Variant report

Variant	rs189932828
Chromosome Location	chrX:56311198-56311199
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:56309340..56311634-chrX:56589348..56591185,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SPIN3-5	chrX:56311188-56311820	NONHSAT137265

Variant related genes	Relation type
ENSG00000188021	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2752678	chrX:55930768-56851953	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	esv2753382	chrX:55930768-56851953	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	esv2754448	chrX:55930768-56851953	ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3' Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	esv2755974	chrX:55930768-56851953	Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
5	nsv432333	chrX:55930768-56851953	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
6	esv2756104	chrX:56292362-56824154	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
7	nsv534648	chrX:56306570-56395419	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:56259800-56316200	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chrX:56269400-56320200	Weak transcription	Brain Germinal Matrix	brain
3	chrX:56275000-56316200	Weak transcription	Colon Smooth Muscle	Colon
4	chrX:56279400-56316800	Weak transcription	Placenta Amnion	Placenta Amnion
5	chrX:56280400-56320000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chrX:56286000-56336600	Weak transcription	Left Ventricle	heart
7	chrX:56290200-56314400	Weak transcription	Fetal Intestine Small	intestine
8	chrX:56291000-56312400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chrX:56297400-56316800	Weak transcription	Primary B cells from peripheral blood	blood
10	chrX:56297600-56316000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chrX:56298600-56314800	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chrX:56301800-56319000	Weak transcription	Skeletal Muscle Male	skeletal muscle
13	chrX:56305000-56313000	Weak transcription	Esophagus	oesophagus
14	chrX:56305200-56316800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chrX:56307400-56311400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chrX:56309200-56318000	Weak transcription	Primary B cells from cord blood	blood
17	chrX:56309400-56316200	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chrX:56309800-56314000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chrX:56310000-56312200	Strong transcription	Adipose Nuclei	Adipose
20	chrX:56310600-56312000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chrX:56310800-56312000	Strong transcription	Ovary	ovary
22	chrX:56310800-56312000	Strong transcription	Stomach Smooth Muscle	stomach
23	chrX:56310800-56312800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
24	chrX:56311000-56316000	Weak transcription	Fetal Stomach	stomach
25	chrX:56311000-56319600	Weak transcription	Aorta	Aorta

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