Variant report

Variant	rs1867831
Chromosome Location	chr2:113773561-113773562
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs1006122	0.92[CEU][hapmap];0.90[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10179646	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1020404	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11894902	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12711747	0.82[CHB][hapmap]
rs1446511	0.96[CEU][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];0.92[TSI][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1446512	0.96[CEU][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];0.92[TSI][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1446514	0.91[CEU][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];0.90[TSI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1446515	0.91[CEU][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1562306	0.91[CEU][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];0.90[TSI][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1596894	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4849136	0.91[CEU][hapmap]
rs56141952	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6744874	0.91[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6745709	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6749299	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7584409	0.91[CEU][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];0.82[TSI][hapmap];0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs895497	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9308681	1.00[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap];0.81[YRI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532471	chr2:113682449-113862981	ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv997348	chr2:113688093-113986508	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1007254	chr2:113726982-113887782	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv535894	chr2:113726982-113887782	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
5	nsv874878	chr2:113742734-113776076	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv961339	chr2:113772508-113796318	Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv874884	chr2:113772596-113777280	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1867831	IL1A	cis	lymphoblastoid	seeQTL

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:113765600-113797400	Weak transcription	Gastric	stomach
2	chr2:113771400-113773800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr2:113773000-113774000	Enhancers	Primary T cells from cord blood	blood
4	chr2:113773000-113774000	Enhancers	Primary T helper cells fromperipheralblood	blood
5	chr2:113773000-113774000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr2:113773000-113774600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
7	chr2:113773200-113773600	Enhancers	K562	blood
8	chr2:113773200-113773800	Enhancers	Primary T cells fromperipheralblood	blood
9	chr2:113773400-113773600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
10	chr2:113773400-113773800	Enhancers	Primary T helper naive cells from peripheral blood	blood
11	chr2:113773400-113773800	Enhancers	Fetal Thymus	thymus
12	chr2:113773400-113774000	Enhancers	Primary T helper cells PMA-I stimulated	--
13	chr2:113773400-113774600	Enhancers	Stomach Mucosa	stomach

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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