Variant report

Variant	rs28725385
Chromosome Location	chr14:105933094-105933095
allele	C/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	NFIC	chr14:105931217-105934273	ECC-1	luminal epithelium:	n/a	chr14:105931752-105931780
2	ZBTB7A	chr14:105931272-105934068	ECC-1	luminal epithelium:	n/a	chr14:105933900-105933908
3	POLR2A	chr14:105932903-105933236	ECC-1	luminal epithelium:	n/a	n/a
4	POLR2A	chr14:105932689-105934033	SK-N-MC	brain:	n/a	n/a
5	POLR2A	chr14:105932988-105933841	MCF-7	breast:	n/a	n/a
6	TCF12	chr14:105931161-105934112	ECC-1	luminal epithelium:	n/a	chr14:105933631-105933638 chr14:105933728-105933738
7	MAX	chr14:105931640-105934069	ECC-1	luminal epithelium:	n/a	chr14:105932420-105932429 chr14:105932018-105932028
8	POLR2A	chr14:105932685-105934095	ECC-1	luminal epithelium:	n/a	n/a
9	NFIC	chr14:105931225-105933349	ECC-1	luminal epithelium:	n/a	chr14:105931752-105931780
10	ZBTB7A	chr14:105931165-105934186	ECC-1	luminal epithelium:	n/a	chr14:105933900-105933908
11	TCF12	chr14:105931192-105934132	ECC-1	luminal epithelium:	n/a	chr14:105933631-105933638 chr14:105933728-105933738
12	POLR2A	chr14:105933007-105934008	MCF-7	breast:	n/a	n/a
13	TEAD4	chr14:105931671-105933268	ECC-1	luminal epithelium:	n/a	n/a
14	EP300	chr14:105931055-105934162	ECC-1	luminal epithelium:	n/a	chr14:105931707-105931723 chr14:105932404-105932420 chr14:105932403-105932419 chr14:105932008-105932024 chr14:105932746-105932753
15	POLR2A	chr14:105932992-105933228	K562	blood:	n/a	n/a
16	MAX	chr14:105932636-105934005	ECC-1	luminal epithelium:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr14:105931323..105933742-chr14:105993820..105997139,3	MCF-7	breast:
2	chr14:105913441..105915504-chr14:105931555..105934334,2	K562	blood:
3	chr14:105930163..105933758-chr14:105934789..105938563,5	K562	blood:
4	chr14:105925177..105927753-chr14:105930969..105933397,2	K562	blood:
5	chr14:105932887..105936381-chr14:105936498..105941811,9	K562	blood:
6	chr14:105932887..105936301-chr14:105938712..105941811,4	K562	blood:
7	chr14:105932848..105935493-chr14:105944739..105946369,2	K562	blood:
8	chr14:105902565..105906697-chr14:105932169..105936497,4	MCF-7	breast:
9	chr14:105864340..105865872-chr14:105932267..105934891,2	MCF-7	breast:

Variant related genes	Relation type
MTA1	TF binding region
ENSG00000182809	Chromatin interaction
ENSG00000226174	Chromatin interaction
ENSG00000257270	Chromatin interaction
ENSG00000184986	Chromatin interaction
ENSG00000182979	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10133973	0.85[AMR][1000 genomes]
rs10147154	0.81[ASW][hapmap]
rs11620688	1.00[CHD][hapmap]
rs12100473	1.00[CHD][hapmap]
rs28405660	0.85[AMR][1000 genomes]
rs34448096	1.00[MEX][hapmap]
rs35590487	1.00[CHD][hapmap]
rs4983339	1.00[CHD][hapmap];1.00[MEX][hapmap]
rs4983423	1.00[CHD][hapmap]
rs7494350	1.00[CHD][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530813	chr14:105607701-106453697	Strong transcription Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	149 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:105889200-105939800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
2	chr14:105889200-105939800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr14:105897800-105940000	Weak transcription	K562	blood
4	chr14:105898400-105939800	Weak transcription	NHDF-Ad	bronchial
5	chr14:105902800-105937800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
6	chr14:105903200-105935400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr14:105904400-105939800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr14:105907000-105940600	Weak transcription	Small Intestine	intestine
9	chr14:105912000-105937000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr14:105915400-105935000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr14:105915400-105936800	Strong transcription	H1 Cell Line	embryonic stem cell
12	chr14:105915600-105937000	Strong transcription	Fetal Stomach	stomach
13	chr14:105919000-105935200	Weak transcription	Stomach Mucosa	stomach
14	chr14:105923400-105933800	Weak transcription	Primary hematopoietic stem cells	blood
15	chr14:105923600-105933600	Weak transcription	GM12878-XiMat	blood
16	chr14:105926200-105935800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr14:105926200-105937000	Strong transcription	Brain Germinal Matrix	brain
18	chr14:105926200-105937400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr14:105926400-105933600	Strong transcription	Cortex derived primary cultured neurospheres	brain
20	chr14:105926400-105933600	Strong transcription	Gastric	stomach
21	chr14:105926400-105934200	Strong transcription	Primary T helper cells fromperipheralblood	blood
22	chr14:105926400-105934800	Strong transcription	Pancreas	Pancrea
23	chr14:105926400-105936600	Strong transcription	Duodenum Mucosa	Duodenum
24	chr14:105926400-105936600	Strong transcription	Sigmoid Colon	Sigmoid Colon
25	chr14:105926400-105937000	Strong transcription	Fetal Intestine Small	intestine
26	chr14:105926400-105937800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr14:105926400-105937800	Strong transcription	Fetal Brain Female	brain
28	chr14:105926400-105937800	Strong transcription	Thymus	Thymus
29	chr14:105926600-105933200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr14:105926600-105933800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr14:105926600-105933800	Strong transcription	Brain Hippocampus Middle	brain
32	chr14:105926600-105934000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr14:105926600-105934400	Strong transcription	Stomach Smooth Muscle	stomach
34	chr14:105926600-105934800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr14:105926600-105934800	Strong transcription	Adipose Nuclei	Adipose
36	chr14:105926600-105934800	Strong transcription	Rectal Mucosa Donor 31	rectum
37	chr14:105926600-105934800	Strong transcription	Monocytes-CD14+_RO01746	blood
38	chr14:105926600-105935200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr14:105926600-105935400	Strong transcription	Fetal Thymus	thymus
40	chr14:105926600-105936000	Strong transcription	HUES64 Cell Line	embryonic stem cell
41	chr14:105926600-105936400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr14:105926600-105936400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
43	chr14:105926600-105936400	Strong transcription	Primary monocytes fromperipheralblood	blood
44	chr14:105926600-105936600	Strong transcription	H9 Cell Line	embryonic stem cell
45	chr14:105926600-105936600	Strong transcription	iPS-15b Cell Line	embryonic stem cell
46	chr14:105926600-105937200	Strong transcription	Fetal Intestine Large	intestine
47	chr14:105926600-105937200	Strong transcription	Ovary	ovary
48	chr14:105926600-105937400	Strong transcription	Dnd41	blood
49	chr14:105926800-105933400	Strong transcription	Duodenum Smooth Muscle	Duodenum
50	chr14:105926800-105935400	Strong transcription	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links