Variant report

Variant	rs61339933
Chromosome Location	chr4:15533971-15533972
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	EP300	chr4:15533349-15534128	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:15533209..15536881-chr4:15540380..15545720,5	K562	blood:
2	chr4:15532052..15534362-chr4:15537756..15539745,2	K562	blood:

Variant related genes	Relation type
CC2D2A	TF binding region
ENSG00000048342	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs16892141	0.85[ASN][1000 genomes]
rs2286976	0.91[AFR][1000 genomes]
rs28396343	0.84[ASN][1000 genomes]

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	esv3448986	chr4:14928802-15805558	Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	esv2757923	chr4:15444617-15749520	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	esv2759227	chr4:15444617-15749520	Strong transcription Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15487400-15570400	Weak transcription	Psoas Muscle	Psoas
2	chr4:15490400-15539600	Weak transcription	Esophagus	oesophagus
3	chr4:15495600-15559400	Weak transcription	HSMMtube	muscle
4	chr4:15498200-15538400	Weak transcription	Fetal Heart	heart
5	chr4:15502000-15539400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr4:15502400-15539400	Weak transcription	Duodenum Mucosa	Duodenum
7	chr4:15502800-15549200	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr4:15502800-15577600	Weak transcription	Right Ventricle	heart
9	chr4:15507600-15538200	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr4:15508200-15538600	Weak transcription	Primary T cells from cord blood	blood
11	chr4:15508200-15556400	Weak transcription	Colonic Mucosa	Colon
12	chr4:15508800-15545800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr4:15509200-15564400	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr4:15509600-15553400	Weak transcription	HepG2	liver
15	chr4:15512000-15580000	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr4:15513000-15562400	Weak transcription	Primary B cells from cord blood	blood
17	chr4:15513800-15538400	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr4:15515400-15545200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr4:15516000-15545600	Weak transcription	Fetal Thymus	thymus
20	chr4:15516200-15538000	Weak transcription	Liver	Liver
21	chr4:15517200-15538600	Weak transcription	Brain Angular Gyrus	brain
22	chr4:15517800-15551600	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr4:15517800-15593600	Weak transcription	HUVEC	blood vessel
24	chr4:15519400-15538600	Weak transcription	Brain Substantia Nigra	brain
25	chr4:15519400-15539600	Weak transcription	Gastric	stomach
26	chr4:15519800-15539600	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr4:15520000-15572400	Weak transcription	Small Intestine	intestine
28	chr4:15520400-15538600	Weak transcription	Brain Cingulate Gyrus	brain
29	chr4:15520400-15539000	Weak transcription	NHLF	lung
30	chr4:15520400-15544200	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr4:15520600-15534400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr4:15520600-15538200	Weak transcription	Ovary	ovary
33	chr4:15520600-15538600	Weak transcription	Brain Anterior Caudate	brain
34	chr4:15520600-15538600	Weak transcription	Fetal Intestine Small	intestine
35	chr4:15520600-15539200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr4:15520600-15539400	Weak transcription	Placenta Amnion	Placenta Amnion
37	chr4:15520600-15544400	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr4:15520600-15544600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
39	chr4:15520600-15545200	Weak transcription	Rectal Smooth Muscle	rectum
40	chr4:15520600-15553400	Weak transcription	A549	lung
41	chr4:15520800-15537400	Weak transcription	Monocytes-CD14+_RO01746	blood
42	chr4:15520800-15538200	Weak transcription	Brain Germinal Matrix	brain
43	chr4:15520800-15539800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr4:15520800-15545000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
45	chr4:15521600-15538600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
46	chr4:15521800-15539600	Weak transcription	HUES64 Cell Line	embryonic stem cell
47	chr4:15522200-15544600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
48	chr4:15522800-15538600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr4:15522800-15538600	Weak transcription	Fetal Brain Female	brain
50	chr4:15523600-15538400	Weak transcription	Colon Smooth Muscle	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links