Variant report

Variant	rs1495279
Chromosome Location	chr15:33923314-33923315
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10519837	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs11632361	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11637033	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12906139	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs12909514	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12911507	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1495282	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs16957065	0.84[ASW][hapmap];0.92[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.93[YRI][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17817452	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35022943	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35706688	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4780134	0.83[CEU][hapmap];1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043046	chr15:33714908-34321330	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	esv34037	chr15:33732616-34049083	Enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1495279	TRPM1	cis	parietal	SCAN

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33873000-33923400	Weak transcription	Brain Anterior Caudate	brain
2	chr15:33913000-33932200	Weak transcription	Brain Hippocampus Middle	brain
3	chr15:33915000-33959400	Weak transcription	Colon Smooth Muscle	Colon
4	chr15:33915400-33925800	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr15:33915400-33925800	Weak transcription	Rectal Smooth Muscle	rectum
6	chr15:33918400-33924200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr15:33920200-33927400	Weak transcription	HUES6 Cell Line	embryonic stem cell
8	chr15:33920400-33931200	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr15:33920800-33931000	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr15:33921000-33923600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
11	chr15:33921000-33925600	Weak transcription	Ovary	ovary
12	chr15:33921200-33928800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr15:33921200-33928800	Strong transcription	Stomach Smooth Muscle	stomach
14	chr15:33922200-33923600	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr15:33922200-33938400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr15:33922800-33923800	Strong transcription	Aorta	Aorta
17	chr15:33922800-33928800	Strong transcription	Fetal Muscle Leg	muscle
18	chr15:33923000-33923800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr15:33923200-33924200	Strong transcription	Brain Substantia Nigra	brain
20	chr15:33923200-33924400	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr15:33923200-33929000	Strong transcription	Fetal Muscle Trunk	muscle
22	chr15:33923200-33955600	Weak transcription	Brain Cingulate Gyrus	brain

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