Variant report

Variant	rs1890241
Chromosome Location	chrX:138884606-138884607
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chrX:138882756..138885568-chrX:139013013..139015471,2	MCF-7	breast:
2	chrX:138882612..138886823-chrX:139014403..139017190,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000101974	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10126150	0.89[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs12389012	0.89[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs12688688	0.86[YRI][hapmap]
rs17282011	0.86[YRI][hapmap]
rs5908152	1.00[YRI][hapmap]
rs5953748	0.86[YRI][hapmap]
rs5953790	0.86[YRI][hapmap]
rs5953791	1.00[YRI][hapmap]
rs5953812	1.00[YRI][hapmap]
rs5954540	0.89[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs5954556	1.00[YRI][hapmap]
rs5954768	0.89[ASW][hapmap];1.00[LWK][hapmap];0.82[MKK][hapmap];1.00[YRI][hapmap]
rs5954897	1.00[YRI][hapmap]
rs5954997	0.89[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap]
rs5955049	1.00[YRI][hapmap]
rs6635927	0.89[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][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	nsv532936	chrX:138687855-139384681	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	148 gene(s)	inside rSNPs	diseases
2	nsv491760	chrX:138780768-139283477	Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	147 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:138827000-138895400	Weak transcription	Hela-S3	cervix
2	chrX:138827400-138888800	Weak transcription	Small Intestine	intestine
3	chrX:138833000-138907400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chrX:138841800-138898600	Weak transcription	HUVEC	blood vessel
5	chrX:138847800-138888600	Weak transcription	Skeletal Muscle Female	skeletal muscle
6	chrX:138847800-138899400	Weak transcription	Aorta	Aorta
7	chrX:138848600-138897200	Weak transcription	Brain Anterior Caudate	brain
8	chrX:138849200-138888200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chrX:138849600-138885800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chrX:138849600-138898600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chrX:138850200-138885000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chrX:138852600-138890600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chrX:138853000-138908000	Weak transcription	A549	lung
14	chrX:138854800-138908600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chrX:138855000-138915400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chrX:138856200-138907800	Weak transcription	NHDF-Ad	bronchial
17	chrX:138856400-138899800	Weak transcription	K562	blood
18	chrX:138857800-138895000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chrX:138858400-138899800	Weak transcription	Spleen	Spleen
20	chrX:138859000-138910200	Weak transcription	Fetal Intestine Small	intestine
21	chrX:138861200-138885000	Weak transcription	Fetal Muscle Trunk	muscle
22	chrX:138863200-138903200	Weak transcription	Ovary	ovary
23	chrX:138865200-138885000	Weak transcription	Placenta Amnion	Placenta Amnion
24	chrX:138865600-138911200	Weak transcription	Rectal Smooth Muscle	rectum
25	chrX:138867400-138885600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chrX:138868200-138913600	Weak transcription	Left Ventricle	heart
27	chrX:138868600-138914000	Weak transcription	Stomach Smooth Muscle	stomach
28	chrX:138869000-138899200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
29	chrX:138869000-138915600	Weak transcription	Fetal Stomach	stomach
30	chrX:138869200-138898000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
31	chrX:138869400-138907800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chrX:138870400-138907800	Weak transcription	H1 Cell Line	embryonic stem cell
33	chrX:138870600-138913400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chrX:138871000-138885400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chrX:138871000-138898400	Weak transcription	NH-A	brain
36	chrX:138874000-138886800	Strong transcription	Liver	Liver
37	chrX:138875000-138887200	Strong transcription	Monocytes-CD14+_RO01746	blood
38	chrX:138875400-138885400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chrX:138875600-138899400	Weak transcription	Fetal Muscle Leg	muscle
40	chrX:138877400-138886000	Weak transcription	Adipose Nuclei	Adipose
41	chrX:138878400-138894200	Weak transcription	GM12878-XiMat	blood
42	chrX:138878400-138896000	Weak transcription	Brain Substantia Nigra	brain
43	chrX:138878600-138889200	Weak transcription	HMEC	breast
44	chrX:138879200-138885600	Strong transcription	Primary neutrophils fromperipheralblood	blood
45	chrX:138879400-138886400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chrX:138880000-138890200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
47	chrX:138880200-138889000	Weak transcription	H9 Cell Line	embryonic stem cell
48	chrX:138880200-138913600	Weak transcription	Primary B cells from cord blood	blood
49	chrX:138880600-138886200	Weak transcription	Fetal Lung	lung
50	chrX:138880600-138889000	Strong transcription	Primary B cells from peripheral blood	blood

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