Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000001

Orthogroup ID

OG0003570

Physical Location & Seq

Genomic Coordinates Forward (+)

50468301 .. 50471694

Gene Structure 3394 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug01G0394400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 930 bp

ATGGAGGTGTCATGCTATCGAATTGAACCACCTAGACTATTTATAGGCCGTGGGAAGCACCCAAAGAATGGAATGTTAAAAAGACGAATCAACCCAAGTGATGTTATCATCAACATTGTATCTCCAATTTGGAAGAAAGTTGTACGCGATCCTCATCTTAAATGGCTCACATATTGGAAAGATTCAATTTCCGGGAGAAGAAAGTACATGAACTTGAAATATTGCAGCAGTATGTTTGACATTTCAAAATTTAACACCGCGAGGGAAGTAAAGATCAATCAAGCAAAGATCAAGCAACAATACACAGTGGATTTCACAAGTCCAAATCTTGTGGATAAGCAATGTGCAATTGTTACATATCTTATTGATACATTAGCTTTAAGACCTGGACATGTTAAGGACGAACAAATTACTGCACCTACTGTTGGATGTTGCACGTTAATGGTGAAAAACGTAATTTTACATGAACGTACCCTCATGTTTGGAGTCGACTACGAGAATGAGGTTGAAGTTGAAAACCTTGTATTTAATTGCATTAAAGAATTCCAGCTTGGGAAATCTCCTGAAGACAATTTGGATGCCAAAAAATTGAATAGATATTTACAAAACTTGGGAAAACCTTTTGGCCTCCATTTTACAGCAAAGACATTCCGCACATTTCGAGCATCTGAAATGATGGATGATTTGTTGAACAAGGAAGACTTGAAGGAGAAAACAGAAGAAGATAAGCTTGCTGTTTACTGGAATGCAAACAAGGAAGTTGCTATTTTTCTAAATCATCGGAGAGAAGTATCAGATTTTGAAGAGAAACAAGCTTGGGAGCTTAGCATACAGATCTTTGAACTAGAGGCGCAAAAATCAAAATTGGAGATTCAAAAAACTCATCCAAGTAATGAGTATAATGCCTCAAACCTTGGAAAACTCGAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004396 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005975 GO:0005996 GO:0006000 GO:0006082 GO:0006629 GO:0006631 GO:0006633 GO:0006793 GO:0006796 GO:0008150 GO:0008152 GO:0008610 GO:0008865 GO:0009058 GO:0009987 GO:0010035 GO:0010038 GO:0016051 GO:0016053 GO:0016301 GO:0016310 GO:0016740 GO:0016772 GO:0016773 GO:0019200 GO:0019318 GO:0019752 GO:0032787 GO:0042221 GO:0043436 GO:0044237 GO:0044238 GO:0044249 GO:0044255 GO:0044262 GO:0044281 GO:0044283 GO:0044424 GO:0044444 GO:0044464 GO:0046394 GO:0046686 GO:0046835 GO:0050896 GO:0071704 GO:0072330 GO:1901576

KEGG Pathways

Metabolic & Signaling

ko00051 ko00500 ko00520 ko01100 map00051 map00500 map00520 map01100

Pfam Domains

Protein Families

PfkB

Protein Analysis

309

Amino Acids

36.1

Weight (kDa)

8.82

Isoelectric Point (pI)

34.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Topoisom_I_N	PF02919	2 - 71	1.5e-19	Eukaryotic DNA topoisomerase I, DNA binding fragment
Topoisom_I	PF01028	79 - 290	6.8e-46	Eukaryotic DNA topoisomerase I, catalytic core

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: OG0003570)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G51830 AT5G51830
fragaria_vesca	FvH4_7g12690 FvH4_7g28710 FvH4_7g28710
malus_domestica	MD00G1004100.v1.1 MD01G1193000.v1.1 MD02G1197500.v1.1 MD15G1307900.v1.1
prunus_persica	Prupe.2G151100_v2.0.a1 Prupe.2G287100_v2.0.a1 Prupe.2G287100_v2.0.a1 Prupe.2G287100_v2.0.a1
pyrus_communis	pycom01g20360 pycom02g16100 pycom07g23930
rosa_chinensis	RchiOBHm_Chr1g0351681 RchiOBHm_Chr1g0376211
rosa_laevigata	RLG00000026619 RLG00000028390
rosa_multiflora	Rmu_sc0000061.1_g000037 Rmu_sc0001144.1_g000004
rosa_roxburghii	Rroxscaffold_4G00282300 Rroxscaffold_4G00303620
rosa_rugosa	Rorug01G0220600 Rorug01G0394400
rosa_samantha	Rh1AG406000 Rh1BG369700 Rh1CG382400 Rh1CG382600 Rh1DG232200 Rh1DG399300 Rh1DG399500
rosa_wichuraiana	Rw1G020430 Rw1G036020

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	68
AccI	GTMKAC	1 cut(s)	489
AccII	CGCG	2 cut(s)	147, 260
AciI	CCGC	2 cut(s)	258, 652
AclWI	GGATC	1 cut(s)	143
AcsI	RAATTY	2 cut(s)	248, 542
AcuI	CTGAAG	1 cut(s)	585
AfaI	GTAC	3 cut(s)	144, 206, 472
AfiI	CCNNNNNNNGG	2 cut(s)	68, 425
AflIII	ACRYGT	1 cut(s)	391
AjnI	CCWGG	1 cut(s)	385
AjuI	GAANNNNNNNTTGG	2 cut(s)	534, 566
AluBI	AGCT	5 cut(s)	377, 550, 730, 815, 823
AluI	AGCT	5 cut(s)	377, 550, 730, 815, 823
AlwI	GGATC	1 cut(s)	143
Ama87I	CYCGRG	1 cut(s)	923
AoxI	GGCC	2 cut(s)	46, 625
ApeKI	GCWGC	1 cut(s)	225
ApoI	RAATTY	2 cut(s)	248, 542
AspLEI	GCGC	1 cut(s)	853
AsuC2I	CCSGG	1 cut(s)	193
AsuHPI	GGTGA	1 cut(s)	457
AvaI	CYCGRG	1 cut(s)	923
BbsI	GAAGAC	2 cut(s)	573, 705
BbvI	GCAGC	1 cut(s)	237
BccI	CCATC	1 cut(s)	670
BceAI	ACGGC	1 cut(s)	33
BciT130I	CCWGG	1 cut(s)	387
BcnI	CCSGG	1 cut(s)	193
BfaI	CTAG	2 cut(s)	33, 845
BglII	AGATCT	1 cut(s)	834
BisI	GCNGC	1 cut(s)	226
BlpI	GCTNAGC	1 cut(s)	824
BlsI	GCNGC	1 cut(s)	227
Bme1390I	CCNGG	2 cut(s)	193, 387
BmeT110I	CYCGRG	1 cut(s)	923
BmrFI	CCNGG	2 cut(s)	193, 387
BmsI	GCATC	2 cut(s)	568, 674
BpiI	GAAGAC	2 cut(s)	573, 705
Bpu1102I	GCTNAGC	1 cut(s)	824
BpuMI	CCSGG	1 cut(s)	193
BsaBI	GATNNNNATC	1 cut(s)	153
BsaJI	CCNNGG	2 cut(s)	49, 913
Bsc4I	CCNNNNNNNGG	2 cut(s)	68, 425
Bse1I	ACTGG	1 cut(s)	746
Bse3DI	GCAATG	1 cut(s)	347
Bse8I	GATNNNNATC	1 cut(s)	153
BseBI	CCWGG	1 cut(s)	387
BseDI	CCNNGG	2 cut(s)	49, 913
BseGI	GGATG	4 cut(s)	434, 583, 685, 883
BseJI	GATNNNNATC	1 cut(s)	153
BseLI	CCNNNNNNNGG	2 cut(s)	68, 425
BseMI	GCAATG	1 cut(s)	347
BseNI	ACTGG	1 cut(s)	746
BseXI	GCAGC	1 cut(s)	237
BsgI	GTGCAG	1 cut(s)	399
Bsh1236I	CGCG	2 cut(s)	147, 260
BshFI	GGCC	2 cut(s)	48, 627
BsiHKCI	CYCGRG	1 cut(s)	923
BsiSI	CCGG	1 cut(s)	192
BslI	CCNNNNNNNGG	2 cut(s)	68, 425
BsmI	GAATGC	1 cut(s)	751
BsnI	GGCC	2 cut(s)	48, 627
BsoBI	CYCGRG	1 cut(s)	923
Bsp143I	GATC	4 cut(s)	148, 273, 288, 834
Bsp1720I	GCTNAGC	1 cut(s)	824
BspACI	CCGC	2 cut(s)	258, 652
BspANI	GGCC	2 cut(s)	48, 627
BspFNI	CGCG	2 cut(s)	147, 260
BspPI	GGATC	1 cut(s)	143
BsrDI	GCAATG	1 cut(s)	347
BsrI	ACTGG	1 cut(s)	746
BssECI	CCNNGG	2 cut(s)	49, 913
BssMI	GATC	4 cut(s)	148, 273, 288, 834
BssT1I	CCWWGG	1 cut(s)	913
Bst2UI	CCWGG	1 cut(s)	387
Bst4CI	ACNGT	2 cut(s)	307, 424
Bst6I	CTCTTC	1 cut(s)	798
BstC8I	GCNNGC	1 cut(s)	732
BstDEI	CTNAG	1 cut(s)	824
BstDSI	CCRYGG	1 cut(s)	49
BstF5I	GGATG	4 cut(s)	434, 583, 685, 883
BstFNI	CGCG	2 cut(s)	147, 260
BstHHI	GCGC	1 cut(s)	853
BstKTI	GATC	4 cut(s)	151, 276, 291, 837
BstMBI	GATC	4 cut(s)	148, 273, 288, 834
BstNI	CCWGG	1 cut(s)	387
BstNSI	RCATGY	1 cut(s)	395
BstSCI	CCNGG	2 cut(s)	191, 385
BstUI	CGCG	2 cut(s)	147, 260
BstV1I	GCAGC	1 cut(s)	237
BstV2I	GAAGAC	2 cut(s)	573, 705
BstX2I	RGATCY	1 cut(s)	834
BstYI	RGATCY	1 cut(s)	834
BsuRI	GGCC	2 cut(s)	48, 627
BtgI	CCRYGG	1 cut(s)	49
BtsCI	GGATG	4 cut(s)	434, 583, 685, 883
BtsIMutI	CAGTG	1 cut(s)	312
Cac8I	GCNNGC	1 cut(s)	732
CfoI	GCGC	1 cut(s)	853
Csp6I	GTAC	3 cut(s)	143, 205, 471
CspCI	CAANNNNNGTGG	2 cut(s)	312, 347
CviAII	CATG	5 cut(s)	12, 208, 392, 464, 478
CviJI	RGCY	8 cut(s)	48, 166, 377, 550, 627, 730, 815, 823
CviKI_1	RGCY	8 cut(s)	48, 166, 377, 550, 627, 730, 815, 823
CviQI	GTAC	3 cut(s)	143, 205, 471
DdeI	CTNAG	1 cut(s)	824
DpnI	GATC	4 cut(s)	150, 275, 290, 836
DpnII	GATC	4 cut(s)	148, 273, 288, 834
Eam1104I	CTCTTC	1 cut(s)	798
EarI	CTCTTC	1 cut(s)	798
Eco130I	CCWWGG	1 cut(s)	913
Eco57I	CTGAAG	1 cut(s)	585
Eco88I	CYCGRG	1 cut(s)	923
EcoRI	GAATTC	1 cut(s)	542
EcoRII	CCWGG	1 cut(s)	385
EcoT14I	CCWWGG	1 cut(s)	913
ErhI	CCWWGG	1 cut(s)	913
FaeI	CATG	5 cut(s)	15, 211, 395, 467, 481
FalI	AAGNNNNNCTT	4 cut(s)	686, 718, 714, 746
FatI	CATG	5 cut(s)	11, 207, 391, 463, 477
FblI	GTMKAC	1 cut(s)	489
Fnu4HI	GCNGC	1 cut(s)	226
FokI	GGATG	4 cut(s)	441, 590, 692, 870
Fsp4HI	GCNGC	1 cut(s)	226
FspBI	CTAG	2 cut(s)	33, 845
GlaI	GCGC	1 cut(s)	852
GluI	GCNGC	1 cut(s)	226
HaeIII	GGCC	2 cut(s)	48, 627
HapII	CCGG	1 cut(s)	192
HhaI	GCGC	1 cut(s)	853
Hin1II	CATG	5 cut(s)	15, 211, 395, 467, 481
Hin6I	GCGC	1 cut(s)	851
HinP1I	GCGC	1 cut(s)	851
HincII	GTYRAC	1 cut(s)	490
HindII	GTYRAC	1 cut(s)	490
HindIII	AAGCTT	2 cut(s)	728, 813
HinfI	GANTC	4 cut(s)	87, 182, 486, 871
HpaII	CCGG	1 cut(s)	192
HphI	GGTGA	1 cut(s)	457
Hpy166II	GTNNAC	2 cut(s)	490, 739
Hpy188I	TCNGA	3 cut(s)	670, 783, 796
Hpy188III	TCNNGA	1 cut(s)	563
Hpy8I	GTNNAC	2 cut(s)	490, 739
HpyAV	CCTTC	1 cut(s)	700
HpyCH4III	ACNGT	2 cut(s)	307, 424
HpyCH4IV	ACGT	3 cut(s)	437, 453, 469
HpyCH4V	TGCA	6 cut(s)	225, 347, 416, 435, 534, 749
HpyF3I	CTNAG	1 cut(s)	824
HpySE526I	ACGT	3 cut(s)	437, 453, 469
Hsp92II	CATG	5 cut(s)	15, 211, 395, 467, 481
HspAI	GCGC	1 cut(s)	851
Kzo9I	GATC	4 cut(s)	148, 273, 288, 834
LmnI	GCTCC	1 cut(s)	820
LpnPI	CCDG	6 cut(s)	205, 372, 399, 560, 576, 727
Lsp1109I	GCAGC	1 cut(s)	237
LweI	GCATC	2 cut(s)	568, 674
MaeI	CTAG	2 cut(s)	33, 845
MaeII	ACGT	3 cut(s)	437, 453, 469
MaeIII	GTNAC	1 cut(s)	352
MalI	GATC	4 cut(s)	150, 275, 290, 836
MboI	GATC	4 cut(s)	148, 273, 288, 834
MboII	GAAGA	7 cut(s)	145, 210, 578, 710, 731, 734, 815
MfeI	CAATTG	1 cut(s)	348
MflI	RGATCY	1 cut(s)	834
MlyI	GAGTC	1 cut(s)	495
MmeI	TCCRAC	1 cut(s)	406
MnlI	CCTC	7 cut(s)	162, 255, 485, 496, 638, 841, 916
MseI	TTAA	8 cut(s)	77, 159, 252, 380, 396, 440, 528, 537
MslI	CAYNNNNRTG	1 cut(s)	440
MspI	CCGG	1 cut(s)	192
MspR9I	CCNGG	2 cut(s)	193, 387
MunI	CAATTG	1 cut(s)	348
Mva1269I	GAATGC	1 cut(s)	751
MvaI	CCWGG	1 cut(s)	387
MvnI	CGCG	2 cut(s)	147, 260
NciI	CCSGG	1 cut(s)	193
NdeII	GATC	4 cut(s)	148, 273, 288, 834
NlaIII	CATG	5 cut(s)	15, 211, 395, 467, 481
NspI	RCATGY	1 cut(s)	395
PaeR7I	CTCGAG	1 cut(s)	923
PciI	ACATGT	1 cut(s)	391
PctI	GAATGC	1 cut(s)	751
PfeI	GAWTC	3 cut(s)	87, 182, 871
PflMI	CCANNNNNTGG	1 cut(s)	68
PfoI	TCCNGGA	1 cut(s)	191
PkrI	GCNGC	1 cut(s)	227
PleI	GAGTC	1 cut(s)	494
PpsI	GAGTC	1 cut(s)	494
PscI	ACATGT	1 cut(s)	391
Psp6I	CCWGG	1 cut(s)	385
PspGI	CCWGG	1 cut(s)	385
PspXI	VCTCGAGB	1 cut(s)	923
PsuI	RGATCY	1 cut(s)	834
RsaI	GTAC	3 cut(s)	144, 206, 472
RsaNI	GTAC	3 cut(s)	143, 205, 471
RseI	CAYNNNNRTG	1 cut(s)	440
SalI	GTCGAC	1 cut(s)	488
SaqAI	TTAA	8 cut(s)	77, 159, 252, 380, 396, 440, 528, 537
SatI	GCNGC	1 cut(s)	226
Sau3AI	GATC	4 cut(s)	148, 273, 288, 834
SchI	GAGTC	1 cut(s)	495
ScrFI	CCNGG	2 cut(s)	193, 387
SfaNI	GCATC	2 cut(s)	568, 674
Sfr274I	CTCGAG	1 cut(s)	923
SlaI	CTCGAG	1 cut(s)	923
SmiMI	CAYNNNNRTG	1 cut(s)	440
SmlI	CTYRAG	1 cut(s)	923
SmoI	CTYRAG	1 cut(s)	923
SsiI	CCGC	2 cut(s)	258, 652
SspI	AATATT	1 cut(s)	221
SspMI	CTAG	2 cut(s)	33, 845
StyD4I	CCNGG	2 cut(s)	191, 385
StyI	CCWWGG	1 cut(s)	913
TaaI	ACNGT	2 cut(s)	307, 424
TaiI	ACGT	3 cut(s)	440, 456, 472
TaqI	TCGA	4 cut(s)	19, 489, 661, 924
TatI	WGTACW	1 cut(s)	204
TfiI	GAWTC	3 cut(s)	87, 182, 871
Tru1I	TTAA	8 cut(s)	77, 159, 252, 380, 396, 440, 528, 537
Tru9I	TTAA	8 cut(s)	77, 159, 252, 380, 396, 440, 528, 537
TscAI	CASTG	1 cut(s)	312
TseI	GCWGC	1 cut(s)	225
TspDTI	ATGAA	2 cut(s)	224, 480
TspRI	CASTG	1 cut(s)	312
Van91I	CCANNNNNTGG	1 cut(s)	68
XapI	RAATTY	2 cut(s)	248, 542
XceI	RCATGY	1 cut(s)	395
XhoI	CTCGAG	1 cut(s)	923
XmiI	GTMKAC	1 cut(s)	489
XspI	CTAG	2 cut(s)	33, 845

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