Variant report

Variant	rs11964955
Chromosome Location	chr6:144902656-144902657
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	RAD21	chr6:144902480-144903787	SK-N-SH	brain:	n/a	chr6:144903123-144903142
2	EP300	chr6:144902391-144904894	SK-N-SH	brain:	n/a	chr6:144903652-144903660 chr6:144904875-144904889 chr6:144902630-144902640

No.	Distal block	Cell Line	Cell type
1	chr6:144902620..144903603-chr6:145535345..145536293,3	K562	blood:
2	chr6:144902631..144903701-chr6:145252294..145253338,4	K562	blood:
3	chr6:144863621..144865700-chr6:144901706..144903383,2	K562	blood:
4	chr6:144902617..144903608-chr6:146025327..146026043,2	MCF-7	breast:

Variant related genes	Relation type
UTRN	TF binding region

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs12193624	1.00[EUR][1000 genomes]
rs17073872	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9497032	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1015228	chr6:144780458-144989321	Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv538462	chr6:144780458-144989321	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144807400-144904000	Weak transcription	Brain Substantia Nigra	brain
2	chr6:144850400-144903200	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr6:144850400-144903200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr6:144850400-144904200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr6:144857200-144904000	Weak transcription	Psoas Muscle	Psoas
6	chr6:144867400-144903800	Weak transcription	Rectal Smooth Muscle	rectum
7	chr6:144872000-144903000	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr6:144873000-144903200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr6:144873000-144903800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr6:144874000-144904200	Weak transcription	Placenta	Placenta
11	chr6:144877000-144903000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr6:144877000-144904200	Weak transcription	Fetal Stomach	stomach
13	chr6:144878000-144903400	Weak transcription	Fetal Brain Male	brain
14	chr6:144879200-144904000	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr6:144881800-144937800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr6:144882000-144902800	Weak transcription	Fetal Heart	heart
17	chr6:144885400-144903800	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr6:144885800-144943400	Weak transcription	Ovary	ovary
19	chr6:144888600-144903200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr6:144888800-144904000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr6:144889200-144903000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr6:144895200-144904000	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr6:144895600-144902800	Strong transcription	Primary B cells from cord blood	blood
24	chr6:144896600-144903000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
25	chr6:144896600-144903200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr6:144896600-144903800	Weak transcription	Brain Anterior Caudate	brain
27	chr6:144896800-144903200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
28	chr6:144897000-144903200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr6:144897400-144904000	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr6:144898200-144903800	Weak transcription	Brain Cingulate Gyrus	brain
31	chr6:144898400-144904200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
32	chr6:144898600-144903400	Weak transcription	Stomach Smooth Muscle	stomach
33	chr6:144898600-144903800	Weak transcription	GM12878-XiMat	blood
34	chr6:144898600-144904000	Weak transcription	Right Ventricle	heart
35	chr6:144898600-144904400	Weak transcription	Fetal Intestine Large	intestine
36	chr6:144898600-144912800	Weak transcription	Gastric	stomach
37	chr6:144898800-144903200	Weak transcription	HUES6 Cell Line	embryonic stem cell
38	chr6:144899000-144903000	Weak transcription	Liver	Liver
39	chr6:144899000-144903400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
40	chr6:144899400-144903200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr6:144899600-144903000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr6:144899600-144903200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr6:144899600-144903200	Weak transcription	Fetal Kidney	kidney
44	chr6:144899600-144903400	Enhancers	NHDF-Ad	bronchial
45	chr6:144899600-144904000	Weak transcription	HUES64 Cell Line	embryonic stem cell
46	chr6:144899600-144904200	Weak transcription	Small Intestine	intestine
47	chr6:144899600-144904200	Weak transcription	Spleen	Spleen
48	chr6:144899600-144909000	Weak transcription	Aorta	Aorta
49	chr6:144899600-144913800	Weak transcription	Lung	lung
50	chr6:144899600-144931800	Weak transcription	Esophagus	oesophagus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links