Variant report

Variant	rs2035072
Chromosome Location	chr9:93568667-93568668
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:93562623..93567761-chr9:93568030..93571323,5	K562	blood:
2	chr9:93561656..93565893-chr9:93566155..93575937,12	MCF-7	breast:
3	chr9:93566479..93568925-chr9:93571004..93572513,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000165025	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs158508	0.86[CEU][hapmap];1.00[CHB][hapmap]
rs1755958	1.00[CHB][hapmap]
rs1760124	1.00[CHB][hapmap]
rs2613310	1.00[CHB][hapmap]
rs2613320	1.00[CHB][hapmap]
rs290213	1.00[CHB][hapmap]
rs290225	1.00[CHB][hapmap]
rs290232	1.00[CHB][hapmap]
rs290234	1.00[CHB][hapmap]
rs290235	1.00[CHB][hapmap]
rs290236	1.00[CHB][hapmap]
rs290237	1.00[CHB][hapmap]
rs290238	1.00[CHB][hapmap]
rs290256	1.00[CHB][hapmap]
rs965892	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1046989	chr9:93353987-93800416	Transcr. at gene 5' and 3' Weak transcription Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv893567	chr9:93519280-93609668	Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv831652	chr9:93527411-93696923	Bivalent Enhancer Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv893568	chr9:93539879-93774385	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv893569	chr9:93552550-93587089	Weak transcription Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1038685	chr9:93556174-93685729	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	esv1813758	chr9:93557698-93573095	Bivalent/Poised TSS Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	esv275555	chr9:93565999-93570451	Flanking Active TSS Genic enhancers Weak transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2035072	NFIL3	cis	brain	BrainEAC

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:93564600-93572000	Weak transcription	Lung	lung
2	chr9:93565000-93569400	Weak transcription	Primary T cells from cord blood	blood
3	chr9:93565000-93609000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr9:93565400-93570600	Weak transcription	HMEC	breast
5	chr9:93565400-93570800	Weak transcription	Placenta	Placenta
6	chr9:93565400-93577000	Weak transcription	Colonic Mucosa	Colon
7	chr9:93566800-93569200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr9:93567000-93572800	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr9:93567400-93570000	Enhancers	Fetal Stomach	stomach
10	chr9:93567600-93571000	Weak transcription	Fetal Intestine Small	intestine
11	chr9:93567600-93573000	Weak transcription	NHEK	skin
12	chr9:93567800-93569000	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr9:93567800-93569000	Enhancers	Primary hematopoietic stem cells short term culture	blood
14	chr9:93567800-93569200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr9:93567800-93569200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr9:93567800-93569200	Weak transcription	Duodenum Mucosa	Duodenum
17	chr9:93567800-93569200	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr9:93567800-93569200	Weak transcription	Spleen	Spleen
19	chr9:93567800-93569400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr9:93567800-93569400	Enhancers	Primary neutrophils fromperipheralblood	blood
21	chr9:93567800-93569600	Weak transcription	Small Intestine	intestine
22	chr9:93567800-93570800	Weak transcription	Pancreas	Pancrea
23	chr9:93567800-93570800	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr9:93567800-93572000	Weak transcription	Esophagus	oesophagus
25	chr9:93567800-93572000	Weak transcription	K562	blood
26	chr9:93567800-93572400	Weak transcription	Stomach Mucosa	stomach
27	chr9:93567800-93584800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr9:93567800-93584800	Weak transcription	Fetal Intestine Large	intestine
29	chr9:93567800-93597400	Weak transcription	Gastric	stomach
30	chr9:93568000-93569200	Enhancers	Primary hematopoietic stem cells	blood
31	chr9:93568000-93569800	Weak transcription	Fetal Kidney	kidney
32	chr9:93568400-93568800	Transcr. at gene 5' and 3'	Monocytes-CD14+_RO01746	blood
33	chr9:93568400-93569200	Enhancers	Primary B cells from cord blood	blood
34	chr9:93568400-93569200	Enhancers	Thymus	Thymus
35	chr9:93568400-93575000	Enhancers	Fetal Thymus	thymus
36	chr9:93568400-93576600	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr9:93568600-93569000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr9:93568600-93569200	Active TSS	GM12878-XiMat	blood
39	chr9:93568600-93573600	Genic enhancers	Primary B cells from peripheral blood	blood

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