Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0001549

Physical Location & Seq

Genomic Coordinates Reverse (-)

14807243 .. 14807641

Gene Structure 399 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG083200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 399 bp

ATGAATCAGATATTGATACTATTGTTCATCCTCTTGCTCACTAAGACTGAGGCTGCTTGGAATTCCAGACATGTTGAAATTATCAATGATTTGGATCCAAAAACAGATCTTACCATTCACTGCAAGTCTAAGGATGACGATCTGGGAGTCCATTTGCTTCGCTTTCAAGAGTCCTTTTGGATCAATTTCAAACTGAAAATTCTCGGAGGTACACTATTTTTTTGCAGCTTCCAATGGCCTGGCAATTTTCATCACCTTGATGTTTACAATCAAGAGAGAGACAATGTGCCCCCCAAAAAATGTAGAACATGTAGTTACAAGATCAGATCTGATGGTGGACATAGGTTCAATCAGGAATTCCAAGATTTCACTGATTTTTTCCCGTGGAATAAAGAGTGA

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

Self-incomp_S1

Protein Analysis

132

Amino Acids

15.74

Weight (kDa)

6.58

Isoelectric Point (pI)

33.61

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Self-incomp_S1	PF05938	24 - 129	2.6e-26	Plant self-incompatibility protein S1

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001549)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G04645
fragaria_vesca	FvH4_2g30460 FvH4_3g25180 FvH4_4g05600
malus_domestica	MD13G1228400.v1.1 MD13G1231600.v1.1 MD13G1231700.v1.1 MD14G1004300.v1.1
prunus_persica	Prupe.1G062000_v2.0.a1 Prupe.1G062100_v2.0.a1 Prupe.1G062300_v2.0.a1 Prupe.1G062400_v2.0.a1 Prupe.1G062500_v2.0.a1 Prupe.1G062600_v2.0.a1 Prupe.1G062700_v2.0.a1 Prupe.1G062800_v2.0.a1 Prupe.1G062900_v2.0.a1
rosa_chinensis	RchiOBHm_Chr4g0397181 RchiOBHm_Chr4g0397201 RchiOBHm_Chr4g0397211 RchiOBHm_Chr5g0046141 RchiOBHm_Chr6g0244081 RchiOBHm_Chr6g0312461 RchiOBHm_Chr6g0312471
rosa_laevigata	RLG00000010327 RLG00000015384 RLG00000034380
rosa_multiflora	Rmu_co8450703.1_g000001 Rmu_sc0001035.1_g000059 Rmu_sc0002312.1_g000061 Rmu_sc0003094.1_g000020
rosa_roxburghii	Rroxscaffold_7G00216090
rosa_rugosa	Rorug03G0344000 Rorug03G0344100 Rorug05G0225200
rosa_samantha	Rh4CG083200 Rh4DG071200 Rh4DG071300 Rh5BG314500 Rh5CG341000 Rh5DG324800 Rh6AG021700 Rh6BG017400 Rh6CG014100 Rh6CG529900 Rh6DG015300 Rh7BG231700
rosa_wichuraiana	Rw4G006300 Rw5G028630 Rw6G044620

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	3 cut(s)	89, 102, 188
AcsI	RAATTY	3 cut(s)	61, 198, 356
AfaI	GTAC	1 cut(s)	211
AflIII	ACRYGT	2 cut(s)	70, 308
AgsI	TTSAA	4 cut(s)	77, 167, 190, 349
AjnI	CCWGG	1 cut(s)	238
AluBI	AGCT	1 cut(s)	228
AluI	AGCT	1 cut(s)	228
Alw26I	GTCTC	1 cut(s)	273
AlwI	GGATC	3 cut(s)	89, 102, 188
AoxI	GGCC	1 cut(s)	236
ApeKI	GCWGC	2 cut(s)	53, 225
ApoI	RAATTY	3 cut(s)	61, 198, 356
AsuHPI	GGTGA	1 cut(s)	245
BaeGI	GKGCMC	1 cut(s)	291
BaeI	ACNNNNGTAYC	2 cut(s)	8, 41
BamHI	GGATCC	1 cut(s)	94
BbvI	GCAGC	2 cut(s)	40, 237
BccI	CCATC	1 cut(s)	326
BciT130I	CCWGG	1 cut(s)	240
BcoDI	GTCTC	1 cut(s)	273
BglII	AGATCT	2 cut(s)	106, 326
BisI	GCNGC	2 cut(s)	54, 226
BlsI	GCNGC	2 cut(s)	55, 227
Bme1390I	CCNGG	1 cut(s)	240
BmiI	GGNNCC	1 cut(s)	96
BmrFI	CCNGG	1 cut(s)	240
BsaBI	GATNNNNATC	2 cut(s)	93, 138
BsaJI	CCNNGG	1 cut(s)	383
Bse8I	GATNNNNATC	2 cut(s)	93, 138
BseBI	CCWGG	1 cut(s)	240
BseDI	CCNNGG	1 cut(s)	383
BseGI	GGATG	2 cut(s)	27, 139
BseJI	GATNNNNATC	2 cut(s)	93, 138
BseMII	CTCAG	1 cut(s)	39
BseSI	GKGCMC	1 cut(s)	291
BseXI	GCAGC	2 cut(s)	40, 237
BshFI	GGCC	1 cut(s)	238
BsmAI	GTCTC	1 cut(s)	273
BsnI	GGCC	1 cut(s)	238
Bsp1286I	GDGCHC	1 cut(s)	291
Bsp143I	GATC	6 cut(s)	94, 106, 139, 180, 321, 326
BspANI	GGCC	1 cut(s)	238
BspCNI	CTCAG	1 cut(s)	40
BspLI	GGNNCC	1 cut(s)	96
BspPI	GGATC	3 cut(s)	89, 102, 188
BssECI	CCNNGG	1 cut(s)	383
BssMI	GATC	6 cut(s)	94, 106, 139, 180, 321, 326
Bst2UI	CCWGG	1 cut(s)	240
BstDEI	CTNAG	3 cut(s)	42, 48, 129
BstDSI	CCRYGG	1 cut(s)	383
BstF5I	GGATG	2 cut(s)	27, 139
BstKTI	GATC	6 cut(s)	97, 109, 142, 183, 324, 329
BstMAI	GTCTC	1 cut(s)	273
BstMBI	GATC	6 cut(s)	94, 106, 139, 180, 321, 326
BstNI	CCWGG	1 cut(s)	240
BstNSI	RCATGY	2 cut(s)	74, 312
BstSCI	CCNGG	1 cut(s)	238
BstSLI	GKGCMC	1 cut(s)	291
BstV1I	GCAGC	2 cut(s)	40, 237
BstX2I	RGATCY	3 cut(s)	94, 106, 326
BstXI	CCANNNNNNTGG	1 cut(s)	239
BstYI	RGATCY	3 cut(s)	94, 106, 326
BsuRI	GGCC	1 cut(s)	238
BtgI	CCRYGG	1 cut(s)	383
BtsCI	GGATG	2 cut(s)	27, 139
BtsI	GCAGTG	1 cut(s)	118
BtsIMutI	CAGTG	2 cut(s)	118, 369
Csp6I	GTAC	1 cut(s)	210
CviAII	CATG	2 cut(s)	71, 309
CviJI	RGCY	3 cut(s)	53, 228, 238
CviKI_1	RGCY	3 cut(s)	53, 228, 238
CviQI	GTAC	1 cut(s)	210
DdeI	CTNAG	3 cut(s)	42, 48, 129
DpnI	GATC	6 cut(s)	96, 108, 141, 182, 323, 328
DpnII	GATC	6 cut(s)	94, 106, 139, 180, 321, 326
EcoRI	GAATTC	2 cut(s)	61, 356
EcoRII	CCWGG	1 cut(s)	238
FaeI	CATG	2 cut(s)	74, 312
FaiI	YATR	3 cut(s)	72, 310, 342
FatI	CATG	2 cut(s)	70, 308
Fnu4HI	GCNGC	2 cut(s)	54, 226
FokI	GGATG	2 cut(s)	14, 146
Fsp4HI	GCNGC	2 cut(s)	54, 226
GluI	GCNGC	2 cut(s)	54, 226
HaeIII	GGCC	1 cut(s)	238
Hin1II	CATG	2 cut(s)	74, 312
HinfI	GANTC	3 cut(s)	4, 147, 170
HphI	GGTGA	1 cut(s)	245
Hpy166II	GTNNAC	3 cut(s)	212, 265, 338
Hpy188I	TCNGA	4 cut(s)	9, 206, 326, 331
Hpy188III	TCNNGA	4 cut(s)	66, 167, 272, 353
Hpy8I	GTNNAC	3 cut(s)	212, 265, 338
HpyCH4V	TGCA	2 cut(s)	123, 225
HpyF3I	CTNAG	3 cut(s)	42, 48, 129
Hsp92II	CATG	2 cut(s)	74, 312
Kzo9I	GATC	6 cut(s)	94, 106, 139, 180, 321, 326
LpnPI	CCDG	5 cut(s)	79, 128, 225, 252, 338
Lsp1109I	GCAGC	2 cut(s)	40, 237
MaeIII	GTNAC	1 cut(s)	314
MalI	GATC	6 cut(s)	96, 108, 141, 182, 323, 328
MboI	GATC	6 cut(s)	94, 106, 139, 180, 321, 326
MflI	RGATCY	3 cut(s)	94, 106, 326
MhlI	GDGCHC	1 cut(s)	291
MluCI	AATT	6 cut(s)	61, 78, 184, 198, 244, 356
MlyI	GAGTC	2 cut(s)	156, 179
MnlI	CCTC	3 cut(s)	41, 43, 200
MslI	CAYNNNNRTG	1 cut(s)	258
MspR9I	CCNGG	1 cut(s)	240
MvaI	CCWGG	1 cut(s)	240
NdeII	GATC	6 cut(s)	94, 106, 139, 180, 321, 326
NlaIII	CATG	2 cut(s)	74, 312
NlaIV	GGNNCC	1 cut(s)	96
NspI	RCATGY	2 cut(s)	74, 312
PciI	ACATGT	2 cut(s)	70, 308
PfeI	GAWTC	1 cut(s)	4
PkrI	GCNGC	2 cut(s)	55, 227
PleI	GAGTC	2 cut(s)	155, 178
PpsI	GAGTC	2 cut(s)	155, 178
PscI	ACATGT	2 cut(s)	70, 308
Psp6I	CCWGG	1 cut(s)	238
PspGI	CCWGG	1 cut(s)	238
PspN4I	GGNNCC	1 cut(s)	96
PsuI	RGATCY	3 cut(s)	94, 106, 326
RsaI	GTAC	1 cut(s)	211
RsaNI	GTAC	1 cut(s)	210
RseI	CAYNNNNRTG	1 cut(s)	258
SatI	GCNGC	2 cut(s)	54, 226
Sau3AI	GATC	6 cut(s)	94, 106, 139, 180, 321, 326
SchI	GAGTC	2 cut(s)	156, 179
ScrFI	CCNGG	1 cut(s)	240
SduI	GDGCHC	1 cut(s)	291
SetI	ASST	4 cut(s)	211, 230, 258, 347
SmiMI	CAYNNNNRTG	1 cut(s)	258
Sse9I	AATT	6 cut(s)	61, 78, 184, 198, 244, 356
StyD4I	CCNGG	1 cut(s)	238
TasI	AATT	6 cut(s)	61, 78, 184, 198, 244, 356
TfiI	GAWTC	1 cut(s)	4
TscAI	CASTG	2 cut(s)	125, 376
TseI	GCWGC	2 cut(s)	53, 225
TspDTI	ATGAA	3 cut(s)	16, 17, 239
TspRI	CASTG	2 cut(s)	125, 376
XapI	RAATTY	3 cut(s)	61, 198, 356
XceI	RCATGY	2 cut(s)	74, 312

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