Variant report

Variant	rs7373984
Chromosome Location	chr3:134820091-134820092
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10935154	0.92[JPT][hapmap];0.84[TSI][hapmap];0.82[EUR][1000 genomes]
rs11706256	0.93[CHB][hapmap]
rs13314927	1.00[CHB][hapmap];0.80[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs17765097	0.84[CHD][hapmap];0.84[GIH][hapmap];0.90[JPT][hapmap];0.80[ASN][1000 genomes]
rs3732567	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs6439557	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7372127	0.88[ASW][hapmap];0.92[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.95[MEX][hapmap];0.86[MKK][hapmap];0.93[TSI][hapmap];0.93[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7374822	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7374961	0.93[CHB][hapmap];0.80[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9821105	0.87[CHD][hapmap];0.98[GIH][hapmap];0.92[JPT][hapmap];0.82[MEX][hapmap];0.87[TSI][hapmap];0.84[ASN][1000 genomes]
rs9840666	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9845899	0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs9847974	0.87[CHD][hapmap];0.89[GIH][hapmap];0.92[JPT][hapmap];0.84[TSI][hapmap]
rs9866494	0.92[JPT][hapmap];0.84[ASN][1000 genomes]
rs9872821	0.94[ASN][1000 genomes]
rs9873080	0.91[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009634	chr3:134543259-134820208	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv536720	chr3:134543259-134820208	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1000277	chr3:134546080-134970837	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv877516	chr3:134689420-134918522	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv829731	chr3:134711713-134885064	Strong transcription Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv520932	chr3:134809377-134821399	Weak transcription Enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7373984	CLDN18	cis	parietal	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:134809200-134855200	Weak transcription	GM12878-XiMat	blood
2	chr3:134813800-134822800	Weak transcription	Stomach Smooth Muscle	stomach
3	chr3:134814800-134820600	Weak transcription	Fetal Brain Female	brain
4	chr3:134817000-134824600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr3:134818400-134820200	Enhancers	iPS-18 Cell Line	embryonic stem cell
6	chr3:134818800-134822400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr3:134819000-134822800	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr3:134819200-134822600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr3:134819400-134822600	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr3:134819400-134822600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr3:134819600-134822800	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr3:134819800-134822600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr3:134819800-134822600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr3:134819800-134822600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr3:134819800-134822800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr3:134820000-134822600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr3:134820000-134822600	Weak transcription	H9 Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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