Variant report

Variant	rs4664021
Chromosome Location	chr2:152196333-152196334
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10167886	0.96[ASN][1000 genomes]
rs10174715	0.95[ASN][1000 genomes]
rs1023634	0.96[ASN][1000 genomes]
rs10490522	0.99[ASN][1000 genomes]
rs2278089	0.94[ASN][1000 genomes]
rs289828	0.81[ASN][1000 genomes]
rs289835	0.82[ASN][1000 genomes]
rs387297	0.82[ASN][1000 genomes]
rs3936325	0.84[ASN][1000 genomes]
rs6715393	0.82[ASN][1000 genomes]
rs6715902	0.86[ASN][1000 genomes]
rs6719213	0.98[ASN][1000 genomes]
rs7574216	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7585805	0.96[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	esv3693426	chr2:151725792-152295862	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv1012891	chr2:152019809-152306897	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	nsv1013484	chr2:152028515-152473913	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
4	nsv535983	chr2:152028515-152473913	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
5	nsv1012139	chr2:152114637-152389516	Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
6	nsv1011339	chr2:152114637-152392940	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
7	nsv999748	chr2:152135514-152476396	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4664021	TNFAIP6	cis	Whole Blood	GTEx

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:152194600-152196800	Enhancers	iPS-15b Cell Line	embryonic stem cell
2	chr2:152194800-152196600	Enhancers	ES-I3 Cell Line	embryonic stem cell
3	chr2:152194800-152196800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
4	chr2:152195000-152196600	Enhancers	H1 Cell Line	embryonic stem cell
5	chr2:152195400-152196600	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr2:152195600-152196600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr2:152195600-152196600	Enhancers	HUES6 Cell Line	embryonic stem cell
8	chr2:152195600-152196600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr2:152195800-152196400	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr2:152196000-152196600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr2:152196200-152196600	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr2:152196200-152196600	Active TSS	Fetal Brain Male	brain
13	chr2:152196200-152196800	Enhancers	HUES48 Cell Line	embryonic stem cell
14	chr2:152196200-152196800	Enhancers	iPS-18 Cell Line	embryonic stem cell

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Input of quick search could be:

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

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