Variant report

Variant	rs7638525
Chromosome Location	chr3:178800880-178800881
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:178788571..178792772-chr3:178798622..178801975,4	MCF-7	breast:
2	chr3:178796359..178801213-chr3:178863522..178868106,6	K562	blood:
3	chr3:178786314..178787957-chr3:178799114..178802010,2	K562	blood:

Variant related genes	Relation type
ENSG00000229102	Chromatin interaction
ENSG00000172667	Chromatin interaction
ENSG00000121879	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs11716811	1.00[ASN][1000 genomes]
rs11918587	0.80[EUR][1000 genomes]
rs11920864	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11922631	0.80[EUR][1000 genomes]
rs1976765	0.83[EUR][1000 genomes]
rs55933053	0.83[EUR][1000 genomes]
rs56095736	0.80[EUR][1000 genomes]
rs56285562	0.81[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56372555	0.83[EUR][1000 genomes]
rs56378415	0.80[EUR][1000 genomes]
rs56748382	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59340081	0.83[EUR][1000 genomes]
rs59408989	0.80[EUR][1000 genomes]
rs60273951	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6771313	0.80[EUR][1000 genomes]
rs6792189	0.83[EUR][1000 genomes]
rs6797304	0.83[EUR][1000 genomes]
rs73187218	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73187223	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73187225	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7651371	0.90[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7651373	0.83[AFR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs938752	0.83[EUR][1000 genomes]
rs9631497	0.83[EUR][1000 genomes]
rs9844270	0.80[EUR][1000 genomes]
rs9877812	0.83[EUR][1000 genomes]

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	nsv998253	chr3:178622707-179196274	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv536814	chr3:178622707-179196274	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	nsv461026	chr3:178661814-178886609	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv592649	chr3:178661814-178886609	Strong transcription Flanking Active TSS Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	esv1792927	chr3:178734558-178877169	Enhancers Strong transcription Flanking Active TSS Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
6	esv1841799	chr3:178739594-178884337	Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:178790000-178806200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:178792800-178801600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr3:178799200-178802400	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr3:178799200-178802800	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr3:178799200-178803000	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr3:178799200-178803000	Enhancers	HUES6 Cell Line	embryonic stem cell
7	chr3:178799400-178802400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr3:178799400-178802800	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr3:178799600-178801200	Enhancers	NHEK	skin
10	chr3:178799600-178801600	Enhancers	iPS-20b Cell Line	embryonic stem cell
11	chr3:178799800-178801000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr3:178800000-178802000	Enhancers	H9 Cell Line	embryonic stem cell
13	chr3:178800200-178802000	Enhancers	H1 Cell Line	embryonic stem cell
14	chr3:178800200-178803000	Enhancers	iPS-18 Cell Line	embryonic stem cell
15	chr3:178800600-178802400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
16	chr3:178800800-178801600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr3:178800800-178802000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
18	chr3:178800800-178802000	Enhancers	Fetal Adrenal Gland	Adrenal Gland

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links