Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000004

Orthogroup ID

OG0004071

Physical Location & Seq

Genomic Coordinates Forward (+)

2384104 .. 2386126

Gene Structure 2023 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug04G0015000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 411 bp

ATGCACCAAAGGTTCTTGGGAATTGTGGACACAGGAAAGCCTTCAAGACATCCAGTTCTAGTTGCGGCATCTGTGGGAAGCTGTGGAGCCTATTTGGCTGATGGTTCCAAGTATAGTGGCAACTGTGGCTATGCAGTGACTCAAGAAGCATTGAAAGTTTTCCACAGGGAAAGGGTTCAGATTCTGGCCAACTCTGTTGCTCATCTAATTGCATTTGAGATGACACCGAATAAATTAGAGGCAAAGCCATCGAGTGGGCGGGTTGATGAAGAGTTTGCAGAAATAGTCATAGAGAAGTGGCGTGAGGCTGGGGCTTCCCTGTTTGGAGGCTGCTGCAGGACAACTCCAAATACCATAAGGGCAATATCAAAGGCTCTTTCTAACAAGTCTTCTGCAGTTAACGATGCTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005911 GO:0006810 GO:0008150 GO:0009506 GO:0009987 GO:0010496 GO:0012505 GO:0030054 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0046907 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0055044

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

No domains found.

Protein Analysis

136

Amino Acids

14.58

Weight (kDa)

8.75

Isoelectric Point (pI)

26.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
S-methyl_trans	PF02574	18 - 82	1.6e-10	Homocysteine S-methyltransferase
S-methyl_trans	PF02574	91 - 126	1.4e-08	Homocysteine S-methyltransferase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0004071)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G26020 AT4G26020 AT4G26020
fragaria_vesca	FvH4_4g07070 FvH4_4g07070 FvH4_4g07070 FvH4_4g07070 FvH4_4g07070 FvH4_4g07070 FvH4_4g07070 FvH4_4g07070 FvH4_4g07070 FvH4_4g07070 FvH4_4g07070
malus_domestica	MD16G1247400.v1.1
prunus_persica	Prupe.1G073900_v2.0.a1 Prupe.1G073900_v2.0.a1 Prupe.1G073900_v2.0.a1 Prupe.1G073900_v2.0.a1
pyrus_communis	pycom16g20770
rosa_chinensis	RchiOBHm_Chr4g0399191
rosa_laevigata	RLG00000009291
rosa_multiflora	Rmu_sc0002582.1_g000003 Rmu_sc0024868.1_g000001
rosa_roxburghii	Rroxscaffold_5G00344150
rosa_rugosa	Rorug04G0014800 Rorug04G0014900 Rorug04G0015000
rosa_samantha	Rh4AG092900 Rh4BG090700 Rh4CG101300 Rh4DG085200
rosa_wichuraiana	Rw4G007650

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	254
AciI	CCGC	2 cut(s)	65, 259
AcoI	YGGCCR	1 cut(s)	186
AfiI	CCNNNNNNNGG	1 cut(s)	254
AgsI	TTSAA	2 cut(s)	45, 154
AluBI	AGCT	1 cut(s)	81
AluI	AGCT	1 cut(s)	81
AlwNI	CAGNNNCTG	1 cut(s)	184
AoxI	GGCC	1 cut(s)	186
ApeKI	GCWGC	2 cut(s)	330, 333
Asp700I	GAANNNNTTC	3 cut(s)	40, 158, 174
BalI	TGGCCA	1 cut(s)	188
BbsI	GAAGAC	1 cut(s)	381
BbvI	GCAGC	2 cut(s)	317, 320
BccI	CCATC	2 cut(s)	95, 256
BcgI	CGANNNNNNTGC	2 cut(s)	231, 265
BfaI	CTAG	1 cut(s)	59
BfmI	CTRYAG	2 cut(s)	334, 393
BglI	GCCNNNNNGGC	1 cut(s)	95
BisI	GCNGC	3 cut(s)	66, 331, 334
BlsI	GCNGC	3 cut(s)	67, 332, 335
BmiI	GGNNCC	2 cut(s)	88, 106
BmsI	GCATC	2 cut(s)	77, 394
BpiI	GAAGAC	1 cut(s)	381
BpuEI	CTTGAG	1 cut(s)	126
Bsc4I	CCNNNNNNNGG	1 cut(s)	254
Bse1I	ACTGG	1 cut(s)	53
BseGI	GGATG	1 cut(s)	49
BseLI	CCNNNNNNNGG	1 cut(s)	254
BseNI	ACTGG	1 cut(s)	53
BseXI	GCAGC	2 cut(s)	317, 320
BseYI	CCCAGC	1 cut(s)	308
BshFI	GGCC	1 cut(s)	188
BslI	CCNNNNNNNGG	1 cut(s)	254
BsnI	GGCC	1 cut(s)	188
BspACI	CCGC	2 cut(s)	65, 259
BspANI	GGCC	1 cut(s)	188
BspLI	GGNNCC	2 cut(s)	88, 106
BspMAI	CTGCAG	2 cut(s)	338, 397
BsrI	ACTGG	1 cut(s)	53
Bst4CI	ACNGT	1 cut(s)	125
Bst6I	CTCTTC	1 cut(s)	264
BstDEI	CTNAG	1 cut(s)	408
BstF5I	GGATG	1 cut(s)	49
BstMWI	GCNNNNNNNGC	2 cut(s)	95, 126
BstSFI	CTRYAG	2 cut(s)	334, 393
BstV1I	GCAGC	2 cut(s)	317, 320
BstV2I	GAAGAC	1 cut(s)	381
BsuRI	GGCC	1 cut(s)	188
BtsCI	GGATG	1 cut(s)	49
BtsI	GCAGTG	1 cut(s)	141
BtsIMutI	CAGTG	1 cut(s)	141
CaiI	CAGNNNCTG	1 cut(s)	184
CspCI	CAANNNNNGTGG	2 cut(s)	97, 132
DdeI	CTNAG	1 cut(s)	408
EaeI	YGGCCR	1 cut(s)	186
Eam1104I	CTCTTC	1 cut(s)	264
EarI	CTCTTC	1 cut(s)	264
FaiI	YATR	4 cut(s)	114, 132, 290, 356
FauI	CCCGC	1 cut(s)	252
Fnu4HI	GCNGC	3 cut(s)	66, 331, 334
FokI	GGATG	1 cut(s)	36
Fsp4HI	GCNGC	3 cut(s)	66, 331, 334
FspBI	CTAG	1 cut(s)	59
GluI	GCNGC	3 cut(s)	66, 331, 334
GsaI	CCCAGC	1 cut(s)	312
HaeIII	GGCC	1 cut(s)	188
HincII	GTYRAC	1 cut(s)	400
HindII	GTYRAC	1 cut(s)	400
HinfI	GANTC	2 cut(s)	139, 181
HpaI	GTTAAC	1 cut(s)	400
Hpy166II	GTNNAC	2 cut(s)	28, 400
Hpy188I	TCNGA	1 cut(s)	180
Hpy188III	TCNNGA	2 cut(s)	45, 143
Hpy8I	GTNNAC	2 cut(s)	28, 400
HpyAV	CCTTC	1 cut(s)	51
HpyCH4III	ACNGT	1 cut(s)	125
HpyCH4V	TGCA	6 cut(s)	4, 134, 212, 278, 336, 395
HpyF10VI	GCNNNNNNNGC	2 cut(s)	95, 126
HpyF3I	CTNAG	1 cut(s)	408
KspAI	GTTAAC	1 cut(s)	400
LmnI	GCTCC	1 cut(s)	86
LpnPI	CCDG	7 cut(s)	18, 66, 151, 170, 294, 322, 332
Lsp1109I	GCAGC	2 cut(s)	317, 320
LweI	GCATC	2 cut(s)	77, 394
MaeI	CTAG	1 cut(s)	59
MaeIII	GTNAC	1 cut(s)	136
MboII	GAAGA	2 cut(s)	281, 381
MlsI	TGGCCA	1 cut(s)	188
MluCI	AATT	3 cut(s)	21, 207, 233
MluNI	TGGCCA	1 cut(s)	188
MlyI	GAGTC	1 cut(s)	133
MnlI	CCTC	3 cut(s)	232, 298, 320
Mox20I	TGGCCA	1 cut(s)	188
MroXI	GAANNNNTTC	3 cut(s)	40, 158, 174
MscI	TGGCCA	1 cut(s)	188
MseI	TTAA	1 cut(s)	399
Msp20I	TGGCCA	1 cut(s)	188
MwoI	GCNNNNNNNGC	2 cut(s)	95, 126
NlaIV	GGNNCC	2 cut(s)	88, 106
NmuCI	GTSAC	1 cut(s)	136
PdmI	GAANNNNTTC	3 cut(s)	40, 158, 174
PfeI	GAWTC	1 cut(s)	181
PflMI	CCANNNNNTGG	1 cut(s)	254
PkrI	GCNGC	3 cut(s)	67, 332, 335
PleI	GAGTC	1 cut(s)	133
PpsI	GAGTC	1 cut(s)	133
PspFI	CCCAGC	1 cut(s)	308
PspN4I	GGNNCC	2 cut(s)	88, 106
PstI	CTGCAG	2 cut(s)	338, 397
PstNI	CAGNNNCTG	1 cut(s)	184
SaqAI	TTAA	1 cut(s)	399
SatI	GCNGC	3 cut(s)	66, 331, 334
SchI	GAGTC	1 cut(s)	133
SetI	ASST	2 cut(s)	14, 83
SfaNI	GCATC	2 cut(s)	77, 394
SfcI	CTRYAG	2 cut(s)	334, 393
SmlI	CTYRAG	1 cut(s)	141
SmoI	CTYRAG	1 cut(s)	141
Sse9I	AATT	3 cut(s)	21, 207, 233
SsiI	CCGC	2 cut(s)	65, 259
SspMI	CTAG	1 cut(s)	59
TaaI	ACNGT	1 cut(s)	125
TaqI	TCGA	1 cut(s)	251
TasI	AATT	3 cut(s)	21, 207, 233
TauI	GCSGC	1 cut(s)	68
TfiI	GAWTC	1 cut(s)	181
Tru1I	TTAA	1 cut(s)	399
Tru9I	TTAA	1 cut(s)	399
TscAI	CASTG	1 cut(s)	141
TseFI	GTSAC	1 cut(s)	136
TseI	GCWGC	2 cut(s)	330, 333
Tsp45I	GTSAC	1 cut(s)	136
TspDTI	ATGAA	1 cut(s)	282
TspRI	CASTG	1 cut(s)	141
Van91I	CCANNNNNTGG	1 cut(s)	254
XmnI	GAANNNNTTC	3 cut(s)	40, 158, 174
XspI	CTAG	1 cut(s)	59

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