Variant report

Variant	rs9348205
Chromosome Location	chr6:167312441-167312442
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:5)
CpG islands
(count:61)
Chromatin interactive
region (count:0)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:5 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	BCL3	chr6:167312133-167313195	GM12878	blood:	n/a	chr6:167312871-167312884 chr6:167312873-167312882 chr6:167312876-167312885
2	BCL3	chr6:167312119-167313330	GM12878	blood:	n/a	chr6:167312871-167312884 chr6:167312873-167312882 chr6:167312876-167312885
3	PBX3	chr6:167312390-167312826	GM12878	blood:	n/a	n/a
4	NFATC1	chr6:167312372-167312855	GM12878	blood:	n/a	n/a
5	TCF3	chr6:167312168-167312837	GM12878	blood:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr6:167312423-167312473	Hela-S3	cervix:	n/a
2	chr6:167312423-167312473	ECC-1	luminal epithelium:	n/a
3	chr6:167312423-167312473	SAEC	small airway:	n/a
4	chr6:167312423-167312473	LNCaP	prostate:	n/a
5	chr6:167312423-167312473	NHDF-neo	bronchial:	n/a
6	chr6:167312423-167312473	HCM	heart:	n/a
7	chr6:167312423-167312473	AG04450	lung:	fetal
8	chr6:167312423-167312473	ProgFib	skin:	n/a
9	chr6:167312423-167312473	HNPCEpiC	eye:	n/a
10	chr6:167312423-167312473	AG09309	skin:	n/a
11	chr6:167312423-167312473	H1-hESC	embryonic stem cell:	embryo
12	chr6:167312423-167312473	Hepatocyte	liver:	n/a
13	chr6:167312423-167312473	GM12891	blood:	n/a
14	chr6:167312423-167312473	BJ	skin:	n/a
15	chr6:167312423-167312473	HL-60	blood:	n/a
16	chr6:167312423-167312473	BE2_C	brain:	n/a
17	chr6:167312423-167312473	GM12878	blood:	n/a
18	chr6:167312423-167312473	PrEC	prostate:	n/a
19	chr6:167312423-167312473	NT2-D1	testis:	n/a
20	chr6:167312423-167312473	GM12892	blood:	n/a
21	chr6:167312423-167312473	AG09319	gingival:	n/a
22	chr6:167312423-167312473	T-47D	breast:	n/a
23	chr6:167312423-167312473	PANC-1	pancreas:	n/a
24	chr6:167312423-167312473	SK-N-MC	brain:	n/a
25	chr6:167312423-167312473	HEK293	kidney:	embryo
26	chr6:167312423-167312473	AG10803	skin:	n/a
27	chr6:167312423-167312473	AoSMC	blood vessel:	n/a
28	chr6:167312423-167312473	HEEpiC	esophagus:	n/a
29	chr6:167312423-167312473	MCF-7	breast:	n/a
30	chr6:167312423-167312473	HRCEpiC	kidney:	n/a
31	chr6:167312423-167312473	GM19239	blood:	n/a
32	chr6:167312423-167312473	PFSK-1	brain:	n/a
33	chr6:167312423-167312473	HUVEC	blood vessel:	n/a
34	chr6:167312423-167312473	HIPEpiC	eye:	n/a
35	chr6:167312423-167312473	AG04449	skin:	fetal
36	chr6:167312423-167312473	HAEpiC	amniotic membrane:	n/a
37	chr6:167312423-167312473	U87	brain:	n/a
38	chr6:167312423-167312473	HCT-116	colon:	n/a
39	chr6:167312423-167312473	SK-N-SH	brain:	n/a
40	chr6:167312423-167312473	A549	lung:	n/a
41	chr6:167312423-167312473	HRPEpiC	eye:	n/a
42	chr6:167312423-167312473	Caco-2	colon:	n/a
43	chr6:167312423-167312473	HCPEpiC	choroid plexus:	n/a
44	chr6:167312423-167312473	NH-A	brain:	n/a
45	chr6:167312423-167312473	ovcar-3	ovarian:	n/a
46	chr6:167312423-167312473	GM06990	blood:	n/a
47	chr6:167312423-167312473	IMR90	lung:	fetal
48	chr6:167312423-167312473	Jurkat	blood:	n/a
49	chr6:167312423-167312473	CMK	blood:	n/a
50	chr6:167312423-167312473	HPAEpiC	pulmonary alveolar:	n/a

No data

Variant related genes	Relation type
RPS6KA2-AS1	TF binding region
RPS6KA2-AS1	CpG island

Extended variants
information (count: 52 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10455981	0.82[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12196280	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12201967	0.94[EUR][1000 genomes]
rs12205487	0.90[EUR][1000 genomes]
rs12213589	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13202328	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13204302	0.82[EUR][1000 genomes]
rs1576139	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1581902	0.93[EUR][1000 genomes]
rs1831131	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2104630	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2149088	0.80[EUR][1000 genomes]
rs2149089	0.92[EUR][1000 genomes]
rs28793918	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35755974	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4710132	0.95[EUR][1000 genomes]
rs61176261	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6456136	0.93[EUR][1000 genomes]
rs6456139	0.94[EUR][1000 genomes]
rs6456140	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6915656	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7766409	0.93[EUR][1000 genomes]
rs9347164	0.93[EUR][1000 genomes]
rs9356532	0.84[EUR][1000 genomes]
rs9356533	0.93[EUR][1000 genomes]
rs9356534	0.93[EUR][1000 genomes]
rs9356535	0.84[EUR][1000 genomes]
rs9356537	0.86[EUR][1000 genomes]
rs9364883	0.92[EUR][1000 genomes]
rs9366067	0.86[EUR][1000 genomes]
rs9366069	0.84[EUR][1000 genomes]
rs9366070	0.91[EUR][1000 genomes]
rs9366072	0.95[EUR][1000 genomes]
rs9366073	0.86[EUR][1000 genomes]
rs9457234	0.93[EUR][1000 genomes]
rs9459783	0.94[EUR][1000 genomes]
rs9459784	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9459787	0.93[EUR][1000 genomes]
rs9459790	0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv605260	chr6:166984094-167455139	Enhancers Strong transcription Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
2	nsv1019381	chr6:167090236-167558598	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
3	nsv538541	chr6:167090236-167558598	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1022866	chr6:167108740-167345629	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv482525	chr6:167151805-167324406	Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv605327	chr6:167185674-167360389	Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
7	nsv1027314	chr6:167194653-167355961	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv538542	chr6:167194653-167355961	Strong transcription Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv605332	chr6:167198027-167353701	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
10	nsv948634	chr6:167200671-167838993	Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	25 gene(s)	inside rSNPs	diseases
11	nsv605333	chr6:167201033-167321693	Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
12	nsv482507	chr6:167282376-167474915	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	11 gene(s)	inside rSNPs	diseases
13	nsv823929	chr6:167312238-167317985	Active TSS Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS	TF binding region CpG island lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9348205	RPS6KA2	cis	multi-tissue	Pritchard

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:167297800-167320400	Weak transcription	Primary B cells from cord blood	blood
2	chr6:167298200-167320800	Weak transcription	Primary T cells from cord blood	blood
3	chr6:167302000-167314800	Weak transcription	Gastric	stomach
4	chr6:167307600-167317200	Weak transcription	Primary B cells from peripheral blood	blood
5	chr6:167312000-167314800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr6:167312200-167312600	Enhancers	Pancreas	Pancrea
7	chr6:167312200-167312800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:167312200-167315800	ZNF genes & repeats	Placenta	Placenta
9	chr6:167312200-167316800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr6:167312400-167312600	Enhancers	Spleen	Spleen

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links