Variant report

Variant	rs9997898
Chromosome Location	chr4:683898-683899
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10010598	0.93[MKK][hapmap]
rs10015198	1.00[GIH][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap]
rs10017347	0.93[MKK][hapmap]
rs10020292	0.87[MKK][hapmap]
rs10027392	0.93[MKK][hapmap]
rs10029924	0.93[MKK][hapmap]
rs11726338	1.00[MEX][hapmap]
rs11940914	1.00[CEU][hapmap]
rs12331186	0.93[MKK][hapmap]
rs13104878	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs28399001	0.93[MKK][hapmap]
rs28510278	0.93[MKK][hapmap]
rs28510755	0.93[MKK][hapmap]
rs28531889	0.93[MKK][hapmap]
rs28538930	0.93[MKK][hapmap]
rs28594284	0.93[MKK][hapmap]
rs28665728	0.82[MKK][hapmap]
rs34587191	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs34953355	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs35158410	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs35649145	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs7665160	0.93[MKK][hapmap]
rs7671294	0.82[MKK][hapmap]
rs9994679	0.93[MKK][hapmap]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1011715	chr4:43860-823487	Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv532702	chr4:72447-755236	Active TSS ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv1005224	chr4:507005-900281	Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Strong transcription Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	nsv536976	chr4:507005-900281	Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
5	nsv878245	chr4:509178-694613	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
6	nsv822425	chr4:540105-1413799	Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	108 gene(s)	inside rSNPs	diseases
7	nsv878246	chr4:592507-696848	Flanking Active TSS Weak transcription Active TSS Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
8	esv2757916	chr4:603208-931354	Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
9	esv2759217	chr4:603208-931354	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
10	nsv878247	chr4:607202-925149	Bivalent Enhancer Flanking Active TSS Strong transcription Bivalent/Poised TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
11	nsv530490	chr4:614355-1399150	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	104 gene(s)	inside rSNPs	diseases
12	nsv593206	chr4:625962-735150	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
13	nsv878248	chr4:645300-685993	Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
14	nsv878249	chr4:649639-691026	Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
15	esv1829397	chr4:655939-1041957	Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
16	nsv829834	chr4:665477-775524	Active TSS Genic enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
17	nsv10413	chr4:667204-684301	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
18	nsv878252	chr4:669857-685993	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:680600-684000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
2	chr4:681200-684000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
3	chr4:682000-684400	Enhancers	Primary hematopoietic stem cells short term culture	blood
4	chr4:682200-684000	Enhancers	Fetal Lung	lung
5	chr4:682200-686400	Weak transcription	K562	blood
6	chr4:682400-684000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
7	chr4:682600-684400	Enhancers	GM12878-XiMat	blood
8	chr4:683000-684400	Enhancers	HepG2	liver
9	chr4:683000-684600	Enhancers	Spleen	Spleen
10	chr4:683200-684000	Enhancers	Primary T helper cells fromperipheralblood	blood
11	chr4:683200-684600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
12	chr4:683200-685000	Weak transcription	Ovary	ovary
13	chr4:683400-684000	Enhancers	Placenta	Placenta
14	chr4:683400-684400	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr4:683400-684400	Enhancers	Lung	lung
16	chr4:683400-684600	Enhancers	Pancreas	Pancrea
17	chr4:683600-684000	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr4:683600-684000	Enhancers	HUES6 Cell Line	embryonic stem cell
19	chr4:683600-684000	Enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr4:683600-684000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr4:683600-684000	Enhancers	Fetal Intestine Large	intestine
22	chr4:683600-684000	Bivalent Enhancer	Fetal Stomach	stomach
23	chr4:683600-684200	Enhancers	H9 Cell Line	embryonic stem cell
24	chr4:683600-684200	Enhancers	Primary hematopoietic stem cells	blood
25	chr4:683600-684200	Enhancers	Right Ventricle	heart
26	chr4:683600-684400	Enhancers	H1 Cell Line	embryonic stem cell
27	chr4:683600-684400	Enhancers	Fetal Intestine Small	intestine
28	chr4:683600-684400	Enhancers	Left Ventricle	heart
29	chr4:683600-684400	Enhancers	Stomach Mucosa	stomach
30	chr4:683600-684600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
31	chr4:683600-686400	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr4:683600-686600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
33	chr4:683600-686600	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr4:683600-686800	Weak transcription	Liver	Liver
35	chr4:683600-697200	Weak transcription	Gastric	stomach
36	chr4:683600-699000	Weak transcription	Right Atrium	heart
37	chr4:683800-684000	Enhancers	ES-I3 Cell Line	embryonic stem cell
38	chr4:683800-684000	Enhancers	iPS-15b Cell Line	embryonic stem cell
39	chr4:683800-684000	Enhancers	Rectal Mucosa Donor 29	rectum
40	chr4:683800-684000	Enhancers	Rectal Mucosa Donor 31	rectum
41	chr4:683800-684200	Enhancers	Fetal Muscle Trunk	muscle
42	chr4:683800-684400	Enhancers	Esophagus	oesophagus
43	chr4:683800-684400	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
44	chr4:683800-684400	Enhancers	Fetal Muscle Leg	muscle
45	chr4:683800-684600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
46	chr4:683800-684600	Enhancers	Primary monocytes fromperipheralblood	blood
47	chr4:683800-684600	Enhancers	Duodenum Mucosa	Duodenum
48	chr4:683800-686400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr4:683800-686400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr4:683800-686600	Weak transcription	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links