Variant report

Variant	rs3824484
Chromosome Location	chr9:97372062-97372063
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97365733..97367940-chr9:97370951..97372481,2	MCF-7	breast:
2	chr9:97370762..97372454-chr9:97373877..97375549,2	K562	blood:
3	chr9:97368168..97369719-chr9:97371244..97374121,2	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10114599	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10115489	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1042144	0.84[CHB][hapmap];0.83[JPT][hapmap]
rs10761344	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10761346	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10821373	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10821374	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10993275	0.82[CHB][hapmap]
rs16937175	0.82[CHB][hapmap]
rs1754435	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs1754439	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs1977483	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1999122	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1999123	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2017136	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2296708	0.82[CHB][hapmap]
rs2297084	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2772023	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2993958	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs2993961	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs4743960	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4743961	0.82[CHB][hapmap]
rs4744359	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4744362	0.82[CHB][hapmap]
rs548348	0.83[CHB][hapmap];0.82[JPT][hapmap]
rs635108	0.80[EUR][1000 genomes]
rs6479555	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7044434	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7856456	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7856557	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7872412	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8192689	0.83[CHB][hapmap]
rs874248	0.84[CHB][hapmap];0.83[JPT][hapmap]
rs9695	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1041195	chr9:97054795-97402378	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv893596	chr9:97321172-97598966	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97347600-97374000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr9:97364400-97382800	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr9:97364800-97382800	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr9:97365000-97375400	Genic enhancers	Fetal Intestine Small	intestine
5	chr9:97365000-97376200	Genic enhancers	Liver	Liver
6	chr9:97365800-97373800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr9:97366600-97384400	Weak transcription	Small Intestine	intestine
8	chr9:97368400-97375200	Enhancers	Stomach Mucosa	stomach
9	chr9:97369200-97372400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr9:97369400-97372200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr9:97369400-97373400	Enhancers	Fetal Lung	lung
12	chr9:97369800-97372600	Enhancers	Placenta	Placenta
13	chr9:97370000-97372200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr9:97370000-97382400	Weak transcription	Lung	lung
15	chr9:97370400-97372400	Enhancers	Pancreas	Pancrea
16	chr9:97370600-97375200	Weak transcription	Colonic Mucosa	Colon
17	chr9:97370800-97372200	Enhancers	Rectal Mucosa Donor 31	rectum
18	chr9:97370800-97372600	Enhancers	HepG2	liver
19	chr9:97371400-97372200	Enhancers	Rectal Mucosa Donor 29	rectum
20	chr9:97371400-97372200	Enhancers	Sigmoid Colon	Sigmoid Colon
21	chr9:97371400-97401000	Weak transcription	Spleen	Spleen
22	chr9:97371600-97372400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr9:97371600-97373000	Enhancers	Fetal Heart	heart
24	chr9:97371600-97384200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr9:97371800-97372400	Enhancers	Fetal Muscle Trunk	muscle
26	chr9:97371800-97372400	Enhancers	Gastric	stomach
27	chr9:97371800-97373000	Genic enhancers	Fetal Intestine Large	intestine
28	chr9:97371800-97373000	Enhancers	Fetal Muscle Leg	muscle
29	chr9:97372000-97372200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr9:97372000-97372200	Genic enhancers	Duodenum Mucosa	Duodenum
31	chr9:97372000-97372200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
32	chr9:97372000-97373000	Enhancers	Fetal Stomach	stomach

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