Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0001350

Physical Location & Seq

Genomic Coordinates Forward (+)

32727180 .. 32730080

Gene Structure 2901 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG187800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 582 bp

ATGAACTTTTTCATTGGCATATGTGGGTTTTCTAGTTCGGAATTGGAAGAAGCTATTGTGGGTATATTGATTCCAAGCTGTTGGGTTAAAGGCATTCTTCTTCAGCAAAACATTCAGGCCATTGTTGCTATCGTTTTGTTCACGAACCTCATGATGTTAACTCTCTTGTGTTTCAATTGCAATGTGCATACTGATACCTATGGTCAAGCTGCGTCAAATTTAGTTGCTGGAACTAATCTTGAGCAGGCTATTCAACAGATAATGGATATGGGTGGTGGAAATTGGGACAGAGAAGCAGTTACACGTGCACTTCTAGCGGCTTTTAACAACAGAGCGAGCAGTGGACTACTTAGTATTCCAGAAACAGGGGAAGTTGCAGTGCCTGTGGCTCATTTCCCTGCAAGTCAGGCAACCGAAACAGGCATAGCCAATGCTCCACCTATCTCCGGAGCACCTAATTCAGGTCCCCTGAATATGTTTCCGCAGGAAGCACTGTCCGGTGCTGGTGCTGGTGCACTTGGATCCCTCGACTTCCTTAGAAACAATCATCAGGACCAAAAGGGATCCAGGGAGCAGGGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0031593 GO:0032182 GO:0043130 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0044877 GO:0070628 GO:0140030

KEGG Pathways

Metabolic & Signaling

ko03420 ko04141 map03420 map04141

Pfam Domains

Protein Families

UBA XPC-binding ubiquitin

Protein Analysis

193

Amino Acids

20.26

Weight (kDa)

4.63

Isoelectric Point (pI)

31.11

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
UBA	PF00627	81 - 110	4.3e-06	UBA/TS-N domain

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

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

Orthologous Genes (Group: OG0001350)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G16190 AT1G16190 AT1G79650 AT1G79650 AT1G79650 AT1G79650
fragaria_vesca	FvH4_6g28060
malus_domestica	MD09G1229800.v1.1 MD17G1228500.v1.1
prunus_persica	Prupe.3G105900_v2.0.a1
pyrus_communis	pycom09g14830 pycom17g23110
rosa_chinensis	RchiOBHm_Chr1g0327471 RchiOBHm_Chr2g0131831
rosa_laevigata	RLG00000019212 RLG00000021652 RLG00000030713
rosa_multiflora	Rmu_sc0002700.1_g000003 Rmu_sc0003731.1_g000013 Rmu_ssc0000213.1_g000013
rosa_roxburghii	Rroxscaffold_1G00054010 Rroxscaffold_2G00112590 Rroxscaffold_2G00127890 Rroxscaffold_4G00302760 Rroxscaffold_5G00338170 Rroxscaffold_5G00341450 Rroxscaffold_5G00371080 Rroxscaffold_6G00390940 Rroxscaffold_6G00420830 Rroxscaffold_7G00196290 Rroxscaffold_7G00209730
rosa_rugosa	Rorug02G0107700 Rorug02G0299900 Rorug02G0300000 Rorug02G0300100 Rorug02G0476100
rosa_samantha	Rh1AG084200 Rh1CG081900 Rh1CG257900 Rh1DG088500 Rh2AG352100 Rh2BG359300 Rh2CG337700 Rh2DG376600 Rh4BG187800 Rh5AG270100 Rh5CG354000 Rh5CG379700 Rh6AG057900 Rh7AG341300 Rh7CG359200
rosa_wichuraiana	Rw1G006620 Rw2G028620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccIII	TCCGGA	1 cut(s)	446
AciI	CCGC	2 cut(s)	317, 482
AclWI	GGATC	4 cut(s)	516, 529, 558, 571
AcsI	RAATTY	1 cut(s)	217
AcuI	CTGAAG	1 cut(s)	86
AcvI	CACGTG	1 cut(s)	305
AfiI	CCNNNNNNNGG	3 cut(s)	365, 446, 461
AflIII	ACRYGT	1 cut(s)	302
AgsI	TTSAA	2 cut(s)	175, 254
AjnI	CCWGG	1 cut(s)	566
AluBI	AGCT	3 cut(s)	53, 78, 209
AluI	AGCT	3 cut(s)	53, 78, 209
Alw21I	GWGCWC	3 cut(s)	310, 454, 517
Alw44I	GTGCAC	2 cut(s)	306, 513
AlwI	GGATC	4 cut(s)	516, 529, 558, 571
AlwNI	CAGNNNCTG	1 cut(s)	383
Aor13HI	TCCGGA	1 cut(s)	446
AoxI	GGCC	1 cut(s)	117
ApaLI	GTGCAC	2 cut(s)	306, 513
ApeKI	GCWGC	1 cut(s)	209
ApoI	RAATTY	1 cut(s)	217
Asp700I	GAANNNNTTC	1 cut(s)	8
AspS9I	GGNCC	2 cut(s)	464, 553
AvaII	GGWCC	2 cut(s)	464, 553
BaeGI	GKGCMC	2 cut(s)	310, 517
BamHI	GGATCC	2 cut(s)	521, 563
BbrPI	CACGTG	1 cut(s)	305
Bbv12I	GWGCWC	3 cut(s)	310, 454, 517
BbvI	GCAGC	1 cut(s)	196
BciT130I	CCWGG	1 cut(s)	568
BfaI	CTAG	2 cut(s)	33, 314
BisI	GCNGC	2 cut(s)	210, 318
BlsI	GCNGC	2 cut(s)	211, 319
Bme1390I	CCNGG	1 cut(s)	568
Bme18I	GGWCC	2 cut(s)	464, 553
BmgT120I	GGNCC	2 cut(s)	464, 553
BmiI	GGNNCC	3 cut(s)	466, 523, 565
BmrFI	CCNGG	1 cut(s)	568
BpuEI	CTTGAG	1 cut(s)	260
BsaAI	YACGTR	1 cut(s)	305
BsaJI	CCNNGG	1 cut(s)	567
BsaWI	WCCGGW	2 cut(s)	446, 497
BsaXI	ACNNNNNCTCC	1 cut(s)	563
Bsc4I	CCNNNNNNNGG	3 cut(s)	365, 446, 461
Bse3DI	GCAATG	1 cut(s)	187
BseAI	TCCGGA	1 cut(s)	446
BseBI	CCWGG	1 cut(s)	568
BseDI	CCNNGG	1 cut(s)	567
BseLI	CCNNNNNNNGG	3 cut(s)	365, 446, 461
BseMI	GCAATG	1 cut(s)	187
BseSI	GKGCMC	2 cut(s)	310, 517
BseXI	GCAGC	1 cut(s)	196
BshFI	GGCC	1 cut(s)	119
BsiHKAI	GWGCWC	3 cut(s)	310, 454, 517
BsiSI	CCGG	2 cut(s)	447, 498
BslFI	GGGAC	2 cut(s)	299, 450
BslI	CCNNNNNNNGG	3 cut(s)	365, 446, 461
BsmFI	GGGAC	2 cut(s)	299, 450
BsmI	GAATGC	1 cut(s)	93
BsnI	GGCC	1 cut(s)	119
Bsp1286I	GDGCHC	3 cut(s)	310, 454, 517
Bsp13I	TCCGGA	1 cut(s)	446
Bsp143I	GATC	2 cut(s)	521, 563
BspACI	CCGC	2 cut(s)	317, 482
BspANI	GGCC	1 cut(s)	119
BspEI	TCCGGA	1 cut(s)	446
BspHI	TCATGA	1 cut(s)	150
BspLI	GGNNCC	3 cut(s)	466, 523, 565
BspPI	GGATC	4 cut(s)	516, 529, 558, 571
BsrDI	GCAATG	1 cut(s)	187
BssECI	CCNNGG	1 cut(s)	567
BssMI	GATC	2 cut(s)	521, 563
Bst2UI	CCWGG	1 cut(s)	568
Bst4CI	ACNGT	1 cut(s)	495
BstBAI	YACGTR	1 cut(s)	305
BstC8I	GCNNGC	2 cut(s)	246, 337
BstDEI	CTNAG	2 cut(s)	350, 536
BstENI	CCTNNNNNAGG	1 cut(s)	459
BstKTI	GATC	2 cut(s)	524, 566
BstMBI	GATC	2 cut(s)	521, 563
BstMWI	GCNNNNNNNGC	3 cut(s)	125, 314, 407
BstNI	CCWGG	1 cut(s)	568
BstSCI	CCNGG	1 cut(s)	566
BstSLI	GKGCMC	2 cut(s)	310, 517
BstV1I	GCAGC	1 cut(s)	196
BstX2I	RGATCY	2 cut(s)	521, 563
BstXI	CCANNNNNNTGG	1 cut(s)	81
BstYI	RGATCY	2 cut(s)	521, 563
BsuRI	GGCC	1 cut(s)	119
BtsI	GCAGTG	2 cut(s)	346, 384
BtsIMutI	CAGTG	3 cut(s)	346, 384, 491
Cac8I	GCNNGC	2 cut(s)	246, 337
CaiI	CAGNNNCTG	1 cut(s)	383
CciI	TCATGA	1 cut(s)	150
Cfr13I	GGNCC	2 cut(s)	464, 553
CseI	GACGC	1 cut(s)	201
CviAII	CATG	1 cut(s)	151
CviJI	RGCY	8 cut(s)	53, 78, 119, 209, 248, 320, 389, 428
CviKI_1	RGCY	8 cut(s)	53, 78, 119, 209, 248, 320, 389, 428
DdeI	CTNAG	2 cut(s)	350, 536
DpnI	GATC	2 cut(s)	523, 565
DpnII	GATC	2 cut(s)	521, 563
Eco47I	GGWCC	2 cut(s)	464, 553
Eco57I	CTGAAG	1 cut(s)	86
Eco72I	CACGTG	1 cut(s)	305
EcoNI	CCTNNNNNAGG	1 cut(s)	459
EcoO109I	RGGNCCY	1 cut(s)	464
EcoRII	CCWGG	1 cut(s)	566
FaeI	CATG	1 cut(s)	154
FaiI	YATR	9 cut(s)	20, 22, 65, 152, 189, 201, 269, 425, 476
FalI	AAGNNNNNCTT	2 cut(s)	81, 113
FaqI	GGGAC	2 cut(s)	299, 450
FatI	CATG	1 cut(s)	150
FauNDI	CATATG	1 cut(s)	20
Fnu4HI	GCNGC	2 cut(s)	210, 318
Fsp4HI	GCNGC	2 cut(s)	210, 318
FspBI	CTAG	2 cut(s)	33, 314
GluI	GCNGC	2 cut(s)	210, 318
HaeIII	GGCC	1 cut(s)	119
HapII	CCGG	2 cut(s)	447, 498
HgaI	GACGC	1 cut(s)	201
Hin1II	CATG	1 cut(s)	154
HincII	GTYRAC	1 cut(s)	159
HindII	GTYRAC	1 cut(s)	159
HinfI	GANTC	1 cut(s)	70
HpaI	GTTAAC	1 cut(s)	159
HpaII	CCGG	2 cut(s)	447, 498
Hpy166II	GTNNAC	5 cut(s)	141, 159, 308, 344, 515
Hpy188I	TCNGA	1 cut(s)	40
Hpy188III	TCNNGA	6 cut(s)	142, 151, 239, 359, 447, 551
Hpy8I	GTNNAC	5 cut(s)	141, 159, 308, 344, 515
HpyCH4III	ACNGT	1 cut(s)	495
HpyCH4IV	ACGT	1 cut(s)	304
HpyCH4V	TGCA	6 cut(s)	180, 187, 308, 377, 401, 515
HpyF10VI	GCNNNNNNNGC	3 cut(s)	125, 314, 407
HpyF3I	CTNAG	2 cut(s)	350, 536
HpySE526I	ACGT	1 cut(s)	304
Hsp92II	CATG	1 cut(s)	154
Kpn2I	TCCGGA	1 cut(s)	446
KspAI	GTTAAC	1 cut(s)	159
Kzo9I	GATC	2 cut(s)	521, 563
LmnI	GCTCC	3 cut(s)	439, 449, 571
Lsp1109I	GCAGC	1 cut(s)	196
MaeI	CTAG	2 cut(s)	33, 314
MaeII	ACGT	1 cut(s)	304
MaeIII	GTNAC	1 cut(s)	298
MalI	GATC	2 cut(s)	523, 565
MboI	GATC	2 cut(s)	521, 563
MboII	GAAGA	3 cut(s)	59, 89, 92
MfeI	CAATTG	1 cut(s)	175
MflI	RGATCY	2 cut(s)	521, 563
MhlI	GDGCHC	3 cut(s)	310, 454, 517
MluCI	AATT	5 cut(s)	41, 175, 217, 280, 457
MnlI	CCTC	2 cut(s)	158, 536
MroI	TCCGGA	1 cut(s)	446
MroXI	GAANNNNTTC	1 cut(s)	8
MseI	TTAA	3 cut(s)	87, 158, 324
MspI	CCGG	2 cut(s)	447, 498
MspR9I	CCNGG	1 cut(s)	568
MunI	CAATTG	1 cut(s)	175
Mva1269I	GAATGC	1 cut(s)	93
MvaI	CCWGG	1 cut(s)	568
MwoI	GCNNNNNNNGC	3 cut(s)	125, 314, 407
NdeI	CATATG	1 cut(s)	20
NdeII	GATC	2 cut(s)	521, 563
NlaIII	CATG	1 cut(s)	154
NlaIV	GGNNCC	3 cut(s)	466, 523, 565
PagI	TCATGA	1 cut(s)	150
PctI	GAATGC	1 cut(s)	93
PdmI	GAANNNNTTC	1 cut(s)	8
PfeI	GAWTC	1 cut(s)	70
PkrI	GCNGC	2 cut(s)	211, 319
PmaCI	CACGTG	1 cut(s)	305
PmlI	CACGTG	1 cut(s)	305
Ppu21I	YACGTR	1 cut(s)	305
PpuMI	RGGWCCY	1 cut(s)	464
Psp5II	RGGWCCY	1 cut(s)	464
Psp6I	CCWGG	1 cut(s)	566
PspCI	CACGTG	1 cut(s)	305
PspGI	CCWGG	1 cut(s)	566
PspN4I	GGNNCC	3 cut(s)	466, 523, 565
PspPI	GGNCC	2 cut(s)	464, 553
PspPPI	RGGWCCY	1 cut(s)	464
PstNI	CAGNNNCTG	1 cut(s)	383
PsuI	RGATCY	2 cut(s)	521, 563
SaqAI	TTAA	3 cut(s)	87, 158, 324
SatI	GCNGC	2 cut(s)	210, 318
Sau3AI	GATC	2 cut(s)	521, 563
Sau96I	GGNCC	2 cut(s)	464, 553
ScrFI	CCNGG	1 cut(s)	568
SduI	GDGCHC	3 cut(s)	310, 454, 517
SetI	ASST	9 cut(s)	55, 80, 150, 200, 211, 307, 442, 457, 466
SinI	GGWCC	2 cut(s)	464, 553
SmlI	CTYRAG	1 cut(s)	239
SmoI	CTYRAG	1 cut(s)	239
Sse9I	AATT	5 cut(s)	41, 175, 217, 280, 457
SsiI	CCGC	2 cut(s)	317, 482
SspMI	CTAG	2 cut(s)	33, 314
StyD4I	CCNGG	1 cut(s)	566
TaaI	ACNGT	1 cut(s)	495
TaiI	ACGT	1 cut(s)	307
TaqI	TCGA	1 cut(s)	528
TasI	AATT	5 cut(s)	41, 175, 217, 280, 457
TauI	GCSGC	1 cut(s)	320
TfiI	GAWTC	1 cut(s)	70
Tru1I	TTAA	3 cut(s)	87, 158, 324
Tru9I	TTAA	3 cut(s)	87, 158, 324
TscAI	CASTG	3 cut(s)	346, 384, 498
TseI	GCWGC	1 cut(s)	209
TspDTI	ATGAA	1 cut(s)	17
TspRI	CASTG	3 cut(s)	346, 384, 498
VneI	GTGCAC	2 cut(s)	306, 513
VpaK11BI	GGWCC	2 cut(s)	464, 553
XagI	CCTNNNNNAGG	1 cut(s)	459
XapI	RAATTY	1 cut(s)	217
XmnI	GAANNNNTTC	1 cut(s)	8
XspI	CTAG	2 cut(s)	33, 314

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