Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0017067

Physical Location & Seq

Genomic Coordinates Forward (+)

29912698 .. 29925262

Gene Structure 12565 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0169900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 861 bp

ATGTACATGCCGGTAAAGGGTCCTCGTTTGATATATGCATTTGATGTTGGAAGGGAGTGTTTCCGAGAGCTACCAGTACCTCGTTGGACTTCTTCGGAGAGCCAAATGACTAGATTCAACCTTGGAATCTTGAATGATTGCCTCTCTATAACTGTTTGTTGGAGAGCTAGTATCCATGTTTCGGTGATGAAGCATTACGGTGTCGAGGACTCTTGGACCAAAGAGCTTGACATTAGTGTGGAATATGGTCCGTCGTCGTTTGGTGGTTACGCACAAATTTTGAGTTTTTTACCAGAATGGCAAGTCCTGTTGTGGCAGGGTAGGTTGCAGGCTCATACTGCTGGAAGTGAGGGCTTTGTTGGGCTTCAGGTTGATGGGATACCATCTTCGGTTGACAAAGCCTATCCCCATGTTCCAAGCTTTATTTCACTTAAAGATGTTATCAGGTGTCAGAACCCTGAGGGGCAAGGAAATGTGCAAACCAATGCAGCAGATCATGAGAATGCTAAGGAAGATAAACAGAATTTGCAATCTAATTCTTATGGATTAAATCAAGGGAATGTGCAATCTGTAACTGTACCAGTCGATCAACAGCAACAGGGCCAACTGAATGTGCAATCCAATGCAGCAGATCATGGGAATGCTGAAGCAGATAAAGGGAATGTGCAATCTAATGCTGATCAATTAGATCAAGGGAATTTGCAATCTATAGCTGCAACAATTACCCAAAAAACACAGGAGAATAGAGCACCCAAGAAGGCAAAAACCACACATGAAGTTCAACCAATGCAAGCCTCTTCATCCCAACCATTTTATGCATCACCACCCAAGCCAACACAGCCATCTGTTGTGCAGCTATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009536 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko00230 ko00240 ko01100 ko03020 map00230 map00240 map01100 map03020

Pfam Domains

Protein Families

RNA_pol_Rpb1_1 RNA_pol_Rpb1_2 RNA_pol_Rpb1_3

Protein Analysis

286

Amino Acids

31.48

Weight (kDa)

5.63

Isoelectric Point (pI)

52.06

Instability Index

Protein Domains (Pfam)

No Pfam domains detected for this protein.

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: OG0017067)

Species	Orthologous Gene IDs
arabidopsis_thaliana	ATCG00180
pyrus_communis	pycom12397g00010 pycom12397g00330
rosa_chinensis	RchiOBHm_Chr2g0102161 RchiOBHm_CPg0502411
rosa_laevigata	RLG00000000248 RLG00000000282 RLG00000000312 RLG00000000316 RLG00000000338
rosa_roxburghii	Rroxscaffold_1G00008540 Rroxscaffold_2G00119080
rosa_rugosa	Rorug04G0169900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AcsI	RAATTY	3 cut(s)	276, 523, 697
AcuI	CTGAAG	2 cut(s)	350, 666
AfaI	GTAC	3 cut(s)	5, 78, 579
AfiI	CCNNNNNNNGG	2 cut(s)	17, 181
AgsI	TTSAA	3 cut(s)	118, 133, 782
AjuI	GAANNNNNNNTTGG	2 cut(s)	409, 441
AluBI	AGCT	6 cut(s)	70, 167, 226, 420, 713, 856
AluI	AGCT	6 cut(s)	70, 167, 226, 420, 713, 856
Alw21I	GWGCWC	1 cut(s)	751
AoxI	GGCC	1 cut(s)	601
ApeKI	GCWGC	4 cut(s)	488, 626, 713, 853
ApoI	RAATTY	3 cut(s)	276, 523, 697
AspS9I	GGNCC	4 cut(s)	20, 216, 248, 601
AsuHPI	GGTGA	2 cut(s)	196, 813
AvaII	GGWCC	3 cut(s)	20, 216, 248
AxyI	CCTNAGG	1 cut(s)	459
Bbv12I	GWGCWC	1 cut(s)	751
BbvI	GCAGC	3 cut(s)	500, 638, 700
BccI	CCATC	3 cut(s)	368, 391, 850
BciVI	GTATCC	2 cut(s)	182, 372
BclI	TGATCA	1 cut(s)	679
BfaI	CTAG	2 cut(s)	111, 168
BfmI	CTRYAG	1 cut(s)	708
BfuI	GTATCC	2 cut(s)	182, 372
BisI	GCNGC	4 cut(s)	489, 627, 714, 854
BlsI	GCNGC	4 cut(s)	490, 628, 715, 855
Bme18I	GGWCC	3 cut(s)	20, 216, 248
BmgT120I	GGNCC	4 cut(s)	20, 216, 248, 601
BmiI	GGNNCC	1 cut(s)	21
BmsI	GCATC	1 cut(s)	827
Bpu10I	CCTNAGC	1 cut(s)	507
BsaJI	CCNNGG	1 cut(s)	121
BsaXI	ACNNNNNCTCC	2 cut(s)	154, 184
Bsc4I	CCNNNNNNNGG	2 cut(s)	17, 181
Bse118I	RCCGGY	1 cut(s)	10
Bse1I	ACTGG	2 cut(s)	74, 581
Bse21I	CCTNAGG	1 cut(s)	459
BseDI	CCNNGG	1 cut(s)	121
BseGI	GGATG	1 cut(s)	800
BseLI	CCNNNNNNNGG	2 cut(s)	17, 181
BseMII	CTCAG	1 cut(s)	450
BseNI	ACTGG	2 cut(s)	74, 581
BseXI	GCAGC	3 cut(s)	500, 638, 700
BshFI	GGCC	1 cut(s)	603
BsiHKAI	GWGCWC	1 cut(s)	751
BsiSI	CCGG	1 cut(s)	11
BslI	CCNNNNNNNGG	2 cut(s)	17, 181
BsmI	GAATGC	2 cut(s)	508, 646
BsnI	GGCC	1 cut(s)	603
Bsp1286I	GDGCHC	1 cut(s)	751
Bsp1407I	TGTACA	1 cut(s)	3
Bsp143I	GATC	5 cut(s)	493, 586, 631, 679, 688
BspANI	GGCC	1 cut(s)	603
BspCNI	CTCAG	1 cut(s)	451
BspHI	TCATGA	1 cut(s)	496
BspLI	GGNNCC	1 cut(s)	21
BsrFI	RCCGGY	1 cut(s)	10
BsrGI	TGTACA	1 cut(s)	3
BsrI	ACTGG	2 cut(s)	74, 581
BssAI	RCCGGY	1 cut(s)	10
BssECI	CCNNGG	1 cut(s)	121
BssMI	GATC	5 cut(s)	493, 586, 631, 679, 688
BssT1I	CCWWGG	1 cut(s)	121
Bst4CI	ACNGT	3 cut(s)	154, 200, 577
Bst6I	CTCTTC	1 cut(s)	802
BstAUI	TGTACA	1 cut(s)	3
BstC8I	GCNNGC	2 cut(s)	330, 792
BstDEI	CTNAG	2 cut(s)	459, 507
BstF5I	GGATG	1 cut(s)	800
BstKTI	GATC	5 cut(s)	496, 589, 634, 682, 691
BstMBI	GATC	5 cut(s)	493, 586, 631, 679, 688
BstMWI	GCNNNNNNNGC	2 cut(s)	338, 838
BstNSI	RCATGY	1 cut(s)	10
BstSFI	CTRYAG	1 cut(s)	708
BstV1I	GCAGC	3 cut(s)	500, 638, 700
Bsu36I	CCTNAGG	1 cut(s)	459
BsuI	GTATCC	2 cut(s)	182, 372
BsuRI	GGCC	1 cut(s)	603
BtsCI	GGATG	1 cut(s)	800
Cac8I	GCNNGC	2 cut(s)	330, 792
CciI	TCATGA	1 cut(s)	496
Cfr10I	RCCGGY	1 cut(s)	10
Cfr13I	GGNCC	4 cut(s)	20, 216, 248, 601
Csp6I	GTAC	3 cut(s)	4, 77, 578
CviAII	CATG	6 cut(s)	7, 176, 410, 497, 635, 773
CviQI	GTAC	3 cut(s)	4, 77, 578
DdeI	CTNAG	2 cut(s)	459, 507
DpnI	GATC	5 cut(s)	495, 588, 633, 681, 690
DpnII	GATC	5 cut(s)	493, 586, 631, 679, 688
Eam1104I	CTCTTC	1 cut(s)	802
EarI	CTCTTC	1 cut(s)	802
Eco130I	CCWWGG	1 cut(s)	121
Eco47I	GGWCC	3 cut(s)	20, 216, 248
Eco57I	CTGAAG	2 cut(s)	350, 666
Eco81I	CCTNAGG	1 cut(s)	459
EcoO109I	RGGNCCY	1 cut(s)	20
EcoT14I	CCWWGG	1 cut(s)	121
EcoT22I	ATGCAT	2 cut(s)	40, 820
ErhI	CCWWGG	1 cut(s)	121
FaeI	CATG	6 cut(s)	10, 179, 413, 500, 638, 776
FatI	CATG	6 cut(s)	6, 175, 409, 496, 634, 772
FbaI	TGATCA	1 cut(s)	679
Fnu4HI	GCNGC	4 cut(s)	489, 627, 714, 854
FokI	GGATG	1 cut(s)	787
Fsp4HI	GCNGC	4 cut(s)	489, 627, 714, 854
FspBI	CTAG	2 cut(s)	111, 168
GluI	GCNGC	4 cut(s)	489, 627, 714, 854
HaeIII	GGCC	1 cut(s)	603
HapII	CCGG	1 cut(s)	11
Hin1II	CATG	6 cut(s)	10, 179, 413, 500, 638, 776
HincII	GTYRAC	1 cut(s)	394
HindII	GTYRAC	1 cut(s)	394
HindIII	AAGCTT	1 cut(s)	418
HinfI	GANTC	3 cut(s)	114, 126, 209
HpaII	CCGG	1 cut(s)	11
HphI	GGTGA	2 cut(s)	196, 813
Hpy166II	GTNNAC	1 cut(s)	394
Hpy188I	TCNGA	3 cut(s)	65, 97, 453
Hpy188III	TCNNGA	2 cut(s)	130, 497
Hpy8I	GTNNAC	1 cut(s)	394
Hpy99I	CGWCG	2 cut(s)	256, 259
HpyAV	CCTTC	2 cut(s)	45, 751
HpyCH4III	ACNGT	3 cut(s)	154, 200, 577
HpyF10VI	GCNNNNNNNGC	2 cut(s)	338, 838
HpyF3I	CTNAG	2 cut(s)	459, 507
Hsp92II	CATG	6 cut(s)	10, 179, 413, 500, 638, 776
Ksp22I	TGATCA	1 cut(s)	679
Kzo9I	GATC	5 cut(s)	493, 586, 631, 679, 688
Lsp1109I	GCAGC	3 cut(s)	500, 638, 700
LweI	GCATC	1 cut(s)	827
MaeI	CTAG	2 cut(s)	111, 168
MaeIII	GTNAC	2 cut(s)	266, 571
MalI	GATC	5 cut(s)	495, 588, 633, 681, 690
MboI	GATC	5 cut(s)	493, 586, 631, 679, 688
MboII	GAAGA	4 cut(s)	84, 378, 524, 789
MhlI	GDGCHC	1 cut(s)	751
MluCI	AATT	6 cut(s)	276, 523, 535, 683, 697, 720
MlyI	GAGTC	1 cut(s)	203
MmeI	TCCRAC	3 cut(s)	28, 65, 140
MnlI	CCTC	7 cut(s)	33, 90, 152, 199, 343, 454, 805
Mph1103I	ATGCAT	2 cut(s)	40, 820
MseI	TTAA	2 cut(s)	432, 548
MslI	CAYNNNNRTG	4 cut(s)	198, 236, 501, 639
MspI	CCGG	1 cut(s)	11
Mva1269I	GAATGC	2 cut(s)	508, 646
MwoI	GCNNNNNNNGC	2 cut(s)	338, 838
NdeII	GATC	5 cut(s)	493, 586, 631, 679, 688
NlaIII	CATG	6 cut(s)	10, 179, 413, 500, 638, 776
NlaIV	GGNNCC	1 cut(s)	21
NsiI	ATGCAT	2 cut(s)	40, 820
NspI	RCATGY	1 cut(s)	10
PagI	TCATGA	1 cut(s)	496
PctI	GAATGC	2 cut(s)	508, 646
PfeI	GAWTC	2 cut(s)	114, 126
PkrI	GCNGC	4 cut(s)	490, 628, 715, 855
PleI	GAGTC	1 cut(s)	203
PpsI	GAGTC	1 cut(s)	203
PpuMI	RGGWCCY	1 cut(s)	20
Psp5II	RGGWCCY	1 cut(s)	20
PspN4I	GGNNCC	1 cut(s)	21
PspPI	GGNCC	4 cut(s)	20, 216, 248, 601
PspPPI	RGGWCCY	1 cut(s)	20
RsaI	GTAC	3 cut(s)	5, 78, 579
RsaNI	GTAC	3 cut(s)	4, 77, 578
RseI	CAYNNNNRTG	4 cut(s)	198, 236, 501, 639
SaqAI	TTAA	2 cut(s)	432, 548
SatI	GCNGC	4 cut(s)	489, 627, 714, 854
Sau3AI	GATC	5 cut(s)	493, 586, 631, 679, 688
Sau96I	GGNCC	4 cut(s)	20, 216, 248, 601
SchI	GAGTC	1 cut(s)	203
SduI	GDGCHC	1 cut(s)	751
SfaNI	GCATC	1 cut(s)	827
SfcI	CTRYAG	1 cut(s)	708
SinI	GGWCC	3 cut(s)	20, 216, 248
SmiMI	CAYNNNNRTG	4 cut(s)	198, 236, 501, 639
Sse9I	AATT	6 cut(s)	276, 523, 535, 683, 697, 720
SspMI	CTAG	2 cut(s)	111, 168
StyI	CCWWGG	1 cut(s)	121
TaaI	ACNGT	3 cut(s)	154, 200, 577
TaqI	TCGA	2 cut(s)	204, 585
TasI	AATT	6 cut(s)	276, 523, 535, 683, 697, 720
TatI	WGTACW	1 cut(s)	3
TfiI	GAWTC	2 cut(s)	114, 126
Tru1I	TTAA	2 cut(s)	432, 548
Tru9I	TTAA	2 cut(s)	432, 548
TseI	GCWGC	4 cut(s)	488, 626, 713, 853
TspDTI	ATGAA	3 cut(s)	203, 789, 789
TspGWI	ACGGA	1 cut(s)	240
VpaK11BI	GGWCC	3 cut(s)	20, 216, 248
XapI	RAATTY	3 cut(s)	276, 523, 697
XceI	RCATGY	1 cut(s)	10
XcmI	CCANNNNNNNNNTGG	1 cut(s)	81
XspI	CTAG	2 cut(s)	111, 168
Zsp2I	ATGCAT	2 cut(s)	40, 820

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