Variant report

Variant	rs896436
Chromosome Location	chr11:66781263-66781264
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:66764180..66766583-chr11:66780585..66782268,2	MCF-7	breast:
2	chr11:66778103..66781607-chr11:66790217..66792264,4	MCF-7	breast:
3	chr11:66772671..66774291-chr11:66780921..66782754,2	MCF-7	breast:
4	chr11:66769061..66771847-chr11:66781145..66783382,2	K562	blood:
5	chr11:66769006..66771432-chr11:66780449..66782401,2	MCF-7	breast:
6	chr11:66781226..66783274-chr11:66822846..66825569,2	MCF-7	breast:
7	chr11:66780973..66783340-chr11:66843996..66846354,2	MCF-7	breast:
8	chr11:66752364..66754309-chr11:66780159..66782398,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000173227	Chromatin interaction
ENSG00000173156	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 8 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10896145	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11227643	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11227649	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1253434	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1253435	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1253439	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.94[MEX][hapmap];0.89[MKK][hapmap];0.97[TSI][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1253440	0.84[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.97[TSI][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1892928	0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.97[TSI][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2513659	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4307728	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs56016006	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv555226	chr11:66579572-66845362	Active TSS Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	74 gene(s)	inside rSNPs	diseases
2	nsv428574	chr11:66619002-66804133	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv832194	chr11:66634462-66805980	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	33 gene(s)	inside rSNPs	diseases
4	nsv531397	chr11:66653381-67465721	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
5	esv1817552	chr11:66751014-66839985	Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs896436	EHD1	cis	parietal	SCAN
rs896436	TMEM134	cis	cerebellum	SCAN
rs896436	CST6	cis	parietal	SCAN
rs896436	EHBP1L1	cis	cerebellum	SCAN
rs896436	PC	cis	cerebellum	SCAN
rs896436	B3GNT1	cis	parietal	SCAN
rs896436	FGF4	cis	parietal	SCAN
rs896436	RIN1	cis	parietal	SCAN

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:66774400-66782600	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr11:66774400-66782800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr11:66774600-66782600	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr11:66774600-66782600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr11:66774600-66783000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr11:66774600-66783000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr11:66774600-66784000	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr11:66774800-66782800	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr11:66774800-66782800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr11:66774800-66789000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr11:66778000-66782800	Weak transcription	HSMMtube	muscle
12	chr11:66778200-66782600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr11:66778200-66783800	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr11:66778200-66788600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr11:66778200-66789600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr11:66778200-66789800	Weak transcription	Right Atrium	heart
17	chr11:66780400-66782400	Enhancers	Breast Myoepithelial Primary Cells	Breast
18	chr11:66780800-66781400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
19	chr11:66781000-66781400	Enhancers	Adipose Nuclei	Adipose
20	chr11:66781200-66783600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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