Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4C

Orthogroup ID

OG0003524

Physical Location & Seq

Genomic Coordinates Forward (+)

57731153 .. 57732550

Gene Structure 1398 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4CG314400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 474 bp

ATGAAGGAGAGAAGAGACCCAATCAAACCCACCTCCACCGTCCCATCCCCAACCCTTCAATCCCACTCCTTCCTTCCTTGCCAACCAAGTTTAAATCTTTCCCTTTTAAGTCTCCTTCGATTTTGGGTTCGATTAATTTATTATTGGTTAGTTAACATGGATATCGAGGAACTATTGGGCCGAAACCGACCGGCGACAATCAAGGCGAGGAGTGCGATTTACGTCTGGGGATATAACCAGTCCGGCCAGACTGGTCGGAAGGGGAGAGAGCGCCAGTTGAGGATCCCGAAGCAGCTCTCGCCGGAGCTCTTTGGTTGCCCCGCCGGAGCTAATTCGCGCTGGCTGGACATTGCTTGTGGCCGCGAGCATACCGCAGCTGTAGCTTCAGATGGGTCTCTCTTCACTTGGGGGAGTGCCTTTTTTTTTTTTCTTCTTGTTTTCGATTTTTGTGGTTTTGGTTTTTTCCATTTGTGA

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

157

Amino Acids

17.91

Weight (kDa)

9.63

Isoelectric Point (pI)

53.2

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WD40_RLD	PF25390	67 - 138	1.2e-12	RCC1-like domain
RCC1	PF00415	73 - 127	1.8e-08	Regulator of chromosome condensation (RCC1) repeat
RCC1_2	PF13540	116 - 138	1.8e-06	Regulator of chromosome condensation (RCC1) repeat

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

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Publication-ready

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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	2 cut(s)	337, 363
AciI	CCGC	3 cut(s)	321, 361, 372
AclWI	GGATC	2 cut(s)	277, 290
AcoI	YGGCCR	2 cut(s)	244, 358
AcuI	CTGAAG	1 cut(s)	369
AgsI	TTSAA	1 cut(s)	59
AluBI	AGCT	5 cut(s)	295, 307, 329, 377, 383
AluI	AGCT	5 cut(s)	295, 307, 329, 377, 383
Alw21I	GWGCWC	1 cut(s)	309
Alw26I	GTCTC	3 cut(s)	9, 116, 399
AlwI	GGATC	2 cut(s)	277, 290
AoxI	GGCC	3 cut(s)	178, 244, 358
ApeKI	GCWGC	2 cut(s)	292, 374
AseI	ATTAAT	1 cut(s)	134
AspLEI	GCGC	2 cut(s)	273, 339
AspS9I	GGNCC	1 cut(s)	178
BamHI	GGATCC	1 cut(s)	282
BanII	GRGCYC	1 cut(s)	309
Bbv12I	GWGCWC	1 cut(s)	309
BbvI	GCAGC	2 cut(s)	304, 386
BccI	CCATC	2 cut(s)	52, 383
BcoDI	GTCTC	3 cut(s)	9, 116, 399
BfmI	CTRYAG	1 cut(s)	378
BfoI	RGCGCY	1 cut(s)	274
BisI	GCNGC	3 cut(s)	293, 361, 375
BlsI	GCNGC	3 cut(s)	294, 362, 376
BmgT120I	GGNCC	1 cut(s)	178
BmiI	GGNNCC	1 cut(s)	284
BsaI	GGTCTC	2 cut(s)	9, 399
Bse118I	RCCGGY	1 cut(s)	190
Bse1I	ACTGG	3 cut(s)	238, 256, 274
Bse3DI	GCAATG	1 cut(s)	348
BseGI	GGATG	1 cut(s)	44
BseMI	GCAATG	1 cut(s)	348
BseNI	ACTGG	3 cut(s)	238, 256, 274
BseRI	GAGGAG	1 cut(s)	223
BseXI	GCAGC	2 cut(s)	304, 386
Bsh1236I	CGCG	2 cut(s)	337, 363
Bsh1285I	CGRYCG	1 cut(s)	191
BshFI	GGCC	3 cut(s)	180, 246, 360
BsiEI	CGRYCG	1 cut(s)	191
BsiHKAI	GWGCWC	1 cut(s)	309
BsiSI	CCGG	4 cut(s)	191, 243, 302, 324
BslFI	GGGAC	1 cut(s)	26
BsmAI	GTCTC	3 cut(s)	9, 116, 399
BsmFI	GGGAC	1 cut(s)	26
BsnI	GGCC	3 cut(s)	180, 246, 360
Bso31I	GGTCTC	2 cut(s)	9, 399
Bsp1286I	GDGCHC	1 cut(s)	309
Bsp143I	GATC	1 cut(s)	282
BspACI	CCGC	3 cut(s)	321, 361, 372
BspANI	GGCC	3 cut(s)	180, 246, 360
BspFNI	CGCG	2 cut(s)	337, 363
BspLI	GGNNCC	1 cut(s)	284
BspPI	GGATC	2 cut(s)	277, 290
BspTNI	GGTCTC	2 cut(s)	9, 399
BsrDI	GCAATG	1 cut(s)	348
BsrFI	RCCGGY	1 cut(s)	190
BsrI	ACTGG	3 cut(s)	238, 256, 274
BssAI	RCCGGY	1 cut(s)	190
BssMI	GATC	1 cut(s)	282
Bst4CI	ACNGT	1 cut(s)	40
Bst6I	CTCTTC	2 cut(s)	7, 404
BstC8I	GCNNGC	2 cut(s)	341, 365
BstF5I	GGATG	1 cut(s)	44
BstFNI	CGCG	2 cut(s)	337, 363
BstH2I	RGCGCY	1 cut(s)	274
BstHHI	GCGC	2 cut(s)	273, 339
BstKTI	GATC	1 cut(s)	285
BstMAI	GTCTC	3 cut(s)	9, 116, 399
BstMBI	GATC	1 cut(s)	282
BstMCI	CGRYCG	1 cut(s)	191
BstMWI	GCNNNNNNNGC	3 cut(s)	212, 298, 380
BstSFI	CTRYAG	1 cut(s)	378
BstUI	CGCG	2 cut(s)	337, 363
BstV1I	GCAGC	2 cut(s)	304, 386
BstX2I	RGATCY	1 cut(s)	282
BstYI	RGATCY	1 cut(s)	282
BsuRI	GGCC	3 cut(s)	180, 246, 360
BtsCI	GGATG	1 cut(s)	44
Cac8I	GCNNGC	2 cut(s)	341, 365
CfoI	GCGC	2 cut(s)	273, 339
Cfr10I	RCCGGY	1 cut(s)	190
Cfr13I	GGNCC	1 cut(s)	178
CviAII	CATG	1 cut(s)	157
CviJI	RGCY	9 cut(s)	180, 246, 295, 307, 329, 343, 360, 377, 383
CviKI_1	RGCY	9 cut(s)	180, 246, 295, 307, 329, 343, 360, 377, 383
DpnI	GATC	1 cut(s)	284
DpnII	GATC	1 cut(s)	282
DraI	TTTAAA	1 cut(s)	93
EaeI	YGGCCR	2 cut(s)	244, 358
Eam1104I	CTCTTC	2 cut(s)	7, 404
EarI	CTCTTC	2 cut(s)	7, 404
Ecl136II	GAGCTC	1 cut(s)	307
Eco24I	GRGCYC	1 cut(s)	309
Eco31I	GGTCTC	2 cut(s)	9, 399
Eco32I	GATATC	1 cut(s)	163
Eco53kI	GAGCTC	1 cut(s)	307
Eco57I	CTGAAG	1 cut(s)	369
EcoICRI	GAGCTC	1 cut(s)	307
EcoRV	GATATC	1 cut(s)	163
EcoT38I	GRGCYC	1 cut(s)	309
FaeI	CATG	1 cut(s)	160
FaiI	YATR	3 cut(s)	158, 234, 369
FaqI	GGGAC	1 cut(s)	26
FatI	CATG	1 cut(s)	156
FauI	CCCGC	1 cut(s)	328
Fnu4HI	GCNGC	3 cut(s)	293, 361, 375
FokI	GGATG	1 cut(s)	31
FriOI	GRGCYC	1 cut(s)	309
Fsp4HI	GCNGC	3 cut(s)	293, 361, 375
GlaI	GCGC	2 cut(s)	272, 338
GluI	GCNGC	3 cut(s)	293, 361, 375
HaeII	RGCGCY	1 cut(s)	274
HaeIII	GGCC	3 cut(s)	180, 246, 360
HapII	CCGG	4 cut(s)	191, 243, 302, 324
HhaI	GCGC	2 cut(s)	273, 339
Hin1II	CATG	1 cut(s)	160
Hin6I	GCGC	2 cut(s)	271, 337
HinP1I	GCGC	2 cut(s)	271, 337
HincII	GTYRAC	1 cut(s)	154
HindII	GTYRAC	1 cut(s)	154
HpaI	GTTAAC	1 cut(s)	154
HpaII	CCGG	4 cut(s)	191, 243, 302, 324
Hpy166II	GTNNAC	1 cut(s)	154
Hpy188I	TCNGA	2 cut(s)	258, 388
Hpy188III	TCNNGA	1 cut(s)	286
Hpy8I	GTNNAC	1 cut(s)	154
HpyAV	CCTTC	5 cut(s)	65, 79, 83, 125, 253
HpyCH4III	ACNGT	1 cut(s)	40
HpyCH4IV	ACGT	1 cut(s)	222
HpyF10VI	GCNNNNNNNGC	3 cut(s)	212, 298, 380
HpySE526I	ACGT	1 cut(s)	222
Hsp92II	CATG	1 cut(s)	160
HspAI	GCGC	2 cut(s)	271, 337
KspAI	GTTAAC	1 cut(s)	154
Kzo9I	GATC	1 cut(s)	282
LmnI	GCTCC	2 cut(s)	304, 326
Lsp1109I	GCAGC	2 cut(s)	304, 386
MaeII	ACGT	1 cut(s)	222
MalI	GATC	1 cut(s)	284
MboI	GATC	1 cut(s)	282
MboII	GAAGA	3 cut(s)	24, 391, 422
MflI	RGATCY	1 cut(s)	282
MhlI	GDGCHC	1 cut(s)	309
MluCI	AATT	2 cut(s)	135, 331
MmeI	TCCRAC	1 cut(s)	236
MnlI	CCTC	4 cut(s)	43, 160, 201, 273
MseI	TTAA	4 cut(s)	92, 107, 134, 153
MspA1I	CMGCKG	1 cut(s)	377
MspI	CCGG	4 cut(s)	191, 243, 302, 324
MvnI	CGCG	2 cut(s)	337, 363
MwoI	GCNNNNNNNGC	3 cut(s)	212, 298, 380
NdeII	GATC	1 cut(s)	282
NlaIII	CATG	1 cut(s)	160
NlaIV	GGNNCC	1 cut(s)	284
PkrI	GCNGC	3 cut(s)	294, 362, 376
PshBI	ATTAAT	1 cut(s)	134
Psp124BI	GAGCTC	1 cut(s)	309
PspN4I	GGNNCC	1 cut(s)	284
PspPI	GGNCC	1 cut(s)	178
PsuI	RGATCY	1 cut(s)	282
PvuII	CAGCTG	1 cut(s)	377
SacI	GAGCTC	1 cut(s)	309
SaqAI	TTAA	4 cut(s)	92, 107, 134, 153
SatI	GCNGC	3 cut(s)	293, 361, 375
Sau3AI	GATC	1 cut(s)	282
Sau96I	GGNCC	1 cut(s)	178
SduI	GDGCHC	1 cut(s)	309
SetI	ASST	7 cut(s)	35, 225, 297, 309, 331, 379, 385
SfcI	CTRYAG	1 cut(s)	378
Sse9I	AATT	2 cut(s)	135, 331
SsiI	CCGC	3 cut(s)	321, 361, 372
SstI	GAGCTC	1 cut(s)	309
TaaI	ACNGT	1 cut(s)	40
TaiI	ACGT	1 cut(s)	225
TaqI	TCGA	4 cut(s)	118, 130, 165, 441
TasI	AATT	2 cut(s)	135, 331
TauI	GCSGC	1 cut(s)	363
Tru1I	TTAA	4 cut(s)	92, 107, 134, 153
Tru9I	TTAA	4 cut(s)	92, 107, 134, 153
TseI	GCWGC	2 cut(s)	292, 374
TspDTI	ATGAA	1 cut(s)	17
VspI	ATTAAT	1 cut(s)	134

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