Variant report

Variant	rs16846865
Chromosome Location	chr3:142608365-142608366
allele	-/TTTC
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	TBP	chr3:142606978-142608376	H1-hESC	embryonic stem cell:	n/a	n/a
2	CTCF	chr3:142608220-142608370	GM12871	blood:	n/a	n/a
3	MXI1	chr3:142606690-142608500	SK-N-SH	brain:	n/a	chr3:142607393-142607402 chr3:142607391-142607400

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:142605846..142608751-chr3:142718093..142722238,5	K562	blood:

Variant related genes	Relation type
PCOLCE2	TF binding region
ENSG00000163714	Chromatin interaction
ENSG00000268129	Chromatin interaction

Extended variants
information (count: 3 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877562	chr3:142573789-142846370	Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv437342	chr3:142605233-142622834	Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Weak transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv437343	chr3:142607487-142622834	Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:142606600-142608600	Active TSS	Right Ventricle	heart
2	chr3:142606600-142609000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr3:142606800-142608400	Bivalent/Poised TSS	Primary T cells from cord blood	blood
4	chr3:142606800-142608400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
5	chr3:142606800-142608400	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr3:142606800-142608400	Active TSS	A549	lung
7	chr3:142606800-142608600	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
8	chr3:142606800-142608600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr3:142606800-142608800	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
10	chr3:142607000-142608400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr3:142607000-142608400	Bivalent Enhancer	Primary B cells from peripheral blood	blood
12	chr3:142607000-142608400	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
13	chr3:142607000-142608400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr3:142607000-142608400	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr3:142607000-142608400	Active TSS	Brain Substantia Nigra	brain
16	chr3:142607000-142608400	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
17	chr3:142607000-142608400	Active TSS	Left Ventricle	heart
18	chr3:142607000-142608400	Active TSS	Rectal Smooth Muscle	rectum
19	chr3:142607000-142608400	Flanking Bivalent TSS/Enh	HUVEC	blood vessel
20	chr3:142607000-142608400	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
21	chr3:142607000-142608600	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr3:142607000-142608600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
23	chr3:142607000-142608600	Active TSS	Aorta	Aorta
24	chr3:142607000-142608600	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
25	chr3:142607000-142608600	Active TSS	Hela-S3	cervix
26	chr3:142607000-142608600	Active TSS	NHLF	lung
27	chr3:142607000-142608800	Active TSS	H9 Cell Line	embryonic stem cell
28	chr3:142607000-142609200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr3:142607200-142608400	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr3:142607200-142608400	Bivalent/Poised TSS	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr3:142607200-142608600	Active TSS	Brain Cingulate Gyrus	brain
32	chr3:142607200-142608600	Bivalent/Poised TSS	Colon Smooth Muscle	Colon
33	chr3:142607200-142608600	Active TSS	Pancreatic Islets	Pancreatic Islet
34	chr3:142607400-142608400	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr3:142607400-142608400	Active TSS	Brain Anterior Caudate	brain
36	chr3:142607400-142608400	Active TSS	Brain Inferior Temporal Lobe	brain
37	chr3:142607400-142608400	Bivalent/Poised TSS	Fetal Intestine Large	intestine
38	chr3:142607400-142608400	Bivalent/Poised TSS	HSMMtube	muscle
39	chr3:142607400-142608600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
40	chr3:142607400-142608600	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
41	chr3:142607400-142608600	Active TSS	Brain Angular Gyrus	brain
42	chr3:142607600-142608400	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr3:142607600-142608400	Active TSS	Breast Myoepithelial Primary Cells	Breast
44	chr3:142607600-142608400	Bivalent/Poised TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr3:142607600-142608400	Bivalent/Poised TSS	Stomach Mucosa	stomach
46	chr3:142607600-142608400	Active TSS	Stomach Smooth Muscle	stomach
47	chr3:142607600-142608400	Bivalent/Poised TSS	HSMM	muscle
48	chr3:142607600-142608600	Active TSS	Muscle Satellite Cultured Cells	--
49	chr3:142607600-142608600	Bivalent/Poised TSS	Fetal Lung	lung
50	chr3:142607600-142608600	Bivalent/Poised TSS	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links