Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0003823

Physical Location & Seq

Genomic Coordinates Forward (+)

58524858 .. 58525550

Gene Structure 693 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG401600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 693 bp

ATGAGCAGATCACAAGGGCCTTCAGCCCTTAAACGGAAGCGCTTGGATTCGCAATCTGGATCTTTGACAGAGCATGAAAGCAAACTCTATGATGCCATCCGCAGCAAGACAGATATGGGCATGTCTGTACAAGACTTGAGGCGAGAAACAGGACTCCAGAACAATTTATTTACCAAGGCCATCAAAACACTTCAAGCCAAACAACTGATAAAAGAGGTTAAAAATTTTGAAAACAAGACGAGGAAACATTACATGGCTACAGAGTTTGAGCCCTCGAAGGAGATAACTGGTGGTGCTTGGTATGATAATGGACAGTTTGATACCGAGTTTATAAAGGTTGTAAAAAGAGAGTTGGTGAAGGTCATTTATGATCAGGAGAATGCTACCTTGGCGGAAATTTCTCAAGCAATTAGAATGAAGAATTTTCTAACTGTTAACTTATCCGACCAGGAATTGAAGCAGATTCTGGATGCTTTGGTTTTGGACAATGAGGTCCTGAAGGTGGTGAGCACTGGGACGGGGGGTTATAAAGCTGGGAAAGAGTGTTATAAGTGCTGCAAGAGAAGGGAACCAAACTTAGCGTCCATGGCTTCCATTCCATGCGGAGTCTGTCCGCGTATTAATCAATGTTCCCCAGATGGCATTATTTCCCCAACCACCTGTGAATACTTTAAAAAATGGTTGGAGTTCTGA

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

230

Amino Acids

26.09

Weight (kDa)

8.97

Isoelectric Point (pI)

56.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpc34	PF05158	18 - 123	5.3e-29	RNA polymerase Rpc34 subunit
RNA_pol_Rpc34	PF05158	127 - 229	5e-13	RNA polymerase Rpc34 subunit

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: 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	3 cut(s)	332, 528, 549
AasI	GACNNNNNNGTC	1 cut(s)	491
AccII	CGCG	1 cut(s)	616
AciI	CCGC	4 cut(s)	100, 392, 603, 614
AclWI	GGATC	1 cut(s)	67
AcsI	RAATTY	3 cut(s)	223, 396, 421
AcuI	CTGAAG	2 cut(s)	6, 518
AfaI	GTAC	1 cut(s)	129
AfeI	AGCGCT	1 cut(s)	41
AfiI	CCNNNNNNNGG	2 cut(s)	33, 502
AgsI	TTSAA	3 cut(s)	194, 230, 457
AjnI	CCWGG	1 cut(s)	447
AjuI	GAANNNNNNNTTGG	2 cut(s)	371, 403
AluBI	AGCT	1 cut(s)	533
AluI	AGCT	1 cut(s)	533
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, 555
ApoI	RAATTY	3 cut(s)	223, 396, 421
ArsI	GACNNNNNNTTYG	2 cut(s)	566, 598
AseI	ATTAAT	1 cut(s)	621
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
Bbv12I	GWGCWC	1 cut(s)	512
BbvI	GCAGC	2 cut(s)	114, 542
BccI	CCATC	3 cut(s)	104, 188, 632
BciT130I	CCWGG	1 cut(s)	449
BclI	TGATCA	1 cut(s)	370
BfmI	CTRYAG	1 cut(s)	258
BfoI	RGCGCY	1 cut(s)	43
BisI	GCNGC	2 cut(s)	103, 556
BlsI	GCNGC	2 cut(s)	104, 557
Bme1390I	CCNGG	1 cut(s)	449
Bme18I	GGWCC	1 cut(s)	493
BmgT120I	GGNCC	2 cut(s)	17, 493
BmiI	GGNNCC	1 cut(s)	570
BmrFI	CCNGG	1 cut(s)	449
BmrI	ACTGGG	1 cut(s)	522
BmsI	GCATC	2 cut(s)	82, 460
BmuI	ACTGGG	1 cut(s)	522
BpmI	CTGGAG	1 cut(s)	140
BpuEI	CTTGAG	2 cut(s)	157, 387
BsaJI	CCNNGG	3 cut(s)	174, 387, 585
Bsc4I	CCNNNNNNNGG	2 cut(s)	33, 502
Bse1I	ACTGG	2 cut(s)	292, 517
BseBI	CCWGG	1 cut(s)	449
BseDI	CCNNGG	3 cut(s)	174, 387, 585
BseGI	GGATG	2 cut(s)	96, 475
BseLI	CCNNNNNNNGG	2 cut(s)	33, 502
BseNI	ACTGG	2 cut(s)	292, 517
BseXI	GCAGC	2 cut(s)	114, 542
BseYI	CCCAGC	1 cut(s)	533
Bsh1236I	CGCG	1 cut(s)	616
BshFI	GGCC	2 cut(s)	19, 179
BsiHKAI	GWGCWC	1 cut(s)	512
BslFI	GGGAC	1 cut(s)	529
BslI	CCNNNNNNNGG	2 cut(s)	33, 502
BsmFI	GGGAC	1 cut(s)	529
BsmI	GAATGC	1 cut(s)	385
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)	585
BspACI	CCGC	4 cut(s)	100, 392, 603, 614
BspANI	GGCC	2 cut(s)	19, 179
BspFNI	CGCG	1 cut(s)	616
BspLI	GGNNCC	1 cut(s)	570
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, 585
BssMI	GATC	3 cut(s)	8, 59, 370
BssT1I	CCWWGG	3 cut(s)	174, 387, 585
Bst2UI	CCWGG	1 cut(s)	449
Bst4CI	ACNGT	2 cut(s)	315, 433
BstAUI	TGTACA	1 cut(s)	127
BstDEI	CTNAG	1 cut(s)	577
BstDSI	CCRYGG	1 cut(s)	585
BstF5I	GGATG	2 cut(s)	96, 475
BstFNI	CGCG	1 cut(s)	616
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	2 cut(s)	389, 587
BstNI	CCWGG	1 cut(s)	449
BstNSI	RCATGY	1 cut(s)	124
BstSCI	CCNGG	1 cut(s)	447
BstSFI	CTRYAG	1 cut(s)	258
BstUI	CGCG	1 cut(s)	616
BstV1I	GCAGC	2 cut(s)	114, 542
BstX2I	RGATCY	1 cut(s)	59
BstYI	RGATCY	1 cut(s)	59
BsuRI	GGCC	2 cut(s)	19, 179
BtgI	CCRYGG	1 cut(s)	585
BtsCI	GGATG	2 cut(s)	96, 475
BtsIMutI	CAGTG	1 cut(s)	510
CaiI	CAGNNNCTG	1 cut(s)	466
CfoI	GCGC	1 cut(s)	42
Cfr13I	GGNCC	2 cut(s)	17, 493
CseI	GACGC	1 cut(s)	570
Csp6I	GTAC	1 cut(s)	128
CviAII	CATG	5 cut(s)	74, 121, 253, 586, 600
CviJI	RGCY	8 cut(s)	19, 26, 179, 197, 257, 271, 533, 590
CviKI_1	RGCY	8 cut(s)	19, 26, 179, 197, 257, 271, 533, 590
CviQI	GTAC	1 cut(s)	128
DdeI	CTNAG	1 cut(s)	577
DpnI	GATC	3 cut(s)	10, 61, 372
DpnII	GATC	3 cut(s)	8, 59, 370
DraI	TTTAAA	1 cut(s)	673
DrdI	GACNNNNNNGTC	1 cut(s)	491
DseDI	GACNNNNNNGTC	1 cut(s)	491
EciI	GGCGGA	1 cut(s)	407
Eco130I	CCWWGG	3 cut(s)	174, 387, 585
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
EcoO109I	RGGNCCY	2 cut(s)	17, 493
EcoRII	CCWGG	1 cut(s)	447
EcoT14I	CCWWGG	3 cut(s)	174, 387, 585
EcoT38I	GRGCYC	1 cut(s)	273
ErhI	CCWWGG	3 cut(s)	174, 387, 585
FaeI	CATG	5 cut(s)	77, 124, 256, 589, 603
FaqI	GGGAC	1 cut(s)	529
FatI	CATG	5 cut(s)	73, 120, 252, 585, 599
FbaI	TGATCA	1 cut(s)	370
Fnu4HI	GCNGC	2 cut(s)	103, 556
FokI	GGATG	2 cut(s)	83, 482
FriOI	GRGCYC	1 cut(s)	273
Fsp4HI	GCNGC	2 cut(s)	103, 556
GlaI	GCGC	1 cut(s)	41
GluI	GCNGC	2 cut(s)	103, 556
GsaI	CCCAGC	1 cut(s)	537
GsuI	CTGGAG	1 cut(s)	140
HaeII	RGCGCY	1 cut(s)	43
HaeIII	GGCC	2 cut(s)	19, 179
HgaI	GACGC	1 cut(s)	570
HhaI	GCGC	1 cut(s)	42
Hin1II	CATG	5 cut(s)	77, 124, 256, 589, 603
Hin6I	GCGC	1 cut(s)	40
HinP1I	GCGC	1 cut(s)	40
HincII	GTYRAC	1 cut(s)	436
HindII	GTYRAC	1 cut(s)	436
HinfI	GANTC	4 cut(s)	47, 153, 463, 606
HpaI	GTTAAC	1 cut(s)	436
HphI	GGTGA	2 cut(s)	367, 517
Hpy166II	GTNNAC	1 cut(s)	436
Hpy188I	TCNGA	2 cut(s)	445, 692
Hpy188III	TCNNGA	5 cut(s)	57, 157, 374, 467, 496
Hpy8I	GTNNAC	1 cut(s)	436
HpyAV	CCTTC	5 cut(s)	30, 271, 352, 493, 558
HpyCH4III	ACNGT	2 cut(s)	315, 433
HpyCH4V	TGCA	1 cut(s)	558
HpyF10VI	GCNNNNNNNGC	2 cut(s)	389, 587
HpyF3I	CTNAG	1 cut(s)	577
Hsp92II	CATG	5 cut(s)	77, 124, 256, 589, 603
HspAI	GCGC	1 cut(s)	40
Ksp22I	TGATCA	1 cut(s)	370
KspAI	GTTAAC	1 cut(s)	436
Kzo9I	GATC	3 cut(s)	8, 59, 370
Lsp1109I	GCAGC	2 cut(s)	114, 542
LweI	GCATC	2 cut(s)	82, 460
MalI	GATC	3 cut(s)	10, 61, 372
MboI	GATC	3 cut(s)	8, 59, 370
MboII	GAAGA	1 cut(s)	430
MflI	RGATCY	1 cut(s)	59
MhlI	GDGCHC	2 cut(s)	273, 512
MluCI	AATT	6 cut(s)	163, 223, 396, 408, 421, 452
MlyI	GAGTC	2 cut(s)	147, 615
MmeI	TCCRAC	2 cut(s)	468, 663
MnlI	CCTC	5 cut(s)	132, 208, 234, 283, 484
MseI	TTAA	5 cut(s)	30, 219, 435, 621, 672
MspR9I	CCNGG	1 cut(s)	449
Mva1269I	GAATGC	1 cut(s)	385
MvaI	CCWGG	1 cut(s)	449
MvnI	CGCG	1 cut(s)	616
MwoI	GCNNNNNNNGC	2 cut(s)	389, 587
NcoI	CCATGG	1 cut(s)	585
NdeII	GATC	3 cut(s)	8, 59, 370
NlaIII	CATG	5 cut(s)	77, 124, 256, 589, 603
NlaIV	GGNNCC	1 cut(s)	570
NspI	RCATGY	1 cut(s)	124
PctI	GAATGC	1 cut(s)	385
PfeI	GAWTC	2 cut(s)	47, 463
PkrI	GCNGC	2 cut(s)	104, 557
PleI	GAGTC	2 cut(s)	147, 614
PpsI	GAGTC	2 cut(s)	147, 614
PpuMI	RGGWCCY	1 cut(s)	493
PshBI	ATTAAT	1 cut(s)	621
PsiI	TTATAA	3 cut(s)	332, 528, 549
Psp5II	RGGWCCY	1 cut(s)	493
Psp6I	CCWGG	1 cut(s)	447
PspFI	CCCAGC	1 cut(s)	533
PspGI	CCWGG	1 cut(s)	447
PspN4I	GGNNCC	1 cut(s)	570
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	1 cut(s)	129
RsaNI	GTAC	1 cut(s)	128
SaqAI	TTAA	5 cut(s)	30, 219, 435, 621, 672
SatI	GCNGC	2 cut(s)	103, 556
Sau3AI	GATC	3 cut(s)	8, 59, 370
Sau96I	GGNCC	2 cut(s)	17, 493
SchI	GAGTC	2 cut(s)	147, 615
ScrFI	CCNGG	1 cut(s)	449
SduI	GDGCHC	2 cut(s)	273, 512
SetI	ASST	8 cut(s)	219, 339, 363, 389, 495, 504, 535, 662
SfaNI	GCATC	2 cut(s)	82, 460
SfcI	CTRYAG	1 cut(s)	258
SinI	GGWCC	1 cut(s)	493
SmlI	CTYRAG	2 cut(s)	136, 402
SmoI	CTYRAG	2 cut(s)	136, 402
Sse9I	AATT	6 cut(s)	163, 223, 396, 408, 421, 452
SsiI	CCGC	4 cut(s)	100, 392, 603, 614
StyD4I	CCNGG	1 cut(s)	447
StyI	CCWWGG	3 cut(s)	174, 387, 585
TaaI	ACNGT	2 cut(s)	315, 433
TaqI	TCGA	1 cut(s)	275
TasI	AATT	6 cut(s)	163, 223, 396, 408, 421, 452
TatI	WGTACW	1 cut(s)	127
TfiI	GAWTC	2 cut(s)	47, 463
Tru1I	TTAA	5 cut(s)	30, 219, 435, 621, 672
Tru9I	TTAA	5 cut(s)	30, 219, 435, 621, 672
TscAI	CASTG	1 cut(s)	517
TseI	GCWGC	2 cut(s)	102, 555
TspDTI	ATGAA	2 cut(s)	90, 431
TspGWI	ACGGA	1 cut(s)	49
TspRI	CASTG	1 cut(s)	517
VpaK11BI	GGWCC	1 cut(s)	493
VspI	ATTAAT	1 cut(s)	621
XapI	RAATTY	3 cut(s)	223, 396, 421
XceI	RCATGY	1 cut(s)	124

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