Variant report

Variant	rs1034449
Chromosome Location	chr6:35189577-35189578
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:35177824..35181731-chr6:35185438..35190079,5	K562	blood:
2	chr6:35188260..35190147-chr6:35205667..35207207,2	K562	blood:
3	chr6:35182167..35187066-chr6:35187567..35191599,8	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TCP11-2	chr6:35188147-35192407	ENSG00000272374.1

Variant related genes	Relation type
ENSG00000146197	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs12173347	1.00[YRI][hapmap]
rs16872484	1.00[YRI][hapmap]
rs2057537	0.81[MKK][hapmap]
rs2296194	1.00[MKK][hapmap];1.00[YRI][hapmap]
rs3800383	1.00[MKK][hapmap]
rs3800386	1.00[MKK][hapmap]
rs3800387	1.00[MKK][hapmap]
rs3800388	1.00[MKK][hapmap]
rs4711413	1.00[MKK][hapmap]
rs4713848	1.00[MKK][hapmap]
rs9348966	1.00[YRI][hapmap]
rs9357194	1.00[MKK][hapmap];1.00[YRI][hapmap]
rs9368854	1.00[MKK][hapmap]
rs9380489	1.00[YRI][hapmap]
rs9380492	0.81[MKK][hapmap]
rs9658174	0.81[AFR][1000 genomes]

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	esv3428128	chr6:35150524-35225843	Bivalent Enhancer Enhancers Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	esv2758047	chr6:35168116-35291002	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
3	esv2759419	chr6:35168116-35291002	Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35182400-35209000	Weak transcription	A549	lung
2	chr6:35182600-35198600	Weak transcription	Gastric	stomach
3	chr6:35183200-35198800	Weak transcription	Ovary	ovary
4	chr6:35184800-35205600	Weak transcription	Fetal Brain Female	brain
5	chr6:35185400-35198800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr6:35185600-35194200	Enhancers	Fetal Heart	heart
7	chr6:35185800-35198400	Weak transcription	Brain Cingulate Gyrus	brain
8	chr6:35186200-35202800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr6:35186400-35198000	Weak transcription	Rectal Smooth Muscle	rectum
10	chr6:35186400-35212000	Weak transcription	NHDF-Ad	bronchial
11	chr6:35186600-35189600	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr6:35186600-35193200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr6:35186600-35198200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr6:35186600-35204600	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr6:35186600-35205400	Weak transcription	Fetal Muscle Trunk	muscle
16	chr6:35186800-35212000	Weak transcription	Dnd41	blood
17	chr6:35187000-35196400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr6:35187000-35197600	Weak transcription	Stomach Smooth Muscle	stomach
19	chr6:35187200-35189800	Genic enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr6:35187400-35198400	Weak transcription	Brain Hippocampus Middle	brain
21	chr6:35187600-35198400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr6:35187800-35192600	Weak transcription	Brain Anterior Caudate	brain
23	chr6:35188000-35190200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr6:35188000-35191400	Weak transcription	Fetal Stomach	stomach
25	chr6:35188000-35195200	Weak transcription	Lung	lung
26	chr6:35188000-35198400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
27	chr6:35188000-35198600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr6:35188000-35199400	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr6:35188200-35190000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr6:35188200-35200400	Genic enhancers	Osteobl	bone
31	chr6:35188200-35205800	Weak transcription	Fetal Kidney	kidney
32	chr6:35188200-35206400	Weak transcription	NH-A	brain
33	chr6:35188400-35197200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr6:35188400-35199600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr6:35188600-35189600	Weak transcription	Right Ventricle	heart
36	chr6:35188600-35195400	Weak transcription	Aorta	Aorta
37	chr6:35188800-35191800	Enhancers	Left Ventricle	heart
38	chr6:35188800-35194600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr6:35188800-35195200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr6:35189000-35190400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr6:35189000-35195200	Weak transcription	Fetal Intestine Small	intestine
42	chr6:35189200-35200000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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