Variant report

Variant	rs6834339
Chromosome Location	chr4:48442327-48442328
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs1015699	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10805168	0.89[EUR][1000 genomes]
rs11731383	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12503644	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12507206	0.81[ASN][1000 genomes]
rs12511991	0.81[ASN][1000 genomes]
rs13115295	0.81[ASN][1000 genomes]
rs13150017	0.94[ASN][1000 genomes]
rs1352434	0.89[EUR][1000 genomes]
rs1488647	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1586540	0.90[EUR][1000 genomes]
rs16861305	0.88[ASN][1000 genomes]
rs1948167	0.89[EUR][1000 genomes]
rs2291474	0.81[ASN][1000 genomes]
rs2353314	0.86[EUR][1000 genomes]
rs2353315	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2353855	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34975258	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35758434	0.89[EUR][1000 genomes]
rs4694895	0.88[EUR][1000 genomes]
rs4695377	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4695381	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62309455	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62309458	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7438713	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]

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	nsv470034	chr4:48427773-48605628	Strong transcription Weak transcription Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
2	nsv594121	chr4:48427773-48605628	Bivalent/Poised TSS Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6834339	SLC10A4	cis	lung	GTEx
rs6834339	SLAIN2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:48441600-48442600	Enhancers	HUES6 Cell Line	embryonic stem cell
2	chr4:48441800-48442400	Enhancers	Left Ventricle	heart
3	chr4:48441800-48442600	Enhancers	H9 Cell Line	embryonic stem cell
4	chr4:48442000-48442400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr4:48442000-48442400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr4:48442000-48442400	Enhancers	HSMMtube	muscle
7	chr4:48442000-48442600	Enhancers	Psoas Muscle	Psoas
8	chr4:48442000-48442600	Enhancers	Right Atrium	heart
9	chr4:48442200-48442400	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr4:48442200-48442600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr4:48442200-48442600	Enhancers	Right Ventricle	heart
12	chr4:48442200-48442800	Enhancers	ES-I3 Cell Line	embryonic stem cell

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