Variant report

Variant	rs10282953
Chromosome Location	chr8:19502782-19502783
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CEBPB	chr8:19502631-19502953	IMR90	lung:	n/a	n/a
2	FOS	chr8:19502681-19502822	MCF10A-Er-Src	breast:	n/a	n/a
3	CEBPB	chr8:19502647-19502941	A549	lung:	n/a	n/a
4	CEBPB	chr8:19502652-19502938	Hela-S3	cervix:	n/a	n/a

Variant related genes	Relation type
CSGALNACT1	TF binding region

Extended variants
information (count: 30 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10101438	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10283283	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs10503663	1.00[MKK][hapmap]
rs13252345	1.00[JPT][hapmap]
rs13259875	1.00[JPT][hapmap]
rs17128770	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17480734	0.83[CHD][hapmap];1.00[JPT][hapmap]
rs28404075	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28483049	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2957616	1.00[JPT][hapmap]
rs2957618	1.00[JPT][hapmap]
rs2975424	1.00[JPT][hapmap]
rs4273864	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4922074	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6421414	1.00[CHB][hapmap];0.85[ASN][1000 genomes]
rs7001715	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7003476	1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap]
rs7017890	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs73214673	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs867930	1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949636	chr8:18957705-19664732	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv948861	chr8:19199688-19609029	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv949304	chr8:19199688-19625912	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer 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	11 gene(s)	inside rSNPs	diseases
4	nsv890625	chr8:19368697-19799641	Strong transcription Weak transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
5	nsv890627	chr8:19389865-19561997	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv610754	chr8:19419494-19525294	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv1021575	chr8:19430653-19623452	Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv1025271	chr8:19435147-19574969	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv1015448	chr8:19474715-19520367	Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv6106	chr8:19499554-19544249	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs10282953	SLC16A14	trans	lymphoblastoid	seeQTL
rs10282953	CSGALNACT1	cis	lymphoblastoid	seeQTL
rs10282953	ChGn	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:19482000-19520000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr8:19495800-19508600	Weak transcription	Primary T cells from cord blood	blood
3	chr8:19496000-19503000	Weak transcription	Pancreas	Pancrea
4	chr8:19496000-19503000	Weak transcription	Right Atrium	heart
5	chr8:19496000-19503000	Weak transcription	Spleen	Spleen
6	chr8:19496000-19504200	Weak transcription	Right Ventricle	heart
7	chr8:19497600-19502800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr8:19498200-19508200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr8:19499600-19508200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr8:19500000-19502800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr8:19500200-19502800	Weak transcription	Brain Cingulate Gyrus	brain
12	chr8:19500200-19502800	Weak transcription	Lung	lung
13	chr8:19500200-19503000	Weak transcription	Esophagus	oesophagus
14	chr8:19500200-19503000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr8:19500200-19504000	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr8:19500400-19502800	Weak transcription	Left Ventricle	heart
17	chr8:19500400-19502800	Enhancers	A549	lung
18	chr8:19500400-19502800	Weak transcription	NH-A	brain
19	chr8:19500400-19504600	Weak transcription	NHDF-Ad	bronchial
20	chr8:19500400-19510600	Weak transcription	NHLF	lung
21	chr8:19500400-19519600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr8:19501000-19510800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr8:19501200-19503000	Enhancers	Primary neutrophils fromperipheralblood	blood
24	chr8:19501400-19504400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
25	chr8:19501600-19502800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr8:19501600-19503200	Enhancers	Primary B cells from peripheral blood	blood
27	chr8:19501600-19503400	Enhancers	Primary B cells from cord blood	blood
28	chr8:19501800-19502800	Enhancers	Monocytes-CD14+_RO01746	blood
29	chr8:19501800-19503000	Enhancers	Primary monocytes fromperipheralblood	blood
30	chr8:19502200-19502800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr8:19502200-19503600	Enhancers	Brain Hippocampus Middle	brain
32	chr8:19502200-19506200	Enhancers	Brain Substantia Nigra	brain
33	chr8:19502400-19503000	Enhancers	Primary T helper cells PMA-I stimulated	--
34	chr8:19502400-19503000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr8:19502400-19503400	Enhancers	Primary hematopoietic stem cells	blood
36	chr8:19502400-19504400	Enhancers	Brain Anterior Caudate	brain
37	chr8:19502600-19502800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr8:19502600-19503000	Enhancers	Osteobl	bone
39	chr8:19502600-19503200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr8:19502600-19503200	Enhancers	Primary T helper cells fromperipheralblood	blood
41	chr8:19502600-19503200	Enhancers	Fetal Lung	lung
42	chr8:19502600-19503200	Genic enhancers	Hela-S3	cervix
43	chr8:19502600-19503200	Enhancers	HMEC	breast
44	chr8:19502600-19503400	Enhancers	Brain Angular Gyrus	brain
45	chr8:19502600-19505600	Enhancers	Brain Inferior Temporal Lobe	brain

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