Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5C

Orthogroup ID

OG0001350

Physical Location & Seq

Genomic Coordinates Forward (+)

41195424 .. 41197281

Gene Structure 1858 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5CG354000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 501 bp

ATGGATATGGGTGGTGGAAATTGGGACAGAGAAACAGTTACACGTGCACTTCGAGCGGCTTTTAACAACCCAGATGTTGTTCAGAGTATTCCAGAAACAGCGGAAGTTGCAGTGCCTGTGGCTCATTTCCCTGCAAGTCAGGCAACCGAAACAGGCATAGCCAATGCTCCACCTATCTCCGGAGCACCTAATTCAGGTCCCCTGAATATGTTTCCGCAGGAAGCACTGTCTGGTGCTGGTGCTGGTGCACTTGGATCCCTCGACTTCCTTAGAAACAATCATCAGTTCCAAAAGTTGCGCTCAATGTTACAAGCCAACCCACAAATTTTACAGCCCATGCTGCAGGAACTTGGAAAGCAAAACCCACAGCTTTTAAGATTAATTCAAGAGCACCATGCCGAGTTCCTTCAGTTAATAAATGAACCTCTTGAGGGTTCTGAAGGGACCAAAAGGGAGAAAGGGAGCAGGGGTAGAAGCTTGGTATTTTCATATGTGGAATGA

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

166

Amino Acids

17.98

Weight (kDa)

5.57

Isoelectric Point (pI)

49.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XPC-binding	PF09280	87 - 142	1.8e-22	XPC-binding domain

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: 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)
AccBSI	CCGCTC	1 cut(s)	56
AccIII	TCCGGA	1 cut(s)	179
AciI	CCGC	3 cut(s)	56, 101, 215
AclWI	GGATC	2 cut(s)	249, 262
AcsI	RAATTY	1 cut(s)	324
AcuI	CTGAAG	2 cut(s)	392, 459
AcvI	CACGTG	1 cut(s)	44
AfiI	CCNNNNNNNGG	3 cut(s)	179, 194, 431
AflIII	ACRYGT	1 cut(s)	41
AgsI	TTSAA	1 cut(s)	386
AluBI	AGCT	2 cut(s)	370, 477
AluI	AGCT	2 cut(s)	370, 477
Alw21I	GWGCWC	4 cut(s)	49, 187, 250, 393
Alw44I	GTGCAC	2 cut(s)	45, 246
AlwI	GGATC	2 cut(s)	249, 262
AlwNI	CAGNNNCTG	1 cut(s)	116
Aor13HI	TCCGGA	1 cut(s)	179
ApaLI	GTGCAC	2 cut(s)	45, 246
ApeKI	GCWGC	1 cut(s)	340
ApoI	RAATTY	1 cut(s)	324
AseI	ATTAAT	1 cut(s)	380
AspLEI	GCGC	1 cut(s)	300
AspS9I	GGNCC	2 cut(s)	197, 444
AvaII	GGWCC	2 cut(s)	197, 444
BaeGI	GKGCMC	2 cut(s)	49, 250
BamHI	GGATCC	1 cut(s)	254
BbrPI	CACGTG	1 cut(s)	44
Bbv12I	GWGCWC	4 cut(s)	49, 187, 250, 393
BbvI	GCAGC	1 cut(s)	327
BfmI	CTRYAG	1 cut(s)	341
BisI	GCNGC	2 cut(s)	57, 341
BlsI	GCNGC	2 cut(s)	58, 342
Bme18I	GGWCC	2 cut(s)	197, 444
BmgT120I	GGNCC	2 cut(s)	197, 444
BmiI	GGNNCC	3 cut(s)	199, 256, 445
BpuEI	CTTGAG	1 cut(s)	449
BsaAI	YACGTR	1 cut(s)	44
BsaWI	WCCGGW	1 cut(s)	179
BsaXI	ACNNNNNCTCC	2 cut(s)	454, 484
Bsc4I	CCNNNNNNNGG	3 cut(s)	179, 194, 431
BseAI	TCCGGA	1 cut(s)	179
BseLI	CCNNNNNNNGG	3 cut(s)	179, 194, 431
BseSI	GKGCMC	2 cut(s)	49, 250
BseXI	GCAGC	1 cut(s)	327
BsiHKAI	GWGCWC	4 cut(s)	49, 187, 250, 393
BsiSI	CCGG	1 cut(s)	180
BslFI	GGGAC	3 cut(s)	38, 183, 457
BslI	CCNNNNNNNGG	3 cut(s)	179, 194, 431
BsmFI	GGGAC	3 cut(s)	38, 183, 457
Bsp1286I	GDGCHC	4 cut(s)	49, 187, 250, 393
Bsp13I	TCCGGA	1 cut(s)	179
Bsp143I	GATC	1 cut(s)	254
BspACI	CCGC	3 cut(s)	56, 101, 215
BspEI	TCCGGA	1 cut(s)	179
BspLI	GGNNCC	3 cut(s)	199, 256, 445
BspMAI	CTGCAG	1 cut(s)	345
BspPI	GGATC	2 cut(s)	249, 262
BsrBI	CCGCTC	1 cut(s)	56
BssMI	GATC	1 cut(s)	254
Bst4CI	ACNGT	2 cut(s)	37, 228
BstBAI	YACGTR	1 cut(s)	44
BstDEI	CTNAG	1 cut(s)	269
BstENI	CCTNNNNNAGG	1 cut(s)	192
BstHHI	GCGC	1 cut(s)	300
BstKTI	GATC	1 cut(s)	257
BstMBI	GATC	1 cut(s)	254
BstMWI	GCNNNNNNNGC	4 cut(s)	53, 107, 140, 340
BstSFI	CTRYAG	1 cut(s)	341
BstSLI	GKGCMC	2 cut(s)	49, 250
BstV1I	GCAGC	1 cut(s)	327
BstX2I	RGATCY	1 cut(s)	254
BstYI	RGATCY	1 cut(s)	254
BtsI	GCAGTG	1 cut(s)	117
BtsIMutI	CAGTG	2 cut(s)	117, 224
CaiI	CAGNNNCTG	1 cut(s)	116
CfoI	GCGC	1 cut(s)	300
Cfr13I	GGNCC	2 cut(s)	197, 444
CviAII	CATG	2 cut(s)	337, 395
CviJI	RGCY	7 cut(s)	59, 122, 161, 314, 334, 370, 477
CviKI_1	RGCY	7 cut(s)	59, 122, 161, 314, 334, 370, 477
DdeI	CTNAG	1 cut(s)	269
DpnI	GATC	1 cut(s)	256
DpnII	GATC	1 cut(s)	254
Eco47I	GGWCC	2 cut(s)	197, 444
Eco57I	CTGAAG	2 cut(s)	392, 459
Eco72I	CACGTG	1 cut(s)	44
EcoNI	CCTNNNNNAGG	1 cut(s)	192
EcoO109I	RGGNCCY	1 cut(s)	197
FaeI	CATG	2 cut(s)	340, 398
FaiI	YATR	7 cut(s)	8, 158, 209, 338, 396, 490, 492
FaqI	GGGAC	3 cut(s)	38, 183, 457
FatI	CATG	2 cut(s)	336, 394
FauNDI	CATATG	1 cut(s)	490
Fnu4HI	GCNGC	2 cut(s)	57, 341
Fsp4HI	GCNGC	2 cut(s)	57, 341
GlaI	GCGC	1 cut(s)	299
GluI	GCNGC	2 cut(s)	57, 341
HapII	CCGG	1 cut(s)	180
HhaI	GCGC	1 cut(s)	300
Hin1II	CATG	2 cut(s)	340, 398
Hin6I	GCGC	1 cut(s)	298
HinP1I	GCGC	1 cut(s)	298
HindIII	AAGCTT	1 cut(s)	475
HpaII	CCGG	1 cut(s)	180
Hpy166II	GTNNAC	2 cut(s)	47, 248
Hpy188I	TCNGA	2 cut(s)	84, 439
Hpy188III	TCNNGA	4 cut(s)	92, 180, 386, 428
Hpy8I	GTNNAC	2 cut(s)	47, 248
HpyAV	CCTTC	2 cut(s)	416, 434
HpyCH4III	ACNGT	2 cut(s)	37, 228
HpyCH4IV	ACGT	1 cut(s)	43
HpyCH4V	TGCA	5 cut(s)	47, 110, 134, 248, 343
HpyF10VI	GCNNNNNNNGC	4 cut(s)	53, 107, 140, 340
HpyF3I	CTNAG	1 cut(s)	269
HpySE526I	ACGT	1 cut(s)	43
Hsp92II	CATG	2 cut(s)	340, 398
HspAI	GCGC	1 cut(s)	298
Kpn2I	TCCGGA	1 cut(s)	179
Kzo9I	GATC	1 cut(s)	254
LmnI	GCTCC	3 cut(s)	172, 182, 462
Lsp1109I	GCAGC	1 cut(s)	327
MaeII	ACGT	1 cut(s)	43
MaeIII	GTNAC	2 cut(s)	37, 306
MalI	GATC	1 cut(s)	256
MbiI	CCGCTC	1 cut(s)	56
MboI	GATC	1 cut(s)	254
MflI	RGATCY	1 cut(s)	254
MhlI	GDGCHC	4 cut(s)	49, 187, 250, 393
MluCI	AATT	4 cut(s)	19, 190, 324, 381
MnlI	CCTC	3 cut(s)	269, 424, 435
MroI	TCCGGA	1 cut(s)	179
MseI	TTAA	4 cut(s)	63, 374, 380, 413
MspA1I	CMGCKG	1 cut(s)	101
MspI	CCGG	1 cut(s)	180
MwoI	GCNNNNNNNGC	4 cut(s)	53, 107, 140, 340
NdeI	CATATG	1 cut(s)	490
NdeII	GATC	1 cut(s)	254
NlaIII	CATG	2 cut(s)	340, 398
NlaIV	GGNNCC	3 cut(s)	199, 256, 445
NmeAIII	GCCGAG	1 cut(s)	424
PcsI	WCGNNNNNNNCGW	1 cut(s)	49
PkrI	GCNGC	2 cut(s)	58, 342
PmaCI	CACGTG	1 cut(s)	44
PmlI	CACGTG	1 cut(s)	44
Ppu21I	YACGTR	1 cut(s)	44
PpuMI	RGGWCCY	1 cut(s)	197
PshBI	ATTAAT	1 cut(s)	380
Psp5II	RGGWCCY	1 cut(s)	197
PspCI	CACGTG	1 cut(s)	44
PspN4I	GGNNCC	3 cut(s)	199, 256, 445
PspPI	GGNCC	2 cut(s)	197, 444
PspPPI	RGGWCCY	1 cut(s)	197
PstI	CTGCAG	1 cut(s)	345
PstNI	CAGNNNCTG	1 cut(s)	116
PsuI	RGATCY	1 cut(s)	254
SaqAI	TTAA	4 cut(s)	63, 374, 380, 413
SatI	GCNGC	2 cut(s)	57, 341
Sau3AI	GATC	1 cut(s)	254
Sau96I	GGNCC	2 cut(s)	197, 444
SduI	GDGCHC	4 cut(s)	49, 187, 250, 393
SetI	ASST	7 cut(s)	46, 175, 190, 199, 372, 427, 479
SfcI	CTRYAG	1 cut(s)	341
SinI	GGWCC	2 cut(s)	197, 444
SmlI	CTYRAG	1 cut(s)	428
SmoI	CTYRAG	1 cut(s)	428
Sse9I	AATT	4 cut(s)	19, 190, 324, 381
SsiI	CCGC	3 cut(s)	56, 101, 215
TaaI	ACNGT	2 cut(s)	37, 228
TaiI	ACGT	1 cut(s)	46
TaqI	TCGA	2 cut(s)	52, 261
TasI	AATT	4 cut(s)	19, 190, 324, 381
TauI	GCSGC	1 cut(s)	59
Tru1I	TTAA	4 cut(s)	63, 374, 380, 413
Tru9I	TTAA	4 cut(s)	63, 374, 380, 413
TscAI	CASTG	2 cut(s)	117, 231
TseI	GCWGC	1 cut(s)	340
TspDTI	ATGAA	2 cut(s)	435, 477
TspRI	CASTG	2 cut(s)	117, 231
VneI	GTGCAC	2 cut(s)	45, 246
VpaK11BI	GGWCC	2 cut(s)	197, 444
VspI	ATTAAT	1 cut(s)	380
XagI	CCTNNNNNAGG	1 cut(s)	192
XapI	RAATTY	1 cut(s)	324

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