Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000005

Orthogroup ID

OG0008857

Physical Location & Seq

Genomic Coordinates Forward (+)

1150658 .. 1154868

Gene Structure 4211 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_5G00333780.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 444 bp

ATGGAAAACAAGGAAACCTTAATAAAACAAGAACAAGACATTGAACCTGAGGATTTCCCTGAAGAGTTCCAGTGCTGTGTTTGCCTGGATCTTCTTTACAAGCCAGTTGTATTAGGATGTGGCCACATTTCATGTTTCTGGTGCGTCTTCAATTCCATGAGTGCTTGCCATGAATCCAATTGCCCAGTTTGTCGATTCCCATATAATCATTTCCCTAGTATCTGTAATTTGCTGCATTTCATACTCCAAAAGTTGTATCCGACAGCATATCAGAGAAGGGAAAAGCAAGTGGGAGAAGAAGAGAAGGAAGCTGGCTTCTTTTCACCTGAAGTTCAAAATCCGCTAGCCGGACCACAGCCTACTGAGTCAAATATTCCTGGAAATGTTGCACATTCTCCCCCTGTCCAAAGTCAAAGAACTCTGAAAGTTGTTCTTCTGGGGTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

ZZ zf-C3HC4_3 zf-C3HC4_4 zf-RING_UBOX

Protein Analysis

147

Amino Acids

16.7

Weight (kDa)

5.16

Isoelectric Point (pI)

79.45

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	22 - 68	5.8e-06	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_4	PF15227	25 - 64	6.7e-06	zinc finger of C3HC4-type, RING

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0008857)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g00570 FvH4_4g00570
malus_domestica	MD04G1005700.v1.1
prunus_persica	Prupe.1G006100_v2.0.a1 Prupe.1G006100_v2.0.a1 Prupe.1G006100_v2.0.a1 Prupe.1G006100_v2.0.a1
pyrus_communis	pycom420g00860
rosa_chinensis	RchiOBHm_Chr4g0386021
rosa_laevigata	RLG00000010180
rosa_multiflora	Rmu_sc0000472.1_g000019
rosa_roxburghii	Rroxscaffold_5G00333780 Rroxscaffold_5G00338450 Rroxscaffold_5G00338750
rosa_rugosa	Rorug03G0306300 Rorug03G0306400 Rorug03G0306400 Rorug03G0306500
rosa_samantha	Rh4AG010100 Rh4BG007100 Rh4CG010800 Rh4DG008200
rosa_wichuraiana	Rw4G000130

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	341
AclWI	GGATC	1 cut(s)	96
AcoI	YGGCCR	1 cut(s)	121
AcuI	CTGAAG	2 cut(s)	81, 348
AfiI	CCNNNNNNNGG	1 cut(s)	347
AgsI	TTSAA	3 cut(s)	44, 151, 335
AjnI	CCWGG	2 cut(s)	84, 376
AluBI	AGCT	1 cut(s)	311
AluI	AGCT	1 cut(s)	311
AlwI	GGATC	1 cut(s)	96
AoxI	GGCC	1 cut(s)	121
ApeKI	GCWGC	1 cut(s)	232
AspS9I	GGNCC	1 cut(s)	350
AsuHPI	GGTGA	1 cut(s)	315
AsuNHI	GCTAGC	1 cut(s)	343
AvaII	GGWCC	1 cut(s)	350
AxyI	CCTNAGG	1 cut(s)	48
BalI	TGGCCA	1 cut(s)	123
BbsI	GAAGAC	1 cut(s)	139
BbvI	GCAGC	1 cut(s)	219
BciT130I	CCWGG	2 cut(s)	86, 378
BciVI	GTATCC	1 cut(s)	267
BfaI	CTAG	2 cut(s)	216, 344
BfuI	GTATCC	1 cut(s)	267
BisI	GCNGC	1 cut(s)	233
BlsI	GCNGC	1 cut(s)	234
Bme1390I	CCNGG	2 cut(s)	86, 378
Bme18I	GGWCC	1 cut(s)	350
BmgT120I	GGNCC	1 cut(s)	350
BmrFI	CCNGG	2 cut(s)	86, 378
BmrI	ACTGGG	1 cut(s)	179
BmtI	GCTAGC	1 cut(s)	347
BmuI	ACTGGG	1 cut(s)	179
BpiI	GAAGAC	1 cut(s)	139
Bsc4I	CCNNNNNNNGG	1 cut(s)	347
Bse1I	ACTGG	3 cut(s)	70, 104, 185
Bse21I	CCTNAGG	1 cut(s)	48
BseBI	CCWGG	2 cut(s)	86, 378
BseGI	GGATG	1 cut(s)	122
BseLI	CCNNNNNNNGG	1 cut(s)	347
BseMII	CTCAG	2 cut(s)	39, 354
BseNI	ACTGG	3 cut(s)	70, 104, 185
BseXI	GCAGC	1 cut(s)	219
BshFI	GGCC	1 cut(s)	123
BsiSI	CCGG	1 cut(s)	348
BslI	CCNNNNNNNGG	1 cut(s)	347
BsnI	GGCC	1 cut(s)	123
Bsp143I	GATC	1 cut(s)	88
BspACI	CCGC	1 cut(s)	341
BspANI	GGCC	1 cut(s)	123
BspCNI	CTCAG	2 cut(s)	40, 355
BspOI	GCTAGC	1 cut(s)	347
BspPI	GGATC	1 cut(s)	96
BsrI	ACTGG	3 cut(s)	70, 104, 185
BssMI	GATC	1 cut(s)	88
Bst2UI	CCWGG	2 cut(s)	86, 378
Bst6I	CTCTTC	2 cut(s)	57, 294
BstC8I	GCNNGC	3 cut(s)	166, 313, 345
BstDEI	CTNAG	2 cut(s)	48, 363
BstF5I	GGATG	1 cut(s)	122
BstKTI	GATC	1 cut(s)	91
BstMBI	GATC	1 cut(s)	88
BstMWI	GCNNNNNNNGC	1 cut(s)	81
BstNI	CCWGG	2 cut(s)	86, 378
BstSCI	CCNGG	2 cut(s)	84, 376
BstV1I	GCAGC	1 cut(s)	219
BstV2I	GAAGAC	1 cut(s)	139
BstX2I	RGATCY	1 cut(s)	88
BstYI	RGATCY	1 cut(s)	88
Bsu36I	CCTNAGG	1 cut(s)	48
BsuI	GTATCC	1 cut(s)	267
BsuRI	GGCC	1 cut(s)	123
BtsCI	GGATG	1 cut(s)	122
BtsIMutI	CAGTG	1 cut(s)	77
Cac8I	GCNNGC	3 cut(s)	166, 313, 345
Cfr13I	GGNCC	1 cut(s)	350
CseI	GACGC	1 cut(s)	133
CviAII	CATG	3 cut(s)	132, 157, 170
CviJI	RGCY	6 cut(s)	103, 123, 311, 315, 347, 358
CviKI_1	RGCY	6 cut(s)	103, 123, 311, 315, 347, 358
DdeI	CTNAG	2 cut(s)	48, 363
DpnI	GATC	1 cut(s)	90
DpnII	GATC	1 cut(s)	88
EaeI	YGGCCR	1 cut(s)	121
Eam1104I	CTCTTC	2 cut(s)	57, 294
EarI	CTCTTC	2 cut(s)	57, 294
Eco47I	GGWCC	1 cut(s)	350
Eco57I	CTGAAG	2 cut(s)	81, 348
Eco81I	CCTNAGG	1 cut(s)	48
EcoRII	CCWGG	2 cut(s)	84, 376
FaeI	CATG	3 cut(s)	135, 160, 173
FaiI	YATR	7 cut(s)	133, 158, 171, 202, 204, 242, 268
FalI	AAGNNNNNCTT	2 cut(s)	34, 417
FatI	CATG	3 cut(s)	131, 156, 169
Fnu4HI	GCNGC	1 cut(s)	233
FokI	GGATG	1 cut(s)	129
Fsp4HI	GCNGC	1 cut(s)	233
FspBI	CTAG	2 cut(s)	216, 344
GluI	GCNGC	1 cut(s)	233
HaeIII	GGCC	1 cut(s)	123
HapII	CCGG	1 cut(s)	348
HgaI	GACGC	1 cut(s)	133
Hin1II	CATG	3 cut(s)	135, 160, 173
HinfI	GANTC	3 cut(s)	173, 195, 365
HpaII	CCGG	1 cut(s)	348
HphI	GGTGA	1 cut(s)	315
Hpy188I	TCNGA	3 cut(s)	261, 273, 423
HpyAV	CCTTC	2 cut(s)	270, 298
HpyCH4V	TGCA	2 cut(s)	235, 389
HpyF10VI	GCNNNNNNNGC	1 cut(s)	81
HpyF3I	CTNAG	2 cut(s)	48, 363
Hsp92II	CATG	3 cut(s)	135, 160, 173
Kzo9I	GATC	1 cut(s)	88
Lsp1109I	GCAGC	1 cut(s)	219
MaeI	CTAG	2 cut(s)	216, 344
MalI	GATC	1 cut(s)	90
MboI	GATC	1 cut(s)	88
MboII	GAAGA	6 cut(s)	74, 83, 139, 308, 311, 425
MfeI	CAATTG	1 cut(s)	178
MflI	RGATCY	1 cut(s)	88
MlsI	TGGCCA	1 cut(s)	123
MluCI	AATT	3 cut(s)	151, 178, 226
MluNI	TGGCCA	1 cut(s)	123
MlyI	GAGTC	1 cut(s)	374
MmeI	TCCRAC	1 cut(s)	284
MnlI	CCTC	1 cut(s)	43
Mox20I	TGGCCA	1 cut(s)	123
MscI	TGGCCA	1 cut(s)	123
MseI	TTAA	1 cut(s)	20
Msp20I	TGGCCA	1 cut(s)	123
MspI	CCGG	1 cut(s)	348
MspR9I	CCNGG	2 cut(s)	86, 378
MunI	CAATTG	1 cut(s)	178
MvaI	CCWGG	2 cut(s)	86, 378
MwoI	GCNNNNNNNGC	1 cut(s)	81
NdeII	GATC	1 cut(s)	88
NheI	GCTAGC	1 cut(s)	343
NlaIII	CATG	3 cut(s)	135, 160, 173
PfeI	GAWTC	2 cut(s)	173, 195
PfoI	TCCNGGA	1 cut(s)	376
PkrI	GCNGC	1 cut(s)	234
PleI	GAGTC	1 cut(s)	373
PpsI	GAGTC	1 cut(s)	373
Psp6I	CCWGG	2 cut(s)	84, 376
PspGI	CCWGG	2 cut(s)	84, 376
PspPI	GGNCC	1 cut(s)	350
PsuI	RGATCY	1 cut(s)	88
SaqAI	TTAA	1 cut(s)	20
SatI	GCNGC	1 cut(s)	233
Sau3AI	GATC	1 cut(s)	88
Sau96I	GGNCC	1 cut(s)	350
SchI	GAGTC	1 cut(s)	374
ScrFI	CCNGG	2 cut(s)	86, 378
SetI	ASST	4 cut(s)	20, 49, 313, 328
SinI	GGWCC	1 cut(s)	350
Sse9I	AATT	3 cut(s)	151, 178, 226
SsiI	CCGC	1 cut(s)	341
SspI	AATATT	1 cut(s)	373
SspMI	CTAG	2 cut(s)	216, 344
StyD4I	CCNGG	2 cut(s)	84, 376
TaqI	TCGA	1 cut(s)	193
TasI	AATT	3 cut(s)	151, 178, 226
TfiI	GAWTC	2 cut(s)	173, 195
Tru1I	TTAA	1 cut(s)	20
Tru9I	TTAA	1 cut(s)	20
TscAI	CASTG	1 cut(s)	77
TseI	GCWGC	1 cut(s)	232
TspDTI	ATGAA	3 cut(s)	120, 186, 229
TspRI	CASTG	1 cut(s)	77
VpaK11BI	GGWCC	1 cut(s)	350
XspI	CTAG	2 cut(s)	216, 344

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