Variant report

Variant	rs80689
Chromosome Location	chr22:33280097-33280098
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:24)

rs_ID	r²[population]
rs1065314	0.82[MEX][hapmap]
rs11703156	1.00[CHB][hapmap]
rs11703906	1.00[CHB][hapmap]
rs11704023	1.00[CHB][hapmap]
rs137501	1.00[CHB][hapmap]
rs137521	1.00[CEU][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs137543	1.00[CEU][hapmap];0.91[GIH][hapmap];0.94[MEX][hapmap];0.91[TSI][hapmap];0.83[EUR][1000 genomes]
rs1427377	1.00[CHB][hapmap]
rs1427378	1.00[CHB][hapmap];0.82[MEX][hapmap]
rs1427384	0.83[MEX][hapmap]
rs1543803	0.83[MEX][hapmap]
rs2040437	1.00[CHB][hapmap];0.94[MEX][hapmap]
rs2267184	1.00[CHB][hapmap];0.94[MEX][hapmap]
rs2267185	1.00[CHB][hapmap]
rs5749524	1.00[CHB][hapmap]
rs5749529	0.83[MEX][hapmap]
rs5749531	0.83[MEX][hapmap]
rs5754250	1.00[CHB][hapmap]
rs5754280	1.00[CHB][hapmap]
rs5754281	1.00[CHB][hapmap]
rs5754315	0.83[MEX][hapmap]
rs7289098	1.00[CHB][hapmap]
rs80690	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs933255	1.00[CHB][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs80689	SYN3	cis	parietal	SCAN
rs80689	LIF	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:33237400-33282200	Weak transcription	Fetal Brain Female	brain
2	chr22:33257800-33282000	Weak transcription	HepG2	liver
3	chr22:33265200-33282000	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr22:33265600-33287000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr22:33270800-33287200	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr22:33274200-33286200	Enhancers	Fetal Heart	heart
7	chr22:33275000-33280200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr22:33275400-33285400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
9	chr22:33275800-33284000	Enhancers	Fetal Stomach	stomach
10	chr22:33277000-33284800	Weak transcription	Ovary	ovary
11	chr22:33277000-33302000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr22:33277600-33282800	Weak transcription	Right Atrium	heart
13	chr22:33277600-33283800	Weak transcription	HSMMtube	muscle
14	chr22:33277600-33285000	Weak transcription	Left Ventricle	heart
15	chr22:33278200-33283400	Weak transcription	Right Ventricle	heart
16	chr22:33279000-33281400	Weak transcription	Fetal Muscle Trunk	muscle
17	chr22:33279400-33282800	Weak transcription	Placenta	Placenta
18	chr22:33279600-33281800	Weak transcription	Fetal Muscle Leg	muscle
19	chr22:33279600-33283000	Weak transcription	Primary hematopoietic stem cells	blood
20	chr22:33279600-33287000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr22:33279800-33282200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr22:33280000-33281800	Weak transcription	K562	blood
23	chr22:33280000-33282200	Enhancers	Fetal Brain Male	brain
24	chr22:33280000-33284800	Weak transcription	Fetal Kidney	kidney
25	chr22:33280000-33287400	Weak transcription	Fetal Thymus	thymus

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