Variant report

Variant	rs1744660
Chromosome Location	chr6:36516182-36516183
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:4)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:4 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MAX	chr6:36515794-36516514	K562	blood:	n/a	n/a
2	BHLHE40	chr6:36515942-36516492	HepG2	liver:	n/a	n/a
3	POLR2A	chr6:36514178-36516209	H1-hESC	embryonic stem cell:	n/a	n/a
4	MAX	chr6:36515936-36516198	NB4	blood:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:36511832..36520020-chr6:36560637..36566762,23	K562	blood:
2	chr6:36511392..36518322-chr6:36560440..36567216,21	MCF-7	breast:
3	chr6:36511879..36517279-chr6:36558264..36566013,19	MCF-7	breast:
4	chr6:36409184..36410963-chr6:36513836..36516900,3	K562	blood:
5	chr1:1822559..1824176-chr6:36515311..36516812,2	K562	blood:
6	chr6:36510007..36526277-chr6:36558145..36566762,35	K562	blood:

No data

Variant related genes	Relation type
STK38	TF binding region
ENSG00000112078	Chromatin interaction
ENSG00000231050	Chromatin interaction
ENSG00000179165	Chromatin interaction
ENSG00000112081	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs1744659	0.87[EUR][1000 genomes]
rs1794627	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1794628	0.88[EUR][1000 genomes]
rs681253	0.86[EUR][1000 genomes]
rs73417359	0.85[EUR][1000 genomes]
rs7741729	0.83[EUR][1000 genomes]
rs853875	0.81[EUR][1000 genomes]
rs853878	0.85[EUR][1000 genomes]

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	nsv885806	chr6:36349890-36621178	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	103 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36515200-36516200	Flanking Active TSS	Primary T cells from cord blood	blood
2	chr6:36515200-36517000	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr6:36515400-36516200	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
4	chr6:36515400-36516200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
5	chr6:36515400-36516200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
6	chr6:36515400-36516200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr6:36515400-36516200	Flanking Active TSS	K562	blood
8	chr6:36515400-36516200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
9	chr6:36515400-36516400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
10	chr6:36515400-36516400	Enhancers	Fetal Intestine Small	intestine
11	chr6:36515400-36516400	Enhancers	Small Intestine	intestine
12	chr6:36515400-36516400	Flanking Bivalent TSS/Enh	HepG2	liver
13	chr6:36515400-36516600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
14	chr6:36515600-36516200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr6:36515600-36516200	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr6:36515600-36516200	Enhancers	Fetal Heart	heart
17	chr6:36515600-36516400	Enhancers	H1 Cell Line	embryonic stem cell
18	chr6:36515600-36516400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr6:36515600-36516400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
20	chr6:36515600-36516400	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
21	chr6:36515600-36516400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr6:36515600-36516400	Enhancers	Colonic Mucosa	Colon
23	chr6:36515600-36516400	Enhancers	Fetal Intestine Large	intestine
24	chr6:36515600-36516400	Enhancers	NH-A	brain
25	chr6:36515600-36516600	Enhancers	Primary B cells from peripheral blood	blood
26	chr6:36515600-36516600	Enhancers	Primary hematopoietic stem cells	blood
27	chr6:36515600-36516600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
28	chr6:36515600-36516600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
29	chr6:36515600-36516600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr6:36515600-36516600	Enhancers	Fetal Thymus	thymus
31	chr6:36515800-36516200	Flanking Active TSS	ES-I3 Cell Line	embryonic stem cell
32	chr6:36515800-36516200	Enhancers	H9 Cell Line	embryonic stem cell
33	chr6:36515800-36516200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr6:36515800-36516200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr6:36515800-36516200	Enhancers	HUES6 Cell Line	embryonic stem cell
36	chr6:36515800-36516200	Enhancers	iPS-18 Cell Line	embryonic stem cell
37	chr6:36515800-36516200	Enhancers	Thymus	Thymus
38	chr6:36515800-36516200	Enhancers	Spleen	Spleen
39	chr6:36515800-36516200	Enhancers	A549	lung
40	chr6:36515800-36516200	Enhancers	GM12878-XiMat	blood
41	chr6:36515800-36516400	Enhancers	Primary hematopoietic stem cells short term culture	blood
42	chr6:36515800-36516800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
43	chr6:36515800-36520000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr6:36515800-36522400	Weak transcription	Stomach Smooth Muscle	stomach
45	chr6:36516000-36516200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr6:36516000-36516200	Bivalent Enhancer	iPS-15b Cell Line	embryonic stem cell
47	chr6:36516000-36516200	Flanking Active TSS	Primary T cells fromperipheralblood	blood
48	chr6:36516000-36516200	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr6:36516000-36516200	Enhancers	Dnd41	blood
50	chr6:36516000-36516200	Flanking Active TSS	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links