Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1A

Orthogroup ID

OG0003524

Physical Location & Seq

Genomic Coordinates Reverse (-)

49510647 .. 49511379

Gene Structure 733 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1AG268100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 267 bp

ATGGATATCGAGGAACTATTGGGCCGAAACCGACCGACGGCAATCAAGGCGAGGAGTGCGATTTACGTCTGGGGATATAACCTGTCCGGTCAGACTGGTCGGAAGGGGAGAGAGCGCCAGTTGAGGATCCCGAAGCAGCTCTCGCCGGAGCTCTTTGGTTGCCCCGCCGGAGCTAATTCGCGCTGGCTGGACATTGCTTGCGGCCACGAGCATACCGCAGCTGTAGCTTCAGATGGGTCTCTCTTCACTTGGGTGGGAATGGAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko04120 map04120

Pfam Domains

Protein Families

RCC1

Protein Analysis

88

Amino Acids

9.71

Weight (kDa)

8.77

Isoelectric Point (pI)

48.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WD40_RLD	PF25390	13 - 84	2.2e-11	RCC1-like domain
RCC1	PF00415	21 - 75	6.7e-08	Regulator of chromosome condensation (RCC1) repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

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

Orthologous Genes (Group: OG0003524)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G41830 AT2G41830
fragaria_vesca	FvH4_6g23620 FvH4_6g23620 FvH4_6g23620 FvH4_6g23620 FvH4_6g23620 FvH4_6g23620 FvH4_6g23620 FvH4_6g23620
malus_domestica	MD12G1077200.v1.1 MD14G1070800.v1.1
prunus_persica	Prupe.7G063500_v2.0.a1 Prupe.7G063500_v2.0.a1
pyrus_communis	pycom12g06250 pycom14g06020
rosa_chinensis	RchiOBHm_Chr3g0481871
rosa_laevigata	RLG00000023380
rosa_multiflora	Rmu_ssc0000267.1_g000017
rosa_roxburghii	Rroxscaffold_6G00399810 Rroxscaffold_6G00400140
rosa_rugosa	Rorug03G0194100 Rorug03G0194200
rosa_samantha	Rh1AG268100 Rh3AG245100 Rh3BG280300 Rh3CG275200 Rh3CG275600 Rh3CG276300 Rh3CG276400 Rh4CG314400
rosa_wichuraiana	Rw0G004350 Rw3G021880 Rw3G021900 Rw3G021930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	181
AciI	CCGC	3 cut(s)	165, 201, 216
AclWI	GGATC	2 cut(s)	121, 134
AcoI	YGGCCR	1 cut(s)	202
AcuI	CTGAAG	1 cut(s)	213
AfiI	CCNNNNNNNGG	1 cut(s)	37
AleI	CACNNNNGTG	1 cut(s)	251
AluBI	AGCT	5 cut(s)	139, 151, 173, 221, 227
AluI	AGCT	5 cut(s)	139, 151, 173, 221, 227
Alw21I	GWGCWC	1 cut(s)	153
Alw26I	GTCTC	1 cut(s)	243
AlwI	GGATC	2 cut(s)	121, 134
AoxI	GGCC	2 cut(s)	22, 202
ApeKI	GCWGC	2 cut(s)	136, 218
AspLEI	GCGC	2 cut(s)	117, 183
AspS9I	GGNCC	1 cut(s)	22
BamHI	GGATCC	1 cut(s)	126
BanII	GRGCYC	1 cut(s)	153
BauI	CACGAG	1 cut(s)	206
Bbv12I	GWGCWC	1 cut(s)	153
BbvI	GCAGC	2 cut(s)	148, 230
BccI	CCATC	1 cut(s)	227
BceAI	ACGGC	1 cut(s)	54
BcoDI	GTCTC	1 cut(s)	243
BfmI	CTRYAG	1 cut(s)	222
BfoI	RGCGCY	1 cut(s)	118
BisI	GCNGC	3 cut(s)	137, 202, 219
BlsI	GCNGC	3 cut(s)	138, 203, 220
BmgT120I	GGNCC	1 cut(s)	22
BmiI	GGNNCC	1 cut(s)	128
BsaI	GGTCTC	1 cut(s)	243
BsaWI	WCCGGW	1 cut(s)	86
Bsc4I	CCNNNNNNNGG	1 cut(s)	37
Bse1I	ACTGG	2 cut(s)	100, 118
Bse3DI	GCAATG	1 cut(s)	192
BseLI	CCNNNNNNNGG	1 cut(s)	37
BseMI	GCAATG	1 cut(s)	192
BseNI	ACTGG	2 cut(s)	100, 118
BseRI	GAGGAG	1 cut(s)	67
BseXI	GCAGC	2 cut(s)	148, 230
Bsh1236I	CGCG	1 cut(s)	181
Bsh1285I	CGRYCG	1 cut(s)	35
BshFI	GGCC	2 cut(s)	24, 204
BsiEI	CGRYCG	1 cut(s)	35
BsiHKAI	GWGCWC	1 cut(s)	153
BsiSI	CCGG	3 cut(s)	87, 146, 168
BslI	CCNNNNNNNGG	1 cut(s)	37
BsmAI	GTCTC	1 cut(s)	243
BsnI	GGCC	2 cut(s)	24, 204
Bso31I	GGTCTC	1 cut(s)	243
Bsp1286I	GDGCHC	1 cut(s)	153
Bsp143I	GATC	1 cut(s)	126
BspACI	CCGC	3 cut(s)	165, 201, 216
BspANI	GGCC	2 cut(s)	24, 204
BspFNI	CGCG	1 cut(s)	181
BspLI	GGNNCC	1 cut(s)	128
BspPI	GGATC	2 cut(s)	121, 134
BspTNI	GGTCTC	1 cut(s)	243
BsrDI	GCAATG	1 cut(s)	192
BsrI	ACTGG	2 cut(s)	100, 118
BssMI	GATC	1 cut(s)	126
BssSI	CACGAG	1 cut(s)	206
Bst2BI	CACGAG	1 cut(s)	206
Bst6I	CTCTTC	1 cut(s)	248
BstC8I	GCNNGC	2 cut(s)	185, 199
BstFNI	CGCG	1 cut(s)	181
BstH2I	RGCGCY	1 cut(s)	118
BstHHI	GCGC	2 cut(s)	117, 183
BstKTI	GATC	1 cut(s)	129
BstMAI	GTCTC	1 cut(s)	243
BstMBI	GATC	1 cut(s)	126
BstMCI	CGRYCG	1 cut(s)	35
BstMWI	GCNNNNNNNGC	4 cut(s)	47, 56, 142, 224
BstSFI	CTRYAG	1 cut(s)	222
BstUI	CGCG	1 cut(s)	181
BstV1I	GCAGC	2 cut(s)	148, 230
BstX2I	RGATCY	1 cut(s)	126
BstYI	RGATCY	1 cut(s)	126
BsuRI	GGCC	2 cut(s)	24, 204
Cac8I	GCNNGC	2 cut(s)	185, 199
CfoI	GCGC	2 cut(s)	117, 183
Cfr13I	GGNCC	1 cut(s)	22
CviJI	RGCY	8 cut(s)	24, 139, 151, 173, 187, 204, 221, 227
CviKI_1	RGCY	8 cut(s)	24, 139, 151, 173, 187, 204, 221, 227
DpnI	GATC	1 cut(s)	128
DpnII	GATC	1 cut(s)	126
EaeI	YGGCCR	1 cut(s)	202
Eam1104I	CTCTTC	1 cut(s)	248
EarI	CTCTTC	1 cut(s)	248
Ecl136II	GAGCTC	1 cut(s)	151
Eco24I	GRGCYC	1 cut(s)	153
Eco31I	GGTCTC	1 cut(s)	243
Eco32I	GATATC	1 cut(s)	7
Eco53kI	GAGCTC	1 cut(s)	151
Eco57I	CTGAAG	1 cut(s)	213
EcoICRI	GAGCTC	1 cut(s)	151
EcoRV	GATATC	1 cut(s)	7
EcoT38I	GRGCYC	1 cut(s)	153
FaiI	YATR	2 cut(s)	78, 213
FauI	CCCGC	1 cut(s)	172
Fnu4HI	GCNGC	3 cut(s)	137, 202, 219
FriOI	GRGCYC	1 cut(s)	153
Fsp4HI	GCNGC	3 cut(s)	137, 202, 219
GlaI	GCGC	2 cut(s)	116, 182
GluI	GCNGC	3 cut(s)	137, 202, 219
HaeII	RGCGCY	1 cut(s)	118
HaeIII	GGCC	2 cut(s)	24, 204
HapII	CCGG	3 cut(s)	87, 146, 168
HhaI	GCGC	2 cut(s)	117, 183
Hin6I	GCGC	2 cut(s)	115, 181
HinP1I	GCGC	2 cut(s)	115, 181
HpaII	CCGG	3 cut(s)	87, 146, 168
Hpy188I	TCNGA	3 cut(s)	93, 102, 232
Hpy188III	TCNNGA	1 cut(s)	130
Hpy99I	CGWCG	1 cut(s)	40
HpyAV	CCTTC	1 cut(s)	97
HpyCH4IV	ACGT	1 cut(s)	66
HpyF10VI	GCNNNNNNNGC	4 cut(s)	47, 56, 142, 224
HpySE526I	ACGT	1 cut(s)	66
HspAI	GCGC	2 cut(s)	115, 181
Kzo9I	GATC	1 cut(s)	126
LmnI	GCTCC	2 cut(s)	148, 170
LpnPI	CCDG	9 cut(s)	55, 81, 95, 100, 131, 159, 169, 173, 181
Lsp1109I	GCAGC	2 cut(s)	148, 230
MaeII	ACGT	1 cut(s)	66
MalI	GATC	1 cut(s)	128
MboI	GATC	1 cut(s)	126
MboII	GAAGA	1 cut(s)	235
MflI	RGATCY	1 cut(s)	126
MhlI	GDGCHC	1 cut(s)	153
MluCI	AATT	1 cut(s)	175
MmeI	TCCRAC	1 cut(s)	80
MnlI	CCTC	3 cut(s)	4, 45, 117
MslI	CAYNNNNRTG	1 cut(s)	251
MspA1I	CMGCKG	1 cut(s)	221
MspI	CCGG	3 cut(s)	87, 146, 168
MvnI	CGCG	1 cut(s)	181
MwoI	GCNNNNNNNGC	4 cut(s)	47, 56, 142, 224
NdeII	GATC	1 cut(s)	126
NlaIV	GGNNCC	1 cut(s)	128
OliI	CACNNNNGTG	1 cut(s)	251
PkrI	GCNGC	3 cut(s)	138, 203, 220
Psp124BI	GAGCTC	1 cut(s)	153
PspN4I	GGNNCC	1 cut(s)	128
PspPI	GGNCC	1 cut(s)	22
PsuI	RGATCY	1 cut(s)	126
PvuII	CAGCTG	1 cut(s)	221
RseI	CAYNNNNRTG	1 cut(s)	251
SacI	GAGCTC	1 cut(s)	153
SatI	GCNGC	3 cut(s)	137, 202, 219
Sau3AI	GATC	1 cut(s)	126
Sau96I	GGNCC	1 cut(s)	22
SduI	GDGCHC	1 cut(s)	153
SetI	ASST	7 cut(s)	69, 84, 141, 153, 175, 223, 229
SfcI	CTRYAG	1 cut(s)	222
SmiMI	CAYNNNNRTG	1 cut(s)	251
Sse9I	AATT	1 cut(s)	175
SsiI	CCGC	3 cut(s)	165, 201, 216
SstI	GAGCTC	1 cut(s)	153
TaiI	ACGT	1 cut(s)	69
TaqI	TCGA	1 cut(s)	9
TaqII	GACCGA	1 cut(s)	49
TasI	AATT	1 cut(s)	175
TauI	GCSGC	1 cut(s)	204
TseI	GCWGC	2 cut(s)	136, 218

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