Variant report

Variant	rs708114
Chromosome Location	chr1:228197496-228197497
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:228196689..228198399-chr1:228395610..228397329,2	MCF-7	breast:
2	chr1:228191215..228193545-chr1:228195515..228198090,2	MCF-7	breast:
3	chr1:228196561..228199539-chr1:228260175..228262293,2	MCF-7	breast:
4	chr1:228194958..228197764-chr1:228296157..228297740,2	K562	blood:
5	chr1:228195432..228198403-chr1:228200183..228201767,2	K562	blood:

Variant related genes	Relation type
ENSG00000162910	Chromatin interaction
ENSG00000154358	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10916265	0.95[CHB][hapmap];0.89[JPT][hapmap]
rs10916268	0.82[CHB][hapmap]
rs12564763	0.95[CHB][hapmap];0.80[CHD][hapmap];0.85[JPT][hapmap]
rs1745414	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1745416	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1745417	0.95[CHB][hapmap];0.95[JPT][hapmap];0.87[YRI][hapmap];0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2313118	0.93[ASW][hapmap];0.82[CEU][hapmap];0.82[CHD][hapmap]
rs2313602	0.82[CHB][hapmap]
rs2527614	0.93[ASW][hapmap];0.82[CEU][hapmap];0.82[CHD][hapmap]
rs2527615	0.82[CEU][hapmap]
rs2796056	0.82[CEU][hapmap]
rs3094911	0.82[TSI][hapmap]
rs3094912	1.00[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.87[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3094913	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3094914	1.00[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs592736	0.93[ASW][hapmap];0.82[CEU][hapmap];0.82[CHD][hapmap]
rs594916	0.93[ASW][hapmap];0.82[CEU][hapmap];0.82[CHD][hapmap]
rs596675	0.82[CEU][hapmap]
rs632832	0.93[ASW][hapmap];0.82[CEU][hapmap];0.82[CHD][hapmap]
rs634106	0.82[CEU][hapmap]
rs697762	0.80[AFR][1000 genomes]
rs708107	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs708111	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs708112	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs708113	0.82[YRI][hapmap]
rs708115	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs708116	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs708117	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs708118	0.81[ASW][hapmap];0.86[MKK][hapmap];0.82[TSI][hapmap];0.93[YRI][hapmap];0.86[AFR][1000 genomes]
rs708120	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs708121	0.82[TSI][hapmap]
rs7512209	0.86[CHB][hapmap];0.82[YRI][hapmap]
rs7537636	0.86[CHB][hapmap]
rs849904	0.80[CEU][hapmap]
rs947631	0.96[CEU][hapmap];0.87[EUR][1000 genomes]
rs964941	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.95[MEX][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010605	chr1:227770415-228332690	Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
2	esv32853	chr1:227880116-228806209	Enhancers Genic enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	187 gene(s)	inside rSNPs	diseases
3	nsv427952	chr1:227881664-228308629	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	nsv826908	chr1:227895386-228691100	Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
5	nsv516409	chr1:228035131-228296745	Enhancers Genic enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
6	nsv523935	chr1:228038124-228681749	Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	137 gene(s)	inside rSNPs	diseases
7	nsv947387	chr1:228140028-228206630	Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
8	nsv832803	chr1:228155118-228313681	Transcr. at gene 5' and 3' Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
9	nsv873252	chr1:228174528-228371551	Strong transcription Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
10	nsv945349	chr1:228186556-228245135	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs708114	C1orf145	cis	Thyroid	GTEx
rs708114	OBSCN	cis	Esophagus Mucosa	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:228195200-228213200	Weak transcription	Right Atrium	heart
2	chr1:228196600-228199000	Bivalent Enhancer	Placenta	Placenta
3	chr1:228196800-228197600	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr1:228197000-228197600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr1:228197000-228197600	Enhancers	Esophagus	oesophagus
6	chr1:228197000-228198400	Enhancers	GM12878-XiMat	blood
7	chr1:228197200-228197600	Flanking Active TSS	Primary B cells from peripheral blood	blood
8	chr1:228197200-228197600	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr1:228197200-228197600	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr1:228197200-228197800	Enhancers	Spleen	Spleen
11	chr1:228197200-228198200	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
12	chr1:228197400-228197600	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
13	chr1:228197400-228197600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr1:228197400-228197600	Bivalent Enhancer	Sigmoid Colon	Sigmoid Colon
15	chr1:228197400-228197800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
16	chr1:228197400-228198400	Enhancers	Primary B cells from cord blood	blood
17	chr1:228197400-228199000	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell

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