Variant report

Variant	rs542907104
Chromosome Location	chr5:167741143-167741144
allele	A/G
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	TCF12	chr5:167740717-167741308	A549	lung:	n/a	n/a
2	ZNF263	chr5:167740889-167741293	HEK293-T-REx	kidney:	n/a	n/a
3	POLR2A	chr5:167740963-167741150	Hela-S3	cervix:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr5:167738439..167740014-chr5:167740372..167743298,2	MCF-7	breast:
2	chr5:167695818..167698583-chr5:167740233..167742676,2	MCF-7	breast:
3	chr5:167715928..167721153-chr5:167739241..167745348,16	MCF-7	breast:
4	chr5:167717383..167719281-chr5:167739478..167741146,2	K562	blood:

Variant related genes	Relation type
WWC1	TF binding region
ENSG00000113645	Chromatin interaction

Extended variants
information (count: 4 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534607	chr5:167661667-168454396	Active TSS Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv949154	chr5:167691208-168323234	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
3	nsv5119	chr5:167724987-167766076	Enhancers Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv3388650	chr5:167740929-167741165	Weak transcription Genic enhancers Enhancers Flanking Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:167727600-167742600	Weak transcription	Fetal Brain Female	brain
2	chr5:167731000-167741600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr5:167734200-167746000	Enhancers	Fetal Intestine Large	intestine
4	chr5:167734400-167746600	Enhancers	Fetal Intestine Small	intestine
5	chr5:167736400-167741600	Enhancers	Liver	Liver
6	chr5:167738200-167741600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr5:167738200-167741600	Weak transcription	Fetal Kidney	kidney
8	chr5:167738200-167742200	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr5:167738200-167747600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr5:167738400-167741600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr5:167738400-167741600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr5:167738400-167744400	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr5:167738600-167741600	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr5:167738600-167741800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr5:167739400-167741600	Enhancers	Osteobl	bone
16	chr5:167739400-167741800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr5:167739400-167742800	Enhancers	Muscle Satellite Cultured Cells	--
18	chr5:167739400-167745000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr5:167739600-167741600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr5:167739600-167743600	Enhancers	HSMM	muscle
21	chr5:167739600-167745000	Enhancers	Pancreas	Pancrea
22	chr5:167739800-167742000	Weak transcription	HSMMtube	muscle
23	chr5:167739800-167745200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr5:167740000-167741600	Enhancers	HepG2	liver
25	chr5:167740000-167742800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr5:167740200-167741600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr5:167740200-167742800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
28	chr5:167740200-167743000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr5:167740200-167744400	Weak transcription	Right Atrium	heart
30	chr5:167740200-167744800	Enhancers	Breast Myoepithelial Primary Cells	Breast
31	chr5:167740200-167745600	Enhancers	NH-A	brain
32	chr5:167740400-167742000	Weak transcription	Brain Hippocampus Middle	brain
33	chr5:167740600-167742400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr5:167740600-167742600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr5:167740800-167741600	Enhancers	Rectal Mucosa Donor 29	rectum
36	chr5:167740800-167741600	Enhancers	Rectal Mucosa Donor 31	rectum
37	chr5:167740800-167741800	Enhancers	Sigmoid Colon	Sigmoid Colon
38	chr5:167740800-167744600	Enhancers	Esophagus	oesophagus
39	chr5:167740800-167744800	Enhancers	H1 Cell Line	embryonic stem cell
40	chr5:167740800-167744800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr5:167740800-167745200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr5:167740800-167745200	Enhancers	Stomach Mucosa	stomach
43	chr5:167740800-167745200	Enhancers	HMEC	breast
44	chr5:167740800-167745600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr5:167740800-167745600	Enhancers	Cortex derived primary cultured neurospheres	brain
46	chr5:167740800-167747000	Enhancers	Placenta	Placenta
47	chr5:167741000-167741200	Enhancers	Brain Anterior Caudate	brain
48	chr5:167741000-167741200	Flanking Active TSS	Duodenum Mucosa	Duodenum
49	chr5:167741000-167741200	Enhancers	Fetal Lung	lung
50	chr5:167741000-167741200	Enhancers	Gastric	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links