Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0003822

Physical Location & Seq

Genomic Coordinates Reverse (-)

914992 .. 916852

Gene Structure 1861 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0004900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 765 bp

ATGAAGAGGTTGCCTGTGGAGTGCGTCTCCCACATCATTTCCTTTACATCACCTCGAGATGCCTGCAGATCGTCTGCTGTCTCTTCTCTGTTTAGAATAGCTGTGGATTCTGATATTGTCTGGGAGAGGTTTCTTCCTCCCCATTATAAGCAAATCATTTCGGAATCTTCATCGTCCTCGTCTTTGATTTCCATGCCCAAGAAGGATCTCTACTTTTATCTCTGCACTCACCCCATCATCATAGGCAATGGTAACATGAGCTTTGCACTAGATAAGCAGAGCGGCAAGATTTGTTCTATGGTAGGCGCAAGAGGGCTTGTAATTGCATGGGCAGATACACCCACTTATTGGCAATGGATGACTCTACCACACTCCAGGTTCTCTCAAGTGGCTAAGCTCAAACTTGTATGGTGGCTTGACATCAACGCGTGCATATCTGCTAAGAACTTATCCCCGGGAACAACCTATGCAGCTTACCTTGTGTATCAGCTCTCAGAAGTAAGATCGGGGTTGGCAAGAACACCTATTGTGTTGCGCGTCAATTATCGACAAAGTGCAGTTGTGAGTGTGCATAGTGTGATCCTAGACCCTATGCCTCAGGAAGCTCGACATAGAGGAGATGGGTGGATGGAGATTGAGATGGGTCAATTCTTCATTGAACAAGGAAATGATGATGCTGCTGTAGAGTGCAGTGTAACGGAAGTTAGTAACCTAAAGAGCGGCCTCATTGTGGAAGGTATTGAGCTTAGGCCTATACATATGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0008327 GO:0019899 GO:0036094 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0097159 GO:1901265 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

MBD zf-CW

Protein Analysis

254

Amino Acids

28.46

Weight (kDa)

7.65

Isoelectric Point (pI)

60.59

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
F-box-like	PF12937	2 - 44	2.4e-07	F-box-like
F-box	PF00646	3 - 42	1e-06	F-box domain
PP2	PF14299	96 - 251	2.4e-45	Phloem protein 2

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)

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0003822)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G35330 AT5G35330 AT5G35330 AT5G35330
fragaria_vesca	FvH4_4g06240 FvH4_4g06240 FvH4_4g06240 FvH4_4g06240 FvH4_4g06240
malus_domestica	MD13G1234700.v1.1 MD16G1239500.v1.1
prunus_persica	Prupe.1G065600_v2.0.a1 Prupe.1G065600_v2.0.a1
pyrus_communis	pycom16g20040
rosa_chinensis	RchiOBHm_Chr4g0397961
rosa_laevigata	RLG00000009392
rosa_multiflora	Rmu_co8227835.1_g000001 Rmu_co8419633.1_g000001 Rmu_sc0001074.1_g000002 Rmu_sc0001074.1_g000005 Rmu_sc0003773.1_g000027
rosa_roxburghii	Rroxscaffold_5G00342870 Rroxscaffold_5G00342930
rosa_rugosa	Rorug04G0004900 Rorug04G0005000
rosa_samantha	Rh4AG081200 Rh4AG081600 Rh4BG079200 Rh4CG088800 Rh4CG089100 Rh4DG074700
rosa_wichuraiana	Rw0G019360 Rw4G006770 Rw4G006790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	147
AccB7I	CCANNNNNTGG	1 cut(s)	348
AccBSI	CCGCTC	2 cut(s)	282, 720
AccII	CGCG	2 cut(s)	428, 537
AciI	CCGC	2 cut(s)	282, 720
AclWI	GGATC	2 cut(s)	213, 574
AfiI	CCNNNNNNNGG	2 cut(s)	348, 730
AflIII	ACRYGT	1 cut(s)	426
AgsI	TTSAA	1 cut(s)	659
AjnI	CCWGG	1 cut(s)	374
AluBI	AGCT	7 cut(s)	101, 261, 397, 473, 490, 605, 745
AluI	AGCT	7 cut(s)	101, 261, 397, 473, 490, 605, 745
Alw26I	GTCTC	2 cut(s)	31, 85
AlwI	GGATC	2 cut(s)	213, 574
Ama87I	CYCGRG	2 cut(s)	54, 454
AoxI	GGCC	2 cut(s)	721, 749
ApeKI	GCWGC	2 cut(s)	470, 677
AspLEI	GCGC	2 cut(s)	308, 537
AsuC2I	CCSGG	2 cut(s)	455, 456
AsuHPI	GGTGA	2 cut(s)	42, 221
AvaI	CYCGRG	2 cut(s)	54, 454
AxyI	CCTNAGG	1 cut(s)	597
BarI	GAAGNNNNNNTAC	2 cut(s)	194, 226
BbvI	GCAGC	2 cut(s)	482, 664
BccI	CCATC	4 cut(s)	242, 614, 622, 634
BcgI	CGANNNNNNTGC	2 cut(s)	45, 79
BciT130I	CCWGG	1 cut(s)	376
BcnI	CCSGG	2 cut(s)	455, 456
BcoDI	GTCTC	2 cut(s)	31, 85
BfaI	CTAG	2 cut(s)	269, 584
BfmI	CTRYAG	2 cut(s)	64, 681
BisI	GCNGC	4 cut(s)	283, 471, 678, 721
BlpI	GCTNAGC	1 cut(s)	393
BlsI	GCNGC	4 cut(s)	284, 472, 679, 722
Bme1390I	CCNGG	3 cut(s)	376, 455, 456
BmeT110I	CYCGRG	2 cut(s)	54, 454
BmrFI	CCNGG	3 cut(s)	376, 455, 456
BmsI	GCATC	2 cut(s)	49, 664
BplI	GAGNNNNNCTC	2 cut(s)	11, 43
BpmI	CTGGAG	1 cut(s)	358
Bpu10I	CCTNAGC	1 cut(s)	746
Bpu1102I	GCTNAGC	1 cut(s)	393
BpuEI	CTTGAG	1 cut(s)	369
BpuMI	CCSGG	2 cut(s)	455, 456
BsaJI	CCNNGG	2 cut(s)	453, 454
Bsc4I	CCNNNNNNNGG	2 cut(s)	348, 730
Bse21I	CCTNAGG	1 cut(s)	597
Bse3DI	GCAATG	2 cut(s)	253, 359
BseBI	CCWGG	1 cut(s)	376
BseDI	CCNNGG	2 cut(s)	453, 454
BseGI	GGATG	2 cut(s)	363, 633
BseLI	CCNNNNNNNGG	2 cut(s)	348, 730
BseMI	GCAATG	2 cut(s)	253, 359
BseMII	CTCAG	2 cut(s)	507, 611
BseRI	GAGGAG	1 cut(s)	630
BseXI	GCAGC	2 cut(s)	482, 664
BsgI	GTGCAG	3 cut(s)	208, 576, 709
Bsh1236I	CGCG	2 cut(s)	428, 537
BshFI	GGCC	2 cut(s)	723, 751
BsiHKCI	CYCGRG	2 cut(s)	54, 454
BsiSI	CCGG	1 cut(s)	455
BslI	CCNNNNNNNGG	2 cut(s)	348, 730
BsmAI	GTCTC	2 cut(s)	31, 85
BsmBI	CGTCTC	1 cut(s)	31
BsnI	GGCC	2 cut(s)	723, 751
BsoBI	CYCGRG	2 cut(s)	54, 454
Bsp143I	GATC	4 cut(s)	68, 205, 503, 579
Bsp1720I	GCTNAGC	1 cut(s)	393
BspACI	CCGC	2 cut(s)	282, 720
BspANI	GGCC	2 cut(s)	723, 751
BspCNI	CTCAG	2 cut(s)	506, 610
BspFNI	CGCG	2 cut(s)	428, 537
BspMAI	CTGCAG	1 cut(s)	68
BspPI	GGATC	2 cut(s)	213, 574
BsrBI	CCGCTC	2 cut(s)	282, 720
BsrDI	GCAATG	2 cut(s)	253, 359
BssECI	CCNNGG	2 cut(s)	453, 454
BssMI	GATC	4 cut(s)	68, 205, 503, 579
Bst2UI	CCWGG	1 cut(s)	376
Bst6I	CTCTTC	1 cut(s)	88
BstC8I	GCNNGC	2 cut(s)	64, 430
BstDEI	CTNAG	5 cut(s)	393, 441, 493, 597, 746
BstF5I	GGATG	2 cut(s)	363, 633
BstFNI	CGCG	2 cut(s)	428, 537
BstHHI	GCGC	2 cut(s)	308, 537
BstKTI	GATC	4 cut(s)	71, 208, 506, 582
BstMAI	GTCTC	2 cut(s)	31, 85
BstMBI	GATC	4 cut(s)	68, 205, 503, 579
BstNI	CCWGG	1 cut(s)	376
BstSCI	CCNGG	3 cut(s)	374, 453, 454
BstSFI	CTRYAG	2 cut(s)	64, 681
BstUI	CGCG	2 cut(s)	428, 537
BstV1I	GCAGC	2 cut(s)	482, 664
BstX2I	RGATCY	1 cut(s)	205
BstYI	RGATCY	1 cut(s)	205
Bsu36I	CCTNAGG	1 cut(s)	597
BsuRI	GGCC	2 cut(s)	723, 751
BtsCI	GGATG	2 cut(s)	363, 633
BtsI	GCAGTG	1 cut(s)	697
BtsIMutI	CAGTG	1 cut(s)	697
Cac8I	GCNNGC	2 cut(s)	64, 430
CfoI	GCGC	2 cut(s)	308, 537
Cfr9I	CCCGGG	1 cut(s)	454
CseI	GACGC	2 cut(s)	13, 526
CviAII	CATG	3 cut(s)	193, 256, 327
DdeI	CTNAG	5 cut(s)	393, 441, 493, 597, 746
DpnI	GATC	4 cut(s)	70, 207, 505, 581
DpnII	GATC	4 cut(s)	68, 205, 503, 579
Eam1104I	CTCTTC	1 cut(s)	88
EarI	CTCTTC	1 cut(s)	88
Eco147I	AGGCCT	1 cut(s)	751
Eco81I	CCTNAGG	1 cut(s)	597
Eco88I	CYCGRG	2 cut(s)	54, 454
EcoRII	CCWGG	1 cut(s)	374
Esp3I	CGTCTC	1 cut(s)	31
FaeI	CATG	3 cut(s)	196, 259, 330
FatI	CATG	3 cut(s)	192, 255, 326
FauNDI	CATATG	1 cut(s)	759
Fnu4HI	GCNGC	4 cut(s)	283, 471, 678, 721
FokI	GGATG	2 cut(s)	370, 640
Fsp4HI	GCNGC	4 cut(s)	283, 471, 678, 721
FspBI	CTAG	2 cut(s)	269, 584
GlaI	GCGC	2 cut(s)	307, 536
GluI	GCNGC	4 cut(s)	283, 471, 678, 721
GsuI	CTGGAG	1 cut(s)	358
HaeIII	GGCC	2 cut(s)	723, 751
HapII	CCGG	1 cut(s)	455
HgaI	GACGC	2 cut(s)	13, 526
HhaI	GCGC	2 cut(s)	308, 537
Hin1II	CATG	3 cut(s)	196, 259, 330
Hin6I	GCGC	2 cut(s)	306, 535
HinP1I	GCGC	2 cut(s)	306, 535
HinfI	GANTC	3 cut(s)	107, 164, 361
HpaII	CCGG	1 cut(s)	455
HphI	GGTGA	2 cut(s)	42, 221
Hpy188I	TCNGA	3 cut(s)	112, 163, 496
Hpy188III	TCNNGA	2 cut(s)	56, 599
HpyAV	CCTTC	2 cut(s)	196, 728
HpyCH4V	TGCA	9 cut(s)	66, 225, 266, 326, 432, 470, 557, 571, 690
HpyF3I	CTNAG	5 cut(s)	393, 441, 493, 597, 746
Hsp92II	CATG	3 cut(s)	196, 259, 330
HspAI	GCGC	2 cut(s)	306, 535
Kzo9I	GATC	4 cut(s)	68, 205, 503, 579
LpnPI	CCDG	7 cut(s)	27, 76, 106, 361, 388, 468, 584
Lsp1109I	GCAGC	2 cut(s)	482, 664
LweI	GCATC	2 cut(s)	49, 664
MaeI	CTAG	2 cut(s)	269, 584
MaeIII	GTNAC	3 cut(s)	251, 694, 707
MalI	GATC	4 cut(s)	70, 207, 505, 581
MbiI	CCGCTC	2 cut(s)	282, 720
MboI	GATC	4 cut(s)	68, 205, 503, 579
MboII	GAAGA	5 cut(s)	16, 75, 125, 159, 643
MflI	RGATCY	1 cut(s)	205
MluCI	AATT	3 cut(s)	321, 541, 647
MluI	ACGCGT	1 cut(s)	426
MlyI	GAGTC	1 cut(s)	355
MnlI	CCTC	8 cut(s)	63, 120, 147, 187, 305, 606, 608, 734
MspI	CCGG	1 cut(s)	455
MspR9I	CCNGG	3 cut(s)	376, 455, 456
MvaI	CCWGG	1 cut(s)	376
MvnI	CGCG	2 cut(s)	428, 537
NciI	CCSGG	2 cut(s)	455, 456
NdeI	CATATG	1 cut(s)	759
NdeII	GATC	4 cut(s)	68, 205, 503, 579
NlaIII	CATG	3 cut(s)	196, 259, 330
PaeR7I	CTCGAG	1 cut(s)	54
PceI	AGGCCT	1 cut(s)	751
PfeI	GAWTC	2 cut(s)	107, 164
PflMI	CCANNNNNTGG	1 cut(s)	348
PkrI	GCNGC	4 cut(s)	284, 472, 679, 722
PleI	GAGTC	1 cut(s)	355
PpsI	GAGTC	1 cut(s)	355
PsiI	TTATAA	1 cut(s)	147
Psp6I	CCWGG	1 cut(s)	374
PspGI	CCWGG	1 cut(s)	374
PstI	CTGCAG	1 cut(s)	68
PsuI	RGATCY	1 cut(s)	205
SatI	GCNGC	4 cut(s)	283, 471, 678, 721
Sau3AI	GATC	4 cut(s)	68, 205, 503, 579
SchI	GAGTC	1 cut(s)	355
ScrFI	CCNGG	3 cut(s)	376, 455, 456
SfaNI	GCATC	2 cut(s)	49, 664
SfcI	CTRYAG	2 cut(s)	64, 681
Sfr274I	CTCGAG	1 cut(s)	54
SlaI	CTCGAG	1 cut(s)	54
SmaI	CCCGGG	1 cut(s)	456
SmlI	CTYRAG	2 cut(s)	54, 384
SmoI	CTYRAG	2 cut(s)	54, 384
Sse9I	AATT	3 cut(s)	321, 541, 647
SseBI	AGGCCT	1 cut(s)	751
SsiI	CCGC	2 cut(s)	282, 720
SspMI	CTAG	2 cut(s)	269, 584
StuI	AGGCCT	1 cut(s)	751
StyD4I	CCNGG	3 cut(s)	374, 453, 454
TaqI	TCGA	3 cut(s)	55, 547, 607
TasI	AATT	3 cut(s)	321, 541, 647
TauI	GCSGC	2 cut(s)	285, 723
TfiI	GAWTC	2 cut(s)	107, 164
TscAI	CASTG	1 cut(s)	697
TseI	GCWGC	2 cut(s)	470, 677
TspDTI	ATGAA	3 cut(s)	17, 159, 643
TspGWI	ACGGA	1 cut(s)	713
TspMI	CCCGGG	1 cut(s)	454
TspRI	CASTG	1 cut(s)	697
Van91I	CCANNNNNTGG	1 cut(s)	348
XhoI	CTCGAG	1 cut(s)	54
XmaI	CCCGGG	1 cut(s)	454
XspI	CTAG	2 cut(s)	269, 584

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