Variant report

Variant	rs10903338
Chromosome Location	chr8:11310290-11310291
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:11306300..11308613-chr8:11308996..11313515,5	K562	blood:
2	chr8:11297528..11299485-chr8:11309455..11311186,2	K562	blood:
3	chr8:11302281..11304397-chr8:11308190..11310452,3	K562	blood:

Variant related genes	Relation type
ENSG00000154319	Chromatin interaction

Extended variants
information (count: 69 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10481455	0.86[CHB][hapmap];0.83[CHD][hapmap];0.83[GIH][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs1057750	0.85[CHB][hapmap];0.88[CHD][hapmap];0.80[ASN][1000 genomes]
rs11250136	0.82[ASN][1000 genomes]
rs11250137	0.87[ASN][1000 genomes]
rs11773929	0.90[ASN][1000 genomes]
rs11779875	0.80[CHD][hapmap]
rs11782375	0.81[CHB][hapmap]
rs11785710	0.99[ASN][1000 genomes]
rs11991448	0.84[ASN][1000 genomes]
rs11991453	0.81[ASN][1000 genomes]
rs12114115	0.85[CHB][hapmap];0.85[CHD][hapmap];0.91[GIH][hapmap];0.81[JPT][hapmap];0.82[TSI][hapmap];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12543308	0.93[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];0.82[GIH][hapmap];0.90[JPT][hapmap];0.93[MEX][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12674532	0.86[CHB][hapmap]
rs13248746	0.84[ASN][1000 genomes]
rs13251015	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13253092	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13259219	0.80[CHB][hapmap];0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs13264212	0.91[CHB][hapmap];0.93[CHD][hapmap];0.81[ASN][1000 genomes]
rs13439411	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[ASN][1000 genomes]
rs2003423	0.80[CHD][hapmap]
rs2280803	0.81[CHB][hapmap];0.85[CHD][hapmap];0.90[JPT][hapmap]
rs2409766	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2409772	0.86[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs2409773	0.86[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs2409774	0.83[ASN][1000 genomes]
rs2409775	0.86[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs2618431	0.95[CHB][hapmap];0.83[CHD][hapmap];0.85[JPT][hapmap]
rs2618475	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs2736320	0.91[CHB][hapmap];0.81[JPT][hapmap]
rs28639872	0.82[ASN][1000 genomes]
rs28700987	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2898279	0.85[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs2898280	0.81[CHB][hapmap];0.84[CHD][hapmap]
rs35161715	0.81[ASN][1000 genomes]
rs3989103	0.81[ASN][1000 genomes]
rs4240675	0.90[CHB][hapmap];0.84[JPT][hapmap];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4581006	0.81[CHB][hapmap];0.83[CHD][hapmap]
rs4840560	0.83[ASN][1000 genomes]
rs4840561	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4841533	0.83[ASN][1000 genomes]
rs4841534	0.83[ASN][1000 genomes]
rs4841535	0.83[ASN][1000 genomes]
rs4841536	0.83[ASN][1000 genomes]
rs4841537	0.86[CHB][hapmap];0.91[CHD][hapmap];0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs4841539	0.91[CHB][hapmap];0.90[CHD][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs4841540	0.93[CEU][hapmap];0.91[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];0.90[JPT][hapmap];0.92[MEX][hapmap];0.89[TSI][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4841542	0.96[ASN][1000 genomes]
rs58004460	0.82[ASN][1000 genomes]
rs6601589	0.87[ASN][1000 genomes]
rs6601592	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs6982606	0.91[CHB][hapmap];0.82[EUR][1000 genomes]
rs6983820	0.83[ASN][1000 genomes]
rs6984212	0.90[CHB][hapmap];0.85[CHD][hapmap];0.91[GIH][hapmap];0.90[JPT][hapmap];0.82[TSI][hapmap];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7001675	0.85[CHB][hapmap];0.83[CHD][hapmap];0.85[JPT][hapmap];0.82[ASN][1000 genomes]
rs7003814	0.85[CHB][hapmap]
rs7007712	0.81[CHB][hapmap];0.81[CHD][hapmap];0.81[JPT][hapmap]
rs7018402	0.86[CHB][hapmap];0.83[CHD][hapmap];0.85[JPT][hapmap];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9644687	0.81[CHB][hapmap]
rs9792166	0.81[ASN][1000 genomes]
rs9792175	0.86[CHB][hapmap];0.86[CHD][hapmap];0.90[JPT][hapmap];0.83[ASN][1000 genomes]
rs9792375	0.80[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1035072	chr8:10819444-11480692	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv539473	chr8:10819444-11480692	Weak transcription Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv529399	chr8:10970091-11805960	Enhancers Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
4	esv34097	chr8:11177372-11489894	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
5	nsv522860	chr8:11253879-11330364	Bivalent/Poised TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv890357	chr8:11286146-11330364	Bivalent/Poised TSS Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv1030756	chr8:11292073-11332782	Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv1022074	chr8:11292256-11394526	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10903338	TDH	cis	cerebellum	SCAN
rs10903338	CTSB	cis	cerebellum	SCAN

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:11287800-11313600	Weak transcription	Right Atrium	heart
2	chr8:11292400-11313000	Weak transcription	Pancreas	Pancrea
3	chr8:11296200-11319200	Enhancers	Fetal Thymus	thymus
4	chr8:11303600-11323200	Enhancers	Brain Inferior Temporal Lobe	brain
5	chr8:11305800-11310600	Enhancers	Brain Substantia Nigra	brain
6	chr8:11305800-11312200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr8:11306000-11310400	Enhancers	Brain Angular Gyrus	brain
8	chr8:11306000-11310400	Enhancers	Brain Cingulate Gyrus	brain
9	chr8:11306000-11310400	Enhancers	Brain Hippocampus Middle	brain
10	chr8:11306400-11311800	Weak transcription	Gastric	stomach
11	chr8:11306400-11312200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr8:11306600-11311400	Weak transcription	A549	lung
13	chr8:11306800-11310400	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr8:11307000-11311400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr8:11307000-11311400	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr8:11307200-11314000	Weak transcription	Fetal Heart	heart
17	chr8:11307200-11322000	Weak transcription	HSMMtube	muscle
18	chr8:11307400-11312000	Weak transcription	Esophagus	oesophagus
19	chr8:11307600-11310600	Enhancers	Brain Anterior Caudate	brain
20	chr8:11307600-11312400	Weak transcription	Right Ventricle	heart
21	chr8:11307600-11319800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr8:11307800-11311600	Weak transcription	Fetal Brain Male	brain
23	chr8:11307800-11313800	Weak transcription	NHEK	skin
24	chr8:11308000-11312000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr8:11308200-11311600	Weak transcription	Fetal Brain Female	brain
26	chr8:11308200-11313200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr8:11308200-11313400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr8:11308400-11314600	Enhancers	Thymus	Thymus
29	chr8:11308600-11310600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr8:11308600-11314000	Enhancers	Primary T cells fromperipheralblood	blood
31	chr8:11308600-11314800	Enhancers	Primary B cells from peripheral blood	blood
32	chr8:11308800-11310600	Enhancers	Primary B cells from cord blood	blood
33	chr8:11308800-11313600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
34	chr8:11308800-11316600	Enhancers	Primary T cells from cord blood	blood
35	chr8:11309000-11310600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
36	chr8:11309200-11310400	Enhancers	Primary hematopoietic stem cells	blood
37	chr8:11309400-11313800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
38	chr8:11309600-11313200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
39	chr8:11309800-11310400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr8:11309800-11311000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
41	chr8:11309800-11311800	Weak transcription	Spleen	Spleen
42	chr8:11309800-11313800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr8:11310000-11310400	Enhancers	Primary T helper naive cells from peripheral blood	blood
44	chr8:11310000-11310600	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr8:11310000-11311200	Weak transcription	Primary T helper cells fromperipheralblood	blood
46	chr8:11310000-11311200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr8:11310000-11311600	Weak transcription	Primary T helper cells PMA-I stimulated	--
48	chr8:11310000-11312200	Enhancers	GM12878-XiMat	blood
49	chr8:11310200-11310400	Bivalent Enhancer	ES-WA7 Cell Line	embryonic stem cell
50	chr8:11310200-11310400	Enhancers	Primary hematopoietic stem cells short term culture	blood

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