Variant report

Variant	rs3858505
Chromosome Location	chr11:17717759-17717760
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SERGEF-2	chr11:17717579-17717919	XLOC_009385

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs3858500	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040065	chr11:17556031-17753467	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1044126	chr11:17557715-17730646	Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv540953	chr11:17557715-17730646	Bivalent/Poised TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv467717	chr11:17713507-17791822	Bivalent Enhancer Bivalent/Poised TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv553588	chr11:17713507-17791822	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats 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:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:17713200-17718000	Enhancers	Skeletal Muscle Female	skeletal muscle
2	chr11:17713200-17721800	Enhancers	Psoas Muscle	Psoas
3	chr11:17715200-17722000	Enhancers	HSMM	muscle
4	chr11:17716400-17718400	Enhancers	Skeletal Muscle Male	skeletal muscle
5	chr11:17716800-17718200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
6	chr11:17717000-17718000	Bivalent/Poised TSS	H1 Cell Line	embryonic stem cell
7	chr11:17717000-17718000	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
8	chr11:17717000-17718000	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
9	chr11:17717200-17717800	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr11:17717200-17717800	Bivalent Enhancer	Fetal Heart	heart
11	chr11:17717200-17718000	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
12	chr11:17717200-17718000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
13	chr11:17717200-17718000	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
14	chr11:17717200-17718000	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr11:17717200-17718000	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr11:17717200-17718200	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
17	chr11:17717400-17717800	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr11:17717400-17717800	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr11:17717400-17717800	Flanking Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
20	chr11:17717400-17717800	Bivalent Enhancer	Brain Germinal Matrix	brain
21	chr11:17717400-17717800	Bivalent Enhancer	Fetal Muscle Trunk	muscle
22	chr11:17717400-17717800	Enhancers	Pancreas	Pancrea
23	chr11:17717400-17718000	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr11:17717400-17719000	Bivalent Enhancer	Fetal Muscle Leg	muscle
25	chr11:17717600-17717800	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr11:17717600-17717800	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr11:17717600-17717800	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr11:17717600-17717800	Flanking Bivalent TSS/Enh	Brain Hippocampus Middle	brain
29	chr11:17717600-17717800	Bivalent Enhancer	Fetal Brain Male	brain
30	chr11:17717600-17717800	Flanking Bivalent TSS/Enh	Right Ventricle	heart
31	chr11:17717600-17718000	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
32	chr11:17717600-17720000	Weak transcription	Right Atrium	heart
33	chr11:17717600-17721800	Enhancers	HSMMtube	muscle

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