Variant report

Variant	rs17338423
Chromosome Location	chrX:31279271-31279272
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GK-4	chrX:31279225-31279846	ENSG00000242286.1

Extended variants
information (count: 10 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1573953	0.83[MEX][hapmap]
rs17338416	0.80[JPT][hapmap];0.83[MEX][hapmap]
rs5972354	0.93[JPT][hapmap]

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	nsv530449	chrX:30962926-31375215	Strong transcription Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS Flanking Active TSS 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	7 gene(s)	inside rSNPs	diseases
2	nsv869389	chrX:31207964-31963300	Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv481896	chrX:31212683-31546984	Weak transcription Active TSS Flanking Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	esv3407256	chrX:31214281-31548379	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv526304	chrX:31259237-31281821	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv523957	chrX:31260937-31281821	Weak transcription Enhancers Transcr. at gene 5' and 3' Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	lncRNA	n/a	inside rSNPs	diseases
7	nsv481964	chrX:31270220-31672751	Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chrX:31235000-31282000	Weak transcription	Left Ventricle	heart
2	chrX:31243200-31281800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chrX:31245200-31282000	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chrX:31245400-31284000	Weak transcription	HSMMtube	muscle
5	chrX:31245600-31279800	Weak transcription	HepG2	liver
6	chrX:31247000-31280200	Weak transcription	Pancreas	Pancrea
7	chrX:31254000-31283200	Weak transcription	Fetal Intestine Small	intestine
8	chrX:31257000-31282800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chrX:31264000-31282200	Weak transcription	Fetal Muscle Leg	muscle
10	chrX:31264600-31279800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chrX:31264800-31282400	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chrX:31270000-31280800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chrX:31271800-31279600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chrX:31271800-31280000	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chrX:31272200-31280800	Weak transcription	Brain Angular Gyrus	brain
16	chrX:31272800-31284400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chrX:31273600-31280200	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chrX:31273600-31281000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chrX:31273800-31279800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chrX:31274400-31282400	Weak transcription	Ovary	ovary
21	chrX:31274400-31283600	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chrX:31275800-31280800	Weak transcription	GM12878-XiMat	blood
23	chrX:31276400-31280800	Weak transcription	Liver	Liver
24	chrX:31276600-31280800	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chrX:31276600-31283600	Weak transcription	HUVEC	blood vessel
26	chrX:31276800-31281800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chrX:31278200-31282400	Weak transcription	Brain Germinal Matrix	brain
28	chrX:31278600-31280000	Genic enhancers	Hela-S3	cervix
29	chrX:31279200-31280800	Weak transcription	HMEC	breast

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