Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0018554

Physical Location & Seq

Genomic Coordinates Reverse (-)

32053163 .. 32055687

Gene Structure 2525 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00240360.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 552 bp

ATGGGGATTTGTGGGCTACTCGATTTAAGGGTTTCACGGCTGCTCAATTTGGGGGTTTCACTAAGTTCTTCTCTCTTTCTCTGTGCATTGATTCGACACAACCTAGAAGGAGAAGCAATCATAGTTCATGTTCATACTCGCTCCTTTGAGTATGGGTTTTGGGATCTGCAATCTAGACGGAGAAGCAACCGCATACCCTTCTATTTGTTAGGCGATGACGATAACGATGACTTAATTCAACTTGCTGCTATGGTGGTGGTTCCTGCTGCCACCCAGCCCAAGCCATTTTCAACATGGGAGACTCAGTGCAAGAGTGAAAATACTCTTCATTTTCAGTTCCAAACGTTGCGCTCAATGTTACAAGTCAACCCACAAATTTTACAGCCCATGCTGCAGGAACTTGGAAAGCAAAACCCACAGCTTTTAAGTTTAATTCAGGAGCACCATGCCGAGTTCCTTCAGTTAATAAATGAACCTCTTGAGGGTTCTGAAGGGACCAAAAGGGAGAAAGGGAGCAGGGGTAGAAGCTTGGTATTTTCTTATGTGGAATGA

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

183

Amino Acids

20.86

Weight (kDa)

6.07

Isoelectric Point (pI)

56.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
XPC-binding	PF09280	112 - 159	2.1e-17	XPC-binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Orthologous Genes (Group: OG0018554)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr1g0327461
rosa_multiflora	Rmu_co8142420.1_g000001 Rmu_sc0005767.1_g000003
rosa_roxburghii	Rroxscaffold_3G00240360
rosa_rugosa	Rorug07G0349900
rosa_samantha	Rh3CG267900 Rh4AG009400 Rh4CG209600 Rh5AG322800 Rh5DG558800

Restriction Enzyme Sites

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Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	190
AclI	AACGTT	1 cut(s)	344
AclWI	GGATC	1 cut(s)	171
AcsI	RAATTY	1 cut(s)	375
AcuI	CTGAAG	2 cut(s)	443, 510
AfiI	CCNNNNNNNGG	1 cut(s)	482
AgsI	TTSAA	2 cut(s)	239, 291
AluBI	AGCT	2 cut(s)	421, 528
AluI	AGCT	2 cut(s)	421, 528
Alw21I	GWGCWC	1 cut(s)	444
Alw26I	GTCTC	1 cut(s)	293
AlwI	GGATC	1 cut(s)	171
ApeKI	GCWGC	4 cut(s)	40, 245, 266, 391
ApoI	RAATTY	1 cut(s)	375
AspLEI	GCGC	1 cut(s)	351
AspS9I	GGNCC	1 cut(s)	495
AvaII	GGWCC	1 cut(s)	495
Bbv12I	GWGCWC	1 cut(s)	444
BbvI	GCAGC	4 cut(s)	27, 232, 253, 378
BceAI	ACGGC	1 cut(s)	53
BcoDI	GTCTC	1 cut(s)	293
BfaI	CTAG	2 cut(s)	104, 174
BfmI	CTRYAG	1 cut(s)	392
BisI	GCNGC	4 cut(s)	41, 246, 267, 392
BlsI	GCNGC	4 cut(s)	42, 247, 268, 393
Bme18I	GGWCC	1 cut(s)	495
BmgT120I	GGNCC	1 cut(s)	495
BmiI	GGNNCC	2 cut(s)	261, 496
BpuEI	CTTGAG	1 cut(s)	500
BsaXI	ACNNNNNCTCC	4 cut(s)	290, 320, 505, 535
Bsc4I	CCNNNNNNNGG	1 cut(s)	482
BseLI	CCNNNNNNNGG	1 cut(s)	482
BseMII	CTCAG	1 cut(s)	317
BseXI	GCAGC	4 cut(s)	27, 232, 253, 378
BseYI	CCCAGC	1 cut(s)	273
BsiHKAI	GWGCWC	1 cut(s)	444
BslFI	GGGAC	1 cut(s)	508
BslI	CCNNNNNNNGG	1 cut(s)	482
BsmAI	GTCTC	1 cut(s)	293
BsmFI	GGGAC	1 cut(s)	508
Bsp1286I	GDGCHC	1 cut(s)	444
Bsp143I	GATC	1 cut(s)	163
BspACI	CCGC	1 cut(s)	190
BspCNI	CTCAG	1 cut(s)	316
BspLI	GGNNCC	2 cut(s)	261, 496
BspMAI	CTGCAG	1 cut(s)	396
BspPI	GGATC	1 cut(s)	171
BssMI	GATC	1 cut(s)	163
Bst6I	CTCTTC	1 cut(s)	330
BstDEI	CTNAG	2 cut(s)	62, 303
BstHHI	GCGC	1 cut(s)	351
BstKTI	GATC	1 cut(s)	166
BstMAI	GTCTC	1 cut(s)	293
BstMBI	GATC	1 cut(s)	163
BstMWI	GCNNNNNNNGC	1 cut(s)	391
BstSFI	CTRYAG	1 cut(s)	392
BstV1I	GCAGC	4 cut(s)	27, 232, 253, 378
BstX2I	RGATCY	1 cut(s)	163
BstYI	RGATCY	1 cut(s)	163
BtgZI	GCGATG	1 cut(s)	228
BtsIMutI	CAGTG	1 cut(s)	311
CfoI	GCGC	1 cut(s)	351
Cfr13I	GGNCC	1 cut(s)	495
CviAII	CATG	4 cut(s)	128, 294, 388, 446
CviJI	RGCY	7 cut(s)	16, 40, 277, 283, 385, 421, 528
CviKI_1	RGCY	7 cut(s)	16, 40, 277, 283, 385, 421, 528
DdeI	CTNAG	2 cut(s)	62, 303
DpnI	GATC	1 cut(s)	165
DpnII	GATC	1 cut(s)	163
Eam1104I	CTCTTC	1 cut(s)	330
EarI	CTCTTC	1 cut(s)	330
Eco47I	GGWCC	1 cut(s)	495
Eco57I	CTGAAG	2 cut(s)	443, 510
FaeI	CATG	4 cut(s)	131, 297, 391, 449
FaqI	GGGAC	1 cut(s)	508
FatI	CATG	4 cut(s)	127, 293, 387, 445
Fnu4HI	GCNGC	4 cut(s)	41, 246, 267, 392
Fsp4HI	GCNGC	4 cut(s)	41, 246, 267, 392
FspBI	CTAG	2 cut(s)	104, 174
GlaI	GCGC	1 cut(s)	350
GluI	GCNGC	4 cut(s)	41, 246, 267, 392
GsaI	CCCAGC	1 cut(s)	277
HhaI	GCGC	1 cut(s)	351
Hin1II	CATG	4 cut(s)	131, 297, 391, 449
Hin6I	GCGC	1 cut(s)	349
HinP1I	GCGC	1 cut(s)	349
HincII	GTYRAC	1 cut(s)	367
HindII	GTYRAC	1 cut(s)	367
HindIII	AAGCTT	1 cut(s)	526
HinfI	GANTC	2 cut(s)	91, 301
Hpy166II	GTNNAC	1 cut(s)	367
Hpy188I	TCNGA	1 cut(s)	490
Hpy188III	TCNNGA	3 cut(s)	174, 437, 479
Hpy8I	GTNNAC	1 cut(s)	367
HpyAV	CCTTC	4 cut(s)	101, 208, 467, 485
HpyCH4IV	ACGT	1 cut(s)	344
HpyCH4V	TGCA	4 cut(s)	86, 169, 309, 394
HpyF10VI	GCNNNNNNNGC	1 cut(s)	391
HpyF3I	CTNAG	2 cut(s)	62, 303
HpySE526I	ACGT	1 cut(s)	344
Hsp92II	CATG	4 cut(s)	131, 297, 391, 449
HspAI	GCGC	1 cut(s)	349
Kzo9I	GATC	1 cut(s)	163
LmnI	GCTCC	3 cut(s)	146, 439, 513
LpnPI	CCDG	5 cut(s)	276, 287, 380, 422, 502
Lsp1109I	GCAGC	4 cut(s)	27, 232, 253, 378
MaeI	CTAG	2 cut(s)	104, 174
MaeII	ACGT	1 cut(s)	344
MaeIII	GTNAC	1 cut(s)	357
MalI	GATC	1 cut(s)	165
MboI	GATC	1 cut(s)	163
MboII	GAAGA	2 cut(s)	60, 317
MflI	RGATCY	1 cut(s)	163
MhlI	GDGCHC	1 cut(s)	444
MluCI	AATT	4 cut(s)	46, 234, 375, 432
MlyI	GAGTC	1 cut(s)	295
MnlI	CCTC	2 cut(s)	475, 486
MseI	TTAA	5 cut(s)	26, 233, 425, 431, 464
MwoI	GCNNNNNNNGC	1 cut(s)	391
NdeII	GATC	1 cut(s)	163
NlaIII	CATG	4 cut(s)	131, 297, 391, 449
NlaIV	GGNNCC	2 cut(s)	261, 496
NmeAIII	GCCGAG	1 cut(s)	475
PfeI	GAWTC	1 cut(s)	91
PkrI	GCNGC	4 cut(s)	42, 247, 268, 393
PleI	GAGTC	1 cut(s)	295
PpsI	GAGTC	1 cut(s)	295
Psp1406I	AACGTT	1 cut(s)	344
PspFI	CCCAGC	1 cut(s)	273
PspN4I	GGNNCC	2 cut(s)	261, 496
PspPI	GGNCC	1 cut(s)	495
PstI	CTGCAG	1 cut(s)	396
PsuI	RGATCY	1 cut(s)	163
SaqAI	TTAA	5 cut(s)	26, 233, 425, 431, 464
SatI	GCNGC	4 cut(s)	41, 246, 267, 392
Sau3AI	GATC	1 cut(s)	163
Sau96I	GGNCC	1 cut(s)	495
SchI	GAGTC	1 cut(s)	295
SduI	GDGCHC	1 cut(s)	444
SetI	ASST	5 cut(s)	105, 347, 423, 478, 530
SfcI	CTRYAG	1 cut(s)	392
SinI	GGWCC	1 cut(s)	495
SmlI	CTYRAG	1 cut(s)	479
SmoI	CTYRAG	1 cut(s)	479
Sse9I	AATT	4 cut(s)	46, 234, 375, 432
SsiI	CCGC	1 cut(s)	190
SspMI	CTAG	2 cut(s)	104, 174
TaiI	ACGT	1 cut(s)	347
TaqI	TCGA	2 cut(s)	21, 94
TasI	AATT	4 cut(s)	46, 234, 375, 432
TfiI	GAWTC	1 cut(s)	91
Tru1I	TTAA	5 cut(s)	26, 233, 425, 431, 464
Tru9I	TTAA	5 cut(s)	26, 233, 425, 431, 464
TscAI	CASTG	1 cut(s)	311
TseI	GCWGC	4 cut(s)	40, 245, 266, 391
TspDTI	ATGAA	4 cut(s)	116, 122, 317, 486
TspGWI	ACGGA	1 cut(s)	193
TspRI	CASTG	1 cut(s)	311
VpaK11BI	GGWCC	1 cut(s)	495
XapI	RAATTY	1 cut(s)	375
XbaI	TCTAGA	1 cut(s)	173
XcmI	CCANNNNNNNNNTGG	1 cut(s)	291
XspI	CTAG	2 cut(s)	104, 174

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