Variant report

Variant	rs6904671
Chromosome Location	chr6:161866296-161866297
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:161864849..161867369-chr6:162020785..162023410,2	K562	blood:

Extended variants
information (count: 15 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs12154057	0.86[CHB][hapmap]
rs6455728	0.85[JPT][hapmap]
rs73785918	0.85[ASN][1000 genomes]
rs7746813	0.85[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv481931	chr6:161647026-161961906	Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv1031234	chr6:161676768-162250726	Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv886819	chr6:161712035-162520133	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv886820	chr6:161712880-162184932	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv830854	chr6:161739926-161927515	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv518931	chr6:161793319-162406335	Enhancers Weak transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv481861	chr6:161802883-162160197	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv481981	chr6:161829077-162215745	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1033603	chr6:161844266-162001436	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv481750	chr6:161850976-161996586	Bivalent Enhancer Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Strong transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv481932	chr6:161862158-162097499	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6904671	NCRNA00241	cis	parietal	SCAN
rs6904671	AGPAT4	cis	cerebellum	SCAN

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:161860600-161871000	Weak transcription	Right Atrium	heart
2	chr6:161862600-161868600	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr6:161862800-161867600	Enhancers	Fetal Brain Male	brain
4	chr6:161863400-161867600	Enhancers	HSMM	muscle
5	chr6:161864400-161866400	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr6:161864400-161866400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr6:161864400-161867600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr6:161864400-161867600	Enhancers	Fetal Muscle Leg	muscle
9	chr6:161864600-161866600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr6:161864600-161866800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr6:161864800-161866400	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
12	chr6:161864800-161866400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr6:161864800-161866400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr6:161864800-161866800	Enhancers	Fetal Brain Female	brain
15	chr6:161864800-161866800	Enhancers	Rectal Smooth Muscle	rectum
16	chr6:161864800-161866800	Enhancers	HSMMtube	muscle
17	chr6:161864800-161867000	Enhancers	Fetal Kidney	kidney
18	chr6:161864800-161867000	Enhancers	Pancreas	Pancrea
19	chr6:161864800-161867000	Enhancers	NH-A	brain
20	chr6:161865000-161866400	Enhancers	NHDF-Ad	bronchial
21	chr6:161865000-161866600	Enhancers	Brain Angular Gyrus	brain
22	chr6:161865000-161866600	Enhancers	Ovary	ovary
23	chr6:161865000-161867600	Enhancers	Adipose Nuclei	Adipose
24	chr6:161865000-161867600	Enhancers	Fetal Muscle Trunk	muscle
25	chr6:161865200-161866400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
26	chr6:161865200-161866400	Enhancers	Fetal Heart	heart
27	chr6:161865200-161866600	Enhancers	NHLF	lung
28	chr6:161865400-161866400	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
29	chr6:161865400-161866400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
30	chr6:161865400-161866400	Flanking Active TSS	Brain Cingulate Gyrus	brain
31	chr6:161865400-161866600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr6:161865400-161866600	Enhancers	Brain Substantia Nigra	brain
33	chr6:161865400-161866800	Enhancers	Fetal Lung	lung
34	chr6:161865400-161867800	Enhancers	Breast Myoepithelial Primary Cells	Breast
35	chr6:161865600-161866400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
36	chr6:161865600-161866400	Enhancers	Aorta	Aorta
37	chr6:161865600-161866400	Active TSS	Colon Smooth Muscle	Colon
38	chr6:161865800-161866400	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr6:161865800-161866400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr6:161865800-161866600	Weak transcription	Lung	lung
41	chr6:161865800-161868200	Enhancers	Brain Germinal Matrix	brain
42	chr6:161866000-161866400	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr6:161866000-161866400	Flanking Active TSS	Brain Anterior Caudate	brain
44	chr6:161866000-161866600	Flanking Active TSS	Stomach Smooth Muscle	stomach
45	chr6:161866000-161867000	Enhancers	Brain Inferior Temporal Lobe	brain
46	chr6:161866200-161866400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr6:161866200-161866400	Flanking Active TSS	Brain Hippocampus Middle	brain
48	chr6:161866200-161866400	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
49	chr6:161866200-161866400	Enhancers	Gastric	stomach
50	chr6:161866200-161866400	Enhancers	Spleen	Spleen

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