Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6A

Orthogroup ID

OG0003823

Physical Location & Seq

Genomic Coordinates Forward (+)

31017256 .. 31020772

Gene Structure 3517 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6AG179300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 702 bp

ATGAGCAGATCACAAGAGCCTTCAGCCCTTAAACGGAAGCGCTCGGACTCGCAATCCGGGTCTTTGACAGAGCATGAAAGCAAACTCTATGATGCCATCCGCAGCAAGGCAGATATGGGCATGTCTGTACAAGACTTGAGGCGAGAAACAGGACTCCAGAACAATTTATTTACCAAGGCCATCAAAACACTTCAAGCCAAACAACTGATAAAAGAGGTTAAAAATTTTGAAAACAAGACGAGGAAACATTACATGGCTACAGAGTTTGAGCCCTCGAAGGAGATAACTGGTGGTGCTTGGTATGATAATGGACGGTTGGATACTGAGTTTATAAAGGTTGTAAAACGTGGGGTTGTGAAGGTCATTCATGATCAGAAGATTGCCACCTTGGAGGAAATTTCACATGCAATTAGGATGAAGAAGTTACTTTCTGTCAACTTATCTGCACAGGAATTGAAACAGGTTCTTGGGGCTTTGGTTTTGGACAATGAGGTCCAGAAGGTGGAGAGCACTGATACGGGGGACTTTGTCGGTGCTAAAGCTAGGAAAGATTTTTATAAGTGCTGCAAGAGAGGGGAACCAAACTTAGCATCCATGGCTTCCATTCCATGCGGAGTCTGTCCGTGTATTAATCAATGTACCCCAGATGGCATTATTTCCCCAACCACCTGTGAATACTTCAAAAAATTGTTGGATTTCTGA

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

233

Amino Acids

26.18

Weight (kDa)

9.07

Isoelectric Point (pI)

50.88

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RNA_pol_Rpc34	PF05158	17 - 125	5.2e-30	RNA polymerase Rpc34 subunit
RNA_pol_Rpc34	PF05158	126 - 231	1.4e-10	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	2 cut(s)	332, 558
AasI	GACNNNNNNGTC	1 cut(s)	491
AccB7I	CCANNNNNTGG	1 cut(s)	502
AciI	CCGC	2 cut(s)	100, 612
AcsI	RAATTY	2 cut(s)	223, 396
AcuI	CTGAAG	1 cut(s)	6
AfaI	GTAC	2 cut(s)	129, 640
AfeI	AGCGCT	1 cut(s)	41
AfiI	CCNNNNNNNGG	3 cut(s)	33, 106, 502
AgsI	TTSAA	4 cut(s)	194, 230, 457, 682
AluBI	AGCT	1 cut(s)	542
AluI	AGCT	1 cut(s)	542
Alw21I	GWGCWC	1 cut(s)	512
Aor51HI	AGCGCT	1 cut(s)	41
AoxI	GGCC	1 cut(s)	177
ApeKI	GCWGC	2 cut(s)	102, 564
ApoI	RAATTY	2 cut(s)	223, 396
AseI	ATTAAT	1 cut(s)	630
AspLEI	GCGC	1 cut(s)	42
AspS9I	GGNCC	1 cut(s)	493
AsuC2I	CCSGG	1 cut(s)	58
AvaII	GGWCC	1 cut(s)	493
BanII	GRGCYC	1 cut(s)	273
Bbv12I	GWGCWC	1 cut(s)	512
BbvI	GCAGC	2 cut(s)	114, 551
BccI	CCATC	3 cut(s)	104, 188, 641
BciVI	GTATCC	1 cut(s)	313
BclI	TGATCA	1 cut(s)	370
BcnI	CCSGG	1 cut(s)	58
BfaI	CTAG	1 cut(s)	543
BfmI	CTRYAG	1 cut(s)	258
BfoI	RGCGCY	1 cut(s)	43
BfuI	GTATCC	1 cut(s)	313
BisI	GCNGC	2 cut(s)	103, 565
BlsI	GCNGC	2 cut(s)	104, 566
Bme1390I	CCNGG	1 cut(s)	58
Bme18I	GGWCC	1 cut(s)	493
BmgT120I	GGNCC	1 cut(s)	493
BmiI	GGNNCC	1 cut(s)	579
BmrFI	CCNGG	1 cut(s)	58
BmsI	GCATC	2 cut(s)	82, 599
BpmI	CTGGAG	1 cut(s)	140
BpuEI	CTTGAG	1 cut(s)	157
BpuMI	CCSGG	1 cut(s)	58
BsaJI	CCNNGG	3 cut(s)	174, 387, 594
Bsc4I	CCNNNNNNNGG	3 cut(s)	33, 106, 502
Bse1I	ACTGG	1 cut(s)	292
BseDI	CCNNGG	3 cut(s)	174, 387, 594
BseGI	GGATG	3 cut(s)	96, 420, 590
BseLI	CCNNNNNNNGG	3 cut(s)	33, 106, 502
BseMII	CTCAG	1 cut(s)	315
BseNI	ACTGG	1 cut(s)	292
BseXI	GCAGC	2 cut(s)	114, 551
BsgI	GTGCAG	1 cut(s)	429
BshFI	GGCC	1 cut(s)	179
BsiHKAI	GWGCWC	1 cut(s)	512
BsiSI	CCGG	1 cut(s)	57
BslFI	GGGAC	1 cut(s)	536
BslI	CCNNNNNNNGG	3 cut(s)	33, 106, 502
BsmFI	GGGAC	1 cut(s)	536
BsnI	GGCC	1 cut(s)	179
Bsp1286I	GDGCHC	2 cut(s)	273, 512
Bsp1407I	TGTACA	1 cut(s)	127
Bsp143I	GATC	2 cut(s)	8, 370
Bsp19I	CCATGG	1 cut(s)	594
BspACI	CCGC	2 cut(s)	100, 612
BspANI	GGCC	1 cut(s)	179
BspCNI	CTCAG	1 cut(s)	316
BspHI	TCATGA	1 cut(s)	367
BspLI	GGNNCC	1 cut(s)	579
BsrGI	TGTACA	1 cut(s)	127
BsrI	ACTGG	1 cut(s)	292
BssECI	CCNNGG	3 cut(s)	174, 387, 594
BssMI	GATC	2 cut(s)	8, 370
BssT1I	CCWWGG	3 cut(s)	174, 387, 594
Bst4CI	ACNGT	1 cut(s)	315
BstAUI	TGTACA	1 cut(s)	127
BstDEI	CTNAG	2 cut(s)	324, 586
BstDSI	CCRYGG	1 cut(s)	594
BstF5I	GGATG	3 cut(s)	96, 420, 590
BstH2I	RGCGCY	1 cut(s)	43
BstHHI	GCGC	1 cut(s)	42
BstKTI	GATC	2 cut(s)	11, 373
BstMBI	GATC	2 cut(s)	8, 370
BstMWI	GCNNNNNNNGC	1 cut(s)	596
BstNSI	RCATGY	2 cut(s)	124, 407
BstSCI	CCNGG	1 cut(s)	56
BstSFI	CTRYAG	1 cut(s)	258
BstV1I	GCAGC	2 cut(s)	114, 551
BsuI	GTATCC	1 cut(s)	313
BsuRI	GGCC	1 cut(s)	179
BtgI	CCRYGG	1 cut(s)	594
BtsCI	GGATG	3 cut(s)	96, 420, 590
BtsIMutI	CAGTG	1 cut(s)	510
CciI	TCATGA	1 cut(s)	367
CfoI	GCGC	1 cut(s)	42
Cfr13I	GGNCC	1 cut(s)	493
Csp6I	GTAC	2 cut(s)	128, 639
CviAII	CATG	7 cut(s)	74, 121, 253, 368, 404, 595, 609
CviJI	RGCY	9 cut(s)	19, 26, 179, 197, 257, 271, 473, 542, 599
CviKI_1	RGCY	9 cut(s)	19, 26, 179, 197, 257, 271, 473, 542, 599
CviQI	GTAC	2 cut(s)	128, 639
DdeI	CTNAG	2 cut(s)	324, 586
DpnI	GATC	2 cut(s)	10, 372
DpnII	GATC	2 cut(s)	8, 370
DrdI	GACNNNNNNGTC	1 cut(s)	491
DseDI	GACNNNNNNGTC	1 cut(s)	491
Eco130I	CCWWGG	3 cut(s)	174, 387, 594
Eco24I	GRGCYC	1 cut(s)	273
Eco47I	GGWCC	1 cut(s)	493
Eco47III	AGCGCT	1 cut(s)	41
Eco57I	CTGAAG	1 cut(s)	6
EcoT14I	CCWWGG	3 cut(s)	174, 387, 594
EcoT38I	GRGCYC	1 cut(s)	273
ErhI	CCWWGG	3 cut(s)	174, 387, 594
FaeI	CATG	7 cut(s)	77, 124, 256, 371, 407, 598, 612
FaqI	GGGAC	1 cut(s)	536
FatI	CATG	7 cut(s)	73, 120, 252, 367, 403, 594, 608
FbaI	TGATCA	1 cut(s)	370
Fnu4HI	GCNGC	2 cut(s)	103, 565
FokI	GGATG	3 cut(s)	83, 427, 577
FriOI	GRGCYC	1 cut(s)	273
Fsp4HI	GCNGC	2 cut(s)	103, 565
FspBI	CTAG	1 cut(s)	543
GlaI	GCGC	1 cut(s)	41
GluI	GCNGC	2 cut(s)	103, 565
GsuI	CTGGAG	1 cut(s)	140
HaeII	RGCGCY	1 cut(s)	43
HaeIII	GGCC	1 cut(s)	179
HapII	CCGG	1 cut(s)	57
HhaI	GCGC	1 cut(s)	42
Hin1II	CATG	7 cut(s)	77, 124, 256, 371, 407, 598, 612
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	3 cut(s)	47, 153, 615
HpaII	CCGG	1 cut(s)	57
Hpy166II	GTNNAC	1 cut(s)	436
Hpy188I	TCNGA	3 cut(s)	46, 375, 701
Hpy188III	TCNNGA	3 cut(s)	157, 368, 496
Hpy8I	GTNNAC	1 cut(s)	436
HpyAV	CCTTC	4 cut(s)	30, 271, 352, 493
HpyCH4III	ACNGT	1 cut(s)	315
HpyCH4IV	ACGT	1 cut(s)	346
HpyCH4V	TGCA	3 cut(s)	407, 446, 567
HpyF10VI	GCNNNNNNNGC	1 cut(s)	596
HpyF3I	CTNAG	2 cut(s)	324, 586
HpySE526I	ACGT	1 cut(s)	346
Hsp92II	CATG	7 cut(s)	77, 124, 256, 371, 407, 598, 612
HspAI	GCGC	1 cut(s)	40
Ksp22I	TGATCA	1 cut(s)	370
Kzo9I	GATC	2 cut(s)	8, 370
LpnPI	CCDG	9 cut(s)	70, 135, 170, 273, 434, 446, 509, 657, 682
Lsp1109I	GCAGC	2 cut(s)	114, 551
LweI	GCATC	2 cut(s)	82, 599
MaeI	CTAG	1 cut(s)	543
MaeII	ACGT	1 cut(s)	346
MaeIII	GTNAC	1 cut(s)	423
MalI	GATC	2 cut(s)	10, 372
MboI	GATC	2 cut(s)	8, 370
MboII	GAAGA	2 cut(s)	388, 430
MhlI	GDGCHC	2 cut(s)	273, 512
MluCI	AATT	6 cut(s)	163, 223, 396, 408, 452, 686
MlyI	GAGTC	3 cut(s)	41, 147, 624
MmeI	TCCRAC	2 cut(s)	297, 672
MnlI	CCTC	7 cut(s)	132, 208, 234, 283, 385, 484, 566
MseI	TTAA	3 cut(s)	30, 219, 630
MspI	CCGG	1 cut(s)	57
MspR9I	CCNGG	1 cut(s)	58
MwoI	GCNNNNNNNGC	1 cut(s)	596
NciI	CCSGG	1 cut(s)	58
NcoI	CCATGG	1 cut(s)	594
NdeII	GATC	2 cut(s)	8, 370
NlaIII	CATG	7 cut(s)	77, 124, 256, 371, 407, 598, 612
NlaIV	GGNNCC	1 cut(s)	579
NspI	RCATGY	2 cut(s)	124, 407
PagI	TCATGA	1 cut(s)	367
PflFI	GACNNNGTC	1 cut(s)	527
PflMI	CCANNNNNTGG	1 cut(s)	502
PkrI	GCNGC	2 cut(s)	104, 566
PleI	GAGTC	3 cut(s)	41, 147, 623
PpsI	GAGTC	3 cut(s)	41, 147, 623
PshBI	ATTAAT	1 cut(s)	630
PsiI	TTATAA	2 cut(s)	332, 558
PspN4I	GGNNCC	1 cut(s)	579
PspPI	GGNCC	1 cut(s)	493
PsyI	GACNNNGTC	1 cut(s)	527
RsaI	GTAC	2 cut(s)	129, 640
RsaNI	GTAC	2 cut(s)	128, 639
SaqAI	TTAA	3 cut(s)	30, 219, 630
SatI	GCNGC	2 cut(s)	103, 565
Sau3AI	GATC	2 cut(s)	8, 370
Sau96I	GGNCC	1 cut(s)	493
SchI	GAGTC	3 cut(s)	41, 147, 624
ScrFI	CCNGG	1 cut(s)	58
SduI	GDGCHC	2 cut(s)	273, 512
SfaNI	GCATC	2 cut(s)	82, 599
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	6 cut(s)	163, 223, 396, 408, 452, 686
SsiI	CCGC	2 cut(s)	100, 612
SspMI	CTAG	1 cut(s)	543
StyD4I	CCNGG	1 cut(s)	56
StyI	CCWWGG	3 cut(s)	174, 387, 594
TaaI	ACNGT	1 cut(s)	315
TaiI	ACGT	1 cut(s)	349
TaqI	TCGA	1 cut(s)	275
TasI	AATT	6 cut(s)	163, 223, 396, 408, 452, 686
TatI	WGTACW	1 cut(s)	127
Tru1I	TTAA	3 cut(s)	30, 219, 630
Tru9I	TTAA	3 cut(s)	30, 219, 630
TscAI	CASTG	1 cut(s)	517
TseI	GCWGC	2 cut(s)	102, 564
TspDTI	ATGAA	3 cut(s)	90, 356, 431
TspGWI	ACGGA	2 cut(s)	49, 612
TspRI	CASTG	1 cut(s)	517
Tth111I	GACNNNGTC	1 cut(s)	527
Van91I	CCANNNNNTGG	1 cut(s)	502
VpaK11BI	GGWCC	1 cut(s)	493
VspI	ATTAAT	1 cut(s)	630
XapI	RAATTY	2 cut(s)	223, 396
XceI	RCATGY	2 cut(s)	124, 407
XspI	CTAG	1 cut(s)	543

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