCT	1 cut(s)	41
Eco57I	CTGAAG	2 cut(s)	6, 518
Eco72I	CACGTG	1 cut(s)	642
EcoO109I	RGGNCCY	2 cut(s)	17, 493
EcoT14I	CCWWGG	3 cut(s)	174, 387, 567
EcoT38I	GRGCYC	1 cut(s)	273
ErhI	CCWWGG	3 cut(s)	174, 387, 567
FaeI	CATG	6 cut(s)	77, 124, 256, 371, 571, 585
FatI	CATG	6 cut(s)	73, 120, 252, 367, 567, 581
FbaI	TGATCA	1 cut(s)	370
Fnu4HI	GCNGC	2 cut(s)	103, 535
FokI	GGATG	1 cut(s)	83
FriOI	GRGCYC	1 cut(s)	273
Fsp4HI	GCNGC	2 cut(s)	103, 535
GlaI	GCGC	1 cut(s)	41
GluI	GCNGC	2 cut(s)	103, 535
GsuI	CTGGAG	1 cut(s)	140
HaeII	RGCGCY	1 cut(s)	43
HaeIII	GGCC	2 cut(s)	19, 179
HgaI	GACGC	1 cut(s)	552
HhaI	GCGC	1 cut(s)	42
Hin1II	CATG	6 cut(s)	77, 124, 256, 371, 571, 585
Hin6I	GCGC	1 cut(s)	40
HinP1I	GCGC	1 cut(s)	40
HinfI	GANTC	4 cut(s)	47, 153, 463, 588
HphI	GGTGA	2 cut(s)	367, 517
Hpy188I	TCNGA	2 cut(s)	468, 674
Hpy188III	TCNNGA	5 cut(s)	57, 157, 368, 374, 496
HpyAV	CCTTC	4 cut(s)	30, 271, 352, 493
HpyCH4III	ACNGT	2 cut(s)	315, 433
HpyCH4IV	ACGT	1 cut(s)	641
HpyCH4V	TGCA	1 cut(s)	537
HpyF10VI	GCNNNNNNNGC	1 cut(s)	569
HpyF3I	CTNAG	1 cut(s)	559
HpySE526I	ACGT	1 cut(s)	641
Hsp92II	CATG	6 cut(s)	77, 124, 256, 371, 571, 585
HspAI	GCGC	1 cut(s)	40
Ksp22I	TGATCA	1 cut(s)	370
Kzo9I	GATC	3 cut(s)	8, 59, 370
Lsp1109I	GCAGC	2 cut(s)	114, 521
LweI	GCATC	1 cut(s)	82
MaeII	ACGT	1 cut(s)	641
MalI	GATC	3 cut(s)	10, 61, 372
MboI	GATC	3 cut(s)	8, 59, 370
MboII	GAAGA	2 cut(s)	430, 555
MflI	RGATCY	1 cut(s)	59
MhlI	GDGCHC	2 cut(s)	273, 512
MluCI	AATT	5 cut(s)	163, 223, 396, 408, 452
MlyI	GAGTC	2 cut(s)	147, 597
MmeI	TCCRAC	1 cut(s)	645
MnlI	CCTC	7 cut(s)	132, 208, 234, 283, 385, 484, 539
MseI	TTAA	4 cut(s)	30, 219, 603, 654
Mva1269I	GAATGC	1 cut(s)	475
MvnI	CGCG	1 cut(s)	598
MwoI	GCNNNNNNNGC	1 cut(s)	569
NcoI	CCATGG	1 cut(s)	567
NdeII	GATC	3 cut(s)	8, 59, 370
NlaIII	CATG	6 cut(s)	77, 124, 256, 371, 571, 585
NlaIV	GGNNCC	1 cut(s)	552
NspI	RCATGY	1 cut(s)	124
PagI	TCATGA	1 cut(s)	367
PctI	GAATGC	1 cut(s)	475
PfeI	GAWTC	2 cut(s)	47, 463
PkrI	GCNGC	2 cut(s)	104, 536
PleI	GAGTC	2 cut(s)	147, 596
PmaCI	CACGTG	1 cut(s)	642
PmlI	CACGTG	1 cut(s)	642
PpsI	GAGTC	2 cut(s)	147, 596
Ppu21I	YACGTR	1 cut(s)	642
PpuMI	RGGWCCY	1 cut(s)	493
PshBI	ATTAAT	1 cut(s)	603
PsiI	TTATAA	2 cut(s)	332, 528
Psp5II	RGGWCCY	1 cut(s)	493
PspCI	CACGTG	1 cut(s)	642
PspN4I	GGNNCC	1 cut(s)	552
PspPI	GGNCC	2 cut(s)	17, 493
PspPPI	RGGWCCY	1 cut(s)	493
PstNI	CAGNNNCTG	1 cut(s)	466
PsuI	RGATCY	1 cut(s)	59
RsaI	GTAC	2 cut(s)	129, 613
RsaNI	GTAC	2 cut(s)	128, 612
SaqAI	TTAA	4 cut(s)	30, 219, 603, 654
SatI	GCNGC	2 cut(s)	103, 535
Sau3AI	GATC	3 cut(s)	8, 59, 370
Sau96I	GGNCC	2 cut(s)	17, 493
SchI	GAGTC	2 cut(s)	147, 597
SduI	GDGCHC	2 cut(s)	273, 512
SetI	ASST	7 cut(s)	219, 339, 363, 389, 495, 504, 644
SfaNI	GCATC	1 cut(s)	82
SfcI	CTRYAG	1 cut(s)	258
SinI	GGWCC	1 cut(s)	493
SmlI	CTYRAG	1 cut(s)	136
SmoI	CTYRAG	1 cut(s)	136
Sse9I	AATT	5 cut(s)	163, 223, 396, 408, 452
SsiI	CCGC	3 cut(s)	100, 585, 596
StyI	CCWWGG	3 cut(s)	174, 387, 567
TaaI	ACNGT	2 cut(s)	315, 433
TaiI	ACGT	1 cut(s)	644
TaqI	TCGA	1 cut(s)	275
TasI	AATT	5 cut(s)	163, 223, 396, 408, 452
TatI	WGTACW	1 cut(s)	127
TfiI	GAWTC	2 cut(s)	47, 463
Tru1I	TTAA	4 cut(s)	30, 219, 603, 654
Tru9I	TTAA	4 cut(s)	30, 219, 603, 654
TscAI	CASTG	1 cut(s)	517
TseI	GCWGC	2 cut(s)	102, 534
TspDTI	ATGAA	3 cut(s)	90, 356, 431
TspGWI	ACGGA	1 cut(s)	49
TspRI	CASTG	1 cut(s)	517
VpaK11BI	GGWCC	1 cut(s)	493
VspI	ATTAAT	1 cut(s)	603
XapI	RAATTY	1 cut(s)	223
XceI	RCATGY	1 cut(s)	124

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