Variant report

Variant	rs1338535
Chromosome Location	chr6:143929874-143929875
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11155311	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs12192270	0.85[EUR][1000 genomes]
rs12193494	1.00[CHB][hapmap];0.89[JPT][hapmap];0.92[ASN][1000 genomes]
rs12193892	0.85[EUR][1000 genomes]
rs12197980	0.83[EUR][1000 genomes]
rs12199447	0.82[EUR][1000 genomes]
rs12524982	0.89[JPT][hapmap]
rs12525281	0.89[JPT][hapmap]
rs12525974	0.89[JPT][hapmap]
rs12527275	0.89[JPT][hapmap]
rs13191026	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13192672	0.89[JPT][hapmap]
rs13195900	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13199393	1.00[CHB][hapmap];0.88[JPT][hapmap];0.92[ASN][1000 genomes]
rs13214196	0.89[JPT][hapmap]
rs1539333	0.85[EUR][1000 genomes]
rs17291151	0.89[JPT][hapmap]
rs1884172	0.89[JPT][hapmap]
rs2328506	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2328507	0.89[CEU][hapmap];0.90[EUR][1000 genomes]
rs34196129	0.90[EUR][1000 genomes]
rs35286147	0.88[EUR][1000 genomes]
rs35296418	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4424099	0.90[EUR][1000 genomes]
rs56392216	0.90[EUR][1000 genomes]
rs67470559	0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6911970	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6932482	0.89[JPT][hapmap]
rs6937798	1.00[CHB][hapmap];0.89[JPT][hapmap];0.92[ASN][1000 genomes]
rs7745970	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7757372	1.00[CEU][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9484795	0.89[JPT][hapmap]
rs9496699	1.00[CEU][hapmap];0.89[CHB][hapmap];0.89[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496740	0.89[JPT][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	esv2758084	chr6:143916621-144079976	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv2759476	chr6:143916621-144079976	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1032369	chr6:143925374-144007513	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:143917000-143973600	Weak transcription	Fetal Intestine Small	intestine
2	chr6:143917200-143941400	Weak transcription	Fetal Intestine Large	intestine
3	chr6:143919800-143930400	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr6:143919800-143930600	Weak transcription	Stomach Mucosa	stomach
5	chr6:143920000-143935200	Weak transcription	Primary T helper cells PMA-I stimulated	--
6	chr6:143920200-143935000	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr6:143920600-143934800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr6:143928400-143930600	Active TSS	Pancreatic Islets	Pancreatic Islet
9	chr6:143928600-143934400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr6:143929000-143930000	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr6:143929000-143930400	Active TSS	Stomach Smooth Muscle	stomach
12	chr6:143929200-143930000	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr6:143929200-143930000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
14	chr6:143929200-143930200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr6:143929200-143930400	Active TSS	Brain Cingulate Gyrus	brain
16	chr6:143929200-143930400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
17	chr6:143929200-143930600	Active TSS	Placenta	Placenta
18	chr6:143929200-143935400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr6:143929400-143930400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr6:143929400-143930400	Active TSS	Right Atrium	heart
21	chr6:143929400-143930800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr6:143929400-143934800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr6:143929400-143935000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr6:143929400-143935200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr6:143929600-143931400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr6:143929600-143938600	Weak transcription	Fetal Heart	heart
27	chr6:143929600-143941800	Weak transcription	Esophagus	oesophagus
28	chr6:143929600-143943400	Weak transcription	Left Ventricle	heart

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