Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2D

Orthogroup ID

OG0000878

Physical Location & Seq

Genomic Coordinates Forward (+)

12578731 .. 12579377

Gene Structure 647 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2DG150500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 258 bp

ATGACCACCACAACAACAGCTGTCATGAGCTTCGGGGATGGCAACCATGGCGCTCTGGGCTTGCCCACTTCCTTAATGGGCCTTGGGTGTGGACGCCTACTAGCCCACCCGGTCCCTTCTCTGCCTCCTGACATCACCAGCGTCACCGCCGGGCATTACCATTCCCTGGCCGTCACTTCCGAAGGCCAGCTTTGGGCTTGGGGCCGAGACCTCGAGGCCCAGCTCGGCCGTGGAGGTCCTCCTCCCAGAGATTCATGA

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

RCC1 RCC1_2

Protein Analysis

85

Amino Acids

8.75

Weight (kDa)

5.99

Isoelectric Point (pI)

35.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WD40_RLD	PF25390	8 - 79	8.6e-14	RCC1-like domain
RCC1_2	PF13540	45 - 70	9.9e-09	Regulator of chromosome condensation (RCC1) repeat

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: OG0000878)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G48330 AT5G48330
fragaria_vesca	FvH4_1g13040 FvH4_1g13050
malus_domestica	MD15G1259200.v1.1
prunus_persica	Prupe.7G156600_v2.0.a1 Prupe.7G156600_v2.0.a1
pyrus_communis	pycom15g22720
rosa_chinensis	RchiOBHm_Chr2g0101211 RchiOBHm_Chr2g0101221 RchiOBHm_Chr7g0240851 RchiOBHm_Chr7g0240861
rosa_laevigata	RLG00000000616 RLG00000000618 RLG00000017056 RLG00000017059 RLG00000017060 RLG00000017062
rosa_multiflora	Rmu_co8519839.1_g000002 Rmu_sc0002313.1_g000012 Rmu_sc0002313.1_g000015 Rmu_sc0002313.1_g000018 Rmu_sc0004821.1_g000018 Rmu_sc0004821.1_g000019 Rmu_sc0006314.1_g000013
rosa_roxburghii	Rroxscaffold_2G00141490 Rroxscaffold_3G00219530 Rroxscaffold_3G00219570
rosa_rugosa	Rorug02G0100200 Rorug07G0339600
rosa_samantha	Rh1CG150600 Rh2AG144700 Rh2AG144800 Rh2AG144900 Rh2AG145100 Rh2AG145200 Rh2AG145300 Rh2BG149500 Rh2BG149800 Rh2BG149900 Rh2BG150200 Rh2BG150400 Rh2BG150500 Rh2BG150600 Rh2CG151000 Rh2DG150200 Rh2DG150300 Rh2DG150500 Rh2DG150600 Rh2DG150700 Rh7AG493900 Rh7AG494000 Rh7AG494300 Rh7BG466000 Rh7CG512300 Rh7CG512400 Rh7CG512500 Rh7DG479000 Rh7DG479100 Rh7DG479200 Rh7DG479300
rosa_wichuraiana	Rw0G010690 Rw0G010700 Rw2G011320 Rw7G041790 Rw7G041810

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AbsI	CCTCGAGG	1 cut(s)	212
AccB7I	CCANNNNNTGG	1 cut(s)	166
AciI	CCGC	1 cut(s)	147
AcoI	YGGCCR	2 cut(s)	168, 226
AcyI	GRCGYC	1 cut(s)	94
AfiI	CCNNNNNNNGG	2 cut(s)	166, 193
AjnI	CCWGG	1 cut(s)	165
AluBI	AGCT	4 cut(s)	20, 30, 190, 223
AluI	AGCT	4 cut(s)	20, 30, 190, 223
Alw26I	GTCTC	1 cut(s)	201
Ama87I	CYCGRG	1 cut(s)	212
AoxI	GGCC	6 cut(s)	79, 168, 184, 202, 216, 226
AspLEI	GCGC	1 cut(s)	53
AspS9I	GGNCC	5 cut(s)	79, 112, 202, 217, 236
AsuC2I	CCSGG	2 cut(s)	110, 151
AsuHPI	GGTGA	2 cut(s)	127, 136
AvaI	CYCGRG	1 cut(s)	212
AvaII	GGWCC	2 cut(s)	112, 236
BccI	CCATC	1 cut(s)	32
BceAI	ACGGC	2 cut(s)	155, 213
BciT130I	CCWGG	1 cut(s)	167
BcnI	CCSGG	2 cut(s)	110, 151
BcoDI	GTCTC	1 cut(s)	201
BfaI	CTAG	1 cut(s)	101
BfoI	RGCGCY	1 cut(s)	54
Bme1390I	CCNGG	3 cut(s)	110, 151, 167
Bme18I	GGWCC	2 cut(s)	112, 236
BmeT110I	CYCGRG	1 cut(s)	212
BmgT120I	GGNCC	5 cut(s)	79, 112, 202, 217, 236
BmiI	GGNNCC	2 cut(s)	114, 203
BmrFI	CCNGG	3 cut(s)	110, 151, 167
BpuMI	CCSGG	2 cut(s)	110, 151
BsaHI	GRCGYC	1 cut(s)	94
BsaI	GGTCTC	1 cut(s)	201
BsaJI	CCNNGG	4 cut(s)	46, 82, 165, 229
Bsc4I	CCNNNNNNNGG	2 cut(s)	166, 193
BseBI	CCWGG	1 cut(s)	167
BseDI	CCNNGG	4 cut(s)	46, 82, 165, 229
BseGI	GGATG	1 cut(s)	43
BseLI	CCNNNNNNNGG	2 cut(s)	166, 193
BseRI	GAGGAG	1 cut(s)	231
BseX3I	CGGCCG	1 cut(s)	226
BseYI	CCCAGC	1 cut(s)	219
Bsh1285I	CGRYCG	1 cut(s)	229
BshFI	GGCC	6 cut(s)	81, 170, 186, 204, 218, 228
BsiEI	CGRYCG	1 cut(s)	229
BsiHKCI	CYCGRG	1 cut(s)	212
BsiSI	CCGG	2 cut(s)	110, 150
BslFI	GGGAC	1 cut(s)	98
BslI	CCNNNNNNNGG	2 cut(s)	166, 193
BsmAI	GTCTC	1 cut(s)	201
BsmFI	GGGAC	1 cut(s)	98
BsnI	GGCC	6 cut(s)	81, 170, 186, 204, 218, 228
Bso31I	GGTCTC	1 cut(s)	201
BsoBI	CYCGRG	1 cut(s)	212
Bsp19I	CCATGG	1 cut(s)	46
BspACI	CCGC	1 cut(s)	147
BspANI	GGCC	6 cut(s)	81, 170, 186, 204, 218, 228
BspHI	TCATGA	2 cut(s)	24, 254
BspLI	GGNNCC	2 cut(s)	114, 203
BspTNI	GGTCTC	1 cut(s)	201
BssECI	CCNNGG	4 cut(s)	46, 82, 165, 229
BssNI	GRCGYC	1 cut(s)	94
BssT1I	CCWWGG	2 cut(s)	46, 82
Bst2UI	CCWGG	1 cut(s)	167
BstACI	GRCGYC	1 cut(s)	94
BstC8I	GCNNGC	2 cut(s)	62, 188
BstDSI	CCRYGG	2 cut(s)	46, 229
BstF5I	GGATG	1 cut(s)	43
BstH2I	RGCGCY	1 cut(s)	54
BstHHI	GCGC	1 cut(s)	53
BstMAI	GTCTC	1 cut(s)	201
BstMCI	CGRYCG	1 cut(s)	229
BstMWI	GCNNNNNNNGC	2 cut(s)	48, 57
BstNI	CCWGG	1 cut(s)	167
BstSCI	CCNGG	3 cut(s)	108, 149, 165
BstZI	CGGCCG	1 cut(s)	226
BsuRI	GGCC	6 cut(s)	81, 170, 186, 204, 218, 228
BtgI	CCRYGG	2 cut(s)	46, 229
BtsCI	GGATG	1 cut(s)	43
Cac8I	GCNNGC	2 cut(s)	62, 188
CciI	TCATGA	2 cut(s)	24, 254
CfoI	GCGC	1 cut(s)	53
Cfr13I	GGNCC	5 cut(s)	79, 112, 202, 217, 236
CseI	GACGC	2 cut(s)	102, 130
CviAII	CATG	3 cut(s)	25, 47, 255
EaeI	YGGCCR	2 cut(s)	168, 226
EagI	CGGCCG	1 cut(s)	226
EclXI	CGGCCG	1 cut(s)	226
Eco130I	CCWWGG	2 cut(s)	46, 82
Eco31I	GGTCTC	1 cut(s)	201
Eco47I	GGWCC	2 cut(s)	112, 236
Eco52I	CGGCCG	1 cut(s)	226
Eco88I	CYCGRG	1 cut(s)	212
EcoO109I	RGGNCCY	1 cut(s)	236
EcoRII	CCWGG	1 cut(s)	165
EcoT14I	CCWWGG	2 cut(s)	46, 82
ErhI	CCWWGG	2 cut(s)	46, 82
FaeI	CATG	3 cut(s)	28, 50, 258
FaiI	YATR	3 cut(s)	26, 48, 256
FalI	AAGNNNNNCTT	2 cut(s)	174, 206
FaqI	GGGAC	1 cut(s)	98
FatI	CATG	3 cut(s)	24, 46, 254
FokI	GGATG	1 cut(s)	50
FspBI	CTAG	1 cut(s)	101
GlaI	GCGC	1 cut(s)	52
GsaI	CCCAGC	1 cut(s)	223
HaeII	RGCGCY	1 cut(s)	54
HaeIII	GGCC	6 cut(s)	81, 170, 186, 204, 218, 228
HapII	CCGG	2 cut(s)	110, 150
HgaI	GACGC	2 cut(s)	102, 130
HhaI	GCGC	1 cut(s)	53
Hin1I	GRCGYC	1 cut(s)	94
Hin1II	CATG	3 cut(s)	28, 50, 258
Hin6I	GCGC	1 cut(s)	51
HinP1I	GCGC	1 cut(s)	51
HinfI	GANTC	1 cut(s)	251
HpaII	CCGG	2 cut(s)	110, 150
HphI	GGTGA	2 cut(s)	127, 136
Hpy166II	GTNNAC	1 cut(s)	92
Hpy188I	TCNGA	1 cut(s)	181
Hpy188III	TCNNGA	3 cut(s)	25, 128, 255
Hpy8I	GTNNAC	1 cut(s)	92
HpyAV	CCTTC	2 cut(s)	126, 176
HpyF10VI	GCNNNNNNNGC	2 cut(s)	48, 57
Hsp92I	GRCGYC	1 cut(s)	94
Hsp92II	CATG	3 cut(s)	28, 50, 258
HspAI	GCGC	1 cut(s)	51
LpnPI	CCDG	9 cut(s)	41, 123, 141, 151, 152, 163, 179, 200, 233
MaeI	CTAG	1 cut(s)	101
MaeIII	GTNAC	2 cut(s)	142, 172
MnlI	CCTC	6 cut(s)	135, 208, 221, 227, 249, 252
MseI	TTAA	1 cut(s)	74
MspA1I	CMGCKG	1 cut(s)	20
MspI	CCGG	2 cut(s)	110, 150
MspR9I	CCNGG	3 cut(s)	110, 151, 167
MvaI	CCWGG	1 cut(s)	167
MwoI	GCNNNNNNNGC	2 cut(s)	48, 57
NciI	CCSGG	2 cut(s)	110, 151
NcoI	CCATGG	1 cut(s)	46
NlaIII	CATG	3 cut(s)	28, 50, 258
NlaIV	GGNNCC	2 cut(s)	114, 203
NmeAIII	GCCGAG	2 cut(s)	204, 230
NmuCI	GTSAC	2 cut(s)	142, 172
PaeR7I	CTCGAG	1 cut(s)	212
PagI	TCATGA	2 cut(s)	24, 254
PfeI	GAWTC	1 cut(s)	251
PflMI	CCANNNNNTGG	1 cut(s)	166
PpuMI	RGGWCCY	1 cut(s)	236
Psp5II	RGGWCCY	1 cut(s)	236
Psp6I	CCWGG	1 cut(s)	165
PspFI	CCCAGC	1 cut(s)	219
PspGI	CCWGG	1 cut(s)	165
PspN4I	GGNNCC	2 cut(s)	114, 203
PspPI	GGNCC	5 cut(s)	79, 112, 202, 217, 236
PspPPI	RGGWCCY	1 cut(s)	236
PspXI	VCTCGAGB	1 cut(s)	212
PvuII	CAGCTG	1 cut(s)	20
SaqAI	TTAA	1 cut(s)	74
Sau96I	GGNCC	5 cut(s)	79, 112, 202, 217, 236
ScrFI	CCNGG	3 cut(s)	110, 151, 167
SetI	ASST	6 cut(s)	22, 32, 192, 213, 225, 238
Sfr274I	CTCGAG	1 cut(s)	212
SinI	GGWCC	2 cut(s)	112, 236
SlaI	CTCGAG	1 cut(s)	212
SmlI	CTYRAG	1 cut(s)	212
SmoI	CTYRAG	1 cut(s)	212
SsiI	CCGC	1 cut(s)	147
SspMI	CTAG	1 cut(s)	101
StyD4I	CCNGG	3 cut(s)	108, 149, 165
StyI	CCWWGG	2 cut(s)	46, 82
TaqI	TCGA	1 cut(s)	213
TfiI	GAWTC	1 cut(s)	251
Tru1I	TTAA	1 cut(s)	74
Tru9I	TTAA	1 cut(s)	74
TseFI	GTSAC	2 cut(s)	142, 172
Tsp45I	GTSAC	2 cut(s)	142, 172
TspDTI	ATGAA	1 cut(s)	243
Van91I	CCANNNNNTGG	1 cut(s)	166
VpaK11BI	GGWCC	2 cut(s)	112, 236
XcmI	CCANNNNNNNNNTGG	2 cut(s)	73, 227
XhoI	CTCGAG	1 cut(s)	212
XspI	CTAG	1 cut(s)	101

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