Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0008177

Physical Location & Seq

Genomic Coordinates Reverse (-)

35351834 .. 35352732

Gene Structure 899 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0203200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 531 bp

ATGGATCCTCGGTACAAAATGGAATTTGTAGAGTGGGCCTATAGCAAGCTCTATGGTGTGAACTCTGAGCAGTTGAAGCAATTCACTGATACTTTGTTTTCTCTATTTGATGTATATGTGGAGAAGTGGTCTAATCCCGATAATTCAAGTGGTTTCATGAGTGAGAGTTGTTCTCAAACTGAAGGTGAAGACACCATTTTGGAGGAATTTGATGCTAACTACAAGAATGGTTCAACTTCGAGTATGAAGAATGAATTTCACAAGTATCTTGATGAAGAAATGTTGGAAAGAAAGAAAGAGTTGGATGTTCTTTCTTGGTGGAAAATGGAACAATTTCGGTATCCTATACTTTTCCATATGGCTTGTGATGTGCTAACGATTCCTATTTCTACGGTTGCATCTGAATCCACGTTTAGTACTGCTGGTAGAGTACTAGATCAATACCGTAGCTCATTATTGCCTGACACTGTTCAAGCATTGCTATGTACTCGAGATTGGATTTTCGGTAAAAAAAGACCAAGACCAAACTGA

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

SMC_Nse1 zf-RING-like

Protein Analysis

176

Amino Acids

20.66

Weight (kDa)

4.86

Isoelectric Point (pI)

44.33

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
hAT-like_RNase-H	PF14372	1 - 39	5.4e-06	hAT-like transposase, RNase-H fold
Dimer_Tnp_hAT	PF05699	85 - 167	1.6e-32	hAT family C-terminal dimerisation region

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0008177)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0150721 RchiOBHm_Chr6g0266431 RchiOBHm_Chr6g0298361
rosa_multiflora	Rmu_co8115642.1_g000001 Rmu_sc0037601.1_g000001
rosa_roxburghii	Rroxscaffold_1G00036080
rosa_rugosa	Rorug04G0203200
rosa_samantha	Rh1BG425600 Rh1DG458400 Rh3BG284500 Rh3DG278300 Rh4BG029200 Rh4DG103500 Rh5AG159800 Rh5CG173500 Rh5CG185900 Rh5CG335500 Rh5CG335800 Rh5CG336300 Rh5CG336600 Rh5DG159300 Rh6CG267900 Rh7BG181700
rosa_wichuraiana	Rw5G028010

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	12
AcsI	RAATTY	3 cut(s)	23, 206, 254
AcuI	CTGAAG	1 cut(s)	201
AfaI	GTAC	4 cut(s)	14, 418, 432, 487
AgsI	TTSAA	4 cut(s)	76, 147, 234, 473
AluBI	AGCT	2 cut(s)	49, 450
AluI	AGCT	2 cut(s)	49, 450
AlwI	GGATC	1 cut(s)	12
Ama87I	CYCGRG	1 cut(s)	489
AoxI	GGCC	1 cut(s)	36
ApoI	RAATTY	3 cut(s)	23, 206, 254
Asp700I	GAANNNNTTC	2 cut(s)	80, 333
AspS9I	GGNCC	1 cut(s)	36
AsuHPI	GGTGA	1 cut(s)	197
AvaI	CYCGRG	1 cut(s)	489
BamHI	GGATCC	1 cut(s)	4
BbsI	GAAGAC	1 cut(s)	195
BciVI	GTATCC	1 cut(s)	351
BfaI	CTAG	1 cut(s)	434
BfmI	CTRYAG	1 cut(s)	40
BfuI	GTATCC	1 cut(s)	351
BmcAI	AGTACT	2 cut(s)	418, 432
BmeT110I	CYCGRG	1 cut(s)	489
BmgT120I	GGNCC	1 cut(s)	36
BmiI	GGNNCC	1 cut(s)	6
BmsI	GCATC	2 cut(s)	202, 407
BpiI	GAAGAC	1 cut(s)	195
BplI	GAGNNNNNCTC	2 cut(s)	157, 189
BsaJI	CCNNGG	1 cut(s)	8
BsaXI	ACNNNNNCTCC	2 cut(s)	113, 143
Bse3DI	GCAATG	1 cut(s)	476
BseDI	CCNNGG	1 cut(s)	8
BseGI	GGATG	1 cut(s)	310
BseMI	GCAATG	1 cut(s)	476
BseMII	CTCAG	1 cut(s)	57
BshFI	GGCC	1 cut(s)	38
BsiHKCI	CYCGRG	1 cut(s)	489
BsnI	GGCC	1 cut(s)	38
BsoBI	CYCGRG	1 cut(s)	489
Bsp143I	GATC	2 cut(s)	4, 436
BspANI	GGCC	1 cut(s)	38
BspCNI	CTCAG	1 cut(s)	58
BspHI	TCATGA	1 cut(s)	156
BspLI	GGNNCC	1 cut(s)	6
BspPI	GGATC	1 cut(s)	12
BsrDI	GCAATG	1 cut(s)	476
BssECI	CCNNGG	1 cut(s)	8
BssMI	GATC	2 cut(s)	4, 436
Bst4CI	ACNGT	3 cut(s)	394, 446, 469
BstC8I	GCNNGC	1 cut(s)	47
BstDEI	CTNAG	1 cut(s)	66
BstF5I	GGATG	1 cut(s)	310
BstKTI	GATC	2 cut(s)	7, 439
BstMBI	GATC	2 cut(s)	4, 436
BstMWI	GCNNNNNNNGC	1 cut(s)	76
BstSFI	CTRYAG	1 cut(s)	40
BstV2I	GAAGAC	1 cut(s)	195
BstX2I	RGATCY	1 cut(s)	4
BstYI	RGATCY	1 cut(s)	4
BsuI	GTATCC	1 cut(s)	351
BsuRI	GGCC	1 cut(s)	38
BtsCI	GGATG	1 cut(s)	310
BtsIMutI	CAGTG	2 cut(s)	84, 465
Cac8I	GCNNGC	1 cut(s)	47
CciI	TCATGA	1 cut(s)	156
Cfr13I	GGNCC	1 cut(s)	36
Csp6I	GTAC	4 cut(s)	13, 417, 431, 486
CviAII	CATG	1 cut(s)	157
CviJI	RGCY	4 cut(s)	38, 49, 362, 450
CviKI_1	RGCY	4 cut(s)	38, 49, 362, 450
CviQI	GTAC	4 cut(s)	13, 417, 431, 486
DdeI	CTNAG	1 cut(s)	66
DpnI	GATC	2 cut(s)	6, 438
DpnII	GATC	2 cut(s)	4, 436
Eco57I	CTGAAG	1 cut(s)	201
Eco88I	CYCGRG	1 cut(s)	489
FaeI	CATG	1 cut(s)	160
FatI	CATG	1 cut(s)	156
FauNDI	CATATG	1 cut(s)	357
FokI	GGATG	1 cut(s)	317
FspBI	CTAG	1 cut(s)	434
HaeIII	GGCC	1 cut(s)	38
Hin1II	CATG	1 cut(s)	160
HinfI	GANTC	2 cut(s)	379, 404
HphI	GGTGA	1 cut(s)	197
Hpy166II	GTNNAC	1 cut(s)	61
Hpy188I	TCNGA	2 cut(s)	67, 403
Hpy188III	TCNNGA	4 cut(s)	137, 157, 269, 491
Hpy8I	GTNNAC	1 cut(s)	61
HpyAV	CCTTC	1 cut(s)	176
HpyCH4III	ACNGT	3 cut(s)	394, 446, 469
HpyCH4IV	ACGT	1 cut(s)	410
HpyCH4V	TGCA	1 cut(s)	398
HpyF10VI	GCNNNNNNNGC	1 cut(s)	76
HpyF3I	CTNAG	1 cut(s)	66
HpySE526I	ACGT	1 cut(s)	410
Hsp92II	CATG	1 cut(s)	160
Kzo9I	GATC	2 cut(s)	4, 436
LpnPI	CCDG	2 cut(s)	408, 474
LweI	GCATC	2 cut(s)	202, 407
MaeI	CTAG	1 cut(s)	434
MaeII	ACGT	1 cut(s)	410
MalI	GATC	2 cut(s)	6, 438
MboI	GATC	2 cut(s)	4, 436
MboII	GAAGA	3 cut(s)	200, 259, 287
MflI	RGATCY	1 cut(s)	4
MluCI	AATT	6 cut(s)	23, 80, 142, 206, 254, 332
MmeI	TCCRAC	2 cut(s)	264, 282
MnlI	CCTC	2 cut(s)	18, 196
MroXI	GAANNNNTTC	2 cut(s)	80, 333
MslI	CAYNNNNRTG	1 cut(s)	481
MwoI	GCNNNNNNNGC	1 cut(s)	76
NdeI	CATATG	1 cut(s)	357
NdeII	GATC	2 cut(s)	4, 436
NlaIII	CATG	1 cut(s)	160
NlaIV	GGNNCC	1 cut(s)	6
PaeR7I	CTCGAG	1 cut(s)	489
PagI	TCATGA	1 cut(s)	156
PdmI	GAANNNNTTC	2 cut(s)	80, 333
PfeI	GAWTC	2 cut(s)	379, 404
PspN4I	GGNNCC	1 cut(s)	6
PspPI	GGNCC	1 cut(s)	36
PsuI	RGATCY	1 cut(s)	4
RsaI	GTAC	4 cut(s)	14, 418, 432, 487
RsaNI	GTAC	4 cut(s)	13, 417, 431, 486
RseI	CAYNNNNRTG	1 cut(s)	481
Sau3AI	GATC	2 cut(s)	4, 436
Sau96I	GGNCC	1 cut(s)	36
ScaI	AGTACT	2 cut(s)	418, 432
SetI	ASST	4 cut(s)	51, 187, 413, 452
SfaNI	GCATC	2 cut(s)	202, 407
SfcI	CTRYAG	1 cut(s)	40
Sfr274I	CTCGAG	1 cut(s)	489
SlaI	CTCGAG	1 cut(s)	489
SmiMI	CAYNNNNRTG	1 cut(s)	481
SmlI	CTYRAG	1 cut(s)	489
SmoI	CTYRAG	1 cut(s)	489
Sse9I	AATT	6 cut(s)	23, 80, 142, 206, 254, 332
SspMI	CTAG	1 cut(s)	434
TaaI	ACNGT	3 cut(s)	394, 446, 469
TaiI	ACGT	1 cut(s)	413
TaqI	TCGA	2 cut(s)	239, 490
TasI	AATT	6 cut(s)	23, 80, 142, 206, 254, 332
TatI	WGTACW	3 cut(s)	416, 430, 485
TfiI	GAWTC	2 cut(s)	379, 404
TscAI	CASTG	2 cut(s)	91, 472
TspDTI	ATGAA	4 cut(s)	145, 260, 267, 288
TspRI	CASTG	2 cut(s)	91, 472
XapI	RAATTY	3 cut(s)	23, 206, 254
XhoI	CTCGAG	1 cut(s)	489
XmnI	GAANNNNTTC	2 cut(s)	80, 333
XspI	CTAG	1 cut(s)	434
ZrmI	AGTACT	2 cut(s)	418, 432

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