Variant report

Variant	rs35837273
Chromosome Location	chr3:135878634-135878635
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10222451	1.00[ASN][1000 genomes]
rs11720497	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12330335	1.00[ASN][1000 genomes]
rs13068210	0.84[CEU][hapmap];1.00[ASN][1000 genomes]
rs13082532	1.00[ASN][1000 genomes]
rs13097248	0.93[CEU][hapmap]
rs13321220	1.00[ASN][1000 genomes]
rs1393786	1.00[ASN][1000 genomes]
rs1393787	1.00[MKK][hapmap];1.00[ASN][1000 genomes]
rs28519617	1.00[ASN][1000 genomes]
rs28535121	1.00[ASN][1000 genomes]
rs28669017	1.00[ASN][1000 genomes]
rs34428695	1.00[AFR][1000 genomes]
rs35320690	1.00[ASN][1000 genomes]
rs35522825	1.00[AFR][1000 genomes]
rs56398805	1.00[ASN][1000 genomes]
rs6767060	1.00[ASN][1000 genomes]
rs6769762	1.00[MKK][hapmap];1.00[ASN][1000 genomes]
rs6786582	1.00[ASN][1000 genomes]
rs9844666	0.89[MKK][hapmap]
rs9881400	1.00[MKK][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
2	nsv877518	chr3:135861666-135885554	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv967232	chr3:135871526-135887926	Strong transcription Genic enhancers Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs35837273	MSL2	cis	cerebellum	SCAN
rs35837273	A4GNT	cis	parietal	SCAN

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135845600-135880400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr3:135862000-135904800	Weak transcription	Hela-S3	cervix
3	chr3:135864200-135882400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr3:135864400-135882600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr3:135864400-135885200	Weak transcription	Brain Germinal Matrix	brain
6	chr3:135865600-135882400	Weak transcription	Fetal Heart	heart
7	chr3:135868800-135883000	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr3:135869800-135882400	Weak transcription	Brain Angular Gyrus	brain
9	chr3:135870400-135881000	Weak transcription	Right Atrium	heart
10	chr3:135870800-135895200	Weak transcription	Fetal Intestine Small	intestine
11	chr3:135871000-135881800	Weak transcription	Right Ventricle	heart
12	chr3:135871000-135882400	Weak transcription	Esophagus	oesophagus
13	chr3:135871000-135882400	Weak transcription	Small Intestine	intestine
14	chr3:135871000-135897600	Weak transcription	Aorta	Aorta
15	chr3:135871200-135882200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr3:135871200-135905000	Weak transcription	Fetal Stomach	stomach
17	chr3:135871400-135880000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr3:135871400-135880200	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr3:135871400-135882200	Weak transcription	HUVEC	blood vessel
20	chr3:135871400-135882400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr3:135871400-135885000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr3:135871400-135885000	Weak transcription	Muscle Satellite Cultured Cells	--
23	chr3:135871400-135885600	Weak transcription	Fetal Kidney	kidney
24	chr3:135871600-135880000	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr3:135871600-135880400	Weak transcription	Adipose Nuclei	Adipose
26	chr3:135871600-135880800	Weak transcription	Psoas Muscle	Psoas
27	chr3:135871600-135881800	Weak transcription	Brain Substantia Nigra	brain
28	chr3:135871600-135882200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr3:135871600-135882400	Weak transcription	H1 Cell Line	embryonic stem cell
30	chr3:135871600-135882400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr3:135871600-135882400	Weak transcription	Fetal Muscle Leg	muscle
32	chr3:135871600-135883000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr3:135871600-135884800	Weak transcription	K562	blood
34	chr3:135871600-135885000	Weak transcription	Primary hematopoietic stem cells	blood
35	chr3:135871800-135882200	Weak transcription	Primary monocytes fromperipheralblood	blood
36	chr3:135872000-135882200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr3:135872000-135882200	Weak transcription	Primary B cells from cord blood	blood
38	chr3:135872000-135882200	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr3:135872000-135882400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr3:135872000-135882400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
41	chr3:135872000-135882400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr3:135872000-135882400	Weak transcription	Fetal Lung	lung
43	chr3:135872000-135885000	Weak transcription	Rectal Smooth Muscle	rectum
44	chr3:135872000-135887800	Weak transcription	HSMM	muscle
45	chr3:135872200-135879800	Weak transcription	GM12878-XiMat	blood
46	chr3:135872200-135880000	Weak transcription	Dnd41	blood
47	chr3:135872200-135880200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr3:135872200-135880200	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr3:135872200-135880400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr3:135872200-135881200	Weak transcription	Fetal Thymus	thymus

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