Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000002

Orthogroup ID

OG0001350

Physical Location & Seq

Genomic Coordinates Reverse (-)

63459038 .. 63462914

Gene Structure 3877 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_2G00127890.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 699 bp

ATGTTCATACTCGCTCCTTTGAATGGGAGACTCAGTGCAAGAGTGAAGTATGACTTGAGTGACGATTTCAATTTGCTCGGCCCTCAAAGAGTACCACTCCTGCTTCGTACGCCGCCGAGTATGCTTCTTTCTGCAGTTCCTATAATGATATTTGATGCATGTGATTTGAGCCCAGAAGAAAAGTTCCTGAGTTTGATTTGTGTGCATACTGATACCTATGGTCAAGCTGCGTCAAATTTAGTTGCTGGAACTAATCTTGAGCAGACTATTCAACAGATAATGGATATGGGTGGTGGAAATTGGGACGAGAAACAGTTACACGTGCGCTTCGAGCGGCTTTTAACAACGCAGATTGGAATTCTCCAAGAAGCACCGTCCGATCTTGGTGCTTGGTGCTGTGCACTTGGATCCCTCGACTTCCTTAGAAACAATCATCAATTCCAAACATTGCGCTCAATGTTACAAGCCAACCCACAAATTTTACAGCCCATGCTGCAGGAACTTGGAAAGCAAAACCCACAGCTTTTAAGTTTAATTCAGGAGCACCATGCCGAGTTCCTTCAGTTAATAAATGAACCTCTTGAGGGTTCGAAGGGACCAAAAGGGAGAAAGGGAGCAGGGGTAGAAGCTTGGTATTTTCATATGTGGAATGAGGGGGCTAAGTTTGTCGTCAATATATATATATCTAGGAGCTATTAG

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

232

Amino Acids

26.08

Weight (kDa)

5.66

Isoelectric Point (pI)

45.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XPC-binding	PF09280	138 - 193	1e-21	XPC-binding 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

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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)	334
AciI	CCGC	2 cut(s)	113, 334
AclWI	GGATC	2 cut(s)	402, 415
AcsI	RAATTY	3 cut(s)	235, 357, 477
AcuI	CTGAAG	1 cut(s)	545
AcvI	CACGTG	1 cut(s)	322
AfaI	GTAC	2 cut(s)	93, 109
AfiI	CCNNNNNNNGG	2 cut(s)	23, 584
AflIII	ACRYGT	1 cut(s)	319
AgsI	TTSAA	3 cut(s)	22, 70, 272
AluBI	AGCT	4 cut(s)	227, 523, 629, 693
AluI	AGCT	4 cut(s)	227, 523, 629, 693
Alw21I	GWGCWC	2 cut(s)	403, 546
Alw26I	GTCTC	1 cut(s)	22
Alw44I	GTGCAC	1 cut(s)	399
AlwI	GGATC	2 cut(s)	402, 415
AoxI	GGCC	1 cut(s)	79
ApaLI	GTGCAC	1 cut(s)	399
ApeKI	GCWGC	2 cut(s)	227, 493
ApoI	RAATTY	3 cut(s)	235, 357, 477
AspLEI	GCGC	2 cut(s)	327, 453
AspS9I	GGNCC	2 cut(s)	80, 596
AsuII	TTCGAA	1 cut(s)	590
AvaII	GGWCC	1 cut(s)	596
BaeGI	GKGCMC	1 cut(s)	403
BamHI	GGATCC	1 cut(s)	407
BanII	GRGCYC	1 cut(s)	173
BbrPI	CACGTG	1 cut(s)	322
Bbv12I	GWGCWC	2 cut(s)	403, 546
BbvI	GCAGC	2 cut(s)	214, 480
BcgI	CGANNNNNNTGC	2 cut(s)	368, 402
BcoDI	GTCTC	1 cut(s)	22
BfaI	CTAG	1 cut(s)	687
BfmI	CTRYAG	2 cut(s)	132, 494
BisI	GCNGC	4 cut(s)	113, 228, 335, 494
BlsI	GCNGC	4 cut(s)	114, 229, 336, 495
Bme18I	GGWCC	1 cut(s)	596
BmgT120I	GGNCC	2 cut(s)	80, 596
BmiI	GGNNCC	2 cut(s)	409, 597
BmsI	GCATC	1 cut(s)	145
BplI	GAGNNNNNCTC	2 cut(s)	81, 113
Bpu14I	TTCGAA	1 cut(s)	590
BpuEI	CTTGAG	3 cut(s)	76, 278, 602
BsaAI	YACGTR	1 cut(s)	322
BsaXI	ACNNNNNCTCC	4 cut(s)	19, 49, 606, 636
Bsc4I	CCNNNNNNNGG	2 cut(s)	23, 584
Bse3DI	GCAATG	1 cut(s)	446
BseLI	CCNNNNNNNGG	2 cut(s)	23, 584
BseMI	GCAATG	1 cut(s)	446
BseMII	CTCAG	2 cut(s)	46, 179
BseSI	GKGCMC	1 cut(s)	403
BseXI	GCAGC	2 cut(s)	214, 480
BshFI	GGCC	1 cut(s)	81
BsiHKAI	GWGCWC	2 cut(s)	403, 546
BsiWI	CGTACG	1 cut(s)	107
BslFI	GGGAC	2 cut(s)	317, 609
BslI	CCNNNNNNNGG	2 cut(s)	23, 584
BsmAI	GTCTC	1 cut(s)	22
BsmFI	GGGAC	2 cut(s)	317, 609
BsnI	GGCC	1 cut(s)	81
Bsp119I	TTCGAA	1 cut(s)	590
Bsp1286I	GDGCHC	3 cut(s)	173, 403, 546
Bsp143I	GATC	2 cut(s)	379, 407
BspACI	CCGC	2 cut(s)	113, 334
BspANI	GGCC	1 cut(s)	81
BspCNI	CTCAG	2 cut(s)	45, 180
BspLI	GGNNCC	2 cut(s)	409, 597
BspMAI	CTGCAG	2 cut(s)	136, 498
BspPI	GGATC	2 cut(s)	402, 415
BspT104I	TTCGAA	1 cut(s)	590
BsrBI	CCGCTC	1 cut(s)	334
BsrDI	GCAATG	1 cut(s)	446
BssMI	GATC	2 cut(s)	379, 407
Bst4CI	ACNGT	2 cut(s)	315, 375
BstBAI	YACGTR	1 cut(s)	322
BstBI	TTCGAA	1 cut(s)	590
BstDEI	CTNAG	4 cut(s)	32, 188, 422, 660
BstHHI	GCGC	2 cut(s)	327, 453
BstKTI	GATC	2 cut(s)	382, 410
BstMAI	GTCTC	1 cut(s)	22
BstMBI	GATC	2 cut(s)	379, 407
BstMWI	GCNNNNNNNGC	4 cut(s)	109, 121, 331, 493
BstNSI	RCATGY	1 cut(s)	162
BstSFI	CTRYAG	2 cut(s)	132, 494
BstSLI	GKGCMC	1 cut(s)	403
BstV1I	GCAGC	2 cut(s)	214, 480
BstX2I	RGATCY	1 cut(s)	407
BstYI	RGATCY	1 cut(s)	407
BsuRI	GGCC	1 cut(s)	81
BtsIMutI	CAGTG	1 cut(s)	40
CfoI	GCGC	2 cut(s)	327, 453
Cfr13I	GGNCC	2 cut(s)	80, 596
CseI	GACGC	1 cut(s)	219
Csp6I	GTAC	2 cut(s)	92, 108
CviAII	CATG	3 cut(s)	159, 490, 548
CviQI	GTAC	2 cut(s)	92, 108
DdeI	CTNAG	4 cut(s)	32, 188, 422, 660
DpnI	GATC	2 cut(s)	381, 409
DpnII	GATC	2 cut(s)	379, 407
Eco24I	GRGCYC	1 cut(s)	173
Eco47I	GGWCC	1 cut(s)	596
Eco57I	CTGAAG	1 cut(s)	545
Eco72I	CACGTG	1 cut(s)	322
EcoRI	GAATTC	1 cut(s)	357
EcoT22I	ATGCAT	1 cut(s)	160
EcoT38I	GRGCYC	1 cut(s)	173
FaeI	CATG	3 cut(s)	162, 493, 551
FalI	AAGNNNNNCTT	2 cut(s)	38, 70
FaqI	GGGAC	2 cut(s)	317, 609
FatI	CATG	3 cut(s)	158, 489, 547
FauNDI	CATATG	1 cut(s)	642
Fnu4HI	GCNGC	4 cut(s)	113, 228, 335, 494
FriOI	GRGCYC	1 cut(s)	173
Fsp4HI	GCNGC	4 cut(s)	113, 228, 335, 494
FspBI	CTAG	1 cut(s)	687
GlaI	GCGC	2 cut(s)	326, 452
GluI	GCNGC	4 cut(s)	113, 228, 335, 494
HaeIII	GGCC	1 cut(s)	81
HgaI	GACGC	1 cut(s)	219
HhaI	GCGC	2 cut(s)	327, 453
Hin1II	CATG	3 cut(s)	162, 493, 551
Hin6I	GCGC	2 cut(s)	325, 451
HinP1I	GCGC	2 cut(s)	325, 451
HindIII	AAGCTT	1 cut(s)	627
HinfI	GANTC	1 cut(s)	30
Hpy166II	GTNNAC	1 cut(s)	401
Hpy188I	TCNGA	1 cut(s)	379
Hpy188III	TCNNGA	4 cut(s)	187, 257, 539, 581
Hpy8I	GTNNAC	1 cut(s)	401
HpyAV	CCTTC	2 cut(s)	569, 586
HpyCH4III	ACNGT	2 cut(s)	315, 375
HpyCH4IV	ACGT	1 cut(s)	321
HpyCH4V	TGCA	6 cut(s)	38, 134, 158, 205, 401, 496
HpyF10VI	GCNNNNNNNGC	4 cut(s)	109, 121, 331, 493
HpyF3I	CTNAG	4 cut(s)	32, 188, 422, 660
HpySE526I	ACGT	1 cut(s)	321
Hsp92II	CATG	3 cut(s)	162, 493, 551
HspAI	GCGC	2 cut(s)	325, 451
Kzo9I	GATC	2 cut(s)	379, 407
LmnI	GCTCC	4 cut(s)	19, 541, 614, 690
LpnPI	CCDG	7 cut(s)	113, 186, 200, 231, 482, 524, 603
Lsp1109I	GCAGC	2 cut(s)	214, 480
LweI	GCATC	1 cut(s)	145
MaeI	CTAG	1 cut(s)	687
MaeII	ACGT	1 cut(s)	321
MaeIII	GTNAC	3 cut(s)	59, 315, 459
MalI	GATC	2 cut(s)	381, 409
MbiI	CCGCTC	1 cut(s)	334
MboI	GATC	2 cut(s)	379, 407
MboII	GAAGA	1 cut(s)	188
MflI	RGATCY	1 cut(s)	407
MhlI	GDGCHC	3 cut(s)	173, 403, 546
MluCI	AATT	7 cut(s)	70, 235, 298, 357, 437, 477, 534
MlyI	GAGTC	1 cut(s)	24
MnlI	CCTC	5 cut(s)	93, 422, 577, 588, 646
Mph1103I	ATGCAT	1 cut(s)	160
MseI	TTAA	4 cut(s)	341, 527, 533, 566
MwoI	GCNNNNNNNGC	4 cut(s)	109, 121, 331, 493
NdeI	CATATG	1 cut(s)	642
NdeII	GATC	2 cut(s)	379, 407
NlaIII	CATG	3 cut(s)	162, 493, 551
NlaIV	GGNNCC	2 cut(s)	409, 597
NmeAIII	GCCGAG	3 cut(s)	57, 141, 577
NmuCI	GTSAC	1 cut(s)	59
NsiI	ATGCAT	1 cut(s)	160
NspI	RCATGY	1 cut(s)	162
NspV	TTCGAA	1 cut(s)	590
PcsI	WCGNNNNNNNCGW	1 cut(s)	327
Pfl23II	CGTACG	1 cut(s)	107
PkrI	GCNGC	4 cut(s)	114, 229, 336, 495
PleI	GAGTC	1 cut(s)	24
PmaCI	CACGTG	1 cut(s)	322
PmlI	CACGTG	1 cut(s)	322
PpsI	GAGTC	1 cut(s)	24
Ppu21I	YACGTR	1 cut(s)	322
PspCI	CACGTG	1 cut(s)	322
PspLI	CGTACG	1 cut(s)	107
PspN4I	GGNNCC	2 cut(s)	409, 597
PspPI	GGNCC	2 cut(s)	80, 596
PstI	CTGCAG	2 cut(s)	136, 498
PsuI	RGATCY	1 cut(s)	407
RsaI	GTAC	2 cut(s)	93, 109
RsaNI	GTAC	2 cut(s)	92, 108
SaqAI	TTAA	4 cut(s)	341, 527, 533, 566
SatI	GCNGC	4 cut(s)	113, 228, 335, 494
Sau3AI	GATC	2 cut(s)	379, 407
Sau96I	GGNCC	2 cut(s)	80, 596
SchI	GAGTC	1 cut(s)	24
SduI	GDGCHC	3 cut(s)	173, 403, 546
SetI	ASST	7 cut(s)	218, 229, 324, 525, 580, 631, 695
SfaNI	GCATC	1 cut(s)	145
SfcI	CTRYAG	2 cut(s)	132, 494
SfuI	TTCGAA	1 cut(s)	590
SinI	GGWCC	1 cut(s)	596
SmlI	CTYRAG	3 cut(s)	55, 257, 581
SmoI	CTYRAG	3 cut(s)	55, 257, 581
Sse9I	AATT	7 cut(s)	70, 235, 298, 357, 437, 477, 534
SsiI	CCGC	2 cut(s)	113, 334
SspMI	CTAG	1 cut(s)	687
TaaI	ACNGT	2 cut(s)	315, 375
TaiI	ACGT	1 cut(s)	324
TaqI	TCGA	3 cut(s)	330, 414, 590
TasI	AATT	7 cut(s)	70, 235, 298, 357, 437, 477, 534
TauI	GCSGC	2 cut(s)	115, 337
Tru1I	TTAA	4 cut(s)	341, 527, 533, 566
Tru9I	TTAA	4 cut(s)	341, 527, 533, 566
TscAI	CASTG	1 cut(s)	40
TseFI	GTSAC	1 cut(s)	59
TseI	GCWGC	2 cut(s)	227, 493
Tsp45I	GTSAC	1 cut(s)	59
TspDTI	ATGAA	2 cut(s)	588, 629
TspRI	CASTG	1 cut(s)	40
VneI	GTGCAC	1 cut(s)	399
VpaK11BI	GGWCC	1 cut(s)	596
XapI	RAATTY	3 cut(s)	235, 357, 477
XceI	RCATGY	1 cut(s)	162
XspI	CTAG	1 cut(s)	687
Zsp2I	ATGCAT	1 cut(s)	160

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