Variant report

Variant	rs2836437
Chromosome Location	chr21:39864584-39864585
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 11 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs17285210	0.84[CHD][hapmap];0.88[JPT][hapmap]
rs2410033	0.84[ASN][1000 genomes]
rs2836417	0.82[JPT][hapmap]
rs2836431	0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs2836447	0.87[CEU][hapmap]
rs2836452	0.87[CEU][hapmap]
rs62219570	0.85[ASN][1000 genomes]
rs7277942	0.80[CEU][hapmap]
rs960818	0.94[JPT][hapmap];0.82[YRI][hapmap];0.81[AFR][1000 genomes];0.80[EUR][1000 genomes];0.99[ASN][1000 genomes]

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	nsv1059340	chr21:39817504-39881353	Weak transcription Enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv1064436	chr21:39846571-39875576	Active TSS Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2836437	PCP4	cis	parietal	SCAN
rs2836437	DSCAM	cis	cerebellum	SCAN

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:39859600-39865600	Weak transcription	Fetal Muscle Leg	muscle
2	chr21:39860200-39865400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr21:39860200-39865600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr21:39860200-39865600	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr21:39860400-39879000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr21:39861000-39865800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr21:39861000-39867600	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr21:39861200-39866200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr21:39861400-39865600	Weak transcription	Thymus	Thymus
10	chr21:39861400-39866200	Weak transcription	NH-A	brain
11	chr21:39861600-39864600	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr21:39861800-39867600	Weak transcription	Duodenum Mucosa	Duodenum
13	chr21:39862000-39864800	Enhancers	iPS-18 Cell Line	embryonic stem cell
14	chr21:39862000-39865600	Weak transcription	HMEC	breast
15	chr21:39862000-39866400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr21:39862000-39866600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr21:39862000-39872200	Weak transcription	Gastric	stomach
18	chr21:39862000-39877400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr21:39862200-39866000	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr21:39862200-39871200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr21:39862400-39864600	Enhancers	Primary B cells from cord blood	blood
22	chr21:39862400-39866800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr21:39862600-39869400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
24	chr21:39862800-39865600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr21:39862800-39865600	Weak transcription	Adipose Nuclei	Adipose
26	chr21:39862800-39865600	Weak transcription	Aorta	Aorta
27	chr21:39862800-39865600	Weak transcription	Lung	lung
28	chr21:39862800-39865600	Weak transcription	Pancreas	Pancrea
29	chr21:39862800-39865600	Weak transcription	Spleen	Spleen
30	chr21:39862800-39866200	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr21:39862800-39866600	Weak transcription	Right Ventricle	heart
32	chr21:39863000-39864600	Weak transcription	Fetal Thymus	thymus
33	chr21:39863000-39864800	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
34	chr21:39863000-39865000	Genic enhancers	Primary hematopoietic stem cells	blood
35	chr21:39863000-39865600	Weak transcription	Left Ventricle	heart
36	chr21:39863000-39865600	Weak transcription	Right Atrium	heart
37	chr21:39863000-39866200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
38	chr21:39863400-39864800	Enhancers	HSMMtube	muscle
39	chr21:39863600-39865600	Weak transcription	HUES48 Cell Line	embryonic stem cell
40	chr21:39863600-39865600	Enhancers	Primary neutrophils fromperipheralblood	blood
41	chr21:39863800-39865000	Flanking Active TSS	HUVEC	blood vessel
42	chr21:39863800-39865200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr21:39863800-39865600	Weak transcription	Primary monocytes fromperipheralblood	blood
44	chr21:39863800-39865600	Weak transcription	Monocytes-CD14+_RO01746	blood
45	chr21:39863800-39866600	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr21:39864000-39864600	Enhancers	Fetal Lung	lung
47	chr21:39864200-39864600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr21:39864200-39866200	Weak transcription	HUES64 Cell Line	embryonic stem cell

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