Variant report

Variant	rs16971858
Chromosome Location	chr15:41835158-41835159
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:41827594..41830988-chr15:41833491..41835867,5	K562	blood:
2	chr15:41827251..41831779-chr15:41832424..41837409,12	K562	blood:
3	chr15:41766272..41768220-chr15:41833499..41835975,2	K562	blood:
4	chr15:41834571..41836708-chr15:41849262..41851156,2	K562	blood:
5	chr15:41822152..41826086-chr15:41831755..41835975,4	K562	blood:
6	chr15:41812182..41819156-chr15:41830894..41838104,9	K562	blood:
7	chr15:41812182..41814825-chr15:41833135..41836029,3	K562	blood:

Variant related genes	Relation type
ENSG00000137815	Chromatin interaction
ENSG00000103932	Chromatin interaction
ENSG00000092445	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11070337	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11855280	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11855347	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11858529	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11858969	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12101764	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12101781	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12441959	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16971861	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2289741	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs2305031	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs4923901	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4923902	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4923903	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs928371	0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904112	chr15:41806658-41836234	Weak transcription Strong transcription Genic enhancers Enhancers Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41806400-41835200	Weak transcription	Right Atrium	heart
2	chr15:41806600-41835200	Weak transcription	Fetal Heart	heart
3	chr15:41807200-41835600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
4	chr15:41808600-41835400	Weak transcription	Fetal Brain Male	brain
5	chr15:41821800-41835600	Weak transcription	Psoas Muscle	Psoas
6	chr15:41821800-41835800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr15:41822200-41835800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr15:41823000-41835600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr15:41823200-41835800	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr15:41823400-41835600	Weak transcription	Small Intestine	intestine
11	chr15:41823400-41835800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr15:41823600-41835600	Weak transcription	Stomach Mucosa	stomach
13	chr15:41825000-41835200	Weak transcription	A549	lung
14	chr15:41825400-41835800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr15:41826600-41835800	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr15:41827800-41835800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr15:41828200-41835200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr15:41828600-41835200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr15:41828600-41835200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
20	chr15:41828800-41835200	Weak transcription	HUVEC	blood vessel
21	chr15:41828800-41835600	Weak transcription	HSMMtube	muscle
22	chr15:41828800-41835800	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr15:41828800-41835800	Weak transcription	Fetal Kidney	kidney
24	chr15:41829000-41835600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr15:41829000-41835600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr15:41829000-41835800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr15:41829000-41835800	Weak transcription	NH-A	brain
28	chr15:41829200-41835200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr15:41829200-41835200	Weak transcription	Right Ventricle	heart
30	chr15:41829200-41835200	Weak transcription	NHDF-Ad	bronchial
31	chr15:41829200-41835600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr15:41829200-41835600	Weak transcription	Primary monocytes fromperipheralblood	blood
33	chr15:41829200-41835600	Weak transcription	Primary B cells from peripheral blood	blood
34	chr15:41829200-41835600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr15:41829200-41835600	Weak transcription	Brain Angular Gyrus	brain
36	chr15:41829200-41835600	Weak transcription	Fetal Thymus	thymus
37	chr15:41829200-41835600	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr15:41829200-41835800	Weak transcription	Primary neutrophils fromperipheralblood	blood
39	chr15:41829200-41836000	Weak transcription	Lung	lung
40	chr15:41829400-41835200	Weak transcription	H1 Cell Line	embryonic stem cell
41	chr15:41829400-41835200	Weak transcription	Primary B cells from cord blood	blood
42	chr15:41829400-41835200	Weak transcription	Primary T helper cells PMA-I stimulated	--
43	chr15:41829400-41835200	Weak transcription	Cortex derived primary cultured neurospheres	brain
44	chr15:41829400-41835200	Weak transcription	Brain Substantia Nigra	brain
45	chr15:41829400-41835200	Weak transcription	Fetal Intestine Small	intestine
46	chr15:41829400-41835200	Weak transcription	Stomach Smooth Muscle	stomach
47	chr15:41829400-41835200	Weak transcription	NHLF	lung
48	chr15:41829400-41835600	Weak transcription	H9 Cell Line	embryonic stem cell
49	chr15:41829400-41835600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
50	chr15:41829400-41835600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links