Variant report

Variant	rs16934161
Chromosome Location	chr12:29491941-29491942
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:29491567..29494564-chr12:29531936..29534228,2	K562	blood:

Variant related genes	Relation type
ENSG00000087502	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10082724	0.85[CEU][hapmap];0.81[JPT][hapmap];0.82[EUR][1000 genomes]
rs10161279	0.81[EUR][1000 genomes]
rs10843388	0.85[CEU][hapmap];0.81[JPT][hapmap];0.95[EUR][1000 genomes]
rs10843393	0.85[CEU][hapmap];0.81[JPT][hapmap];0.81[EUR][1000 genomes]
rs11050146	0.81[JPT][hapmap]
rs11050210	0.80[EUR][1000 genomes]
rs12297776	0.85[CEU][hapmap];0.82[CHB][hapmap];0.90[JPT][hapmap]
rs12304413	0.81[EUR][1000 genomes]
rs12311187	0.85[CEU][hapmap];0.90[JPT][hapmap];0.95[EUR][1000 genomes]
rs16934083	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16934124	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs16934148	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4931176	1.00[CEU][hapmap];0.82[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6487798	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7306412	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7309132	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7312068	1.00[CEU][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes]
rs7965758	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532233	chr12:29009388-29496179	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer 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	nsv995123	chr12:29095272-29571558	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	nsv1053641	chr12:29268813-29854413	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:29427200-29527400	Weak transcription	Small Intestine	intestine
2	chr12:29452800-29494200	Weak transcription	Lung	lung
3	chr12:29459400-29493000	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr12:29462600-29533000	Weak transcription	Aorta	Aorta
5	chr12:29465000-29494200	Weak transcription	Colonic Mucosa	Colon
6	chr12:29470000-29495600	Weak transcription	Stomach Smooth Muscle	stomach
7	chr12:29470000-29500000	Weak transcription	K562	blood
8	chr12:29470800-29492800	Weak transcription	Primary B cells from peripheral blood	blood
9	chr12:29470800-29492800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr12:29470800-29493400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr12:29470800-29493800	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr12:29470800-29496000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr12:29470800-29508400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr12:29470800-29532800	Weak transcription	Right Ventricle	heart
15	chr12:29471200-29493000	Weak transcription	Brain Substantia Nigra	brain
16	chr12:29471200-29494400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr12:29471400-29495800	Weak transcription	Brain Anterior Caudate	brain
18	chr12:29471600-29492600	Weak transcription	Duodenum Mucosa	Duodenum
19	chr12:29472200-29493800	Weak transcription	Left Ventricle	heart
20	chr12:29473800-29493000	Weak transcription	HMEC	breast
21	chr12:29473800-29522600	Weak transcription	NHEK	skin
22	chr12:29474000-29493400	Weak transcription	HUVEC	blood vessel
23	chr12:29474200-29493000	Weak transcription	Osteobl	bone
24	chr12:29474200-29494200	Weak transcription	NHDF-Ad	bronchial
25	chr12:29474800-29493800	Weak transcription	Fetal Intestine Large	intestine
26	chr12:29475800-29493200	Weak transcription	Primary T helper cells fromperipheralblood	blood
27	chr12:29475800-29493400	Weak transcription	Colon Smooth Muscle	Colon
28	chr12:29476000-29492200	Weak transcription	Placenta	Placenta
29	chr12:29476000-29496000	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr12:29476000-29502600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr12:29476200-29493800	Weak transcription	Fetal Muscle Trunk	muscle
32	chr12:29476200-29509400	Weak transcription	Spleen	Spleen
33	chr12:29476200-29512800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
34	chr12:29476200-29533400	Weak transcription	Pancreas	Pancrea
35	chr12:29476400-29493000	Weak transcription	HUES6 Cell Line	embryonic stem cell
36	chr12:29476400-29493600	Weak transcription	Primary T cells from cord blood	blood
37	chr12:29476400-29494200	Weak transcription	Fetal Stomach	stomach
38	chr12:29476400-29498600	Weak transcription	Ovary	ovary
39	chr12:29476400-29509600	Weak transcription	H1 Cell Line	embryonic stem cell
40	chr12:29476400-29532600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr12:29476400-29533200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr12:29476600-29492800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr12:29476600-29494200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr12:29476600-29499200	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr12:29477000-29492400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
46	chr12:29477000-29493800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr12:29477000-29517800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr12:29477200-29494200	Weak transcription	Fetal Intestine Small	intestine
49	chr12:29482000-29497200	Weak transcription	Brain Angular Gyrus	brain
50	chr12:29482200-29501400	Strong transcription	Primary neutrophils fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links