Variant report

Variant	rs1440989
Chromosome Location	chr2:191292797-191292798
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10931452	0.93[AFR][1000 genomes]
rs11886184	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12475614	0.93[AFR][1000 genomes]
rs12693574	0.93[AFR][1000 genomes]
rs12693575	0.93[AFR][1000 genomes]
rs13020324	0.93[AFR][1000 genomes]
rs1440988	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2354877	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2354878	0.90[AFR][1000 genomes]
rs4853507	0.89[AFR][1000 genomes]
rs4853702	0.93[AFR][1000 genomes]
rs4853705	0.89[AFR][1000 genomes]
rs6434391	0.90[AFR][1000 genomes]
rs6707691	0.90[AFR][1000 genomes]
rs6748034	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7557681	0.90[AFR][1000 genomes]
rs7596573	0.90[AFR][1000 genomes]
rs9646748	0.85[AFR][1000 genomes]
rs9646815	0.89[AFR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1440989	FLJ20160	Cis_1M	lymphoblastoid	RTeQTL
rs1440989	FLJ20160	cis	multi-tissue	Pritchard

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:191273800-191301400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr2:191274800-191300800	Weak transcription	Stomach Smooth Muscle	stomach
3	chr2:191278600-191301200	Weak transcription	Pancreas	Pancrea
4	chr2:191278800-191300800	Weak transcription	Fetal Thymus	thymus
5	chr2:191278800-191301200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr2:191279000-191296800	Weak transcription	Duodenum Mucosa	Duodenum
7	chr2:191279000-191300800	Weak transcription	Esophagus	oesophagus
8	chr2:191279200-191303000	Weak transcription	NHEK	skin
9	chr2:191279400-191296400	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr2:191280400-191296400	Weak transcription	Spleen	Spleen
11	chr2:191280800-191296400	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr2:191281400-191292800	Weak transcription	Dnd41	blood
13	chr2:191281400-191296800	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr2:191281400-191298600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr2:191281800-191296800	Weak transcription	Small Intestine	intestine
16	chr2:191282200-191296800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr2:191282400-191297000	Weak transcription	Ovary	ovary
18	chr2:191282600-191297000	Weak transcription	Fetal Muscle Leg	muscle
19	chr2:191282800-191301200	Weak transcription	Fetal Brain Male	brain
20	chr2:191283000-191292800	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr2:191283200-191301000	Weak transcription	Fetal Muscle Trunk	muscle
22	chr2:191284000-191296400	Weak transcription	Primary B cells from peripheral blood	blood
23	chr2:191284200-191296400	Weak transcription	Left Ventricle	heart
24	chr2:191284200-191301000	Weak transcription	Gastric	stomach
25	chr2:191284200-191301200	Weak transcription	Right Ventricle	heart
26	chr2:191284200-191311000	Weak transcription	Psoas Muscle	Psoas
27	chr2:191284400-191296400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr2:191285600-191301000	Weak transcription	Colon Smooth Muscle	Colon
29	chr2:191287000-191300800	Weak transcription	Brain Germinal Matrix	brain
30	chr2:191290000-191293200	Strong transcription	Primary B cells from cord blood	blood
31	chr2:191290200-191292800	Weak transcription	Brain Hippocampus Middle	brain
32	chr2:191290400-191301200	Weak transcription	Brain Anterior Caudate	brain
33	chr2:191290600-191292800	Weak transcription	Brain Substantia Nigra	brain
34	chr2:191290800-191300800	Weak transcription	Brain Cingulate Gyrus	brain
35	chr2:191291000-191296800	Weak transcription	K562	blood
36	chr2:191291200-191293600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr2:191291400-191293000	Strong transcription	Primary T cells fromperipheralblood	blood
38	chr2:191291600-191292800	Strong transcription	Primary T cells from cord blood	blood
39	chr2:191291600-191292800	Strong transcription	Fetal Stomach	stomach
40	chr2:191291600-191299800	Weak transcription	Primary monocytes fromperipheralblood	blood
41	chr2:191291800-191292800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
42	chr2:191291800-191292800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr2:191291800-191293200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr2:191292000-191296600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
45	chr2:191292000-191296800	Weak transcription	Thymus	Thymus
46	chr2:191292200-191296200	Weak transcription	Primary T helper cells fromperipheralblood	blood
47	chr2:191292200-191296400	Weak transcription	Primary T helper cells PMA-I stimulated	--
48	chr2:191292200-191296400	Weak transcription	GM12878-XiMat	blood
49	chr2:191292200-191296600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
50	chr2:191292200-191296600	Weak transcription	Duodenum Smooth Muscle	Duodenum

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