Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000002

Orthogroup ID

OG0010908

Physical Location & Seq

Genomic Coordinates Reverse (-)

18243884 .. 18248631

Gene Structure 4748 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug02G0195600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 906 bp

ATGGGTGCTCCTAAGCAGAAGTGGACACCAGAAGAAGAAGCGGCCCTTAAAGCTGGAGTTCTTAAACATGGGGCAGGCAAATGGCGCACAATACTCTCGGACAAAGAGTTTGGTGCTATCTTGCATCTGCGTTCAAATGTTGATCTCAAGGACAAATGGAGAAATATAAATGTGACAGCAATATGGGGATCTAGGCAGAAGGCTAAGCTTGCACTCAAAAGGACCACTCCAACCGCTAAAAATGACAATAGCCCTTTGGCAGTGGCAACTGCAGTTCAAAGTAATGAAGAAACTGCTGATGCTAAGCCTCTTGCCAGTTCGGGTGGAAAAGTGCAGACTACTGAGTCAAAGCCACCGATTGCGAGGTTGGATCATCTCATATTTGAGGCTATTACAAATTTGAAGGAGCCAAGGGGCTCTGACAGAAACACAATCACTACGTACATAGAGGATCAATATTGGGCACCATCAAACCTTAGCAAGCTACTGTCCACAAAGTTAAAGCACATGACAGCCAATGGAAAACTAGTTAAGGTAAAGCATAGATACAGAATTCCACCAAATTCAGCTACTTCTGAAAAAAGAAGAAACTCTTCAACATTGCTCTCGGAGGGAAAGCAGAAGGATTCTACGAGAGCAGATAAAAGTGTGGTCAGCATTCTTACCAAATCACAAGTTGATGCAGAGCTAACCATGATCAGGAGCATGACTGCACAAGAGGCTGCTGCTGCTGCTGCACAAGCAGTTGCCGAGGCAGAAGCTGCCATTGCAGCTGCTGAAGAGGCAGCACGGGAGGCAGAGGCAGCAGAAGCTGAAGCCGAAGCAGCACAAGTTTTTGCAAAGGCAGCAGTGAAAGCATTGAAATGTAGAAGACTTGATCTTGATATGAAACTCGCACACGGGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000419 GO:0000428 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0030880 GO:0032991 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0055029 GO:0061695 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

301

Amino Acids

32.6

Weight (kDa)

9.63

Isoelectric Point (pI)

30.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Myb_DNA-binding	PF00249	5 - 55	2e-08	Myb-like DNA-binding domain
Linker_histone	PF00538	124 - 180	2.9e-11	linker histone H1 and H5 family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0010908)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G22240 AT2G22240 AT2G22240 AT4G39800 AT5G10170
fragaria_vesca	FvH4_1g21450 FvH4_1g21450
malus_domestica	MD00G1040900.v1.1
prunus_persica	Prupe.6G180500_v2.0.a1
pyrus_communis	pycom01g05310 pycom15g29820
rosa_chinensis	RchiOBHm_Chr2g0115271
rosa_laevigata	RLG00000018172
rosa_multiflora	Rmu_sc0001626.1_g000043
rosa_roxburghii	Rroxscaffold_2G00130810
rosa_rugosa	Rorug02G0195600
rosa_samantha	Rh2AG253400 Rh2BG263800 Rh2DG261600
rosa_wichuraiana	Rw2G019810

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	343
AccB1I	GGYRCC	1 cut(s)	463
AciI	CCGC	2 cut(s)	41, 234
AclWI	GGATC	3 cut(s)	196, 378, 459
AcsI	RAATTY	3 cut(s)	397, 552, 562
AcuI	CTGAAG	2 cut(s)	798, 834
AfaI	GTAC	1 cut(s)	443
AfiI	CCNNNNNNNGG	1 cut(s)	699
AgsI	TTSAA	5 cut(s)	135, 278, 403, 597, 862
AhlI	ACTAGT	1 cut(s)	526
AluBI	AGCT	8 cut(s)	53, 208, 484, 569, 688, 761, 773, 812
AluI	AGCT	8 cut(s)	53, 208, 484, 569, 688, 761, 773, 812
Alw21I	GWGCWC	1 cut(s)	10
AlwI	GGATC	3 cut(s)	196, 378, 459
AlwNI	CAGNNNCTG	3 cut(s)	761, 776, 812
AoxI	GGCC	1 cut(s)	42
ApoI	RAATTY	3 cut(s)	397, 552, 562
ArsI	GACNNNNNNTTYG	2 cut(s)	92, 124
Asp700I	GAANNNNTTC	1 cut(s)	592
AspLEI	GCGC	1 cut(s)	87
AspS9I	GGNCC	2 cut(s)	43, 222
AvaII	GGWCC	1 cut(s)	222
BaeGI	GKGCMC	1 cut(s)	466
BanI	GGYRCC	1 cut(s)	463
BanII	GRGCYC	1 cut(s)	419
BbsI	GAAGAC	1 cut(s)	877
Bbv12I	GWGCWC	1 cut(s)	10
BccI	CCATC	1 cut(s)	475
BclI	TGATCA	1 cut(s)	696
BcuI	ACTAGT	1 cut(s)	526
BfaI	CTAG	2 cut(s)	192, 527
BfmI	CTRYAG	1 cut(s)	270
BlpI	GCTNAGC	2 cut(s)	204, 303
Bme18I	GGWCC	1 cut(s)	222
BmgT120I	GGNCC	2 cut(s)	43, 222
BmiI	GGNNCC	2 cut(s)	408, 465
BmsI	GCATC	3 cut(s)	133, 289, 670
BpiI	GAAGAC	1 cut(s)	877
BpmI	CTGGAG	1 cut(s)	75
Bpu10I	CCTNAGC	2 cut(s)	12, 476
Bpu1102I	GCTNAGC	2 cut(s)	204, 303
BpuEI	CTTGAG	1 cut(s)	131
BsaAI	YACGTR	1 cut(s)	441
BsaJI	CCNNGG	2 cut(s)	410, 750
Bsc4I	CCNNNNNNNGG	1 cut(s)	699
Bse1I	ACTGG	1 cut(s)	315
Bse3DI	GCAATG	2 cut(s)	599, 765
BseDI	CCNNGG	2 cut(s)	410, 750
BseLI	CCNNNNNNNGG	1 cut(s)	699
BseMI	GCAATG	2 cut(s)	599, 765
BseMII	CTCAG	1 cut(s)	333
BseNI	ACTGG	1 cut(s)	315
BseSI	GKGCMC	1 cut(s)	466
BsgI	GTGCAG	3 cut(s)	353, 696, 720
BshFI	GGCC	1 cut(s)	44
BshNI	GGYRCC	1 cut(s)	463
BsiHKAI	GWGCWC	1 cut(s)	10
BslI	CCNNNNNNNGG	1 cut(s)	699
BsmI	GAATGC	1 cut(s)	657
BsnI	GGCC	1 cut(s)	44
Bsp1286I	GDGCHC	3 cut(s)	10, 419, 466
Bsp143I	GATC	6 cut(s)	142, 188, 370, 451, 696, 877
Bsp1720I	GCTNAGC	2 cut(s)	204, 303
BspACI	CCGC	2 cut(s)	41, 234
BspANI	GGCC	1 cut(s)	44
BspCNI	CTCAG	1 cut(s)	334
BspLI	GGNNCC	2 cut(s)	408, 465
BspMAI	CTGCAG	1 cut(s)	274
BspPI	GGATC	3 cut(s)	196, 378, 459
BspT107I	GGYRCC	1 cut(s)	463
BsrDI	GCAATG	2 cut(s)	599, 765
BsrI	ACTGG	1 cut(s)	315
BssECI	CCNNGG	2 cut(s)	410, 750
BssMI	GATC	6 cut(s)	142, 188, 370, 451, 696, 877
BssT1I	CCWWGG	1 cut(s)	410
Bst4CI	ACNGT	1 cut(s)	489
Bst6I	CTCTTC	2 cut(s)	598, 774
BstAPI	GCANNNNNTGC	1 cut(s)	761
BstBAI	YACGTR	1 cut(s)	441
BstC8I	GCNNGC	3 cut(s)	76, 210, 482
BstDEI	CTNAG	5 cut(s)	12, 204, 303, 342, 476
BstHHI	GCGC	1 cut(s)	87
BstKTI	GATC	6 cut(s)	145, 191, 373, 454, 699, 880
BstMBI	GATC	6 cut(s)	142, 188, 370, 451, 696, 877
BstSFI	CTRYAG	1 cut(s)	270
BstSLI	GKGCMC	1 cut(s)	466
BstSNI	TACGTA	1 cut(s)	441
BstV2I	GAAGAC	1 cut(s)	877
BstX2I	RGATCY	1 cut(s)	188
BstYI	RGATCY	1 cut(s)	188
BsuRI	GGCC	1 cut(s)	44
BtsI	GCAGTG	2 cut(s)	267, 855
BtsIMutI	CAGTG	2 cut(s)	267, 855
Cac8I	GCNNGC	3 cut(s)	76, 210, 482
CaiI	CAGNNNCTG	3 cut(s)	761, 776, 812
CfoI	GCGC	1 cut(s)	87
Cfr13I	GGNCC	2 cut(s)	43, 222
Csp6I	GTAC	1 cut(s)	442
CviAII	CATG	4 cut(s)	68, 508, 694, 706
CviQI	GTAC	1 cut(s)	442
DdeI	CTNAG	5 cut(s)	12, 204, 303, 342, 476
DpnI	GATC	6 cut(s)	144, 190, 372, 453, 698, 879
DpnII	GATC	6 cut(s)	142, 188, 370, 451, 696, 877
DrdI	GACNNNNNNGTC	1 cut(s)	343
DseDI	GACNNNNNNGTC	1 cut(s)	343
Eam1104I	CTCTTC	2 cut(s)	598, 774
EarI	CTCTTC	2 cut(s)	598, 774
Eco105I	TACGTA	1 cut(s)	441
Eco130I	CCWWGG	1 cut(s)	410
Eco24I	GRGCYC	1 cut(s)	419
Eco47I	GGWCC	1 cut(s)	222
Eco57I	CTGAAG	2 cut(s)	798, 834
EcoRI	GAATTC	1 cut(s)	552
EcoT14I	CCWWGG	1 cut(s)	410
EcoT38I	GRGCYC	1 cut(s)	419
ErhI	CCWWGG	1 cut(s)	410
FaeI	CATG	4 cut(s)	71, 511, 697, 709
FalI	AAGNNNNNCTT	4 cut(s)	30, 62, 577, 609
FatI	CATG	4 cut(s)	67, 507, 693, 705
FbaI	TGATCA	1 cut(s)	696
FriOI	GRGCYC	1 cut(s)	419
FspBI	CTAG	2 cut(s)	192, 527
GlaI	GCGC	1 cut(s)	86
GsuI	CTGGAG	1 cut(s)	75
HaeIII	GGCC	1 cut(s)	44
HhaI	GCGC	1 cut(s)	87
Hin1II	CATG	4 cut(s)	71, 511, 697, 709
Hin6I	GCGC	1 cut(s)	85
HinP1I	GCGC	1 cut(s)	85
HindIII	AAGCTT	1 cut(s)	206
HinfI	GANTC	2 cut(s)	344, 626
Hpy166II	GTNNAC	2 cut(s)	24, 492
Hpy188I	TCNGA	4 cut(s)	100, 421, 577, 610
Hpy188III	TCNNGA	2 cut(s)	700, 881
Hpy8I	GTNNAC	2 cut(s)	24, 492
HpyAV	CCTTC	3 cut(s)	193, 397, 616
HpyCH4III	ACNGT	1 cut(s)	489
HpyCH4IV	ACGT	1 cut(s)	440
HpyCH4V	TGCA	9 cut(s)	124, 212, 272, 334, 683, 713, 737, 770, 839
HpyF3I	CTNAG	5 cut(s)	12, 204, 303, 342, 476
HpySE526I	ACGT	1 cut(s)	440
Hsp92II	CATG	4 cut(s)	71, 511, 697, 709
HspAI	GCGC	1 cut(s)	85
Ksp22I	TGATCA	1 cut(s)	696
Kzo9I	GATC	6 cut(s)	142, 188, 370, 451, 696, 877
LmnI	GCTCC	3 cut(s)	13, 406, 702
LpnPI	CCDG	5 cut(s)	39, 42, 60, 328, 685
LweI	GCATC	3 cut(s)	133, 289, 670
MaeI	CTAG	2 cut(s)	192, 527
MaeII	ACGT	1 cut(s)	440
MaeIII	GTNAC	1 cut(s)	172
MalI	GATC	6 cut(s)	144, 190, 372, 453, 698, 879
MboI	GATC	6 cut(s)	142, 188, 370, 451, 696, 877
MboII	GAAGA	7 cut(s)	44, 47, 299, 585, 597, 791, 882
MflI	RGATCY	1 cut(s)	188
MhlI	GDGCHC	3 cut(s)	10, 419, 466
MluCI	AATT	3 cut(s)	397, 552, 562
MlyI	GAGTC	1 cut(s)	353
MmeI	TCCRAC	2 cut(s)	254, 348
MroXI	GAANNNNTTC	1 cut(s)	592
MseI	TTAA	4 cut(s)	48, 63, 500, 531
MslI	CAYNNNNRTG	1 cut(s)	862
MspA1I	CMGCKG	1 cut(s)	773
Mva1269I	GAATGC	1 cut(s)	657
NdeII	GATC	6 cut(s)	142, 188, 370, 451, 696, 877
NlaIII	CATG	4 cut(s)	71, 511, 697, 709
NlaIV	GGNNCC	2 cut(s)	408, 465
NmeAIII	GCCGAG	1 cut(s)	775
NmuCI	GTSAC	1 cut(s)	172
PctI	GAATGC	1 cut(s)	657
PdmI	GAANNNNTTC	1 cut(s)	592
PfeI	GAWTC	1 cut(s)	626
PleI	GAGTC	1 cut(s)	352
PpsI	GAGTC	1 cut(s)	352
Ppu21I	YACGTR	1 cut(s)	441
PspN4I	GGNNCC	2 cut(s)	408, 465
PspPI	GGNCC	2 cut(s)	43, 222
PstI	CTGCAG	1 cut(s)	274
PstNI	CAGNNNCTG	3 cut(s)	761, 776, 812
PsuI	RGATCY	1 cut(s)	188
PvuII	CAGCTG	1 cut(s)	773
RsaI	GTAC	1 cut(s)	443
RsaNI	GTAC	1 cut(s)	442
RseI	CAYNNNNRTG	1 cut(s)	862
SaqAI	TTAA	4 cut(s)	48, 63, 500, 531
Sau3AI	GATC	6 cut(s)	142, 188, 370, 451, 696, 877
Sau96I	GGNCC	2 cut(s)	43, 222
SchI	GAGTC	1 cut(s)	353
SduI	GDGCHC	3 cut(s)	10, 419, 466
SfaNI	GCATC	3 cut(s)	133, 289, 670
SfcI	CTRYAG	1 cut(s)	270
SinI	GGWCC	1 cut(s)	222
SmiMI	CAYNNNNRTG	1 cut(s)	862
SmlI	CTYRAG	1 cut(s)	146
SmoI	CTYRAG	1 cut(s)	146
SnaBI	TACGTA	1 cut(s)	441
SpeI	ACTAGT	1 cut(s)	526
Sse9I	AATT	3 cut(s)	397, 552, 562
SsiI	CCGC	2 cut(s)	41, 234
SspI	AATATT	1 cut(s)	458
SspMI	CTAG	2 cut(s)	192, 527
StyI	CCWWGG	1 cut(s)	410
TaaI	ACNGT	1 cut(s)	489
TaiI	ACGT	1 cut(s)	443
TasI	AATT	3 cut(s)	397, 552, 562
TauI	GCSGC	1 cut(s)	44
TfiI	GAWTC	1 cut(s)	626
Tru1I	TTAA	4 cut(s)	48, 63, 500, 531
Tru9I	TTAA	4 cut(s)	48, 63, 500, 531
TscAI	CASTG	2 cut(s)	267, 855
TseFI	GTSAC	1 cut(s)	172
Tsp45I	GTSAC	1 cut(s)	172
TspDTI	ATGAA	2 cut(s)	300, 902
TspRI	CASTG	2 cut(s)	267, 855
VpaK11BI	GGWCC	1 cut(s)	222
XapI	RAATTY	3 cut(s)	397, 552, 562
XmnI	GAANNNNTTC	1 cut(s)	592
XspI	CTAG	2 cut(s)	192, 527

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