Variant report

Variant	rs10841788
Chromosome Location	chr12:8662185-8662186
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EBF1	chr12:8662040-8662417	GM12878	blood:	n/a	chr12:8662239-8662250
2	EBF1	chr12:8662075-8662442	GM12878	blood:	n/a	chr12:8662239-8662250
3	NFIC	chr12:8662038-8662489	ECC-1	luminal epithelium:	n/a	n/a
4	EBF1	chr12:8662089-8662389	GM12878	blood:	n/a	chr12:8662239-8662250

Variant related genes	Relation type
CLEC4D	TF binding region

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10161057	0.83[EUR][1000 genomes]
rs11045982	0.92[ASN][1000 genomes]
rs11045983	0.92[ASN][1000 genomes]
rs11045985	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12297600	0.81[EUR][1000 genomes]
rs12302626	0.84[EUR][1000 genomes]
rs12310530	0.81[EUR][1000 genomes]
rs12310576	0.81[EUR][1000 genomes]
rs28485567	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4304840	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4486677	0.89[ASN][1000 genomes]
rs4534636	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs57832572	0.89[ASN][1000 genomes]
rs7135960	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7314690	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7976134	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040302	chr12:8245364-8695612	Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv541397	chr12:8245364-8695612	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv1044543	chr12:8449100-8792569	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv1039504	chr12:8494944-8780137	Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
5	nsv557342	chr12:8599397-8774527	Enhancers Flanking Active TSS Genic enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription 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	10 gene(s)	inside rSNPs	diseases
6	nsv933050	chr12:8602789-8775989	Enhancers Genic enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	nsv518772	chr12:8615809-8667579	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv518125	chr12:8615809-8671274	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
9	nsv1035270	chr12:8619562-8674062	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv933555	chr12:8627165-8775989	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription 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	8 gene(s)	inside rSNPs	diseases
11	nsv933639	chr12:8627243-8775989	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:8660400-8662200	Enhancers	H9 Cell Line	embryonic stem cell
2	chr12:8660400-8662400	Enhancers	HUES64 Cell Line	embryonic stem cell
3	chr12:8660400-8665200	Enhancers	Primary neutrophils fromperipheralblood	blood
4	chr12:8660600-8662200	Enhancers	HUES48 Cell Line	embryonic stem cell
5	chr12:8660600-8662200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr12:8660600-8662200	Enhancers	Fetal Thymus	thymus
7	chr12:8660600-8662400	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr12:8660600-8662400	Enhancers	H1 Cell Line	embryonic stem cell
9	chr12:8660600-8662400	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr12:8660600-8662400	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr12:8660600-8662400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr12:8660600-8662400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr12:8660800-8662400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
14	chr12:8660800-8662400	Enhancers	iPS-15b Cell Line	embryonic stem cell
15	chr12:8660800-8662600	Enhancers	Primary T cells from cord blood	blood
16	chr12:8661000-8662400	Enhancers	Primary monocytes fromperipheralblood	blood
17	chr12:8661200-8662800	Enhancers	Monocytes-CD14+_RO01746	blood
18	chr12:8661400-8662200	Enhancers	Thymus	Thymus
19	chr12:8661400-8662400	Enhancers	Primary B cells from cord blood	blood
20	chr12:8661400-8662400	Bivalent Enhancer	Primary B cells from peripheral blood	blood
21	chr12:8661400-8662400	Enhancers	Primary hematopoietic stem cells short term culture	blood
22	chr12:8661600-8662200	Enhancers	Spleen	Spleen

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